Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 56 of 320
Found at i:16366127 original size:20 final size:20
Alignment explanation
Indices: 16366010--16366127 Score: 103
Period size: 20 Copynumber: 5.9 Consensus size: 20
16366000 ATGAGATTTG
* *
16366010 CACTTCGGTGCCTCTGTATA
1 CACTTCGGTGCCCCTGTTTA
* * *
16366030 CACTTCAGTGCCTCTGTATA
1 CACTTCGGTGCCCCTGTTTA
** *
16366050 CACTTCGGTATCCCTGTTTG
1 CACTTCGGTGCCCCTGTTTA
* *
16366070 CACTACGGTGCCCCTGTCTA
1 CACTTCGGTGCCCCTGTTTA
* *
16366090 CACATT-TGTGCCCTTGTTTA
1 CAC-TTCGGTGCCCCTGTTTA
*
16366110 CACTTCAGTGCCCCTGTT
1 CACTTCGGTGCCCCTGTT
16366128 ATGCATCTAT
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
19 2 0.03
20 75 0.96
21 1 0.01
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (20 bp):
CACTTCGGTGCCCCTGTTTA
Found at i:16369691 original size:22 final size:22
Alignment explanation
Indices: 16369666--16369714 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
16369656 ACTACAGTAT
* *
16369666 CTACTGATTTGCA-TTATGGTTC
1 CTACTGATTCGCACTT-TGGTGC
16369688 CTACTGATTCGCACTTTGGTGC
1 CTACTGATTCGCACTTTGGTGC
16369710 CTACT
1 CTACT
16369715 ACTAATCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (22 bp):
CTACTGATTCGCACTTTGGTGC
Found at i:16375722 original size:75 final size:75
Alignment explanation
Indices: 16375616--16375769 Score: 281
Period size: 75 Copynumber: 2.1 Consensus size: 75
16375606 TTAATATTAC
*
16375616 ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTTTAATATTTTGTTAATGT
1 ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTCTAATATTTTGTTAATGT
16375681 ATAAGTTTAT
66 ATAAGTTTAT
16375691 ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTCTAATATTTTGTTAATGT
1 ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTCTAATATTTTGTTAATGT
* *
16375756 ATGATTTTAT
66 ATAAGTTTAT
16375766 ATGA
1 ATGA
16375770 TTACTTATCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (75 bp):
ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTCTAATATTTTGTTAATGT
ATAAGTTTAT
Found at i:16375755 original size:38 final size:38
Alignment explanation
Indices: 16375638--16375755 Score: 95
Period size: 38 Copynumber: 3.1 Consensus size: 38
16375628 CTCATGTGTA
*
16375638 AATGTTGCAATGATATATCATGTTTTTAATATTTTGTT
1 AATGTTGCAATGATATATCATGTTTCTAATATTTTGTT
* * * * *
16375676 AATGTAT--AA-G-TTTAT-ATGAATTGTAAGCTCA-TGTGTA
1 AATGT-TGCAATGATATATCATG-TTTCTAA--T-ATTTTGTT
16375713 AATGTTGCAATGATATATCATGTTTCTAATATTTTGTT
1 AATGTTGCAATGATATATCATGTTTCTAATATTTTGTT
16375751 AATGT
1 AATGT
16375756 ATGATTTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 22
0.65 0.11 0.24
Matches are distributed among these distances:
34 3 0.05
35 9 0.15
36 2 0.03
37 13 0.22
38 18 0.31
39 2 0.03
40 9 0.15
41 3 0.05
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.47
Consensus pattern (38 bp):
AATGTTGCAATGATATATCATGTTTCTAATATTTTGTT
Found at i:16376799 original size:20 final size:20
Alignment explanation
Indices: 16376774--16376816 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
16376764 CCGTACTAAG
16376774 AGATTAATAAATTTTAGTAA
1 AGATTAATAAATTTTAGTAA
16376794 AGATTAATAAATTTTAGTAA
1 AGATTAATAAATTTTAGTAA
16376814 AGA
1 AGA
16376817 AAGGTCGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (20 bp):
AGATTAATAAATTTTAGTAA
Found at i:16385845 original size:28 final size:28
Alignment explanation
Indices: 16385782--16385879 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
16385772 ATATTAAGTC
*
16385782 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
16385809 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
16385837 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
16385866 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16385880 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:16393226 original size:29 final size:27
Alignment explanation
Indices: 16393207--16393276 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
16393197 ATATTAAGTC
16393207 CACACACTCAGTGCTATATAATCAACT
1 CACACACTCAGTGCTATATAATCAACT
* *
16393234 CGCACACTTAGTGCTATATAATCAAACT
1 CACACACTCAGTGCTATATAATC-AACT
* * *
16393262 CGCATACTTAGTGCT
1 CACACACTCAGTGCT
16393277 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (27 bp):
CACACACTCAGTGCTATATAATCAACT
Found at i:16393270 original size:28 final size:28
Alignment explanation
Indices: 16393209--16393304 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
16393199 ATTAAGTCCA
*
16393209 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
16393236 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* * * * *
16393264 CATACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCTATATAA-TCAAACTCG
16393293 CACACTTAGTGC
1 CACACTTAGTGC
16393305 CAATCTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.33
28 22 0.37
29 18 0.30
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:16398079 original size:52 final size:52
Alignment explanation
Indices: 16397954--16398163 Score: 177
Period size: 52 Copynumber: 4.1 Consensus size: 52
16397944 TGACGGAAAA
* ***
16397954 GATGTGATATGT-ACTTCCGTATAAGACCATAGCTGGGCTATGGCATCAGTAC
1 GATGTGATATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
* * *
16398006 AATATGAT-TCGAGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
1 GATGTGATAT-GTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
** *
16398058 GATGTGATAATGTGATT-CGTATAAGACCATATTTGGGATATGGCATC--GGT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
* * * * *
16398108 -A--TGATATGT-AATCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGG-G-GT
16398158 GATGTG
1 GATGTG
16398164 TGACAATGTG
Statistics
Matches: 125, Mismatches: 21, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
45 2 0.02
46 27 0.22
47 4 0.03
49 2 0.02
50 5 0.04
51 2 0.02
52 74 0.59
53 8 0.06
54 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
Found at i:16398115 original size:104 final size:100
Alignment explanation
Indices: 16397954--16398163 Score: 230
Period size: 104 Copynumber: 2.1 Consensus size: 100
16397944 TGACGGAAAA
*
16397954 GATGTGATATGTACTTCCGTATAAGACCATAGCTGGGCTATGGCATCAGTACAATATGATTCGAG
1 GATGTGATATGTACTTCCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATATG--T--A-
*
16398019 ATTCCGTATAAGACCATAGCTGGGCTATGGCATCGG-G-GT
61 A-TCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGTGT
** * **
16398058 GATGTGATAATGTGA-TT-CGTATAAGACCATATTTGGGATATGGCATCGGTATGATATGTAATC
1 GATGTGAT-ATGT-ACTTCCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATATGTAATC
* * *
16398121 CGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGT
64 CGTATAAGACCATAGCAGGGCTATGGCATCGGTGTGT
16398158 GATGTG
1 GATGTG
16398164 TGACAATGTG
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
98 30 0.33
99 2 0.02
100 9 0.10
102 1 0.01
104 43 0.47
105 6 0.07
106 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (100 bp):
GATGTGATATGTACTTCCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATATGTAATCCG
TATAAGACCATAGCAGGGCTATGGCATCGGTGTGT
Found at i:16398952 original size:20 final size:20
Alignment explanation
Indices: 16398927--16398979 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
16398917 ACAGCTGCAG
* *
16398927 CACACGGGCATGTTCCAGGC
1 CACACGGGCATGTCCCAAGC
*
16398947 CACACGGGCGTGTCCCAAGC
1 CACACGGGCATGTCCCAAGC
16398967 CACACGGGCATGT
1 CACACGGGCATGT
16398980 GCCCCTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.13
Consensus pattern (20 bp):
CACACGGGCATGTCCCAAGC
Found at i:16405991 original size:7 final size:7
Alignment explanation
Indices: 16405981--16406018 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
16405971 TTTAATTTCT
16405981 AATCCTC
1 AATCCTC
16405988 AATCCTC
1 AATCCTC
16405995 AATCCTC
1 AATCCTC
16406002 AATCCTC
1 AATCCTC
16406009 AATCCTC
1 AATCCTC
16406016 AAT
1 AAT
16406019 TTTTTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (7 bp):
AATCCTC
Found at i:16416372 original size:13 final size:13
Alignment explanation
Indices: 16416354--16416381 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16416344 AAATCAAGGG
16416354 TGTAACTAGGAGC
1 TGTAACTAGGAGC
16416367 TGTAACTAGGAGC
1 TGTAACTAGGAGC
16416380 TG
1 TG
16416382 GAAGGGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (13 bp):
TGTAACTAGGAGC
Found at i:16424937 original size:46 final size:46
Alignment explanation
Indices: 16424786--16425007 Score: 236
Period size: 46 Copynumber: 4.7 Consensus size: 46
16424776 TCACTTGTGT
* * *
16424786 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGA
* *
16424832 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* * * * *
16424880 GGGCTAGTGTAAGACATGTCTCGGACATGTATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-A
16424927 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
* *
16424972 TAGTCAGTGTAAGACCATGT-TGGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCT-GGGACAT-GCATCG
16425008 ACTTGAAATA
Statistics
Matches: 149, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.02
46 75 0.50
47 40 0.27
48 30 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:16425024 original size:93 final size:93
Alignment explanation
Indices: 16424788--16425053 Score: 224
Period size: 94 Copynumber: 2.8 Consensus size: 93
16424778 ACTTGTGTGA
* **
16424788 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATTATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTCGGACATGCATCGGACTCGA-AACAT--GAGCCAGTGTAAGA-CAT
* *
16424850 GTCTGGGACATGGCATCGGCATTGAGATGAGG
62 GTCTGGGACATGGCATCGGCATCGAGATGAAG
* * * * *
16424882 GCTAGTGTAAGACATGTCTCGGACATGTATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTCGGACATGCATCGGACTCGAAACATGAGCCAGTGTAAGACATGTCT
16424947 GGGACAT-GCATCGGC-TACGAGATGATAG
66 GGGACATGGCATCGGCAT-CGAGATGA-AG
* * * * * *
16424975 TC-AGTGTAAGACCATGT-TGGGGACATGGCATC-GACTTGAAATATGAGCCAATGTAAGACCGT
1 GCTAGTGTAAGA-CATGTCT-CGGACAT-GCATCGGACTCGAAACATGAGCCAGTGTAAGA-CAT
* *
16425037 GTCTAGGACAGGGCATC
62 GTCTGGGACATGGCATC
16425054 AGCACCTTAC
Statistics
Matches: 140, Mismatches: 22, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
