Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 308 of 425
Found at i:95752106 original size:22 final size:22
Alignment explanation
Indices: 95752081--95752124 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
95752071 TTATGGGTAA
95752081 GATGAAGGCTTGGAAAATAGCC
1 GATGAAGGCTTGGAAAATAGCC
95752103 GATGAAGGCTTGGAAAATAGCC
1 GATGAAGGCTTGGAAAATAGCC
95752125 TAAGTGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (22 bp):
GATGAAGGCTTGGAAAATAGCC
Found at i:95755952 original size:46 final size:44
Alignment explanation
Indices: 95755849--95755956 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 44
95755839 TATCTTTGAC
** * *
95755849 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
*
95755893 ATGGACTTACATGGCTCAATCCTGTCTCCAAAT-CCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCC-AATGCCATA--TATAAT
95755939 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
95755957 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 30 0.54
45 3 0.05
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
Found at i:95765875 original size:29 final size:29
Alignment explanation
Indices: 95765833--95765890 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
95765823 AGCCATATGG
95765833 AATGTACCTCTTATTTATTCAAAATCCTT
1 AATGTACCTCTTATTTATTCAAAATCCTT
95765862 AATGTACCTCTTATTTATTCAAAATCCTT
1 AATGTACCTCTTATTTATTCAAAATCCTT
95765891 TCTAGGACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
AATGTACCTCTTATTTATTCAAAATCCTT
Found at i:95767324 original size:13 final size:13
Alignment explanation
Indices: 95767308--95767334 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95767298 GAGGTTGTGT
95767308 CATGAGATTCATG
1 CATGAGATTCATG
95767321 CATGAGATTCATG
1 CATGAGATTCATG
95767334 C
1 C
95767335 TCGTAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CATGAGATTCATG
Found at i:95774666 original size:122 final size:122
Alignment explanation
Indices: 95774446--95774666 Score: 327
Period size: 122 Copynumber: 1.8 Consensus size: 122
95774436 GAATTATGTG
* * * * * *
95774446 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
95774511 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
*
95774568 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
95774633 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTAT
66 GCTAAGTCCCGAAGACGA-TTATGCTAGAAATTAT
95774667 ATCCGGGTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
121 1 0.01
122 86 0.99
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.34
Consensus pattern (122 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
Found at i:95774790 original size:40 final size:40
Alignment explanation
Indices: 95774625--95774792 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
95774615 CAATTGAATG
* * ** **
95774625 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTGATT
* * **
95774665 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGATT
* *
95774705 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGATT
* *
95774745 CTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGTTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGATT
95774785 ATATCCGG
1 ATATCCGG
95774793 TTGTATTCCG
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.04
40 97 0.93
41 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGATT
Found at i:95790391 original size:35 final size:36
Alignment explanation
Indices: 95790340--95790407 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
95790330 TTCAAGGAAC
*
95790340 ACCCGTCCGGGATAAATCCATAATGC-ACACATATT
1 ACCCGACCGGGATAAATCCATAATGCAACACATATT
* * *
95790375 ACCCGACCGGGCTAAATCCGTACTGCAACACAT
1 ACCCGACCGGGATAAATCCATAATGCAACACAT
95790408 GCAGGATCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 22 0.79
36 6 0.21
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (36 bp):
ACCCGACCGGGATAAATCCATAATGCAACACATATT
Found at i:95805373 original size:13 final size:13
Alignment explanation
Indices: 95805355--95805382 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95805345 GTTATTAATA
95805355 ATTAATATGAATT
1 ATTAATATGAATT
95805368 ATTAATATGAATT
1 ATTAATATGAATT
95805381 AT
1 AT
95805383 AGACTTGAAT
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:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:95805653 original size:17 final size:17
Alignment explanation
Indices: 95805631--95805669 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
95805621 CTGACTCCAT
*
95805631 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
95805648 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
95805665 TTTTA
1 TTTTA
95805670 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:95805861 original size:15 final size:17
Alignment explanation
Indices: 95805841--95805872 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95805831 TCATTTCATT
95805841 TATAT-AAT-CATAAAA
1 TATATAAATGCATAAAA
95805856 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
95805873 AGATTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 3 0.20
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:95810139 original size:44 final size:43
Alignment explanation
Indices: 95810089--95810244 Score: 133
Period size: 43 Copynumber: 3.6 Consensus size: 43
95810079 GTGATTTCAG
*
95810089 GTAAGACCATGTCTAGGACGTTGGCATCGAATTCTGTTTTACAT
1 GTAAGACCATGTCTGGGACGTTGGCATCG-ATTCTGTTTTACAT
* ** *
95810133 GTAAGACCATGTCTGGGACATCAGCATCG-TATCTGATTTT--GT
1 GTAAGACCATGTCTGGGACGTTGGCATCGAT-TCTG-TTTTACAT
* * *
95810175 GTAAGACCCTGTCTGGGACAG-TGGCATCGATGTTTG-ATTACAT
1 GTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TCTGTTTTACAT
* **
95810218 GTAAGACCACGTCTGGGATATTGGCAT
1 GTAAGACCATGTCTGGGACGTTGGCAT
95810245 TGTATATGTT
Statistics
Matches: 88, Mismatches: 17, Indels: 15
0.73 0.14 0.12
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 31 0.35
44 29 0.33
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACGTTGGCATCGATTCTGTTTTACAT
Found at i:95811258 original size:43 final size:42
Alignment explanation
Indices: 95811201--95811310 Score: 166
Period size: 43 Copynumber: 2.6 Consensus size: 42
95811191 TCCAGTTTTG
95811201 ACACGGCCTGGACACACGGGCGTGTCTACTGGTCATGTGTGAC
1 ACACGGCCT-GACACACGGGCGTGTCTACTGGTCATGTGTGAC
* *
95811244 ACACGGCCTAGACACACGAGCGTGTCTACTGGTCGTGTGTGAC
1 ACACGGCCT-GACACACGGGCGTGTCTACTGGTCATGTGTGAC
* *
95811287 ACACGGGCTGACACACAGGCGTGT
1 ACACGGCCTGACACACGGGCGTGT
95811311 GGTCGGCCGT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 13 0.21
43 48 0.79
ACGTcount: A:0.21, C:0.28, G:0.32, T:0.19
Consensus pattern (42 bp):
ACACGGCCTGACACACGGGCGTGTCTACTGGTCATGTGTGAC
Found at i:95825135 original size:47 final size:47
Alignment explanation
Indices: 95825076--95825196 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 47
95825066 GTAGCGGATT
95825076 CATGTCCCAGACATGTCTTACACTAGCACTCGTC-TCAATGT-T-GATG
1 CATGTCCCAGACATGTCTTACACTAGCACTC-TCAT-AATGTATCGATG
95825122 CCATGTCCCAGACATGGTCTTACACT-G-ACTCTCATAATGTGATCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCTCATAATGT-ATCGATG
*
95825170 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
95825197 TCACACAAGT
Statistics
Matches: 66, Mismatches: 1, Indels: 13
0.82 0.01 0.16
Matches are distributed among these distances:
45 7 0.11
46 15 0.23
47 30 0.45
48 14 0.21
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCTCATAATGTATCGATG
Found at i:95827137 original size:31 final size:31
Alignment explanation
Indices: 95827099--95827162 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
95827089 CCTTTTCATA
95827099 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
95827130 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
95827161 TT
1 TT
95827163 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:95827397 original size:14 final size:14
Alignment explanation
Indices: 95827378--95827407 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
95827368 TTGATGATTT
95827378 AATTTAGTGTTATA
1 AATTTAGTGTTATA
95827392 AATTTAGTGTTATA
1 AATTTAGTGTTATA
95827406 AA
1 AA
95827408 GGTGAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
AATTTAGTGTTATA
Found at i:95828934 original size:59 final size:57
Alignment explanation
Indices: 95828807--95828965 Score: 221
Period size: 59 Copynumber: 2.8 Consensus size: 57
95828797 GACAAGATTG
* * * * * * *
95828807 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
95828864 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
95828923 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
95828966 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
56 2 0.02
57 39 0.42
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:95828977 original size:29 final size:29
Alignment explanation
Indices: 95828807--95828965 Score: 214
Period size: 29 Copynumber: 5.5 Consensus size: 29
95828797 GACAAGATTG
* * * * * *
95828807 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
* *
95828836 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
95828864 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
95828893 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
95828923 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
95828952 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
95828966 GATTCACTAT
Statistics
Matches: 120, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 65 0.54
30 31 0.26
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:95830545 original size:24 final size:24
Alignment explanation
Indices: 95830481--95830598 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
95830471 GCTTTATCAT
*
95830481 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
95830506 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
95830529 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
95830552 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
95830576 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
95830599 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 40 0.46
