Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 198 of 362
Found at i:66559044 original size:47 final size:47
Alignment explanation
Indices: 66558990--66559155 Score: 287
Period size: 47 Copynumber: 3.5 Consensus size: 47
66558980 TTAGGATTTT
** * *
66558990 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
66559037 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
*
66559084 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
66559131 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
66559156 GTGGTGACTA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 114 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:66559137 original size:22 final size:22
Alignment explanation
Indices: 66559066--66559137 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
66559056 GCATATATGA
66559066 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
66559088 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
66559113 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
66559135 GAT
1 GAT
66559138 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:66565030 original size:18 final size:18
Alignment explanation
Indices: 66565007--66565080 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
66564997 ATTATCACAT
66565007 ATATAGTAGGGTTCGCAC
1 ATATAGTAGGGTTCGCAC
* * *
66565025 ATATAGTATGGTTTGCAT
1 ATATAGTAGGGTTCGCAC
* * *
66565043 AAATGGTAGGGTTCACAC
1 ATATAGTAGGGTTCGCAC
*
66565061 ATATAGTATAGGTTCGCAC
1 ATATAGTA-GGGTTCGCAC
66565080 A
1 A
66565081 CCAGCATAGT
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
18 33 0.79
19 9 0.21
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (18 bp):
ATATAGTAGGGTTCGCAC
Found at i:66565900 original size:34 final size:34
Alignment explanation
Indices: 66565852--66565959 Score: 94
Period size: 34 Copynumber: 3.2 Consensus size: 34
66565842 TTGTGAATTG
* * * * *
66565852 TATTCGCTAGGTGATATTGTCCACTAGGGGATAC
1 TATTCGCCAAGTGATACTATCCACTAGAGGATAC
*
66565886 TATTCGCCAAGTGATACTATCCACTAGATGATAC
1 TATTCGCCAAGTGATACTATCCACTAGAGGATAC
* * **
66565920 TA-TCAGTCAAGTGATAC-AGTCCGCTAGACAATAC
1 TATTC-GCCAAGTGATACTA-TCCACTAGAGGATAC
66565954 TATTCG
1 TATTCG
66565960 TTAGGCAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
33 3 0.05
34 56 0.92
35 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (34 bp):
TATTCGCCAAGTGATACTATCCACTAGAGGATAC
Found at i:66571164 original size:94 final size:95
Alignment explanation
Indices: 66571003--66571198 Score: 376
Period size: 94 Copynumber: 2.1 Consensus size: 95
66570993 CCGAATCTAT
*
66571003 ATAAATGAATTTAACCATCAATTTCACACATTTCATATTCATTTGGACTCAATTTACTTGCTAGG
1 ATAAATTAATTTAACCATCAATTTCACACATTTCATATTCATTTGGACTCAATTTACTTGCTAGG
66571068 TAAAATTACCATTTTGCCCCTAACTTTT-C
66 TAAAATTACCATTTTGCCCCTAACTTTTCC
66571097 ATAAATTAATTTAACCATCAATTTCACACATTTCATATTCATTTGGACTCAATTTACTTGCTAGG
1 ATAAATTAATTTAACCATCAATTTCACACATTTCATATTCATTTGGACTCAATTTACTTGCTAGG
66571162 TAAAATTACCATTTTGCCCCTAACTTTTCC
66 TAAAATTACCATTTTGCCCCTAACTTTTCC
66571192 ATAAATT
1 ATAAATT
66571199 CCAATTTCGT
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 92 0.92
95 8 0.08
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (95 bp):
ATAAATTAATTTAACCATCAATTTCACACATTTCATATTCATTTGGACTCAATTTACTTGCTAGG
TAAAATTACCATTTTGCCCCTAACTTTTCC
Found at i:66573081 original size:23 final size:23
Alignment explanation
Indices: 66573055--66573101 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
66573045 AATTCAGTAG
*
66573055 CTCAATTTGGTATCGATACCCAA
1 CTCAATTTGGTATCAATACCCAA
66573078 CTCAATTTGGTATCAATACCCAA
1 CTCAATTTGGTATCAATACCCAA
66573101 C
1 C
66573102 AACGAGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.30
Consensus pattern (23 bp):
CTCAATTTGGTATCAATACCCAA
Found at i:66578679 original size:46 final size:46
Alignment explanation
Indices: 66578629--66578804 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
66578619 TGGTTGAGCA
66578629 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
66578675 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
66578720 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
66578768 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66578805 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:66578785 original size:93 final size:93
Alignment explanation
Indices: 66578626--66578796 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