91 1 0.01
92 25 0.18
93 46 0.33
94 59 0.42
95 6 0.04
96 2 0.01
97 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTCGGACATGCATCGGACTCGAAACATGAGCCAGTGTAAGACATGTCT
GGGACATGGCATCGGCATCGAGATGAAG
Found at i:16425046 original size:140 final size:140
Alignment explanation
Indices: 16424791--16425046 Score: 349
Period size: 140 Copynumber: 1.8 Consensus size: 140
16424781 TGTGTGAGCT
*
16424791 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * * * * *
16424856 GACATGGCATCGGCATTGAGATGAGGGCTAGTGTAAGACATGTCTCGGACATGTATCGGCCTCGA
66 GACATGGCATCGACATTGAAATGAGAGCCAATGTAAGACATGTCTAGGACATGTATCGGCCTCGA
16424921 GACGTAAGCC
131 GACGTAAGCC
* * *
16424931 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGT-TG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCT-
*
16424994 GGGACATGGCATCGAC-TTGAAAT-ATGAGCCAATGTAAGACCGTGTCTAGGACA
64 GGGACATGGCATCGACATTGAAATGA-GAGCCAATGTAAGA-CATGTCTAGGACA
16425047 GGGCATCAGC
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 18 0.18
140 81 0.80
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAAATGAGAGCCAATGTAAGACATGTCTAGGACATGTATCGGCCTCGA
GACGTAAGCC
Found at i:16425449 original size:23 final size:23
Alignment explanation
Indices: 16425417--16425476 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
16425407 GTTAATGTTT
*
16425417 CACACACCCGTGTAGAGACATTG
1 CACACGCCCGTGTAGAGACATTG
16425440 CACACGCCCGTGTAGAGACATTG
1 CACACGCCCGTGTAGAGACATTG
16425463 CACACGCCCGTGTA
1 CACACGCCCGTGTA
16425477 CTTTGGGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (23 bp):
CACACGCCCGTGTAGAGACATTG
Found at i:16429356 original size:21 final size:22
Alignment explanation
Indices: 16429317--16429357 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16429307 TTGGAATGCT
*
16429317 CACACGGGCGTGTTGCCCCTCC
1 CACACGAGCGTGTTGCCCCTCC
16429339 CACACGAGCGTG-TGCCCCT
1 CACACGAGCGTGTTGCCCCT
16429358 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGAGCGTGTTGCCCCTCC
Found at i:16440179 original size:33 final size:33
Alignment explanation
Indices: 16440137--16440203 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
16440127 AGAGGTGTAC
16440137 TATGCATGATAGGGGTGTGACATTGCCTTCGAT
1 TATGCATGATAGGGGTGTGACATTGCCTTCGAT
16440170 TATGCATGATAGGGGTGTGACATTGCCTTCGAT
1 TATGCATGATAGGGGTGTGACATTGCCTTCGAT
16440203 T
1 T
16440204 TTTCCAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (33 bp):
TATGCATGATAGGGGTGTGACATTGCCTTCGAT
Found at i:16445307 original size:37 final size:37
Alignment explanation
Indices: 16445257--16445335 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
16445247 TTATTACGAA
* * *
16445257 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
16445294 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
16445331 GTCTT
1 GTCTT
16445336 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:16445604 original size:47 final size:47
Alignment explanation
Indices: 16445454--16445785 Score: 531
Period size: 47 Copynumber: 7.1 Consensus size: 47
16445444 CCCTTCGGGA
* * * * * * *
16445454 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16445501 CCTGTCACAAATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16445547 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16445594 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16445641 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16445688 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16445735 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16445782 CTTA
1 CTTA
16445786 CTATCATTTC
Statistics
Matches: 267, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 39 0.15
47 228 0.85
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16450890 original size:22 final size:22
Alignment explanation
Indices: 16450853--16450913 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
16450843 ACAAATACAA
16450853 GAGAACA-TAAA-TGCTAAATC
1 GAGAACACTAAAGTGCTAAATC
* *
16450873 GGGAACACTAAAGTGCTAAATT
1 GAGAACACTAAAGTGCTAAATC
*
16450895 TAGAAGCACTAAAGTGCTA
1 GAGAA-CACTAAAGTGCTA
16450914 GTTTTAGGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.18
21 4 0.12
22 11 0.32
23 13 0.38
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (22 bp):
GAGAACACTAAAGTGCTAAATC
Found at i:16452462 original size:18 final size:18
Alignment explanation
Indices: 16452439--16452478 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16452429 AATTTAGTAA
*
16452439 AATTGCCTAAAAGGACTT
1 AATTGCATAAAAGGACTT
* *
16452457 AATTGCATAAAATGAGTT
1 AATTGCATAAAAGGACTT
16452475 AATT
1 AATT
16452479 TTATTGTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (18 bp):
AATTGCATAAAAGGACTT
Found at i:16452926 original size:36 final size:36
Alignment explanation
Indices: 16452886--16453005 Score: 145
Period size: 36 Copynumber: 3.3 Consensus size: 36
16452876 AAAAAAGGAA
16452886 TATTGATTCTATTGAAAGTGCTCAATAAGCAATATC
1 TATTGATTCTATTGAAAGTGCTCAATAAGCAATATC
* * * * *
16452922 TATTGATCCCACTGAATGTGCTCAA-ACGAGCAATGTC
1 TATTGATTCTATTGAAAGTGCTCAATA--AGCAATATC
*
16452959 TACTGATTCTATTG-AAGTGCTCGAATAAGCAATATC
1 TATTGATTCTATTGAAAGTGCTC-AATAAGCAATATC
16452995 TATTGATTCTA
1 TATTGATTCTA
16453006 CTAAATAGTT
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
35 1 0.01
36 46 0.68
37 20 0.29
38 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (36 bp):
TATTGATTCTATTGAAAGTGCTCAATAAGCAATATC
Found at i:16453041 original size:39 final size:40
Alignment explanation
Indices: 16452976--16453090 Score: 126
Period size: 39 Copynumber: 2.9 Consensus size: 40
16452966 TCTATTGAAG
* * * * * *
16452976 TGCTCGAATAAGCAATATCTATTGATTCTACTAAATAG-T
1 TGCTCAAACAAGCAATATCCACTGATTATACTGAATAGTT
* * *
16453015 TGCTTAGACGAGCAATATCCACTGATTATACTGAAT-GTT
1 TGCTCAAACAAGCAATATCCACTGATTATACTGAATAGTT
*
16453054 TGCTCAAACAAGCATTATCCACTGATTATACTGAATA
1 TGCTCAAACAAGCAATATCCACTGATTATACTGAATA
16453091 AGATTTTCTG
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
38 1 0.02
39 60 0.98
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (40 bp):
TGCTCAAACAAGCAATATCCACTGATTATACTGAATAGTT
Found at i:16470750 original size:46 final size:44
Alignment explanation
Indices: 16470691--16470805 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
16470681 AGAGGACAGA
* *
16470691 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
16470737 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
16470781 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
16470806 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:16470786 original size:44 final size:45
Alignment explanation
Indices: 16470691--16470824 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
16470681 AGAGGACAGA
* *
16470691 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
16470737 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
16470781 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
16470825 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:16472437 original size:53 final size:53
Alignment explanation
Indices: 16472357--16472462 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
16472347 TATGTTATAA
* *
16472357 AGTACACGCACTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAACTATG
1 AGTACAAGCACTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAAATATG
*
16472410 AGTACAAGCATTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAAATATG
1 AGTACAAGCACTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAAATATG
16472463 TTTGTCTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (53 bp):
AGTACAAGCACTTACCTTGTTGACAAATTGTGTTGGTTGATAGGTAAAATATG
Found at i:16473616 original size:21 final size:22
Alignment explanation
Indices: 16473585--16473631 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
16473575 TATAAATAGA
*
16473585 ATTTTATAAAGTTTTTCAAGAC
1 ATTTTATAAAGGTTTTCAAGAC
*
16473607 ATTTT-TAAAGGTTTTCAAGTC
1 ATTTTATAAAGGTTTTCAAGAC
16473628 ATTT
1 ATTT
16473632 ATAGGCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (22 bp):
ATTTTATAAAGGTTTTCAAGAC
Found at i:16473778 original size:22 final size:22
Alignment explanation
Indices: 16473750--16473797 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
16473740 TATAACTCAA
16473750 ATGTTGTGACATTGAAGGTCAG
1 ATGTTGTGACATTGAAGGTCAG
* *
16473772 ATGTTGTGACATTGTAGGTTAG
1 ATGTTGTGACATTGAAGGTCAG
16473794 ATGT
1 ATGT
16473798 CACAAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (22 bp):
ATGTTGTGACATTGAAGGTCAG
Found at i:16473829 original size:22 final size:22
Alignment explanation
Indices: 16473757--16473832 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
16473747 CAAATGTTGT
* * *
16473757 GACATTGAAGGTCAGATGTTGT
1 GACATTGAAGGTTAGATGTCGA
*
16473779 GACATTGTAGGTTAGATGTC-A
1 GACATTGAAGGTTAGATGTCGA
* * *
16473800 CAAAATTGAAGGTTGGATGTCGA
1 -GACATTGAAGGTTAGATGTCGA
16473823 GACATTGAAG
1 GACATTGAAG
16473833 ACATGTTACT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (22 bp):
GACATTGAAGGTTAGATGTCGA
Found at i:16485908 original size:6 final size:6
Alignment explanation
Indices: 16485897--16485944 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 6
16485887 AAATTTTGGG
*
16485897 AAAAAT AAAAAT GAAAAAT GAAAAAT GAAAAAT AAAAA- CAAAAT AAAA
1 AAAAAT AAAAAT -AAAAAT -AAAAAT -AAAAAT AAAAAT AAAAAT AAAA
16485945 CTAATTAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 4 0.11
6 14 0.37
7 20 0.53
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:16485913 original size:7 final size:7
Alignment explanation
Indices: 16485896--16485934 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
16485886 AAAATTTTGG
16485896 GAAAAAT
1 GAAAAAT
16485903 -AAAAAT
1 GAAAAAT
16485909 GAAAAAT
1 GAAAAAT
16485916 GAAAAAT
1 GAAAAAT
16485923 GAAAAAT
1 GAAAAAT
16485930 -AAAAA
1 GAAAAA
16485935 CAAAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
GAAAAAT
Found at i:16507417 original size:93 final size:93
Alignment explanation
Indices: 16507305--16507476 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
16507295 GCCCATAAGT