24 39 0.45
25 8 0.09
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:95830570 original size:47 final size:47
Alignment explanation
Indices: 95830481--95830598 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 47
95830471 GCTTTATCAT
*
95830481 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCCCTTTCA
**
95830529 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCCCTTTCA
95830576 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
95830599 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
46 12 0.18
47 41 0.63
48 12 0.18
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCCCTTTCA
Found at i:95830674 original size:20 final size:20
Alignment explanation
Indices: 95830649--95830708 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
95830639 TATGATTACC
95830649 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
95830669 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
95830689 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
95830709 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:95830679 original size:11 final size:11
Alignment explanation
Indices: 95830649--95830703 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
95830639 TATGATTACC
95830649 TCATGTGCATA
1 TCATGTGCATA
*
95830660 TCA--TACATA
1 TCATGTGCATA
95830669 TCATGTGCATA
1 TCATGTGCATA
* *
95830680 TCA--TACATT
1 TCATGTGCATA
95830689 TCATGTGCATA
1 TCATGTGCATA
95830700 TCAT
1 TCAT
95830704 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:95838356 original size:31 final size:31
Alignment explanation
Indices: 95838318--95838381 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
95838308 CCTTTTCATA
95838318 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
95838349 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
95838380 TT
1 TT
95838382 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:95838624 original size:24 final size:24
Alignment explanation
Indices: 95838573--95838739 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
95838563 GCTTTATCAT
* *
95838573 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
95838598 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
95838622 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
95838645 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
95838669 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
95838693 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
95838717 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
95838740 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:95838673 original size:71 final size:71
Alignment explanation
Indices: 95838572--95838739 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
95838562 TGCTTTATCA
*
95838572 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
95838636 AGCCCTTT
64 AGCCCTTT
* * **
95838644 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
95838709 CCCTTT
66 CCCTTT
95838715 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
95838740 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:95838815 original size:20 final size:20
Alignment explanation
Indices: 95838790--95838849 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
95838780 TATGATTACC
95838790 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
95838810 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
95838830 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
95838850 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:95838820 original size:11 final size:11
Alignment explanation
Indices: 95838790--95838844 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
95838780 TATGATTACC
95838790 TCATGTGCATA
1 TCATGTGCATA
*
95838801 TCA--TACATA
1 TCATGTGCATA
95838810 TCATGTGCATA
1 TCATGTGCATA
* *
95838821 TCA--TACATT
1 TCATGTGCATA
95838830 TCATGTGCATA
1 TCATGTGCATA
95838841 TCAT
1 TCAT
95838845 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:95838924 original size:25 final size:25
Alignment explanation
Indices: 95838892--95838939 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
95838882 ATACATAAAC
* * *
95838892 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
95838917 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
95838940 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:95864386 original size:20 final size:21
Alignment explanation
Indices: 95864361--95864400 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
95864351 ACTTTGAAAT
95864361 AAGGC-ACACGCCCGTGTGGA
1 AAGGCAACACGCCCGTGTGGA
*
95864381 AAGGCAACACGCCTGTGTGG
1 AAGGCAACACGCCCGTGTGG
95864401 CCATTTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AAGGCAACACGCCCGTGTGGA
Found at i:95865691 original size:46 final size:45
Alignment explanation
Indices: 95865603--95865824 Score: 202
Period size: 46 Copynumber: 4.8 Consensus size: 45
95865593 TATATCTATA
* *
95865603 CCGATGGCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-G
1 CCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCATCTCGTAGG
*
95865649 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CATCTCGTAGG
* * * *
95865695 CCGATGCATGTCCCAAACATGTCTTACACTAGGGCTCGTCTC-AATG
1 CCGATGCATGTCCCAGACATGTCTTACACT--GGCTCATCTCGTAGG
* * *
95865741 CCGATGCCATGTTCCAGACATGGTTTTACACTGGCTC-TCATAATGT-GG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATC-T--CGTAGG
* *
95865789 TCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCA
95865825 CACAAGTGGC
Statistics
Matches: 146, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
44 12 0.08
45 18 0.12
46 72 0.49
47 26 0.18
48 18 0.12
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCATCTCGTAGG
Found at i:95865794 original size:94 final size:92
Alignment explanation
Indices: 95865650--95865820 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
95865640 ATCTCGTAGT
*
95865650 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAAACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAAACAT
95865715 GTCTTACACTAGGGCTCGTCTCAATGC
66 GTCTTACACTAGGGCTCGTCTCAATGC
* * * * *
95865742 CGATGCCATGTTCCAGACATGGTTTTACACTGGCTCT-CATAAT-GTGGTCGATGCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGTCCCAA
95865805 ACATGTCTTACACTAG
62 ACATGTCTTACACTAG
95865821 CTCACACAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 49 0.71
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAAACAT
GTCTTACACTAGGGCTCGTCTCAATGC
Found at i:95871818 original size:89 final size:89
Alignment explanation
Indices: 95871667--95871847 Score: 335
Period size: 89 Copynumber: 2.0 Consensus size: 89
95871657 ACATAGAAAG
95871667 AAGGCATCGATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
1 AAGGCATCGATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
95871732 TCCATTACCATTGCTCTCGATTAC
66 TCCATTACCATTGCTCTCGATTAC
* * *
95871756 AAGGCATCGATTATAATAAGACCTTTTCTCCAGTAGCCATGCTCAATTTTATCTGTGTACTATTA
1 AAGGCATCGATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
95871821 TCCATTACCATTGCTCTCGATTAC
66 TCCATTACCATTGCTCTCGATTAC
95871845 AAG
1 AAG
95871848 ATTTGGCAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (89 bp):
AAGGCATCGATTACAATAAGACCTTCTCTCCAGTAGCCATGCTCAAGTTTATCTGTGTACTATTA
TCCATTACCATTGCTCTCGATTAC
Found at i:95878696 original size:25 final size:25
Alignment explanation
Indices: 95878668--95878750 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
95878658 GAATAAAAAC
*
95878668 TCACCACAACAGCTTTCCAAATGAT
1 TCACCACAAAAGCTTTCCAAATGAT
*
95878693 TCACCATAAAAGCTTTCCAAATGAT
1 TCACCACAAAAGCTTTCCAAATGAT
* * ** *
95878718 ACGCCACAAGGGC-TTCCAAAAGAAT
1 TCACCACAAAAGCTTTCCAAATG-AT
95878743 TCACCACA
1 TCACCACA
95878751 TAGGGTTTCT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
24 8 0.17
25 39 0.83
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.20
Consensus pattern (25 bp):
TCACCACAAAAGCTTTCCAAATGAT
Found at i:95886101 original size:54 final size:54
Alignment explanation
Indices: 95886034--95886152 Score: 231
Period size: 54 Copynumber: 2.2 Consensus size: 54
95886024 CATATCCAAT
95886034 ATCAA-TCAAATCTAGAATATTTTATTCTATTCAATTTAGTCCTTATCTCGATA
1 ATCAATTCAAATCTAGAATATTTTATTCTATTCAATTTAGTCCTTATCTCGATA
95886087 ATCAATTCAAATCTAGAATATTTTATTCTATTCAATTTAGTCCTTATCTCGATA
1 ATCAATTCAAATCTAGAATATTTTATTCTATTCAATTTAGTCCTTATCTCGATA
95886141 ATCAATTCAAAT
1 ATCAATTCAAAT
95886153 ATGTCAATCA
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 5 0.08
54 60 0.92
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (54 bp):
ATCAATTCAAATCTAGAATATTTTATTCTATTCAATTTAGTCCTTATCTCGATA
Found at i:95886180 original size:16 final size:18
Alignment explanation
Indices: 95886140--95886180 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
95886130 TTATCTCGAT
*
95886140 AATCAATTCAAATATGTC
1 AATCAACTCAAATATGTC
95886158 AATCAACTCAAATA-GTC
1 AATCAACTCAAATATGTC
95886175 -ATCAAC
1 AATCAAC
95886181 AACTTACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 13 0.59
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (18 bp):
AATCAACTCAAATATGTC
Found at i:95905214 original size:27 final size:27
Alignment explanation
Indices: 95905176--95905227 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
95905166 AACTCATGTG
* *
95905176 CATTATTGAAGTGTTAGATGAAGTGTA
1 CATTATTGAAGTGCTAGAGGAAGTGTA
95905203 CATTATTGAAGTGCTAGAGGAAGTG
1 CATTATTGAAGTGCTAGAGGAAGTG
95905228 ATGTTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (27 bp):
CATTATTGAAGTGCTAGAGGAAGTGTA
Found at i:95908405 original size:23 final size:22
Alignment explanation
Indices: 95908378--95908420 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
95908368 TCTTAGAAGA
*
95908378 TTTGTAATATTATAATATTTGAT
1 TTTGTAATATTA-AAAATTTGAT
95908401 TTTGTAATATTAAAAATTTG
1 TTTGTAATATTAAAAATTTG
95908421 TGTAAATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTGTAATATTAAAAATTTGAT
Found at i:95920951 original size:14 final size:13
Alignment explanation