66578616 GGATGGTTGA
* *
66578626 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66578691 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
66578719 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66578784 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
66578797 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:66582537 original size:22 final size:22
Alignment explanation
Indices: 66582512--66582553 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
66582502 GGGGTCAAAA
66582512 TATAATTTTAT-CATTATTAATT
1 TATAATTTTATACATT-TTAATT
66582534 TATAATTTTATACATTTTAA
1 TATAATTTTATACATTTTAA
66582554 AGGGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
TATAATTTTATACATTTTAATT
Found at i:66582869 original size:19 final size:19
Alignment explanation
Indices: 66582841--66582880 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
66582831 TCTATTTTAT
66582841 TATTGCTTTATAAATAAAC
1 TATTGCTTTATAAATAAAC
*
66582860 TATTGTTTTATAAATAAAC
1 TATTGCTTTATAAATAAAC
66582879 TA
1 TA
66582881 AATTGGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTGCTTTATAAATAAAC
Found at i:66583282 original size:16 final size:16
Alignment explanation
Indices: 66583262--66583299 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
66583252 GCTTAAGAAT
*
66583262 TTTTTATTTTAAAAATA
1 TTTTT-TTTCAAAAATA
66583279 TTTTTTTTCAAAAATA
1 TTTTTTTTCAAAAATA
66583295 TTTTT
1 TTTTT
66583300 AAAAAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTTTTCAAAAATA
Found at i:66588308 original size:16 final size:16
Alignment explanation
Indices: 66588287--66588317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66588277 TGATTTTCTA
66588287 TTTTTTTATTTTAAAG
1 TTTTTTTATTTTAAAG
*
66588303 TTTTTTTCTTTTAAA
1 TTTTTTTATTTTAAA
66588318 ATCCAATCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTTTATTTTAAAG
Found at i:66589824 original size:43 final size:43
Alignment explanation
Indices: 66589763--66589852 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
66589753 TAAAGGTCCT
*
66589763 CGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTAAAAAAAGC
1 CGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAAAGC
* *
66589806 CGCTAGAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGC
1 CGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAAAGC
66589849 CGCT
1 CGCT
66589853 TTTATAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (43 bp):
CGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAAAGC
Found at i:66589854 original size:18 final size:18
Alignment explanation
Indices: 66589831--66589866 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66589821 CCTTTAGCGG
66589831 CGCTTTTATAAAAAACGC
1 CGCTTTTATAAAAAACGC
66589849 CGCTTTTATAAAAAACGC
1 CGCTTTTATAAAAAACGC
66589867 TGCTAAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
CGCTTTTATAAAAAACGC
Found at i:66589861 original size:61 final size:61
Alignment explanation
Indices: 66589788--66589913 Score: 198
Period size: 61 Copynumber: 2.1 Consensus size: 61
66589778 CCTTTAGCGG
* *
66589788 CGCTTTTTTAAAAAAAGCCGCTAGAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGC
1 CGCTTTTATAAAAAAAGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGC
* * * *
66589849 CGCTTTTATAAAAAACGCTGCTAAAGACCAGGACCTTTAGCGGTGCTTTTTTAAAAAACGC
1 CGCTTTTATAAAAAAAGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGC
66589910 CGCT
1 CGCT
66589914 AATTTGCCCA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (61 bp):
CGCTTTTATAAAAAAAGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGC
Found at i:66590235 original size:21 final size:21
Alignment explanation
Indices: 66590209--66590256 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
66590199 TCCTGTTTTG
66590209 CTCCGCCTCCCTCGCTACTGC
1 CTCCGCCTCCCTCGCTACTGC
*
66590230 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTACTGC
66590251 CTCCGC
1 CTCCGC
66590257 TCTAAGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.58, G:0.17, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTACTGC
Found at i:66590844 original size:18 final size:18
Alignment explanation
Indices: 66590812--66590849 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
66590802 TACAATATAG
66590812 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
66590831 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
66590848 TA
1 TA