* *
16507305 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16507370 CGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
*
16507398 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16507463 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
16507477 CAAATATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:16507472 original size:46 final size:46
Alignment explanation
Indices: 16507297--16507472 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
16507287 TGTAACCTGC
* * *
16507297 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16507343 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* ***
16507389 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
16507436 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16507473 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16508998 original size:104 final size:106
Alignment explanation
Indices: 16508850--16509076 Score: 307
Period size: 104 Copynumber: 2.1 Consensus size: 106
16508840 TGCTGCCGGT
* *
16508850 CATCAGTGTCCCAGAACCAAAAAAAATATTTTTTTAATCTGATAAGGTTGGTGCTGGCGATCAGT
1 CATCAGTGTCCCAGAACC-AAAAAAATATTTTTTTAATCTGATAAGGCTGGTGCTGGCCATCAGT
**
16508915 GTCCCAAAACC-CCAAAAAAAATCTAATAAAGTTGGTACCGAC
65 GTCCCAAAACCAAAAAAAAAAATCTAATAAAGTTGGT-CCGAC
* * *
16508957 CATTAGTGTCCCAGAACC-AAACAA-ATTTTTTTAATTTGATAAGGCTGGTGCTGGCCATCAGTG
1 CATCAGTGTCCCAGAACCAAAAAAATATTTTTTTAATCTGATAAGGCTGGTGCTGGCCATCAGTG
* *
16509020 TCCCAAAACCAAAAAAAAAAAAAATCTAATAAAGTTGGTCTGTC
66 TCCCAAAACC---AAAAAAAAAAATCTAATAAAGTTGGTCCGAC
16509064 CATCAGTGTCCCA
1 CATCAGTGTCCCA
16509077 AAAAAAAATA
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
104 46 0.43
105 5 0.05
107 32 0.30
108 23 0.22
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (106 bp):
CATCAGTGTCCCAGAACCAAAAAAATATTTTTTTAATCTGATAAGGCTGGTGCTGGCCATCAGTG
TCCCAAAACCAAAAAAAAAAATCTAATAAAGTTGGTCCGAC
Found at i:16519649 original size:40 final size:40
Alignment explanation
Indices: 16519604--16519688 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
16519594 ACTACTTATG
16519604 TCTATTTTTAGGAAGTTGAGAATTGGGAAAGTAAGACCTA
1 TCTATTTTTAGGAAGTTGAGAATTGGGAAAGTAAGACCTA
* *
16519644 TCTATTTTTAGTAAGTTGGGAATTGGGAAAGTAAGACCTA
1 TCTATTTTTAGGAAGTTGAGAATTGGGAAAGTAAGACCTA
16519684 T-TATT
1 TCTATT
16519689 GTAACACCCC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (40 bp):
TCTATTTTTAGGAAGTTGAGAATTGGGAAAGTAAGACCTA
Found at i:16535823 original size:48 final size:48
Alignment explanation
Indices: 16535767--16535862 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
16535757 CCTAGCTATG
16535767 GAGATAATTCAATTTTCGGAAGCATGGAGAAGAAAAATGGCTGATTTT
1 GAGATAATTCAATTTTCGGAAGCATGGAGAAGAAAAATGGCTGATTTT
16535815 GAGATAATTCAATTTTCGGAAGCATGGAGAAGAAAAATGGCTGATTTT
1 GAGATAATTCAATTTTCGGAAGCATGGAGAAGAAAAATGGCTGATTTT
16535863 TGCTTTCATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (48 bp):
GAGATAATTCAATTTTCGGAAGCATGGAGAAGAAAAATGGCTGATTTT
Found at i:16547618 original size:26 final size:26
Alignment explanation
Indices: 16547582--16547631 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
16547572 ACACGAGTAG
*
16547582 GCCACACGCCCGTGTGTCATGGCCAA
1 GCCACACGCCCGTGTATCATGGCCAA
16547608 GCCACACGCCCGTGTATCATGGCC
1 GCCACACGCCCGTGTATCATGGCC
16547632 GTGTCAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.40, G:0.26, T:0.16
Consensus pattern (26 bp):
GCCACACGCCCGTGTATCATGGCCAA
Found at i:16551193 original size:20 final size:20
Alignment explanation
Indices: 16551168--16551205 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16551158 ATGATATACC
*
16551168 ACATTTAACCATCACATGAA
1 ACATTTAACCATAACATGAA
*
16551188 ACATTTAAGCATAACATG
1 ACATTTAACCATAACATG
16551206 CACAATTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (20 bp):
ACATTTAACCATAACATGAA
Found at i:16559862 original size:5 final size:5
Alignment explanation
Indices: 16559852--16559877 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16559842 ATAATAATAA
16559852 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
16559878 GCAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:16566950 original size:45 final size:45
Alignment explanation
Indices: 16566886--16566977 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
16566876 AGAATAGTTC
16566886 AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACATATCCCT
1 AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACATATCCCT
*
16566931 AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACGTATCCCT
1 AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACATATCCCT
16566976 AG
1 AG
16566978 TTATCTACCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (45 bp):
AGAGAAGTAATCCTTTGCGATCATTGCCATCTCCCACATATCCCT
Found at i:16568771 original size:47 final size:47
Alignment explanation
Indices: 16568695--16568979 Score: 428
Period size: 47 Copynumber: 6.0 Consensus size: 47
16568685 CTTCGGGACT
* * * * * *
16568695 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
**
16568742 TGCCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
16568788 TAATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
16568836 TATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
16568887 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
16568934 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
16568980 TTACTATCAT
Statistics
Matches: 219, Mismatches: 13, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
46 3 0.01
47 167 0.76
48 3 0.01
51 46 0.21
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:16568892 original size:98 final size:95
Alignment explanation
Indices: 16568693--16568982 Score: 449
Period size: 98 Copynumber: 3.0 Consensus size: 95
16568683 CCCTTCGGGA
* * * * * * **
16568693 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGCCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
16568757 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
*
16568787 CTAATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--A-ATATAT
16568852 ACACTTTCACATTCATCACATCGGCCATTAGGC
63 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
16568885 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-GTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
16568949 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
16568979 CTTA
1 CTTA
16568983 CTATCATTTC
Statistics
Matches: 181, Mismatches: 11, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
94 88 0.49
98 93 0.51
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16568967 original size:145 final size:145
Alignment explanation
Indices: 16568704--16568979 Score: 455
Period size: 145 Copynumber: 1.9 Consensus size: 145
16568694 TTATCACATT
* * * *
16568704 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGCCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTACCACATATATACACTTTCACATTCA
16568769 TCACATCGGCCATTAGGCCTAATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTAATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16568834 CCTATCACATATATA
131 CCTATCACATATATA
* * * *
16568849 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTACCACATATATACACTTTCACATTCA
*
16568914 TCACATCGGCCATTAGGCCCT-ATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGG
66 TCACATCGGCCATTAGG-CCTAATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
16568978 CC
130 CC
16568980 TTACTATCAT
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
145 118 0.98
146 3 0.02
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.30
Consensus pattern (145 bp):
TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTACCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTAATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CCTATCACATATATA
Found at i:16575924 original size:11 final size:10
Alignment explanation
Indices: 16575908--16575952 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
16575898 TATATAAATG
16575908 AATTTAATGTC
1 AATTTAAT-TC
16575919 AATTTAATTC
1 AATTTAATTC
16575929 -ATTTCATATTC
1 AATTT-A-ATTC
16575940 AATTTAATTC
1 AATTTAATTC
16575950 AAT
1 AAT
16575953 CCACATCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.13
10 10 0.32
11 13 0.42
12 4 0.13
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (10 bp):
AATTTAATTC
Found at i:16580879 original size:31 final size:31
Alignment explanation
Indices: 16580837--16580913 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
16580827 TTTGGAGAGT
*
16580837 CACACGTCCGTGTGGGTAAGCCGTGTGGTCA
1 CACACGCCCGTGTGGGTAAGCCGTGTGGTCA
*
16580868 CACACGCCCGTGTGGGTAGGCCGTGTGGTCA
1 CACACGCCCGTGTGGGTAAGCCGTGTGGTCA
*
16580899 CACACACCCGTGTGG
1 CACACGCCCGTGTGG
16580914 CTTGGAACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.16, C:0.30, G:0.35, T:0.19
Consensus pattern (31 bp):
CACACGCCCGTGTGGGTAAGCCGTGTGGTCA
Found at i:16580934 original size:20 final size:20
Alignment explanation
Indices: 16580909--16580947 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16580899 CACACACCCG
*
16580909 TGTGGCTTGGAACATGCCTA
1 TGTGGCTTGGAACACGCCTA
16580929 TGTGGCTTGGAACACGCCT
1 TGTGGCTTGGAACACGCCT
16580948 GTGTCCTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.23, G:0.31, T:0.28
Consensus pattern (20 bp):
TGTGGCTTGGAACACGCCTA
Found at i:16584255 original size:39 final size:39
Alignment explanation
Indices: 16584212--16584421 Score: 325
Period size: 39 Copynumber: 5.3 Consensus size: 39
16584202 GGACTAAGAT
16584212 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
16584251 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
16584290 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
16584329 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
16584369 CCGAAGGCATTTGTGCGA-ATTACTATAAT-CGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-C
16584409 CCGAAGGCATTTG
1 CCGAAGGCATTTG
16584422 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 113 0.70
40 46 0.28
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:16584301 original size:78 final size:79
Alignment explanation