Indices: 95920933--95920957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95920923 GGATTTTGAA
95920933 AAAAAATAGGCTC
1 AAAAAATAGGCTC
95920946 AAAAAATAGGCT
1 AAAAAATAGGCT
95920958 TAGACAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAATAGGCTC
Found at i:95921441 original size:12 final size:13
Alignment explanation
Indices: 95921419--95921447 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95921409 ACTTGATGTA
95921419 TTATATTTTATTT
1 TTATATTTTATTT
95921432 TTAT-TTTTATTT
1 TTATATTTTATTT
95921444 TTAT
1 TTAT
95921448 GTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATATTTTATTT
Found at i:95921973 original size:24 final size:23
Alignment explanation
Indices: 95921946--95922009 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
95921936 CAAATGATTA
* * *
95921946 TTTTATATTAAATTTTTTTGTTTT
1 TTTTATATAAAATATTTTT-TTAT
*
95921970 TTTTAAATAAAATATTTTTTTAT
1 TTTTATATAAAATATTTTTTTAT
95921993 TTTTAT-TAAAAATATTT
1 TTTTATAT-AAAATATTT
95922010 AAATATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.03
23 17 0.50
24 16 0.47
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTATATAAAATATTTTTTTAT
Found at i:95922353 original size:23 final size:21
Alignment explanation
Indices: 95922324--95922377 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
95922314 ACCGAAAGAG
*
95922324 AGAA-AAAAAAATAG-AGAAAGG
1 AGAAGAAAAAAA-AGAAG-AAGA
95922345 AGAAG-AAAAAAAGAAGAAGA
1 AGAAGAAAAAAAAGAAGAAGA
95922365 AGAAGAAAAAAAA
1 AGAAGAAAAAAAA
95922378 AAAGGTAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (21 bp):
AGAAGAAAAAAAAGAAGAAGA
Found at i:95922378 original size:23 final size:24
Alignment explanation
Indices: 95922319--95922380 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
95922309 TCCATACCGA
95922319 AAGAGAGAAAAAAAAATAGAGAAAG
1 AAGA-AGAAAAAAAAATAGAGAAAG
* *
95922344 GAGAAGAAAAAAAGA-AGA-AGAAG
1 AAGAAGAAAAAAAAATAGAGA-AAG
95922367 AAGAA-AAAAAAAAA
1 AAGAAGAAAAAAAAA
95922381 GGTAATGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 9 0.28
23 10 0.31
24 10 0.31
25 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.02
Consensus pattern (24 bp):
AAGAAGAAAAAAAAATAGAGAAAG
Found at i:95922621 original size:60 final size:61
Alignment explanation
Indices: 95922529--95922662 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 61
95922519 GAATGTAATT
* * * *
95922529 TTTTTTGTTTTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTG-TGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
*
95922590 TTTTTTGTGTTTGTAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
1 TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
*
95922651 -TTGTTGTGTTTA
1 TTTTTTGTGTTTA
95922663 GTTTAGTATT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
60 55 0.85
61 10 0.15
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (61 bp):
TTTTTTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAA
Found at i:95931238 original size:20 final size:22
Alignment explanation
Indices: 95931192--95931238 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
95931182 AACGATATAT
*
95931192 GAATATATACGTATATGTATTAA
1 GAATATATACGTATA-GTAATAA
95931215 -AATATATACGTA-A-TAATAA
1 GAATATATACGTATAGTAATAA
95931234 GAATA
1 GAATA
95931239 AAAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 5 0.23
20 4 0.18
21 1 0.05
22 12 0.55
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (22 bp):
GAATATATACGTATAGTAATAA
Found at i:95931265 original size:27 final size:26
Alignment explanation
Indices: 95931213--95931265 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
95931203 TATATGTATT
* *
95931213 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
95931239 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
95931266 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:95931279 original size:25 final size:25
Alignment explanation
Indices: 95931251--95931658 Score: 217
Period size: 25 Copynumber: 16.1 Consensus size: 25
95931241 AAGTATATAC
*
95931251 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
95931276 ATAGTGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
95931301 ATAGT-TAAAAAATATATATACATAAG
1 ATAGTAT-TAAAA-ATATATACATAAT
* * *
95931327 ATAATATGTAAGAAAAAATATAAATAAT
1 ATAGTAT-T-A-AAAATATATACATAAT
*
95931355 ATAGTATT-AAAATATTTACATAATAT
1 ATAGTATTAAAAATATATACAT-A-AT
* *
95931381 ATACATATTAGAAATA-A-A-A-AA-
1 ATA-GTATTAAAAATATATACATAAT
* * *
95931402 ATGACTATTAATAATA-CTACATAAAT
1 AT-AGTATTAAAAATATATACAT-AAT
*
95931428 ATATGCATATATATATTAAAGATA-A-ATACAT
1 ATA-G--TAT-TA-A--AAATATATACATA-AT
* * *
95931459 AATAATATTAAAAGTATGTACATAAT
1 -ATAGTATTAAAAATATATACATAAT
* *
95931485 ATAGTGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
*
95931510 ATAGTTATTAAAAAAATATATACATAAG
1 ATAG-TATT--AAAAATATATACATAAT
*
95931538 ATAATA-TAAAAATATATACATGAA-
1 ATAGTATTAAAAATATATACAT-AAT
*
95931562 ATAGTATAAAAAATATATA-ACTAAT
1 ATAGTATTAAAAATATATACA-TAAT
95931587 A-A-TATTAAAAATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
*
95931610 ATA-TA-TAAAAACATATACGATATAT
1 ATAGTATTAAAAATATATAC-ATA-AT
*
95931635 ATA-TATTAGAAATA-ATA-ATAAT
1 ATAGTATTAAAAATATATACATAAT
95931657 AT
1 AT
95931659 GAAAAAAACT
Statistics
Matches: 298, Mismatches: 46, Indels: 81
0.70 0.11 0.19
Matches are distributed among these distances:
21 11 0.04
22 7 0.02
23 36 0.12
24 41 0.14
25 89 0.30
26 36 0.12
27 12 0.04
28 45 0.15
29 8 0.03
30 2 0.01
31 4 0.01
32 7 0.02
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:95931480 original size:23 final size:23
Alignment explanation
Indices: 95931410--95931657 Score: 175
Period size: 23 Copynumber: 10.2 Consensus size: 23
95931400 AAATGACTAT
* *
95931410 TAATAATACTACATAAATATATGCA
1 TAATAATATTA-A-AAATATATACA
* *
95931435 T-ATATATATTAAAGATAAATACA
1 TAATA-ATATTAAAAATATATACA
* *
95931458 TAATAATATTAAAAGTATGTACA
1 TAATAATATTAAAAATATATACA
* *
95931481 TAATATAGTGTTAAAAATACATACA
1 TAATA-A-TATTAAAAATATATACA
95931506 TAATATAGTTATTAAAAAAATATATACA
1 TAATA-A--TATT--AAAAATATATACA
95931534 TAAGATAATA-TAAAAATATATACA
1 T-A-ATAATATTAAAAATATATACA
* *
95931558 TGAAATAGTATAAAAAATATATA-A
1 T--AATAATATTAAAAATATATACA
95931582 CTAATAATATTAAAAATATATACA
1 -TAATAATATTAAAAATATATACA
*
95931606 TAAT-ATATATAAAAACATATACGA
1 TAATAATAT-TAAAAATATATAC-A
*
95931630 TATATATATATTAGAAATA-ATA-A
1 TA-ATA-ATATTAAAAATATATACA
95931653 TAATA
1 TAATA
95931658 TGAAAAAAAC
Statistics
Matches: 183, Mismatches: 22, Indels: 39
0.75 0.09 0.16
Matches are distributed among these distances:
22 7 0.04
23 65 0.36
24 32 0.17
25 45 0.25
26 10 0.05
27 6 0.03
28 13 0.07
29 2 0.01
30 3 0.02
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (23 bp):
TAATAATATTAAAAATATATACA
Found at i:95931754 original size:3 final size:3
Alignment explanation
Indices: 95931742--95931789 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
95931732 CTAGTACTAC
*
95931742 TAA TAT TAA TAA TAGA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95931787 TAA
1 TAA
95931790 ATATATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:95931860 original size:26 final size:26
Alignment explanation
Indices: 95931831--95931888 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
95931821 TACATTTAAA
*
95931831 AATATAACTAAAT-ATAAT-ATAATAAT
1 AATATAA--AAATAATAATGATAACAAT
*
95931857 AATATAAAAATAATAGTGATAACAAT
1 AATATAAAAATAATAATGATAACAAT
95931883 AATATA
1 AATATA
95931889 TATAACATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.14
25 4 0.14
26 20 0.71
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (26 bp):
AATATAAAAATAATAATGATAACAAT
Found at i:95931883 original size:15 final size:14
Alignment explanation
Indices: 95931841--95931893 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
95931831 AATATAACTA
95931841 AATATAATATAATAAT
1 AATATAA-A-AATAAT
95931857 AATATAAAAATAAT
1 AATATAAAAATAAT
* *
95931871 AGTGATAACAATAAT
1 AAT-ATAAAAATAAT
95931886 ATATATAA
1 A-ATATAA
95931894 CATGAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 8 0.25
15 16 0.50
16 8 0.25
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (14 bp):
AATATAAAAATAAT
Found at i:95933642 original size:44 final size:45
Alignment explanation
Indices: 95933545--95933644 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 45
95933535 ATCTGCTCTT
* * * *
95933545 CTGCAACTTCAGAGAGATGAGATCTGGTATCTTCAATCTACTCTG
1 CTGCAACTTCAGAGAGATGAGAACTGGTAACTTCAACCTACTCCG
* * *
95933590 CTACAACTTCAG-GAAGATGA-AACTTGTAACTTCAACCTGCTCCG
1 CTGCAACTTCAGAG-AGATGAGAACTGGTAACTTCAACCTACTCCG
95933634 CTGCAACTTCA
1 CTGCAACTTCA
95933645 AGGAGGCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
44 29 0.63
45 17 0.37
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (45 bp):
CTGCAACTTCAGAGAGATGAGAACTGGTAACTTCAACCTACTCCG
Found at i:95933676 original size:44 final size:45
Alignment explanation
Indices: 95933628--95933722 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
95933618 ACTTCAACCT
* * *
95933628 GCTCCGCTGCAACTTCA-AGGAGGCAAAATCT-GTATCTTCGATCA
1 GCTCCACTGCAACTTCAGA-GAGGAAAAATATGGTATCTTCGATCA
* *
95933672 GCTCCACTGTAACTTCAGAGAGGAAAAATATGGTGTCTTCGATCA
1 GCTCCACTGCAACTTCAGAGAGGAAAAATATGGTATCTTCGATCA
95933717 GCTCCA
1 GCTCCA
95933723 ACCTTTATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
44 25 0.57
45 19 0.43
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGAGAGGAAAAATATGGTATCTTCGATCA
Found at i:95933976 original size:29 final size:29
Alignment explanation
Indices: 95933920--95933978 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
95933910 AATAGAAAAT
* *
95933920 ACCTCAGCGTGTGATCCGAGGCTCAACTC
1 ACCTCAGCGTATGATCCGAAGCTCAACTC
*
95933949 ACCTCAGCGTATGA-CCTGAAGCTGAACTC
1 ACCTCAGCGTATGATCC-GAAGCTCAACTC
95933978 A
1 A
95933979 TCTCTCGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.20
Consensus pattern (29 bp):
ACCTCAGCGTATGATCCGAAGCTCAACTC
Found at i:95934107 original size:89 final size:88
Alignment explanation