Indices: 16584160--16584421 Score: 333
Period size: 78 Copynumber: 3.3 Consensus size: 79
16584150 TTGAATGATG
* *
16584160 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AACATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAA-ATCCGGGCTAAG-TCCCGAAGGC
16584220 ATTTGTGCGAGATACTAAT
61 ATTTGTGCGAGATACTAAT
*
16584239 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
16584303 TGCGAGATACTAAT
66 TGCGAGATACTAAT
* *
16584317 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
16584382 TGCGA-ATTACTATAA
66 TGCGAGA-TACTA-AT
*
16584397 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
16584422 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
78 84 0.51
79 55 0.33
80 26 0.16
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:16592249 original size:39 final size:39
Alignment explanation
Indices: 16592206--16592415 Score: 307
Period size: 39 Copynumber: 5.3 Consensus size: 39
16592196 GGACTAAGAT
16592206 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
16592245 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
16592284 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
16592323 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
16592363 CTGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
16592403 CCGAAGGCATTTG
1 CCGAAGGCATTTG
16592416 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 112 0.72
40 44 0.28
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:16602764 original size:211 final size:211
Alignment explanation
Indices: 16602384--16602769 Score: 508
Period size: 211 Copynumber: 1.8 Consensus size: 211
16602374 ATTTTATACT
** * * * **
16602384 TAAAACTTCTAGAATGCAAGTTTTGCATCTTATTCAATTTGGTCCCTAAAATTCAATTAGACATT
1 TAAAACTTCTAGAACACAAGTTTTACAACTTATTCAATTTAGTCCCTAAAATTCAATTAGACACC
* * * * * *
16602449 TTATGCATAGAATTTCTTTATGAAACTTTCATAGAAGCATGCATTCATACCATAGACCTCATAAG
66 TTAGGCATAGAATTTCTTTATGAAAATTTCACACAAACATGCAATCATACCATAGACCTCATAAG
* ** * *
16602514 AATCATAAAATAATTATTTTTATCTCGTATTTTTGGTCTCGAAACCGCTGTTCTAACTAGAACCT
131 AATCATAAAATAATTATTTCTATCTCAAATTTATGGTCTCAAAACCGCTGTTCTAACTAGAACCT
16602579 AATTCGGGATGTTACA
196 AATTCGGGATGTTACA
* * *
16602595 TAAAGCTTCTAGAACACAAGTTTTACAACTTTTTCAATTTAGTCCC-CAAATTCAAATTAGACAC
1 TAAAACTTCTAGAACACAAGTTTTACAACTTATTCAATTTAGTCCCTAAAATTC-AATTAGACAC
* *
16602659 CTTAGGCATAGAATTTCTTTATGAAAATTTCACACAAACATGCAATCATATCATGGACCATCA-A
65 CTTAGGCATAGAATTTCTTTATGAAAATTTCACACAAACATGCAATCATACCATAGACC-TCATA
*
16602723 ATAATCATAAAATAATTATTTCTA-CTTCAAATTTATGGTCTCAAAAC
129 AGAATCATAAAATAATTATTTCTATC-TCAAATTTATGGTCTCAAAAC
16602770 TATTATTCTG
Statistics
Matches: 148, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
210 7 0.05
211 138 0.93
212 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (211 bp):
TAAAACTTCTAGAACACAAGTTTTACAACTTATTCAATTTAGTCCCTAAAATTCAATTAGACACC
TTAGGCATAGAATTTCTTTATGAAAATTTCACACAAACATGCAATCATACCATAGACCTCATAAG
AATCATAAAATAATTATTTCTATCTCAAATTTATGGTCTCAAAACCGCTGTTCTAACTAGAACCT
AATTCGGGATGTTACA
Found at i:16603212 original size:3 final size:3
Alignment explanation
Indices: 16603204--16603249 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
16603194 GAATTCAAAA
16603204 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16603250 GGTTAAACCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16624925 original size:30 final size:30
Alignment explanation
Indices: 16624889--16624965 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
16624879 GGGTGAATAA
* *
16624889 GTTGCTCACACAAGCTGACATTATATCAGG
1 GTTGCTCACACAAGCTAACATTATATCAAG
16624919 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
*
16624949 GTTGCTTACACAAGCTA
1 GTTGCTCACACAAGCTA
16624966 GCATAGATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAAG
Found at i:16629493 original size:25 final size:24
Alignment explanation
Indices: 16629438--16629493 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
16629428 CAAGATAGTG
* *
16629438 AAAAAAAAAAGAGAAGAAAATAGC
1 AAAAAAAAAAAAGAAGAAAACAGC
* * *
16629462 AACAAAAAAAAAGCAAGAAAGCAGT
1 AAAAAAAAAAAAG-AAGAAAACAGC
16629487 AAAAAAA
1 AAAAAAA
16629494 CAATTTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.75, C:0.07, G:0.14, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAAAAGAAGAAAACAGC
Found at i:16633599 original size:12 final size:12
Alignment explanation
Indices: 16633582--16633613 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
16633572 TTTGCGATAT
*
16633582 CGATTCTTTTAA
1 CGATTCTCTTAA
16633594 CGATTCTCTTAA
1 CGATTCTCTTAA
16633606 CGATTCTC
1 CGATTCTC
16633614 ATTTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.25, G:0.09, T:0.44
Consensus pattern (12 bp):
CGATTCTCTTAA
Found at i:16636112 original size:73 final size:73
Alignment explanation
Indices: 16635854--16636105 Score: 486
Period size: 73 Copynumber: 3.5 Consensus size: 73
16635844 TATTATTATT
*
16635854 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
16635919 ATTTTAAG
66 ATTTTAAG
16635927 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
16635992 ATTTTAAG
66 ATTTTAAG
*
16636000 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
16636065 ATTTTAAG
66 ATTTTAAG
16636073 TGGATGTAATGATGAAACTTAGTTGTATTCCAA
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAA
16636106 ACAAGTTGTC
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 176 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:16640473 original size:73 final size:73
Alignment explanation
Indices: 16640354--16640612 Score: 500
Period size: 73 Copynumber: 3.5 Consensus size: 73
16640344 TATTATTATT
*
16640354 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
16640419 ATTTTAAG
66 ATTTTAAG
16640427 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
16640492 ATTTTAAG
66 ATTTTAAG
*
16640500 TGGATGTAATGATAAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
16640565 ATTTTAAG
66 ATTTTAAG
16640573 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
16640613 GTCAAGTTGT
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 183 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:16652102 original size:20 final size:19
Alignment explanation
Indices: 16652072--16652115 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
16652062 CTCTTTAGTC
*
16652072 TTGCA-TACATCTCATGCAT
1 TTGCATTACATCGCAT-CAT
16652091 TTGCATTACATCGCATCAT
1 TTGCATTACATCGCATCAT
*
16652110 GTGCAT
1 TTGCAT
16652116 CAAACTTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (19 bp):
TTGCATTACATCGCATCAT
Found at i:16659722 original size:15 final size:15
Alignment explanation
Indices: 16659702--16659733 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16659692 CGAAACAGGT
16659702 CAATTATTCAAAACC
1 CAATTATTCAAAACC
*
16659717 CAATTATTCAGAACC
1 CAATTATTCAAAACC
16659732 CA
1 CA
16659734 TCAAGCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (15 bp):
CAATTATTCAAAACC
Found at i:16660367 original size:177 final size:178
Alignment explanation
Indices: 16660062--16660681 Score: 759
Period size: 177 Copynumber: 3.6 Consensus size: 178
16660052 AATAAGCCAA
* * * * * *
16660062 AAATTATAGATCTTATTTCCACGTATCGGCTATGCAGCAGATCAAAAATGGCGAGTCTTATCTCC
1 AAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCAAGTCTTATCTCC
* * * * *
16660127 ATGTATCGGATATG-GAGCAAATTTTAGCCACCAGCCTTTTCTCTCTTAGATAGCAAAAAAGCAG
66 ATGTATCGGATATGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAG
*
16660191 GTTGAAGATACAAGTCTTATCTTCCTAAAGTTATAGGAAGCAGACTGG
131 GTTGAAGATACAAGTCTTATCTTCCTAAAGTTGTAGGAAGCAGACTGG
* *
16660239 AAATTACAGATCTTATCTCCATGTACCGCCTATGGAGCAGATCAGAAATGGCAAGTCTTATCTCC
1 AAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCAAGTCTTATCTCC
*
16660304 ATGTATCGGATATGAG-GCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGAAAGCAG
66 ATGTATCGGATATGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAG
* * **
16660368 GTTGAAGACACAAGTCTTATCTTCCTAAAGTTGTAGGAAGCAGGCTAC
131 GTTGAAGATACAAGTCTTATCTTCCTAAAGTTGTAGGAAGCAGACTGG
*
16660416 AAATTAC-GAATCTTATCTCCATGTATCGGCTTTGGAGCAGATC-GAAAATGGCGAA-TCTTATC
1 AAATTACAG-ATCTTATCTCCATGTATCGGCTATGGAGCAGATCAG-AAATGGC-AAGTCTTATC
* * * * *
16660478 TCCATGGATTGGCTATGA-AGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAG
63 TCCATGTATCGGATATGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAG
* * * * *
16660542 CAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAAGAAGCAAATTGG
128 CAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGTAGGAAGCAGACTGG
* * * **
16660593 AAATTACAAATCTTA--T-C------CGGCTATGAAGCATATCAGAAATGGTGAGTCTTATCTCC
1 AAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCAAGTCTTATCTCC
* * *
16660649 ATGTATCAGCTA-CAGAGCAGATTTTAGCCACCA
66 ATGTATCGGATATGAGAGCAGATTTTAGCCACCA
16660682 ACTCAGAGAG
Statistics
Matches: 386, Mismatches: 48, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
167 2 0.01
168 56 0.15
169 1 0.00
174 1 0.00
175 1 0.00
176 2 0.01
177 320 0.83
178 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (178 bp):
AAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCAAGTCTTATCTCC
ATGTATCGGATATGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAG
GTTGAAGATACAAGTCTTATCTTCCTAAAGTTGTAGGAAGCAGACTGG
Found at i:16662170 original size:46 final size:46
Alignment explanation
Indices: 16662120--16662295 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
16662110 TGGTTGAGCA
*
16662120 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
16662166 TCCGAACTCGTTAAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
16662211 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
16662259 -CCCAAGCACGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16662296 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 5 0.05
45 8 0.07
46 57 0.53
47 28 0.26
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:16662276 original size:93 final size:93
Alignment explanation
Indices: 16662117--16662288 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
16662107 GGATGGTTGA
* * * *
16662117 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACACGTTAAGT
16662182 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
16662210 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCCAAGCACGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CACGTTAAG
16662274 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
16662289 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACACGTTAAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16667922 original size:27 final size:26
Alignment explanation
Indices: 16667892--16668017 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
16667882 AAATTGTACA
16667892 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
16667919 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
16667946 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
* *
16667973 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
16668001 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
16668018 TGATTGTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 59 0.70
28 23 0.27
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:16667956 original size:54 final size:54
Alignment explanation
Indices: 16667891--16668017 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 54
16667881 TAAATTGTAC
* **
16667891 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCG-AATCGAACTATGT
* *
16667944 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
16668000 AGCACTAAGTGTGCGATT
1 AGCACTAAGTGTGCGATT
16668018 TGATTGTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
53 3 0.05
54 39 0.61
55 21 0.33
56 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
Found at i:16671485 original size:5 final size:5
Alignment explanation
Indices: 16671443--16671468 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16671433 TTCAAGATTG
16671443 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
16671469 TAAGATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:16671500 original size:19 final size:19
Alignment explanation
Indices: 16671425--16671518 Score: 110
Period size: 19 Copynumber: 5.2 Consensus size: 19
16671415 AAATTACAAA
16671425 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
16671446 ATCATATC--ATA-T-CAT
1 ATCATATCTAAGATTGCAT
16671461 ATCATATCTAAGATT--AT
1 ATCATATCTAAGATTGCAT
16671478 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
16671497 ATCATATATAAGATTGCAT
1 ATCATATCTAAGATTGCAT
16671516 ATC
1 ATC
16671519 CTTAAAGATT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.17
16 1 0.02
17 21 0.32
18 1 0.02
19 23 0.35
21 8 0.12
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:16672153 original size:44 final size:43
Alignment explanation
Indices: 16672103--16672185 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
16672093 CCTGTTGATA
**
16672103 TCTTCGATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTATT
1 TCTTCGATCTGCTCTCCAAC-AATACAGAGACGCCAAATCTATT
* * * *
16672147 TCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATC
16672186 ATCTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 18 0.55
44 15 0.45
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATCTATT
Found at i:16672266 original size:261 final size:256
Alignment explanation
Indices: 16671834--16672309 Score: 720
Period size: 261 Copynumber: 1.8 Consensus size: 256
16671824 AAGATTGACA
* *
16671834 TGTTGATATCTTCGATCTACTCTCCGTCGAACATAGAGACGCCAAATCTGCTTCTTCGATTTGTT
1 TGTTGATATCTTCGATCTACTCTCCGTCGAACACAGAGACGCCAAATCTACTTCTTCGATTTGTT
* * * *
16671899 TTCTGACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAA
66 CTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAA
** * * *
16671964 TTTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTCA
131 TCAGCTATGCCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTT--
16672029 GTAAAATCATCTGAAGGTTAGATCTTCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTAAC
194 -T--AATCATCTGAAGGTTAGATCTTCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTAAC
16672094 C
256 C
* * *
16672095 TGTTGATATCTTCGATCTGCTCTCCGTCGAATACAGAGACGCCAAATCTATTTCTTCGATTTGTT
1 TGTTGATATCTTCGATCTACTCTCCGTCGAACACAGAGACGCCAAATCTACTTCTTCGATTTGTT
* *
16672160 CTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGAAAACCAAA
66 CTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAA
* *
16672225 TCAGCTATGCCTTCGATTTGTTCCTTGT-AAGCATAAGGATGCCAAACCATCTTGGATCTGCTTT
131 TCAGCTATGCCTTCGATTTGCTCCTTGTGAA-CACAAGGATGCCAAACCATCTTGGATCTGCTTT
*
16672289 AGTCATCTGAAGGTTAGATCT
195 AATCATCTGAAGGTTAGATCT
16672310 GTTATGTATC
Statistics
Matches: 195, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
256 20 0.10
258 1 0.01
260 2 0.01
261 172 0.88
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (256 bp):
TGTTGATATCTTCGATCTACTCTCCGTCGAACACAGAGACGCCAAATCTACTTCTTCGATTTGTT
CTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAA
TCAGCTATGCCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTTA
ATCATCTGAAGGTTAGATCTTCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTAACC
Found at i:16672760 original size:205 final size:205
Alignment explanation
Indices: 16672148--16673294 Score: 1782
Period size: 205 Copynumber: 5.7 Consensus size: 205
16672138 AAATCTATTT
*
16672148 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
16672213 GCGAAAACCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
16672278 GGATCTGCTTTAG--T---CATCTGAAGGTTAGATCTGTTATGTATCTGCTTTCCATCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
16672338 AGATGCCAGA
196 AGATGCCAGA
*
16672348 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
16672413 GTGAAAGCCAAATCAGCTATGTCTTTGATTTTTTTCCTTGTAAGCACAAGTATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGA-TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
16672478 TGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATG
130 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATG
*
16672543 GAGATACCAGA
195 GAGATGCCAGA
* * *
16672554 CTTCAATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
16672619 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
16672684 AGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
16672749 AGATGCCAGA
196 AGATGCCAGA
* * *
16672759 CTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
16672824 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
16672889 GGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
16672954 AGATGCTAGA
196 AGATGCCAGA
16672964 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTT--A---G----A---T------
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
16673011 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
16673076 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATTTGCTCTCCGTCAAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
16673141 AGATGCCAAA
196 AGATGCCAGA
* *
16673151 CTTCGATTTGCTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
** * * * *
16673216 ACGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTAAGCACAAGGACGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
16673281 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
16673295 CCAGATCTGC
Statistics
Matches: 875, Mismatches: 47, Indels: 44
0.91 0.05 0.05
Matches are distributed among these distances:
187 175 0.20
189 1 0.00
192 1 0.00
193 1 0.00
196 2 0.00
199 1 0.00
200 88 0.10
201 47 0.05
203 2 0.00
205 407 0.47
206 150 0.17
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:16673141 original size:187 final size:187
Alignment explanation
Indices: 16672824--16673197 Score: 676
Period size: 187 Copynumber: 2.0 Consensus size: 187
16672814 GCGTAAACAC
16672824 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
1 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
16672889 GGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
66 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCAAAATGG
* * *
16672954 AGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
131 AGATGCCAAACTTCGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
16673011 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
1 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
16673076 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATTTGCTCTCCGTCAAAATGG
66 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCAAAATGG
*
16673141 AGATGCCAAACTTCGATTTGCTCTCTGACAATATAGAGATGCCAAATCATCTTAGAT
131 AGATGCCAAACTTCGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
16673198 TTGCTTCAGC
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
187 179 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (187 bp):
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCAAAATGG
AGATGCCAAACTTCGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGAT
Found at i:16674285 original size:37 final size:36
Alignment explanation
Indices: 16674237--16674307 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 36
16674227 GGCCTCTCCA
*
16674237 TTTTTA-TTTTTTCTTTTTCTTTTTCTTTTTTTTTAT
1 TTTTTATTTTTTTC-TTTTCTTTTTCTTTATTTTTAT
16674273 TTTTATATTTTTTTCTTTTCTTTTTCTTTATTTTT
1 TTTT-TATTTTTTTCTTTTCTTTTTCTTTATTTTT
16674308 GAAATAGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 4 0.12
37 21 0.66
38 7 0.22
ACGTcount: A:0.07, C:0.08, G:0.00, T:0.85
Consensus pattern (36 bp):
TTTTTATTTTTTTCTTTTCTTTTTCTTTATTTTTAT
Found at i:16674291 original size:6 final size:6
Alignment explanation
Indices: 16674244--16674301 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
16674234 CCATTTTTAT
* *
16674244 TTTTTC TTTTTC TTTTTC TTTTT- TTTTAT- TTTTATA TTTTTT TCTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTT-TC TTTT-TC TTTTTC T-TTTTC
16674293 TTTTTC TTT
1 TTTTTC TTT
16674302 ATTTTTGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 4 0.09
6 34 0.72
7 9 0.19
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:16674292 original size:31 final size:29
Alignment explanation
Indices: 16674237--16674307 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
16674227 GGCCTCTCCA
*
16674237 TTTTTATTTTTTCTTTTTCTTTTTCTTTT