Indices: 95933949--95934111 Score: 211
Period size: 89 Copynumber: 1.8 Consensus size: 88
95933939 GGCTCAACTC
* * * * * *
95933949 ACCTCAGCGTATGACCTGAAGCTGAACTCATCTCTCGTAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCGTATGACCTGAAGCTGAACTCACCTCTCGCAATACGAGTTGA-TCTTTTAAAAAATA
95934014 AATTGAAAAATAGAAATTGAAAAT
65 AATTGAAAAATAGAAATTGAAAAT
* * *
95934038 ACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATACGAGTTGA-CTTTTAAAAAATAG
1 ACCTCAGCGTATGACCTGAAGCTGAACTCACCTCTCGCAATACGAGTTGATCTTTTAAAAAATA-
95934102 GAATTGAAAA
65 -AATTGAAAA
95934112 TACCTAGCGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 10 0.16
89 53 0.84
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (88 bp):
ACCTCAGCGTATGACCTGAAGCTGAACTCACCTCTCGCAATACGAGTTGATCTTTTAAAAAATAA
ATTGAAAAATAGAAATTGAAAAT
Found at i:95934142 original size:74 final size:75
Alignment explanation
Indices: 95934019--95934166 Score: 244
Period size: 74 Copynumber: 2.0 Consensus size: 75
95934009 ACATAAATTG
*
95934019 AAAAATAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATACGAG
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
95934084 TTGACTTTTA
66 TTGACTTTTA
* * *
95934094 AAAAATAGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 AAAAATAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
*
95934158 TTGATTTTT
66 TTGACTTTT
95934167 TTGAAACATA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 46 0.68
75 22 0.32
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (75 bp):
AAAAATAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTA
Found at i:95934181 original size:74 final size:73
Alignment explanation
Indices: 95934027--95934185 Score: 221
Period size: 74 Copynumber: 2.1 Consensus size: 73
95934017 TGAAAAATAG
*
95934027 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATACGAGTTGACTTT
1 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
95934092 TAAAAAAT
66 TAAAAAAT
* *
95934100 AGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATT
1 A--AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA--
* * *
95934164 TTTTTGAAACAT
62 CTTTTAAAAAAT
95934176 AAATTGAAAA
1 AAATTGAAAA
95934186 ACAGAAATTG
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
73 1 0.01
74 51 0.67
75 14 0.18
76 10 0.13
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (73 bp):
AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TAAAAAAT
Found at i:95934193 original size:14 final size:14
Alignment explanation
Indices: 95934170--95934199 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
95934160 GATTTTTTTG
*
95934170 AAACATAAATTGAA
1 AAACAGAAATTGAA
95934184 AAACAGAAATTGAA
1 AAACAGAAATTGAA
95934198 AA
1 AA
95934200 TACCTCAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:95934195 original size:88 final size:89
Alignment explanation
Indices: 95934094--95934255 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 89
95934084 TTGACTTTTA
* * * * * ** * *
95934094 AAAAATAGGAATTGAAAATACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAATACGAG
*
95934158 TTGATTTTTTTGAAACATAAATTG
66 TTGACTTTTTTGAAACATAAATTG
* *
95934182 AAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCGCCTCTTGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAATACGAG
95934247 TTGACTTTT
66 TTGACTTTT
95934256 AAAAAACGGG
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
88 21 0.34
89 40 0.66
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (89 bp):
AAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTTTGAAACATAAATTG
Found at i:95934310 original size:75 final size:75
Alignment explanation
Indices: 95934182--95934349 Score: 219
Period size: 75 Copynumber: 2.2 Consensus size: 75
95934172 ACATAAATTG
* *
95934182 AAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCGCCTCTTGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAATACGAG
95934247 TTGACTTTTA
66 TTGACTTTTA
* * * ** *
95934257 AAAAACGGGAATTGAAAATACCTCAGCATGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAATACGAG
* *
95934322 TTGATTTTTT
66 TTGACTTTTA
** *
95934332 TGAAACATAAATTGAAAA
1 AAAAACAGAAATTGAAAA
95934350 ACAGAAATTA
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.26
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAATACGAG
TTGACTTTTA
Found at i:95934349 original size:164 final size:165
Alignment explanation
Indices: 95933949--95934663 Score: 972
Period size: 163 Copynumber: 4.3 Consensus size: 165
95933939 GGCTCAACTC
* * * * * *
95933949 ACCTCAGCGTATGACCTGAAGCTGAACTCATCTCTCGTAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * * * ** *
95934014 AATTGAAAAATAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAAT
*
95934079 ACGAGTTGA-CTTTTAAAAAATAGGAA-TTGAAAAT
131 ACGAGTTGATCTTTTAAAAAACA-GAATTTGAAAAT
* *
95934113 ACCT-AGCGTGTGACCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* *
95934177 AATTGAAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCGCCTCTTGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAAT
*
95934242 ACGAGTTGA-CTTTTAAAAAACGGGAA-TTGAAAAT
131 ACGAGTTGATCTTTTAAAAAAC-AGAATTTGAAAAT
*
95934276 ACCTCAGCATGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
* * *
95934341 AATTGAAAAACAGAAATTAAAAATACCTCGACATGTAACCCAAGGTTCAACTCACCTCTCGCAAT
66 AATTGAAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAAT
* * *
95934406 ATGAGTTGATTTTTTTGAAAAACAGAATTTGAAAAT
131 ACGAGTTGA-TCTTTTAAAAAACAGAATTTGAAAAT
* * *
95934442 ACCTCGGCATGTGACCCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG--AAACA
* * * ** * *
95934507 GAATTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
64 TAAATTGAAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCA
* * *
95934572 ATATGAGTTGATTTTTTGAAAAACAGAATTTGAAAAT
129 ATACGAGTTGATCTTTTAAAAAACAGAATTTGAAAAT
* * *
95934609 ATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
95934664 GAAAAACAGA
Statistics
Matches: 501, Mismatches: 43, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
163 145 0.29
164 129 0.26
165 3 0.01
166 72 0.14
167 79 0.16
168 73 0.15
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (165 bp):
ACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATA
AATTGAAAAACAGAAATTGAAAATACCTCAACATGTAACCCAAGGCTCAACTCACCTCTCGCAAT
ACGAGTTGATCTTTTAAAAAACAGAATTTGAAAAT
Found at i:95934408 original size:89 final size:89
Alignment explanation
Indices: 95934257--95934425 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
95934247 TTGACTTTTA
* * * **
95934257 AAAAACGGGAATTGAAAATACCTCAGCATGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTAAAAATACCTCAGCATGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAG
95934322 TTGATTTTTTTGAAACATAAATTG
66 TTGATTTTTTTGAAACATAAATTG
*
95934346 AAAAACAGAAATTAAAAATACCTC-GACATGTAACCCAAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTAAAAATACCTCAG-CATGTAACCCAAGGCTCAACTCACCTCTCGCAATATGA
95934410 GTTGATTTTTTTGAAA
65 GTTGATTTTTTTGAAA
95934426 AACAGAATTT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 1 0.01
89 72 0.99
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (89 bp):
AAAAACAGAAATTAAAAATACCTCAGCATGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAACATAAATTG
Found at i:95934475 original size:77 final size:77
Alignment explanation
Indices: 95934343--95934517 Score: 287
Period size: 77 Copynumber: 2.3 Consensus size: 77
95934333 GAAACATAAA
* * *
95934343 TTGAAAAACAGAAATTAAAAATACCTCGACATGTAACCCAAGGTTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCACCTCTCGCAATAT
95934408 GAGTTGATTTTT
66 GAGTTGATTTTT
* * * *
95934420 TTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTTACCTCTCGCAATAT
1 TTGAAAAACAGAATTTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCACCTCTCGCAATAT
95934485 GAGTTGATTTTT
66 GAGTTGATTTTT
95934497 TTGAAAAACAGAATTTGAAAA
1 TTGAAAAACAGAATTTGAAAA
95934518 ACAGAATTTG
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 91 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (77 bp):
TTGAAAAACAGAATTTGAAAATACCTCGACATGTAACCCAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTT
Found at i:95934515 original size:14 final size:14
Alignment explanation
Indices: 95934496--95934531 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
95934486 AGTTGATTTT
95934496 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
95934510 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
95934524 TTTGAAAA
1 TTTGAAAA
95934532 TACCTCGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:95934574 original size:91 final size:90
Alignment explanation
Indices: 95934419--95934607 Score: 360
Period size: 91 Copynumber: 2.1 Consensus size: 90
95934409 AGTTGATTTT
*
95934419 TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTTACCTCTCGCAATA
1 TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
95934484 TGAGTTGATTTTTTTGAAAAACAGAA
66 TGAGTTGA-TTTTTTGAAAAACAGAA
95934510 TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
95934575 TGAGTTGATTTTTTGAAAAACAGAA
66 TGAGTTGATTTTTTGAAAAACAGAA
95934600 TTTGAAAA
1 TTTGAAAA
95934608 TATCTCGGCA
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 25 0.26
91 72 0.74
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (90 bp):
TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTGAAAAACAGAA
Found at i:95934636 original size:76 final size:75
Alignment explanation
Indices: 95934510--95934674 Score: 312
Period size: 76 Copynumber: 2.2 Consensus size: 75
95934500 AAAAACAGAA
95934510 TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
95934575 TGAGTTGATTT
66 TGAGTTGA-TT
*
95934586 TTTGAAAAACAGAATTTGAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
95934651 TGAGTTGATT
66 TGAGTTGATT
95934661 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
95934675 ATTAAAACAT
Statistics
Matches: 88, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
75 16 0.18
76 72 0.82
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (75 bp):
TTTGAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATT
Found at i:95946682 original size:20 final size:21