1 TTTTTATTTTTTATTTTTCTTTTTCTTTT
*
16674266 TTTTTATTTTTATATTTTTTTCTTTTCTTTT
1 TTTTTATTTTT-TATTTTTCT-TTTTCTTTT
*
16674297 TCTTTATTTTT
1 TTTTTATTTTT
16674308 GAAATAGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 11 0.30
30 7 0.19
31 19 0.51
ACGTcount: A:0.07, C:0.08, G:0.00, T:0.85
Consensus pattern (29 bp):
TTTTTATTTTTTATTTTTCTTTTTCTTTT
Found at i:16679980 original size:17 final size:17
Alignment explanation
Indices: 16679958--16679991 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16679948 ATGTCATATC
16679958 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
16679975 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
16679992 GCATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:16681260 original size:28 final size:28
Alignment explanation
Indices: 16681220--16681275 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
16681210 TCATTTGGAA
*
16681220 ATCATACCAACAAATTCTAATATTCTTT
1 ATCATACCAACAAACTCTAATATTCTTT
16681248 ATCATACCAACAAACTCTAATATTCTTT
1 ATCATACCAACAAACTCTAATATTCTTT
16681276 CTTTCCTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.38
Consensus pattern (28 bp):
ATCATACCAACAAACTCTAATATTCTTT
Found at i:16681777 original size:54 final size:53
Alignment explanation
Indices: 16681667--16681778 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 53
16681657 AAGTGAATGT
*
16681667 GATATGTGAAGATAGTGAAAGATTACAAATTTTTATAAGTGGATTAAATGATAA
1 GATATGTGAAGATAGTAAAAGATTACAAATTTTTATAAGTGGATTAAATGA-AA
* * *
16681721 GATATGTGAAGATGATGGTAAAAGATTATAAA-TTTTATAAGTTGATTAAGTG-AA
1 GATATGTGAAGAT-A--GTAAAAGATTACAAATTTTTATAAGTGGATTAAATGAAA
16681775 GATA
1 GATA
16681779 GTAATAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
54 19 0.37
55 1 0.02
56 18 0.35
57 13 0.25
ACGTcount: A:0.44, C:0.01, G:0.21, T:0.34
Consensus pattern (53 bp):
GATATGTGAAGATAGTAAAAGATTACAAATTTTTATAAGTGGATTAAATGAAA
Found at i:16682112 original size:17 final size:17
Alignment explanation
Indices: 16682090--16682151 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
16682080 AAATTGTTAT
16682090 GTGAAGTGAATAAGTTC
1 GTGAAGTGAATAAGTTC
* *
16682107 GTGAAGTGAAGTAGGCAT-
1 GTGAAGTGAA-TAAG-TTC
16682125 GTGAAGTGAATAAGTTC
1 GTGAAGTGAATAAGTTC
16682142 GTGAAGTGAA
1 GTGAAGTGAA
16682152 GTAGGCATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 23 0.61
18 13 0.34
19 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.34, T:0.26
Consensus pattern (17 bp):
GTGAAGTGAATAAGTTC
Found at i:16682127 original size:35 final size:35
Alignment explanation
Indices: 16682088--16682170 Score: 166
Period size: 35 Copynumber: 2.4 Consensus size: 35
16682078 TAAAATTGTT
16682088 ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
1 ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
16682123 ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
1 ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
16682158 ATGTGAAGTGAAT
1 ATGTGAAGTGAAT
16682171 TAAATATGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.35, C:0.05, G:0.34, T:0.27
Consensus pattern (35 bp):
ATGTGAAGTGAATAAGTTCGTGAAGTGAAGTAGGC
Found at i:16682130 original size:18 final size:18
Alignment explanation
Indices: 16682107--16682169 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
16682097 GAATAAGTTC
16682107 GTGAAGTGAAGTAGGCAT
1 GTGAAGTGAAGTAGGCAT
* *
16682125 GTGAAGTGAA-TAAG-TT
1 GTGAAGTGAAGTAGGCAT
16682141 CGTGAAGTGAAGTAGGCAT
1 -GTGAAGTGAAGTAGGCAT
16682160 GTGAAGTGAA
1 GTGAAGTGAA
16682170 TTAAATATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 13 0.34
18 23 0.61
19 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.37, T:0.24
Consensus pattern (18 bp):
GTGAAGTGAAGTAGGCAT
Found at i:16682179 original size:18 final size:17
Alignment explanation
Indices: 16682087--16682180 Score: 84
Period size: 18 Copynumber: 5.4 Consensus size: 17
16682077 GTAAAATTGT
16682087 TATGTGAAGTGAATAAG
1 TATGTGAAGTGAATAAG
*
16682104 T-TCGTGAAGTGAAGTAGG
1 TAT-GTGAAGTGAA-TAAG
*
16682122 CATGTGAAGTGAATAAG
1 TATGTGAAGTGAATAAG
*
16682139 T-TCGTGAAGTGAAGTAGG
1 TAT-GTGAAGTGAA-TAAG
* *
16682157 CATGTGAAGTGAATTAAA
1 TATGTGAAGTGAA-TAAG
16682175 TATGTG
1 TATGTG
16682181 TAATTCTTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
16 2 0.03
17 24 0.39
18 33 0.54
19 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.32, T:0.29
Consensus pattern (17 bp):
TATGTGAAGTGAATAAG
Found at i:16685431 original size:18 final size:18
Alignment explanation
Indices: 16685396--16685434 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16685386 TAAAAAATCT
* **
16685396 AAAATCTATAAATTTATA
1 AAAATATATAAACATATA
16685414 AAAATATATAAACATATA
1 AAAATATATAAACATATA
16685432 AAA
1 AAA
16685435 GAACTAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATATAAACATATA
Found at i:16685432 original size:26 final size:25
Alignment explanation
Indices: 16685359--16685433 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
16685349 TTAGAAAACG
* *
16685359 TATAAAAATTTATAATATATAAATT
1 TATAAAAATATATAAAATATAAATT
* *
16685384 AATAAAAA-ATCTAAAATCTATAAATT
1 TATAAAAATATATAAAA--TATAAATT
16685410 TATAAAAATATATAAACATATAAA
1 TATAAAAATATATAAA-ATATAAA
16685434 AGAACTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
24 5 0.12
25 7 0.17
26 21 0.52
27 6 0.15
28 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TATAAAAATATATAAAATATAAATT
Found at i:16685469 original size:2 final size:2
Alignment explanation
Indices: 16685462--16685502 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
16685452 ATTTACAGAA
* * *
16685462 AT AT AT AT AT AT AT AT AG AT AT AT AT AG AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16685503 AAAGAACTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (2 bp):
AT
Found at i:16685485 original size:16 final size:16
Alignment explanation
Indices: 16685464--16685502 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
16685454 TTACAGAAAT
*
16685464 ATATATATATATATAG
1 ATATATATAGATATAG
16685480 ATATATATAGATATAG
1 ATATATATAGATATAG
16685496 ATATATA
1 ATATATA
16685503 AAAGAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (16 bp):
ATATATATAGATATAG
Found at i:16685833 original size:43 final size:43
Alignment explanation
Indices: 16685772--16685857 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
16685762 TCGAAATCTC
*
16685772 ATTTTCGTAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
1 ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
16685815 ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
1 ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
16685858 CAGAGTTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (43 bp):
ATTTTCATAAACCGAGTCTGTAAATATAAAATAAGAATATTTA
Found at i:16697085 original size:42 final size:42
Alignment explanation
Indices: 16696960--16697085 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
16696950 TGCTGGTCCC
* *
16696960 ACTTCTTCCGGGTTACTTAGGAGTTCTCATATGACAACTCCT
1 ACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTACTCCT
* * *
16697002 ACTTTTTCCGAGTTACTTAGGAGTTCTCCTATAACTACTCCT
1 ACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTACTCCT
* * * * *
16697044 ACTTCTTCCGGGTTAATTAGGAATCCTCCTATGCCTGCTCCT
1 ACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTACTCCT
16697086 CCTTAAAATA
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (42 bp):
ACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTACTCCT
Found at i:16699532 original size:27 final size:27
Alignment explanation
Indices: 16699494--16699562 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
16699484 CACTAGTATA
*
16699494 ACACACATAAAGACCTAAATCAAATTG
1 ACACACATAAAGACATAAATCAAATTG
16699521 ACACACATAAAGACATAAATCAAATTG
1 ACACACATAAAGACATAAATCAAATTG
16699548 ACACACATAAA-ACAT
1 ACACACATAAAGACAT
16699563 TGAATATAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.55, C:0.22, G:0.06, T:0.17
Consensus pattern (27 bp):
ACACACATAAAGACATAAATCAAATTG
Found at i:16700150 original size:23 final size:24
Alignment explanation
Indices: 16700087--16700135 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
16700077 CCATAATAAA
16700087 ACCATAATAAATAAATAAATAACT
1 ACCATAATAAATAAATAAATAACT
16700111 ACCATAATAAATAAATAAA-AACT
1 ACCATAATAAATAAATAAATAACT
16700134 AC
1 AC
16700136 TCACATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.22
Consensus pattern (24 bp):
ACCATAATAAATAAATAAATAACT
Found at i:16700779 original size:10 final size:9
Alignment explanation
Indices: 16700731--16700857 Score: 64
Period size: 9 Copynumber: 13.7 Consensus size: 9
16700721 ATATTTTCTC
*
16700731 ATAAAAAAT
1 ATAAAAATT
*
16700740 ATTAAAATT
1 ATAAAAATT
*
16700749 GATATAAACTT
1 -ATA-AAAATT
16700760 -TAAAAATT
1 ATAAAAATT
16700768 ATAAAAATTT
1 ATAAAAA-TT
*
16700778 ATAAGAAATC
1 ATAA-AAATT
* *
16700788 ACACAAACTT
1 ATA-AAAATT
*
16700798 ATAAATATT
1 ATAAAAATT
16700807 ATAAAAATT
1 ATAAAAATT
16700816 -TATAAAATCT
1 ATA-AAAAT-T
*
16700826 A-ATAAATT
1 ATAAAAATT
* *
16700834 TTAAAAAGT
1 ATAAAAATT
16700843 AT-AAAATT
1 ATAAAAATT
16700851 GATAAAA
1 -ATAAAA
16700858 CATATTTAAA
Statistics
Matches: 87, Mismatches: 19, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
8 13 0.15
9 44 0.51
10 21 0.24
11 9 0.10
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:16700921 original size:9 final size:9
Alignment explanation
Indices: 16700900--16700955 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 9
16700890 CAAAAATAAA
16700900 ATAAAAAATT
1 ATAAAAAA-T
16700910 ATAAAAAAT
1 ATAAAAAAT
16700919 ATATAAAAAT
1 ATA-AAAAAT
16700929 ACTAAAAAA-
1 A-TAAAAAAT
* *
16700938 ATTAGAAATT
1 A-TAAAAAAT
16700948 ATAAAAAA
1 ATAAAAAA
16700956 AATTAAAGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 15 0.39
10 21 0.55
11 2 0.05
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:16700946 original size:18 final size:19
Alignment explanation
Indices: 16700897--16700956 Score: 72
Period size: 18 Copynumber: 3.2 Consensus size: 19
16700887 ACTCAAAAAT
16700897 AAAATA-AAAAATTATAAA
1 AAAATATAAAAATTATAAA
16700915 AAATATATAAAAA-TACTAAA
1 AAA-ATATAAAAATTA-TAAA
*
16700935 AAAAT-TAGAAATTATAAA
1 AAAATATAAAAATTATAAA
16700953 AAAA
1 AAAA
16700957 ATTAAAGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
18 16 0.43
19 9 0.24
20 12 0.32
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAATATAAAAATTATAAA
Found at i:16700954 original size:19 final size:18
Alignment explanation
Indices: 16700904--16700962 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
16700894 AATAAAATAA
*
16700904 AAAATTATAAAAAATATAT
1 AAAATTATAAAAAAAAT-T
*
16700923 AAAAATACT-AAAAAAATT
1 AAAATTA-TAAAAAAAATT
16700941 AGAAATTATAAAAAAAATT
1 A-AAATTATAAAAAAAATT
16700960 AAA
1 AAA
16700963 GTCTTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 5 0.15
19 28 0.82
20 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAATTATAAAAAAAATT
Found at i:16707221 original size:21 final size:23
Alignment explanation
Indices: 16707175--16707232 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
16707165 ATTTTTTTAT
*
16707175 TTTTAAATTTTTTTATATATATA
1 TTTTAAATTTTTTTATAGATATA
16707198 TTTTAGAATTTTTTT-TAGA-A-A
1 TTTTA-AATTTTTTTATAGATATA
16707219 TTTTATAATTTTTT
1 TTTTA-AATTTTTT
16707233 AAAAATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 14 0.44
22 1 0.03
23 8 0.25
24 9 0.28
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (23 bp):
TTTTAAATTTTTTTATAGATATA
Found at i:16707275 original size:18 final size:18
Alignment explanation
Indices: 16707216--16707294 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
16707206 TTTTTTTTAG
*
16707216 AAATTTTAT-AATTTTTT
1 AAATTTTATAAATATTTT
** *
16707233 AAA-AATATAAAT-TTTG
1 AAATTTTATAAATATTTT
*
16707249 AAACCTTTATAAATATTTT
1 AAA-TTTTATAAATATTTT
*
16707268 AAATTTTAAAAATTATTTT
1 AAATTTTATAAA-TATTTT
16707287 ATAATTTT
1 A-AATTTT
16707295 TATTGAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
16 9 0.19
17 6 0.12
18 14 0.29
19 13 0.27
20 6 0.12
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (18 bp):
AAATTTTATAAATATTTT
Found at i:16717809 original size:30 final size:31
Alignment explanation
Indices: 16717762--16717820 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
16717752 CACCCTTAAA
* * *
16717762 ATATTTGCACTATTAATCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
16717793 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
16717821 AAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:16717828 original size:30 final size:31
Alignment explanation
Indices: 16717761--16717830 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
16717751 CCACCCTTAA
* * *
16717761 AATATTTGCACTATTAATCCTTCAACTTTTT
1 AATATTTACACTATTAATCCCTCAACATTTT
*
16717792 CATATTTACACT-TTAATCCCTCAA-ATTTT
1 AATATTTACACTATTAATCCCTCAACATTTT
16717821 AAGTATTTAC
1 AA-TATTTAC
16717831 TCTTAGGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (31 bp):
AATATTTACACTATTAATCCCTCAACATTTT
Found at i:16719483 original size:22 final size:24
Alignment explanation
Indices: 16719440--16719484 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
16719430 ATCATTATCA
16719440 ACCAATCTCATGTTCATAACATAT
1 ACCAATCTCATGTTCATAACATAT
*
16719464 ACCAAT-TCATG-TCATTACATA
1 ACCAATCTCATGTTCATAACATA
16719485 AGTCAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.33
Consensus pattern (24 bp):
ACCAATCTCATGTTCATAACATAT
Found at i:16720369 original size:44 final size:42
Alignment explanation
Indices: 16720225--16720381 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 42
16720215 AGCTCATACA
* * *
16720225 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AACCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATC-AA-ATCG
* * *
16720268 ATGCCACTGTCCCAGACAAGGTCTTACACG-AAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAAT-CG
**
16720310 ATGCTGATGTCCCAGACATGGTCTTACATGTAAATCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCA-AA-TCG
16720354 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
16720382 CAAAAACACA
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 34 0.35
44 30 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATCG
Found at i:16720414 original size:86 final size:84
Alignment explanation
Indices: 16720236--16720407 Score: 204
Period size: 86 Copynumber: 2.0 Consensus size: 84
16720226 TGCCAACGTC
* * *
16720236 CCAGACGTGGTCTTACATGTAACCAAATATCGATGCCACTGTCCCAGACAAGGTCTTACACGAAA
1 CCAGACATGGTCTTACATGTAACCAAATATCGATGCCAATGTCCCAGACAAGGTCTTACACAAAA
* *
16720301 TCAAATACGATGCTGATGT
66 ACAAATACGATCCTGATGT
* * *
16720320 CCCAGACATGGTCTTACATGTAAATCATAA-GTCGATGCCAATGTCCCAGACATGGTCTTACACA
1 -CCAGACATGGTCTTACATGT-AACCA-AATATCGATGCCAATGTCCCAGACAAGGTCTTACACA
*
16720384 AAAACACATATCGGATCCT-ATGT
63 AAAACAAATA-C-GATCCTGATGT
16720407 C
1 C
16720408 ATGACATATG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 19 0.26
86 43 0.58
87 7 0.09
88 5 0.07
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (84 bp):
CCAGACATGGTCTTACATGTAACCAAATATCGATGCCAATGTCCCAGACAAGGTCTTACACAAAA
ACAAATACGATCCTGATGT
Found at i:16723463 original size:71 final size:71
Alignment explanation
Indices: 16723347--16723484 Score: 249
Period size: 71 Copynumber: 1.9 Consensus size: 71
16723337 AGATAATTAG
* *
16723347 ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTGTAATATAATTATAAGTACATATAA
1 ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTATAATATAATCATAAGTACATATAA
16723412 AATCAT
66 AATCAT
*
16723418 ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTATAATATAATCATAAGTTCATATAA
1 ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTATAATATAATCATAAGTACATATAA
16723483 AA
66 AA
16723485 CTTTTGCTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (71 bp):
ATAATTTACGATTAATATTTAAATAATTATCGAACATGTTATAATATAATCATAAGTACATATAA
AATCAT
Found at i:16725028 original size:15 final size:15
Alignment explanation
Indices: 16724986--16725028 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16724976 TATTTACTAT
* *
16724986 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
16725001 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
16725015 AAAATAAATAACTT
1 AAAATAAATAACTT
16725029 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:16729793 original size:147 final size:147
Alignment explanation
Indices: 16729526--16729819 Score: 579
Period size: 147 Copynumber: 2.0 Consensus size: 147
16729516 ACGTGTTCTG
16729526 ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
1 ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
16729591 AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
66 AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
16729656 ATACTAATCTCTATGAT
131 ATACTAATCTCTATGAT
*
16729673 ATCACATAAGCTCTGGTTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
1 ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
16729738 AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
66 AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
16729803 ATACTAATCTCTATGAT
131 ATACTAATCTCTATGAT
16729820 GATATTGGTG
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (147 bp):
ATCACATAAGCTCTGGCTGGTACTCTGGCCTCAAATTGCTGGCTAACAATGTCATTGCTTCTTTT
AACTCCACCTCCTCTAGAAACCAAACCACCTCTACCAGATCCCCTACCTCTACCTTTAGCTATAG
ATACTAATCTCTATGAT
Found at i:16732718 original size:15 final size:15
Alignment explanation
Indices: 16732676--16732718 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16732666 TATTTACTAT
* *
16732676 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
16732691 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
16732705 AAAATAAATAACTT
1 AAAATAAATAACTT
16732719 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:16732737 original size:79 final size:79
Alignment explanation
Indices: 16732649--16732807 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
16732639 TTCAATAAAA
16732649 TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
1 TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
16732714 AACTTGAATTATAG
66 AACTTGAATTATAG
16732728 TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
1 TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
16732793 AACTTGAATTATAG
66 AACTTGAATTATAG
16732807 T
1 T
16732808 AATACAAACC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (79 bp):
TTACTTACCTCAATATTTATTTACTATAAAATAAATAAATTTAAAATTAATACTTAAAAATAAAT
AACTTGAATTATAG
Found at i:16732797 original size:15 final size:15
Alignment explanation
Indices: 16732755--16732797 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16732745 TATTTACTAT
* *
16732755 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
16732770 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
16732784 AAAATAAATAACTT
1 AAAATAAATAACTT
16732798 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:16732941 original size:6 final size:6
Alignment explanation
Indices: 16732920--16732962 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
16732910 AAATCCTTAG
* * *
16732920 TTTTCT ATTTTAT TTTTCT TTTCCT TTTTCT TTCTCT TTTTCT
1 TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
16732963 CCACTGCTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:16738462 original size:42 final size:42
Alignment explanation
Indices: 16738345--16738511 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
16738335 CGGAAAGCTC
* * * * * *
16738345 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAACCAA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * * *
16738387 ATATCAATGCCATTGTCCTAGACAGGGTTTTACACGAAATCAA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * *
16738430 ATACAATGCCGATGTCCCAGATATGGTCTTACACATAAATCATA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCA-A
* * * *
16738474 AGT-CGATGCCAATGTCCCAGACGTGATCTTACAGGAAA
1 A-TACAATGCCAATGTCCCAGACATGGTCTTACACGAAA
16738512 ACACATATCG
Statistics
Matches: 99, Mismatches: 22, Indels: 7
0.77 0.17 0.05
Matches are distributed among these distances:
42 28 0.28
43 43 0.43
44 27 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:16740265 original size:22 final size:23