Alignment explanation
Indices: 95946636--95946682 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
95946626 AACGATATAT
*
95946636 AAATATATACGTATATCTATTA
1 AAATATATACGTATA-CTAATA
95946658 AAATATATACGTA-A-TAATA
1 AAATATATACGTATACTAATA
95946677 AGAATA
1 A-AATA
95946683 AAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 1 0.04
22 13 0.57
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (21 bp):
AAATATATACGTATACTAATA
Found at i:95946709 original size:27 final size:26
Alignment explanation
Indices: 95946657--95946709 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
95946647 TATATCTATT
* *
95946657 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
95946683 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
95946710 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:95946788 original size:31 final size:31
Alignment explanation
Indices: 95946732--95946809 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
95946722 AGCGTTAAAA
95946732 ATACATACATAATATAGTTAAAAAAATATAT
1 ATACATACATAATATAGTTAAAAAAATATAT
*
95946763 ATACATAAGATAATAT-G-TAAGAAAAATATAT
1 ATACAT-ACATAATATAGTTAA-AAAAATATAT
*
95946794 AT--ATAAATAATATAGT
1 ATACATACATAATATAGT
95946810 ATTAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
28 8 0.20
29 3 0.07
30 3 0.07
31 19 0.46
32 8 0.20
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (31 bp):
ATACATACATAATATAGTTAAAAAAATATAT
Found at i:95946919 original size:23 final size:23
Alignment explanation
Indices: 95946893--95947097 Score: 157
Period size: 23 Copynumber: 8.5 Consensus size: 23
95946883 ATATATATAT
* *
95946893 ATATTAAAGATAAATACATAATA
1 ATATTAAAAATATATACATAATA
* *
95946916 ATATTAAAAGTATGTACATAATA
1 ATATTAAAAATATATACATAATA
* *
95946939 TAGTGTTAAAAATACATACATAATA
1 -A-TATTAAAAATATATACATAATA
95946964 TAGTTATTAAAAAATATATACATAAGATA
1 -A--TATT-AAAAATATATACAT-A-ATA
95946993 ATA-TAAAAATATATACATGAAATA
1 ATATTAAAAATATATACAT--AATA
* *
95947017 GTATAAAAAATATATA-ACTAATA
1 ATATTAAAAATATATACA-TAATA
*
95947040 ATATTAAAAATATATACATAA-C
1 ATATTAAAAATATATACATAATA
*
95947062 ATATATAAAAACATATACGAT-ATA
1 ATAT-TAAAAATATATAC-ATAATA
*
95947086 TATATTAGAAAT
1 -ATATTAAAAAT
95947098 GATAATAATA
Statistics
Matches: 148, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
22 4 0.03
23 53 0.36
24 29 0.20
25 39 0.26
26 5 0.03
27 13 0.09
28 2 0.01
29 3 0.02
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
ATATTAAAAATATATACATAATA
Found at i:95946919 original size:25 final size:24
Alignment explanation
Indices: 95946882--95946963 Score: 60
Period size: 25 Copynumber: 3.3 Consensus size: 24
95946872 TAAATATATG
95946882 CATATATATATATATTAAAGATAAATA
1 CATA-ATA-ATAT-TTAAAGATAAATA
* **
95946909 CATAATAATATTAAAAG-TATGTA
1 CATAATAATATTTAAAGATAAATA
* *
95946932 CATAAT-ATAGTGTTAAAAATACATA
1 CATAATAATA-T-TTAAAGATAAATA
95946957 CATAATA
1 CATAATA
95946964 TAGTTATTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
22 3 0.07
23 11 0.25
24 9 0.20
25 14 0.32
26 3 0.07
27 4 0.09
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
CATAATAATATTTAAAGATAAATA
Found at i:95946967 original size:25 final size:25
Alignment explanation
Indices: 95946695--95946831 Score: 87
Period size: 25 Copynumber: 5.1 Consensus size: 25
95946685 AAGTATATAC
*
95946695 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
** *
95946720 ATAGCGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
**
95946745 ATAGTTAAAAAAATATATATACATAAGAT
1 ATAG-TATTAAAA-ATATATACAT-A-AT
** *
95946774 AATATGTAAGAAAAATATATATATAAATAAT
1 -ATA-GT-A-TTAAA-A-ATATATACATAAT
*
95946805 ATAGTATT-AAAATATTTACATAAT
1 ATAGTATTAAAAATATATACATAAT
95946829 ATA
1 ATA
95946832 TACATATTAG
Statistics
Matches: 89, Mismatches: 14, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
24 14 0.16
25 26 0.29
26 6 0.07
27 9 0.10
28 2 0.02
29 4 0.04
30 7 0.08
31 4 0.04
32 6 0.07
33 11 0.12
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:95946975 original size:25 final size:25
Alignment explanation
Indices: 95946873--95947060 Score: 112
Period size: 23 Copynumber: 7.6 Consensus size: 25
95946863 AATACTACAT
*
95946873 AAATATATGCATATATATA-TATATTA
1 AAATATATACATA-ATATAGT-TATTA
*
95946899 AAGATAAATACATAATA-A--TATTA
1 AA-ATATATACATAATATAGTTATTA
* *
95946922 AAAGTATGTACATAATATAGTGT-TAA
1 AAA-TATATACATAATATAGT-TATTA
*
95946948 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAGTTATT--A
* * *
95946975 AAATATATACATAAGATA-ATATAA
1 AAATATATACATAATATAGTTATTA
*
95946999 AAATATATACATGAA-ATAG-TATAAA
1 AAATATATACAT-AATATAGTTAT-TA
95947024 AAATATATA-ACTAATA-A--TATTAA
1 AAATATATACA-TAATATAGTTATT-A
95947047 AAATATATACATAA
1 AAATATATACATAA
95947061 CATATATAAA
Statistics
Matches: 133, Mismatches: 13, Indels: 35
0.73 0.07 0.19
Matches are distributed among these distances:
22 1 0.01
23 34 0.26
24 26 0.20
25 32 0.24
26 13 0.10
27 27 0.20
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (25 bp):
AAATATATACATAATATAGTTATTA
Found at i:95947227 original size:18 final size:18
Alignment explanation
Indices: 95947190--95947228 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
95947180 ACTAGTACTA
* * *
95947190 ATAATATTAATAATAGAT
1 ATAATAATAATAAAAAAT
95947208 ATAATAATAATAAAAAAT
1 ATAATAATAATAAAAAAT
95947226 ATA
1 ATA
95947229 TATGCATATA
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:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAATAATAATAAAAAAT
Found at i:95956066 original size:25 final size:25
Alignment explanation
Indices: 95956038--95956132 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
95956028 TTCCACTATA
** *
95956038 TGGCTCTCACAAGCTTCCTGATATT
1 TGGCTCTCATGAGCTTCCCGATATT
* *
95956063 TGGCACTCATGAGCTTCCCGAT-TAA
1 TGGCTCTCATGAGCTTCCCGATAT-T
*
95956088 TGGCTCTCATGAGCTTCCCGATAAT
1 TGGCTCTCATGAGCTTCCCGATATT
*
95956113 TGGCT-TGCAAGAGCTTCCCG
1 TGGCTCT-CATGAGCTTCCCG
95956133 CTACATGGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
24 2 0.03
25 56 0.97
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (25 bp):
TGGCTCTCATGAGCTTCCCGATATT
Found at i:95956127 original size:50 final size:50
Alignment explanation
Indices: 95956037--95956132 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
95956027 ATTCCACTAT
* * *
95956037 ATGGCTCTCACAAGCTTCCTGATATTTGGCACTCATGAGCTTCCCGATTA
1 ATGGCTCTCACAAGCTTCCCGATAATTGGCACTCAAGAGCTTCCCGATTA
** *
95956087 ATGGCTCTCATGAGCTTCCCGATAATTGGC-TTGCAAGAGCTTCCCG
1 ATGGCTCTCACAAGCTTCCCGATAATTGGCACT-CAAGAGCTTCCCG
95956133 CTACATGGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.03
50 38 0.97
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGGCTCTCACAAGCTTCCCGATAATTGGCACTCAAGAGCTTCCCGATTA
Found at i:95956141 original size:25 final size:25
Alignment explanation
Indices: 95956073--95956155 Score: 91
Period size: 25 Copynumber: 3.3 Consensus size: 25
95956063 TGGCACTCAT
*
95956073 GAGCTTCCCGATTAATGGCTCT-CAT
1 GAGCTTCCCGA-TAATGGCTCTGCAA
95956098 GAGCTTCCCGATAATTGGCT-TGCAA
1 GAGCTTCCCGATAA-TGGCTCTGCAA
* *
95956123 GAGCTTCCCGCTACATGGCTCAG-AA
1 GAGCTTCCCGATA-ATGGCTCTGCAA
95956148 GAGCTTCC
1 GAGCTTCC
95956156 TGATTACATG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 4 0.08
25 45 0.88
26 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (25 bp):
GAGCTTCCCGATAATGGCTCTGCAA
Found at i:95956141 original size:50 final size:50
Alignment explanation
Indices: 95956032--95956143 Score: 120
Period size: 50 Copynumber: 2.2 Consensus size: 50
95956022 TGAGCATTCC
* * *
95956032 ACTATATGGCTCTCACAAGCTTCCTGATATTTGGCACTCATGAGCTTCCCG
1 ACTA-ATGGCTCTCACAAGCTTCCCGATAATTGGCACTCAAGAGCTTCCCG
* ** *
95956083 ATTAATGGCTCTCATGAGCTTCCCGATAATTGGC-TTGCAAGAGCTTCCCG
1 ACTAATGGCTCTCACAAGCTTCCCGATAATTGGCACT-CAAGAGCTTCCCG
95956133 -CTACATGGCTC
1 ACTA-ATGGCTC
95956144 AGAAGAGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 3 0.06
50 45 0.88
51 3 0.06
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (50 bp):
ACTAATGGCTCTCACAAGCTTCCCGATAATTGGCACTCAAGAGCTTCCCG
Found at i:95958716 original size:46 final size:46
Alignment explanation
Indices: 95958663--95958832 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
95958653 TGTGTGCTAA
* *
95958663 TGTAAGACATGTCTGGGACATGTATTGGCCATATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAG
* * * *
95958709 TGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATAT-ACAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAT-A-TTATGA-GAGCCAG
* * *
95958757 TGTAATACATGTCTGGGACATGCATCGG-CAT-TGAGATGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCATAT--TATGAGAGCCAG
*
95958803 TGTAAGACATGTTTGGGACATGCATCGGCC
1 TGTAAGACATGTCTGGGACATGCATCGGCC
95958833 TCGAGATATA
Statistics
Matches: 102, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
46 61 0.60
47 6 0.06
48 35 0.34
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAG
Found at i:95958767 original size:48 final size:48
Alignment explanation
Indices: 95958703--95958872 Score: 227
Period size: 48 Copynumber: 3.6 Consensus size: 48
95958693 ATATTATGAG
95958703 AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATACA
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATACA
* * * * *
95958751 AGCCAGTGTAATACATGTCTGGGACATGCATCGGCATTGAGAT-GA-G
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATACA
* *
95958797 AGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATACA
1 AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATACA
* * * *
95958845 AGCTAATGAAAGACCTGTTTGGGACATG
1 AGCCAGTGTAAGACATGTTTGGGACATG
95958873 GCGTCAGCTT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 38 0.36
47 2 0.02
48 65 0.62
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATACA
Found at i:95958810 original size:94 final size:94
Alignment explanation
Indices: 95958663--95958872 Score: 289
Period size: 94 Copynumber: 2.2 Consensus size: 94
95958653 TGTGTGCTAA
* * *
95958663 TGTAAGACATGTCTGGGACATGTATTGGCCATATTATGAGAGCCAGTGTAAGACATGTTTGGGAC