Alignment explanation
Indices: 16740226--16740270 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
16740216 TATTTTGATC
*
16740226 ATTTTTATACATTTTTAT-TTTA
1 ATTTTTACACATTTTTATCTTTA
16740248 ATTTTTACA-ATTTATTATCTTTA
1 ATTTTTACACATTT-TTATCTTTA
16740271 TCAGTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTTACACATTTTTATCTTTA
Found at i:16746298 original size:180 final size:180
Alignment explanation
Indices: 16745999--16746325 Score: 478
Period size: 180 Copynumber: 1.8 Consensus size: 180
16745989 AATTTTCTAT
* * * * *
16745999 GAAACTAGACGTATATATCTTCTTACCATAAAATTTTCAGAATTTTTCGTCTAGCCAATAAGTAT
1 GAAACTAGACGTACATATATTATTACCATAAAATTTTCAGAATTTTTAGTCTAGCCAATAAGTAC
* * ** *
16746064 AGTTTATTCATTAAATATACCTCTGTTTTGCTGTCCGACAGTTTCGAGCTCTCTTCACTAAAAAT
66 AGTTTATTCATTAAAGATACCCCTGTTTCACTGTCCGACAGTTTCGACCTCTCTTCACTAAAAAT
16746129 TATTTATTTCATGGTACGAGACTCCAAATTGAGAACAACTAATTTTACCA
131 TATTTATTTCATGGTACGAGACTCCAAATTGAGAACAACTAATTTTACCA
* * * * *
16746179 GAAACTAGAC-TCACATATATTATTATCATAAAATTTTTAGAATTTTTAGTTTAGCTAATTAGTA
1 GAAACTAGACGT-ACATATATTATTACCATAAAATTTTCAGAATTTTTAGTCTAGCCAATAAGTA
*
16746243 CAGTTTATTCATTAAAGATACCCCTGTTTCACTGTCCGACAG-TTCTGACCTCTCTTCACTAATA
65 CAGTTTATTCATTAAAGATACCCCTGTTTCACTGTCCGACAGTTTC-GACCTCTCTTCACTAAAA
16746307 ATTATTTATTTCATGGTAC
129 ATTATTTATTTCATGGTAC
16746326 AGCTCTCGTA
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
179 4 0.03
180 125 0.97
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (180 bp):
GAAACTAGACGTACATATATTATTACCATAAAATTTTCAGAATTTTTAGTCTAGCCAATAAGTAC
AGTTTATTCATTAAAGATACCCCTGTTTCACTGTCCGACAGTTTCGACCTCTCTTCACTAAAAAT
TATTTATTTCATGGTACGAGACTCCAAATTGAGAACAACTAATTTTACCA
Found at i:16746955 original size:50 final size:50
Alignment explanation
Indices: 16746880--16747277 Score: 404
Period size: 50 Copynumber: 7.9 Consensus size: 50
16746870 ACCGAAGCTC
* * * *
16746880 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATGAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
16746930 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * ** *
16746980 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * *
16747032 -CGGGTACACATAGTAGCCTGCACTTAGTACTATACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * * * * * *
16747081 TTTGGTATACGTAGTAGCCTACACTTATTACTACATACGTAACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* ** * *
16747131 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAA
* * ** *
16747182 TC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAA
1 TCTG-GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
16747232 TCTGGTACACGTAGTAGCCTGCACTTAGTGCTACACACGTAACCTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTA
16747278 AAACCGTCTT
Statistics
Matches: 284, Mismatches: 58, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
49 3 0.01
50 201 0.71
51 78 0.27
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:16747146 original size:151 final size:151
Alignment explanation
Indices: 16746883--16747320 Score: 633
Period size: 151 Copynumber: 2.9 Consensus size: 151
16746873 GAAGCTCTCT
*
16746883 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATGAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
16746948 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTAACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
**
16747013 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAACTAACG
* * * *
16747034 GGTACACATAGTAGCCTGCACTTAGTACTATACATGCGACCTATCAATTTGGTATACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
16747099 CTACACTTATTACTACATACGTAACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTAACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
* *
16747164 CACATGTGATCGAAACTATCG
131 CACACGTGATCGAAACTAACG
* * *
16747185 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * * * *
16747250 CTGCACTTAGTGCTACACACGTAACCTAAAACCGTCTTAAACACATAGTAGCCTGCACATAGTAT
66 CTGCACTTAGTACTACACACGTAACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
16747315 TACACA
129 TACACA
16747321 TGTGTTCTCA
Statistics
Matches: 253, Mismatches: 32, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 217 0.86
153 36 0.14
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTAACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAACTAACG
Found at i:16747199 original size:101 final size:99
Alignment explanation
Indices: 16746885--16747268 Score: 389
Period size: 101 Copynumber: 3.8 Consensus size: 99
16746875 AGCTCTCTGG
* * **
16746885 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATGAATCTGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGCAACCTAACAATCTGGTACACGTAGTAGCCT
* * * *
16746950 GCACTTAGTACTACACACGTGACTTATCCATCTGA
66 GCACTTAGTACTACACATGTGACTAAACTATC-GA
* * ** * * * * *
16746985 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACACATAGTAGC
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGCAACCTAA--CAATCTGGTACACGTAGTAGC
* * * *
16747049 CTGCACTTAGTACTATACATGCGACCTATCAA-TTTGGTA
64 CTGCACTTAGTACTACACATGTGA-CTA--AACTATCG-A
* * * * * *
16747088 TACG--TAGTAGCCTACACTTATTACTACATACGTAACCTAACCATCTGATACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGCAACCTAACAATCTGGTACACGTAGTAGCCT
*
16747151 GCACTTAGTACTACACATGTGATCGAAACTATCGA
66 GCACTTAGTACTACACATGTGA-CTAAACTATCGA
*
16747186 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAATCTGGTACACGTAGTAGCC
1 -TACGCATAGTAGCCTGCACTTAGTACTACACACGCAACCTAACAATCTGGTACACGTAGTAGCC
*
16747251 TGCACTTAGTGCTACACA
65 TGCACTTAGTACTACACA
16747269 CGTAACCTAA
Statistics
Matches: 229, Mismatches: 44, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
98 3 0.01
99 8 0.03
100 73 0.32
101 134 0.59
102 5 0.02
103 5 0.02
104 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACACGCAACCTAACAATCTGGTACACGTAGTAGCCT
GCACTTAGTACTACACATGTGACTAAACTATCGA
Found at i:16752837 original size:15 final size:15
Alignment explanation
Indices: 16752814--16752850 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16752804 ACTTAGTGAG
*
16752814 TTCCTACGGAAATGA
1 TTCCCACGGAAATGA
16752829 TTCCCACGGAAATGA
1 TTCCCACGGAAATGA
16752844 TTCCCAC
1 TTCCCAC
16752851 TACAATTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (15 bp):
TTCCCACGGAAATGA
Found at i:16756955 original size:20 final size:19
Alignment explanation
Indices: 16756907--16756958 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
16756897 CAAGTGTATG
*
16756907 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
16756925 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
16756944 GTATATAATAATATA
1 GTA-AAAATAATATA
16756959 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:16757104 original size:22 final size:21
Alignment explanation
Indices: 16757079--16757122 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
16757069 AAGTAAAATG
16757079 AAAGAAAAAAAAAGAAGGAAAA
1 AAAGAAAAAAAAAGAA-GAAAA
* *
16757101 AAAGAAAGAAAAAGGAGAAAA
1 AAAGAAAAAAAAAGAAGAAAA
16757122 A
1 A
16757123 GCTAGGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAAAGAAGAAAA
Found at i:16759859 original size:15 final size:14
Alignment explanation
Indices: 16759815--16759853 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
16759805 GGCTGTGGAT
*
16759815 TTGGGTTTTAA-AA
1 TTGGTTTTTAAGAA
16759828 CTTGGTTTTTAAGAA
1 -TTGGTTTTTAAGAA
16759843 TTGGTTTTTAA
1 TTGGTTTTTAA
16759854 CTAATTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (14 bp):
TTGGTTTTTAAGAA
Found at i:16763844 original size:23 final size:23
Alignment explanation
Indices: 16763814--16763936 Score: 90
Period size: 23 Copynumber: 5.3 Consensus size: 23
16763804 CTGATGGACA
* *
16763814 GTAAGCTCTATTAAGCTGAATCG
1 GTAAGCTCCATTGAGCTGAATCG
* * * *
16763837 GTAAGCTCCAATGAGTTGAAACA
1 GTAAGCTCCATTGAGCTGAATCG
* * * *
16763860 GCAAGCTCTATCGAGTTGAATCG
1 GTAAGCTCCATTGAGCTGAATCG
*
16763883 GTAAGCTCCATTGAGCTGAAAT-A
1 GTAAGCTCCATTGAGCTG-AATCG
*
16763906 GTAAACT-C-TTACGAGCTGAATCG
1 GTAAGCTCCATT--GAGCTGAATCG
16763929 GTAAGCTC
1 GTAAGCTC
16763937 ATACGAGCTG
Statistics
Matches: 75, Mismatches: 20, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
21 2 0.03
22 4 0.05
23 66 0.88
24 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (23 bp):
GTAAGCTCCATTGAGCTGAATCG
Found at i:16763880 original size:46 final size:46
Alignment explanation
Indices: 16763811--16763936 Score: 164
Period size: 46 Copynumber: 2.7 Consensus size: 46
16763801 GAGCTGATGG
** *
16763811 ACAGTAAGCTCTATTAAGCTGAATCGGTAAGCTCCAATGAGTTGAA
1 ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
* * *
16763857 ACAGCAAGCTCTATCGAGTTGAATCGGTAAGCTCCATTGAGCTGAA
1 ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
* *
16763903 ATAGTAAACTCT-TACGAGCTGAATCGGTAAGCTC
1 ACAGTAAGCTCTAT-CGAGCTGAATCGGTAAGCTC
16763937 ATACGAGCTG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 68 0.99
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (46 bp):
ACAGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATGAGCTGAA
Found at i:16765662 original size:47 final size:47
Alignment explanation
Indices: 16765600--16765818 Score: 148
Period size: 47 Copynumber: 4.6 Consensus size: 47
16765590 TGTGCTAATA
*
16765600 TAAGACATGTTTGGGACAT-GCATCGGCCACATTATG-GGAGCCAGTG
1 TAAGACATGTCTGGGACATGGCATCGG-CACATTATGAGGAGCCAGTG
* *
16765646 TAAGACCATGTCTGGGACATGGCATCGG--CATTGTGACGAGAGCTAGTG
1 TAAGA-CATGTCTGGGACATGGCATCGGCACATTATGA-G-GAGCCAGTG
* * * * ** **
16765694 TAAGACATGTCTGGGACATGGCGTCAGCCTCAGTTTTG-CTAGTAAGTG
1 TAAGACATGTCTGGGACATGGCATC-GGCACA-TTATGAGGAGCCAGTG
* * * *
16765742 TAAGAACATGTCTAGGACATCGCTTC-G-AC-TTGATAGATGAGCCAGTG
1 TAAG-ACATGTCTGGGACATGGCATCGGCACATT-AT-GAGGAGCCAGTG
*
16765789 TAAGACCATGTCTGGGACATGACATCGGCA
1 TAAGA-CATGTCTGGGACATGGCATCGGCA
16765819 TTATACCCTA
Statistics
Matches: 133, Mismatches: 24, Indels: 29
0.72 0.13 0.16
Matches are distributed among these distances:
44 2 0.02
45 7 0.05
46 8 0.06
47 59 0.44
48 32 0.24
49 19 0.14
50 2 0.02
51 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGGCATCGGCACATTATGAGGAGCCAGTG
Done.