1 TGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCCAGTGTAAGACATGTTTGGGAC
*
95958728 ATGCATCGGCCTTGAGATATACAAGCCAG
66 ATGCATCGGCCTCGAGATATACAAGCCAG
* *
95958757 TGTAATACATGTCTGGGACATGCATCGG-CAT-TGAGATGAGAGCTAGTGTAAGACATGTTTGGG
1 TGTAAGACATGTCTGGGACATGCATCGGCCATAT--GATGAGAGCCAGTGTAAGACATGTTTGGG
* *
95958820 ACATGCATCGGCCTCGAGATATACAAGCTAA
64 ACATGCATCGGCCTCGAGATATACAAGCCAG
* * *
95958851 TGAAAGACCTGTTTGGGACATG
1 TGTAAGACATGTCTGGGACATG
95958873 GCGTCAGCTT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 3 0.03
94 98 0.96
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCCAGTGTAAGACATGTTTGGGAC
ATGCATCGGCCTCGAGATATACAAGCCAG
Found at i:95959028 original size:49 final size:48
Alignment explanation
Indices: 95958933--95959070 Score: 147
Period size: 49 Copynumber: 2.9 Consensus size: 48
95958923 ACACCGATAG
* *
95958933 ATGAGAGCCAGTGTAAGACCTGTCTAGGACAT-AGCATCGGCCTTGATAT
1 ATGAAAGCCAGTGTAAGACCTGTCTAGGACATGAGCATCGACCTTG--AT
* *
95958982 ATGAAAGTCAGTGTAAGACCTGTCTAGGACATGA-CATCGACTTTGAT
1 ATGAAAGCCAGTGTAAGACCTGTCTAGGACATGAGCATCGACCTTGAT
* ** * *
95959029 GTGCTAGCCAATGTAAGACCATGTCTAGGACATG-GCGTCGAC
1 ATGAAAGCCAGTGTAAGACC-TGTCTAGGACATGAGCATCGAC
95959071 ATCTTATCCC
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
47 17 0.22
48 19 0.25
49 39 0.51
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (48 bp):
ATGAAAGCCAGTGTAAGACCTGTCTAGGACATGAGCATCGACCTTGAT
Found at i:95960535 original size:18 final size:19
Alignment explanation
Indices: 95960512--95960551 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
95960502 GTATAGACCG
95960512 TGTGG-TCACACACGCCCA
1 TGTGGTTCACACACGCCCA
*
95960530 TGTGGTTTGACACACGCCCA
1 TGTGG-TTCACACACGCCCA
95960550 TG
1 TG
95960552 CCCTTAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
20 14 0.74
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (19 bp):
TGTGGTTCACACACGCCCA
Found at i:95970099 original size:27 final size:26
Alignment explanation
Indices: 95970069--95970341 Score: 327
Period size: 27 Copynumber: 10.3 Consensus size: 26
95970059 GTAATGACCA
95970069 AAATAACCCCATAGGGTAAAATGATCG
1 AAAT-ACCCCATAGGGTAAAATGATCG
*
95970096 AAATACCCCA-AGGGTAAAATGACCG
1 AAATACCCCATAGGGTAAAATGATCG
*
95970121 AAATACCCTATAGGGTAAAATGATCG
1 AAATACCCCATAGGGTAAAATGATCG
95970147 AAATACCCACATAGGGTAAAATGA-CTG
1 AAATACCC-CATAGGGTAAAATGATC-G
* *
95970174 AAATACCCCTATAGGATAAAATGACCG
1 AAATACCCC-ATAGGGTAAAATGATCG
*
95970201 AAATACCCTCATAGGATAAAATGATCG
1 AAATACCC-CATAGGGTAAAATGATCG
* * * * * *
95970228 AAATGCTCCAATATGATAAAATAACCG
1 AAATAC-CCCATAGGGTAAAATGATCG
* *
95970255 AAATACCCCCATAGGG-AAAATGACCA
1 AAATA-CCCCATAGGGTAAAATGATCG
95970281 AAATACCCCATAGGGTAAAATGATCG
1 AAATACCCCATAGGGTAAAATGATCG
*
95970307 AAATACCCCCATAGGGTAAAATGATCA
1 AAATA-CCCCATAGGGTAAAATGATCG
95970334 AAATACCC
1 AAATACCC
95970342 TTGTAAGGTA
Statistics
Matches: 216, Mismatches: 20, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
25 33 0.15
26 59 0.27
27 119 0.55
28 5 0.02
ACGTcount: A:0.45, C:0.21, G:0.16, T:0.18
Consensus pattern (26 bp):
AAATACCCCATAGGGTAAAATGATCG
Found at i:95973601 original size:27 final size:27
Alignment explanation
Indices: 95973565--95973892 Score: 408
Period size: 27 Copynumber: 12.2 Consensus size: 27
95973555 GGGCCGAAGT
*
95973565 AATGACCGAAATACCCCCGTAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * *
95973592 AATAATCGAAGTACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
95973619 AATGACC-AAAGTACCCCTATAGGGTAA
1 AATGACCGAAA-TACCCCCATAGGGTAA
*
95973646 TATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
95973673 AATGATCAAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*** *
95973700 AATGATTTAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
95973727 AATGACCGAAATTCTCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
95973754 AATGACCAAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
95973781 AATGACTGAAATACCCCTATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
95973808 AATGACCAAAATACCCCCATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAA
**
95973835 AATGACCGAAATACCCTTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
95973862 AATGACCAAAATA-CCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
95973888 AATGA
1 AATGA
95973893 TTGTAATACC
Statistics
Matches: 260, Mismatches: 39, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
26 18 0.07
27 239 0.92
28 3 0.01
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:95978621 original size:42 final size:41
Alignment explanation
Indices: 95978574--95978728 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 41
95978564 AATCATTCCA
*
95978574 ATGCCATATTCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GGATCTCATATCG
* *
95978616 ATGCCAATAGCCCAGCTATGGTCTTACAT-GATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGGA-TCTCATATCG
* * * *
95978658 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACATG-GATCTCATATCG
*
95978700 AGGCCATATCCCAGATATGGTCTTACATG
1 ATGCCATATCCCAGATATGGTCTTACATG
95978729 TAAACTCATA
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.22
42 55 0.57
43 21 0.22
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGGATCTCATATCG
Found at i:95978737 original size:84 final size:84
Alignment explanation
Indices: 95978574--95978738 Score: 215
Period size: 84 Copynumber: 2.0 Consensus size: 84
95978564 AATCATTCCA
* * * ** * * *
95978574 ATGCCATATTCCAGATATGGTCTTACATGGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
**
95978639 TTACATGATTCTCATATCG
66 TTACATGAAACTCATATCG
*
95978658 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCC-ATATCCCAGATATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
95978722 TTACATGTAAACTCATA
66 TTACATG-AAACTCATA
95978739 ACCCTAATAC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
83 22 0.32
84 47 0.68
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
TTACATGAAACTCATATCG
Found at i:95985746 original size:49 final size:46
Alignment explanation
Indices: 95985629--95985991 Score: 210
Period size: 47 Copynumber: 7.7 Consensus size: 46
95985619 AGGGTGTAAC
* *
95985629 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGG-CTTACACTGACTCATCAATCAA
* *
95985676 GTCGATGCCATGTCCCAGACATGGACTTACACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGG-CTTACACTGACTCATC--AATC-AA
* * * **
95985725 GCCGACGCCATGTCCCAGACATGGTTTACACTAGCTCTCA-CATATACGT
1 GCCGATGCCATGTCCCAGACATGGCTTACACT-G-ACTCATCA-AT-CAA
* * * *
95985774 GCCAATGCCATATCCCAGACATGGTCTTACACTGGCACATC--TCATA
1 GCCGATGCCATGTCCCAGACATGG-CTTACACTGACTCATCAATCA-A
* * * * *
95985820 GCTGATG-CATGTCCCAGAAATGTCTTACACTGGCTTACATC--TCGAG
1 GCCGATGCCATGTCCCAGACATGGCTTACACTGAC-T-CATCAATC-AA
* * *
95985866 GCCAATG-CATGTCCCAGACATGTCTTACACT-AGCTC-TCATCTCAA
1 GCCGATGCCATGTCCCAGACATGGCTTACACTGA-CTCATCA-ATCAA
* * ***
95985911 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCATAATGTG
1 -GCCGATGCCATGTCCCAGACATGG-CTTACACTGACTCATC--AATCAA
* *
95985960 GCCAATG-CATGTCCCAGACATGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGCTTACACTG
95985992 GTACACAAAT
Statistics
Matches: 250, Mismatches: 42, Indels: 49
0.73 0.12 0.14
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 16 0.06
46 60 0.24
47 65 0.26
48 32 0.13
49 50 0.20
50 12 0.05
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGCTTACACTGACTCATCAATCAA
Found at i:95985875 original size:46 final size:46
Alignment explanation
Indices: 95985637--95985992 Score: 246
Period size: 46 Copynumber: 7.6 Consensus size: 46
95985627 ACGCCGATGC
* * *
95985637 CATGTCCCAGACATGGTCTTACACTGG--CTCATCCATC-AAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-C-TCGAGGCCAATG
* * * ** * *
95985683 CCATGTCCCAGACATGGACTTACACTGACTATCGAAATCGAGGCCGACG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATCTCGAGGCCAATG
* * *
95985732 CCATGTCCCAGACATGGT-TTACACTAGCTCTCACATATACG-TGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCT-CGAGGCCAATG
* * * **
95985781 CCATATCCCAGACATGGTCTTACACTGG--CACATCTC-ATAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGA-GGCCAATG
*
95985827 CATGTCCCAGAAATGTCTTACACTGGCT-TACATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCAATG
* * * *
95985873 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCAATG
* * *
95985919 CCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCAATG
95985967 CATGTCCCAGACATGTCTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
95985993 TACACAAATA
Statistics
Matches: 249, Mismatches: 42, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
44 12 0.05
45 13 0.05
46 70 0.28
47 55 0.22
48 36 0.14
49 51 0.20
50 12 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCAATG
Found at i:95985965 original size:94 final size:94
Alignment explanation
Indices: 95985629--95985991 Score: 349
Period size: 94 Copynumber: 3.9 Consensus size: 94
95985619 AGGGTGTAAC
* *
95985629 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--CGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACAT-AATGTGCCAATGCCATGTCC
* * ** *
95985691 CAGACATGGACTTACACTGACTATCGAAATCGAG
64 CAGACATGGTCTTACACTG-CTCTC-ATCTC-AT
* * * *
95985725 GCCGACGCCATGTCCCAGACATGGT-TTACACTAGCTCTCACATATACGTGCCAATGCCATATCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATA-ATGTGCCAATGCCATGTCC
* *
95985789 CAGACATGGTCTTACACTG-GCACATCTCAT
64 CAGACATGGTCTTACACTGCTCTCATCTCAT
* * * *
95985819 AGCTGATG-CATGTCCCAGAAAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCAATG-CATGTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAAT-G-TGCCAATGCCATGTC
95985879 CCAGACAT-GTCTTACACTAGCTCTCATCTCAAT
63 CCAGACATGGTCTTACACT-GCTCTCATCTC-AT
*
95985912 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCT-CATAATGTGGCCAATG-CATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATGT-GCCAATGCCATGTCCC
95985975 AGACAT-GTCTTACACTG
65 AGACATGGTCTTACACTG
95985992 GTACACAAAT
Statistics
Matches: 223, Mismatches: 27, Indels: 37
0.78 0.09 0.13
Matches are distributed among these distances:
90 10 0.04
91 15 0.07
92 24 0.11
93 19 0.09
94 74 0.33
95 25 0.11
96 27 0.12
98 29 0.13
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAATGTGCCAATGCCATGTCCCA
GACATGGTCTTACACTGCTCTCATCTCAT
Found at i:95985985 original size:140 final size:142
Alignment explanation
Indices: 95985629--95985992 Score: 410
Period size: 140 Copynumber: 2.6 Consensus size: 142
95985619 AGGGTGTAAC
95985629 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGT--CGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CAT-AAGTGCCGATG-CATGTCCC
* * *
95985692 AGACATGGACTTACACTGACTATCGAAATCGAGGCCGACGCCATGTCCCAGACATGGTTTACACT
63 AGACAT-GTCTTACACTGGCTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACT
95985757 AGCTCTCACATATACGT
127 AGCTCTCACATATAC-T
* * * * *
95985774 GCCAATGCCATATCCCAGACATGGTCTTACACTGGCACATC-TCA-TAGCTGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGT-GCCGATGCATGTCCCAG
* ** *
95985837 AAATGTCTTACACTGGCT-TAC-ATCTCGAGGCCAATG-CATGTCCCAGACAT-GTCTTACACTA
65 ACATGTCTTACACTGGCTAT-CGAAATCGAGGCCAACGCCATGTCCCAGACATGGT-TTACACTA
95985898 GCTCTCATC-TCA-A-T
128 GCTCTCA-CAT-ATACT
* *
95985912 GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCATAATGTGGCCAATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAA-GT-GCCGATGCATGTCCCA
95985976 GACATGTCTTACACTGG
64 GACATGTCTTACACTGG
95985993 TACACAAATA
Statistics
Matches: 188, Mismatches: 21, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
137 2 0.01
138 37 0.20
139 2 0.01
140 62 0.33
141 15 0.08
142 14 0.07
143 14 0.07
144 5 0.03
145 37 0.20
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (142 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGTGCCGATGCATGTCCCAGA
CATGTCTTACACTGGCTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACTAGCT
CTCACATATACT
Found at i:95994748 original size:18 final size:18
Alignment explanation
Indices: 95994728--95994784 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
95994718 TTATCTTTAT
* *
95994728 TTTTCTTTTTCTTTTTCT
1 TTTTCTTTTTCATTTTCA
95994746 TTTTCTTTTT-ATTTTCA
1 TTTTCTTTTTCATTTTCA
*
95994763 TTTTCATTTTCATTTTCA
1 TTTTCTTTTTCATTTTCA
95994781 TTTT
1 TTTT
95994785 ATGTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 14 0.40
18 21 0.60
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTCATTTTCA
Found at i:95994754 original size:6 final size:6
Alignment explanation
Indices: 95994728--95994784 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
95994718 TTATCTTTAT
* * * *
95994728 TTTTCT TTTTCT TTTTCT TTTTC- TTTTTA TTTTCA TTTTCA TTTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
95994775 TTTTCA TTTT
1 TTTTCA TTTT
95994785 ATGTTTTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 4 0.08
6 44 0.92
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCA
Found at i:96000125 original size:18 final size:18
Alignment explanation
Indices: 96000098--96000134 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
96000088 AGAATTTAGA
* *
96000098 TCCCTTTTCATTCTCAGC
1 TCCCTCTTCATCCTCAGC
96000116 TCCCTCTTCATCCTCAGC
1 TCCCTCTTCATCCTCAGC
96000134 T
1 T
96000135 GCCTTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.43, G:0.05, T:0.41
Consensus pattern (18 bp):
TCCCTCTTCATCCTCAGC
Found at i:96008168 original size:25 final size:25
Alignment explanation
Indices: 96008134--96008188 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
96008124 GATTACTTGA
* *
96008134 AAAGCCTTTGTGGCATATCATTTGG
1 AAAGCATTTGTGACATATCATTTGG
*
96008159 AAAGCATTTGTGACTTATCATTTGG
1 AAAGCATTTGTGACATATCATTTGG
96008184 AAAGC
1 AAAGC
96008189 CATCATGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (25 bp):
AAAGCATTTGTGACATATCATTTGG
Found at i:96010473 original size:30 final size:29
Alignment explanation
Indices: 96010411--96010475 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
96010401 CTCAATGTTT
*
96010411 AAAAATTTGTTATTTTGATAAAAATTCTA
1 AAAAATTTGTCATTTTGATAAAAATTCTA
* *
96010440 AAAAATTTGTCATTTTGCTTAAAATTCTA
1 AAAAATTTGTCATTTTGATAAAAATTCTA
96010469 AAAAATT
1 AAAAATT
96010476 CAATAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (29 bp):
AAAAATTTGTCATTTTGATAAAAATTCTA
Found at i:96012256 original size:42 final size:43
Alignment explanation
Indices: 96012185--96012265 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 43
96012175 AAGTCGTGTG
* *
96012185 GTGGACAAGCCACTAGTATTTGCAGATAAACTACTAGAAATAC
1 GTGGACAAGCCACAAGTATGTGCAGATAAACTACTAGAAATAC
* *
96012228 GTGGACAAGCGACAAGTA-GTGCAGATAAACTGCTAGAA
1 GTGGACAAGCCACAAGTATGTGCAGATAAACTACTAGAA
96012266 CTTCTTCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 18 0.53
43 16 0.47
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (43 bp):
GTGGACAAGCCACAAGTATGTGCAGATAAACTACTAGAAATAC
Found at i:96019262 original size:11 final size:11
Alignment explanation
Indices: 96019237--96019274 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
96019227 TAACATGTTG
96019237 AATTTTA-ATT
1 AATTTTATATT
*
96019247 AATTTTATAAT
1 AATTTTATATT
*
96019258 AATTTTTTATT
1 AATTTTATATT
96019269 AATTTT
1 AATTTT
96019275 GATCATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:96021543 original size:15 final size:12
Alignment explanation
Indices: 96021510--96021536 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
96021500 GGAGAAATGA
96021510 GAGAAGAAAGGG
1 GAGAAGAAAGGG
96021522 GAGAAGAAAGGG
1 GAGAAGAAAGGG
96021534 GAG
1 GAG
96021537 GACAAGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (12 bp):
GAGAAGAAAGGG
Found at i:96024231 original size:141 final size:141
Alignment explanation
Indices: 96023990--96024262 Score: 456
Period size: 141 Copynumber: 1.9 Consensus size: 141
96023980 AACAATTCTC
**
96023990 AGATACTCACCATACTCAATTTCGATCTTAGAATAGACCAGAATGTCCTCGTTAAAAACAACAAA
1 AGATACTCACCATACTCAATTTCGATCTTAGAATAGACCAGAATGTCCTCAATAAAAACAACAAA
** * * *
96024055 CTGATCTAAAAATGACTGAAACACTTTATTCATCAAGTCCAAGAATGTAGCAGAGCCATTATTCA
66 CTGATCTAAAAACAACTGAAACACCTTATTCATCAAGTCCAAGAATGCAGCAGAGCCATTAGTCA
96024120 GAATAACTCTT
131 GAATAACTCTT
*
96024131 AGATGCTCACCATACTCAATTTCGATCTTAGAATAGACCAGAATGTCCTCAATAAAAACAACAAA
1 AGATACTCACCATACTCAATTTCGATCTTAGAATAGACCAGAATGTCCTCAATAAAAACAACAAA
* *
96024196 CTGATCTAAAAACAATTGAAACACCTTATTCATCAAGTCCAAGAATGCAGCAGAGGCATTAGTCA
66 CTGATCTAAAAACAACTGAAACACCTTATTCATCAAGTCCAAGAATGCAGCAGAGCCATTAGTCA
96024261 GA
131 GA
96024263 CTGAAAGGCA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 122 1.00
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.25
Consensus pattern (141 bp):
AGATACTCACCATACTCAATTTCGATCTTAGAATAGACCAGAATGTCCTCAATAAAAACAACAAA
CTGATCTAAAAACAACTGAAACACCTTATTCATCAAGTCCAAGAATGCAGCAGAGCCATTAGTCA
GAATAACTCTT
Found at i:96033981 original size:22 final size:22
Alignment explanation
Indices: 96033953--96034060 Score: 82
Period size: 22 Copynumber: 5.1 Consensus size: 22
96033943 AATATTTGAA
*
96033953 GATAAACTGCCAGAAATATGTG
1 GATAAACTACCAGAAATATGTG
* * * *
96033975 GATAAACCACTAG--ATGTGTA
1 GATAAACTACCAGAAATATGTG
*
96033995 GATAAACTACCATAAATATGTG
1 GATAAACTACCAGAAATATGTG
* **
96034017 GATGAACTACCA-AAAT-TGCA
1 GATAAACTACCAGAAATATGTG
*
96034037 GATAAATTA-CAGGAAATATGTG
1 GATAAACTACCA-GAAATATGTG
96034059 GA
1 GA
96034061 CAAGCCACCA
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.03
20 24 0.38
21 8 0.12
22 30 0.47
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (22 bp):
GATAAACTACCAGAAATATGTG
Found at i:96034040 original size:42 final size:42
Alignment explanation
Indices: 96033952--96034060 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
96033942 CAATATTTGA
* * * *
96033952 AGATAAACTGCCAGAAATATGTGGATAAACCACTAGATGTGT
1 AGATAAACTACCAGAAATATGTGGATAAACCACAAAATGTGC
* * *
96033994 AGATAAACTACCATAAATATGTGGATGAACTACCAAAAT-TGC
1 AGATAAACTACCAGAAATATGTGGATAAACCA-CAAAATGTGC
*
96034036 AGATAAATTA-CAGGAAATATGTGGA
1 AGATAAACTACCA-GAAATATGTGGA
96034061 CAAGCCACCA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.04
42 50 0.89
43 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (42 bp):
AGATAAACTACCAGAAATATGTGGATAAACCACAAAATGTGC
Found at i:96034456 original size:58 final size:58
Alignment explanation
Indices: 96034366--96034484 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
96034356 GTAAAACTAT
96034366 ACAATCATATAATTGTGCTATACACCATTTCGATCAAAACAATAAATTTTAGTTAAGG
1 ACAATCATATAATTGTGCTATACACCATTTCGATCAAAACAATAAATTTTAGTTAAGG
96034424 ACAATCATATAATTGTGCTATACACCATTTCGATCAAAACAATAAATTTTAGTTAAGG
1 ACAATCATATAATTGTGCTATACACCATTTCGATCAAAACAATAAATTTTAGTTAAGG
96034482 ACA
1 ACA
96034485 CTTACATACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (58 bp):
ACAATCATATAATTGTGCTATACACCATTTCGATCAAAACAATAAATTTTAGTTAAGG
Found at i:96034839 original size:11 final size:11
Alignment explanation
Indices: 96034813--96034863 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
96034803 ATTTTCTTGT
96034813 TATTTT-CTCAC
1 TATTTTGCT-AC
96034824 TATTTTGCTAC
1 TATTTTGCTAC
* * *
96034835 CATTTTACTAT
1 TATTTTGCTAC
*
96034846 TATGTTGCTAC
1 TATTTTGCTAC
96034857 TATTTTG
1 TATTTTG
96034864 TTGTTATTGT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
11 29 0.94
12 2 0.06
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.55
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:96035078 original size:12 final size:12
Alignment explanation
Indices: 96035057--96035090 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
96035047 TATATATTTT
*
96035057 AAAATTATATAA
1 AAAATAATATAA
96035069 AAAATAATATAA
1 AAAATAATATAA
*
96035081 AAATTAATAT
1 AAAATAATAT
96035091 GGGTGGACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:96042376 original size:40 final size:40
Alignment explanation
Indices: 96042331--96042498 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
96042321 CGGAATATAA
96042331 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
96042371 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
96042411 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
96042451 CCGGATAAAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
96042491 CCGGATAT
1 CCGGATAT
96042499 CATTCAATTT
Statistics
Matches: 99, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:96049109 original size:20 final size:21
Alignment explanation
Indices: 96049071--96049109 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
96049061 AAGTAGGGAA
**
96049071 AAGAAGAAAGAGAGTGGGAGC
1 AAGAAGAAAGAGAAAGGGAGC
96049092 AAGAAG-AAGAGAAAGGGA
1 AAGAAGAAAGAGAAAGGGA
96049110 CAGCCAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.54, C:0.03, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGAAGAAAGAGAAAGGGAGC
Found at i:96051130 original size:23 final size:24
Alignment explanation
Indices: 96051081--96051134 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
96051071 CAAACCAACC
* * *
96051081 AAGCCTTTGTGGCGAATTATTCGAA
1 AAGCCTTTGTGAC-AATTATGCAAA
96051106 AAGCCTTTGTGAC-ATTATGCAAA
1 AAGCCTTTGTGACAATTATGCAAA
96051129 AAGCCT
1 AAGCCT
96051135 CAGTGGTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 14 0.54
25 12 0.46
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (24 bp):
AAGCCTTTGTGACAATTATGCAAA
Found at i:96052739 original size:3 final size:3
Alignment explanation
Indices: 96052731--96052764 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
96052721 TGGGACAATA
*
96052731 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
96052765 CTCAATGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:96058774 original size:29 final size:29
Alignment explanation
Indices: 96058740--96058817 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
96058730 GTGACGAGAT
* *
96058740 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
96058769 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
96058798 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
96058818 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:96066605 original size:29 final size:29
Alignment explanation
Indices: 96066571--96066648 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
96066561 GTGACGAGAT
* *
96066571 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
96066600 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
96066629 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
96066649 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:96070353 original size:22 final size:23
Alignment explanation
Indices: 96070318--96070360 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
96070308 AAACAAATTT
96070318 TTAAATTCGAAAAA-TAAAAAGG
1 TTAAATTCGAAAAAGTAAAAAGG
**
96070340 TTAAATTCTTAAAAGTAAAAA
1 TTAAATTCGAAAAAGTAAAAA
96070361 AAAAGGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (23 bp):
TTAAATTCGAAAAAGTAAAAAGG
Found at i:96083551 original size:79 final size:79
Alignment explanation
Indices: 96083420--96083574 Score: 256
Period size: 79 Copynumber: 2.0 Consensus size: 79
96083410 TTGCCCGCGG
*
96083420 GAGTGTGCCAACTATAGCTACTTGGCCGAATATGTAAATTAACTACTCCTAACAATTAAATCATT
1 GAGTGTGCCAACTATAGCTACTTGGCCGAATATGTAAATTAACTACTCCTAACAATTAAATCATC
*
96083485 TCGGCAAGATATCA
66 TCGACAAGATATCA
* * * *
96083499 GAGTGTGCCAACTATAGCTATTTGGCTGAATATGTAAATTAACTATTCCTAACAATTTAATCATC
1 GAGTGTGCCAACTATAGCTACTTGGCCGAATATGTAAATTAACTACTCCTAACAATTAAATCATC
96083564 TCGACAAGATA
66 TCGACAAGATA
96083575 AACATTTCGA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (79 bp):
GAGTGTGCCAACTATAGCTACTTGGCCGAATATGTAAATTAACTACTCCTAACAATTAAATCATC
TCGACAAGATATCA
Found at i:96083584 original size:17 final size:17
Alignment explanation
Indices: 96083564--96083596 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96083554 TTTAATCATC
96083564 TCGACAAGATAAACATT
1 TCGACAAGATAAACATT
96083581 TCGACAAGATAAACAT
1 TCGACAAGATAAACAT
96083597 CACTTACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.21
Consensus pattern (17 bp):
TCGACAAGATAAACATT
Found at i:96085700 original size:23 final size:23
Alignment explanation
Indices: 96085673--96085716 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
96085663 AACTTGAATT
96085673 TTAAATTT-TAAAAAGTAAAAGAA
1 TTAAATTTATAAAAA-TAAAAGAA
96085696 TTAAATTTATAAAAATAAAAG
1 TTAAATTTATAAAAATAAAAG
96085717 TATAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (23 bp):
TTAAATTTATAAAAATAAAAGAA
Found at i:96086305 original size:10 final size:10
Alignment explanation
Indices: 96086290--96086334 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
96086280 GGTCCCTATA
96086290 TTCTTTTATG
1 TTCTTTTATG
96086300 TTCTTTTATG
1 TTCTTTTATG
96086310 TT-TATTT-T-
1 TTCT-TTTATG
96086318 TTCCTTTTATG
1 TT-CTTTTATG
96086329 TTCTTT
1 TTCTTT
96086335 AATCTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 2 0.07
9 5 0.17
10 21 0.70
11 2 0.07
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.73
Consensus pattern (10 bp):
TTCTTTTATG
Found at i:96091209 original size:47 final size:47
Alignment explanation
Indices: 96091043--96091214 Score: 181
Period size: 49 Copynumber: 3.6 Consensus size: 47
96091033 CGTGCTAGTA
* *
96091043 TAAGA-CATGTCTGGGACATGGCATCGACACTGATATGTGA-GAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGAC-TTG--ATG-GATGAGCCAGTG
* * * *
96091092 TAAGACCATGTCTGGGACATGGCGTC-ATTCTTGATTTCGAT-AGTCAGCG
1 TAAGACCATGTCTGGGACATGGCATCGA--CTTGA--TGGATGAGCCAGTG
96091141 TAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCCAGTG
*
96091188 TAAGACCATGTCTAGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
96091215 GCATTATACC
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
46 4 0.04
47 32 0.31
48 6 0.06
49 38 0.37
50 23 0.22
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCCAGTG
Found at i:96098314 original size:49 final size:50
Alignment explanation
Indices: 96098198--96098326 Score: 165
Period size: 49 Copynumber: 2.6 Consensus size: 50
96098188 AATATGTGTC
*
96098198 AGTGTAAGACCATATCTGGGACATGGCATCAGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGCT
* * * *
96098248 AGTGTAAGACCATGTCTGGGACATGACATCAGC-CTTGAT-T-TCGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GGATATGT-GAGAGCT
*
96098297 AGTGTAAAACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
96098327 GGCATTATAC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.50
50 34 0.49
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGCT
Found at i:96100064 original size:18 final size:18
Alignment explanation
Indices: 96100041--96100075 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96100031 CCAGGTGCGT
*
96100041 ATCCTAGCCCTTATATGA
1 ATCCTAACCCTTATATGA
*
96100059 ATCCTAACCTTTATATG
1 ATCCTAACCCTTATATG
96100076 TTTCCTTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.37
Consensus pattern (18 bp):
ATCCTAACCCTTATATGA
Found at i:96104462 original size:16 final size:16
Alignment explanation
Indices: 96104441--96104477 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
96104431 CCAACTGATA
96104441 CATTTGAACAAGAATT
1 CATTTGAACAAGAATT
96104457 CATTTGAACAAGAATT
1 CATTTGAACAAGAATT
96104473 CATTT
1 CATTT
96104478 CTCTAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (16 bp):
CATTTGAACAAGAATT
Found at i:96112166 original size:126 final size:126
Alignment explanation
Indices: 96111642--96112412 Score: 919
Period size: 125 Copynumber: 6.1 Consensus size: 126
96111632 GGCAAAGCAA
* *
96111642 GAACTACTATAGAAAAAGAGCATCCACGTGGGATCTTTTTTCAGTAATTTTGCTGATAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * *
96111707 CTGGTTGAAGCATTTTTGACACTGTTTTTTTTCAGAACCATCTTCTCAAAATTATTTTT-TCAG
66 CTGCTTGAAGCATTTTTGACAC--TATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCT-AG
* * * * * *
96111770 GAACTACTATAGAAAAAGAGCGTACATGTGAGAGC-TTTTTCAGTAATTTTGCTAACAGTACATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * * *
96111834 CTGCTTGAAGCATTTTGGACACTATTTTTTCAGAACCATCTTCTTAAAATAATATTTTC-AG
66 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTAT-TTTTCTAG
* * ** *
96111895 GAACTAATGTAGAAAAAGAGCGTCCATATGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCGTC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
** * * *
96111960 CAACTAGAAGCATTTTTGACACTA-TTTTTCAGAACCGCCTTCTCAAAATTATTTTTTTAG
66 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCTAG
* * * * * *
96112020 GAACTATTGTAGAAAAAGAGCGTCTACGTGGGAGCTATTTTT-ACTAATTTTGTTGACAGTGCAT
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCT-TTTTTCAGTAATTTTGCTGATAGTGCAT
* * *
96112084 CCTACTTGAAGCATTTTTGACACAAATTTTTCAGAACCGTCTTCTCAAAATTATTTTTCTAG
65 CCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCTAG
* * * * * * *
96112146 GAATTACTATATAAAAAGAGCGT-CACGCGGTAGCCTTTTTCAGTACTTTTGCTGATAGTGCATA
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * * *
96112210 CTGCTTGAAGCATTTTTTACATTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTC-AA
66 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCTAG
* * * *
96112270 AAACTACTATAGAAAAAGAGCATCCACGTGGGAGTTTTTTTCAGTACTTTTGCTGATAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * * * *
96112335 CTGCTTGAAGCGTTTTTGTCATTATTTTTTTAGAATCGTCTTCTCAAAATTAATTTTTC-AG
66 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATT-ATTTTTCTAG
* * *
96112396 AAACTATTGTAGAAAAA
1 GAACTACTATAGAAAAA
96112413 AAAACCAAAA
Statistics
Matches: 554, Mismatches: 80, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
124 29 0.05
125 319 0.58
126 130 0.23
127 46 0.08
128 30 0.05
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (126 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTCTAG
Found at i:96113165 original size:23 final size:23
Alignment explanation
Indices: 96113121--96113167 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
96113111 TCACTTAACT
*
96113121 TCAAAAAGTTACAAAACGGTCAC
1 TCAAAAAGTTACAAAACAGTCAC
**
96113144 TCAAAAAGTTACAAATTAGTCAC
1 TCAAAAAGTTACAAAACAGTCAC
96113167 T
1 T
96113168 GAATTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (23 bp):
TCAAAAAGTTACAAAACAGTCAC
Done.