66590850 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:66596937 original size:476 final size:477
Alignment explanation
Indices: 66596045--66597298 Score: 2458
Period size: 476 Copynumber: 2.6 Consensus size: 477
66596035 TTATACAAAT
66596045 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
66596110 AATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66596175 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTT-TTGAATTTTTTAAGATTCATCATACGT
131 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGT
* *
66596239 GGTGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTTAGGT
196 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
66596304 TTCCAGCCTATATACTTTGAATCTTTAAAATATTAAAAATAAGGAATGGACAAGCAAGCTACATA
261 TTCCAGCCTATATACTTTGAATCTTTAAAATATTAAAAATAAGGAATGGACAAGCAAGCTACATA
66596369 TATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAA
326 TATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAA
66596434 CCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAA
391 CCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAA
66596499 AAATTAGTTATAACTTTTAAAG
456 AAATTAGTTATAACTTTTAAAG
66596521 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
66596586 AATAATATCAAGAAAGAATCGTAGTTTAATTTTTA-AAGTAAATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66596650 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGT
131 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGT
66596715 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
196 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
*
66596780 TTCCAGCCTATATACTTTGAATCTTTAAAATATTAAAAATAAGGAATGGACAAGCAAGCTTCATA
261 TTCCAGCCTATATACTTTGAATCTTTAAAATATTAAAAATAAGGAATGGACAAGCAAGCTACATA
66596845 TATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAA
326 TATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAA
66596910 CCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAA
391 CCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAA
66596975 AAATTAGTTATAACTTTTAAAG
456 AAATTAGTTATAACTTTTAAAG
66596997 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
1 ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
66597062 AATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66 AATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
66597127 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGT
131 TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGT
66597192 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
196 GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
*
66597257 TTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAA
261 TTCCAGCCTATATACTTTGAATCTTTAAAATATTAAAAATAA
66597299 AGTTGGAGAG
Statistics
Matches: 772, Mismatches: 4, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
475 66 0.09
476 506 0.66
477 200 0.26
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (477 bp):
ACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATAGTAATTTGAATAT
AATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
TAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGT
GGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGT
TTCCAGCCTATATACTTTGAATCTTTAAAATATTAAAAATAAGGAATGGACAAGCAAGCTACATA
TATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAA
CCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAA
AAATTAGTTATAACTTTTAAAG
Found at i:66601767 original size:15 final size:15
Alignment explanation
Indices: 66601747--66601778 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66601737 AAATAATAAT
*
66601747 TTATATATATTTATC
1 TTATATACATTTATC
66601762 TTATATACATTTATC
1 TTATATACATTTATC
66601777 TT
1 TT
66601779 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:66601849 original size:21 final size:21
Alignment explanation
Indices: 66601810--66601849 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66601800 TACTCTAAAT
*
66601810 TAAACCCTAAACCTGAGACTC
1 TAAACCCTAAACATGAGACTC
*
66601831 TAAACCCTAAACATTAGAC
1 TAAACCCTAAACATGAGAC
66601850 CACAAACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAACATGAGACTC
Found at i:66602408 original size:25 final size:25
Alignment explanation
Indices: 66602380--66602433 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
66602370 TGGAAATTAT
66602380 ACATAGTTCAACAAATGCTAATTCC
1 ACATAGTTCAACAAATGCTAATTCC
66602405 ACATAGTTCAACAAATGCTAATTCC
1 ACATAGTTCAACAAATGCTAATTCC
66602430 ACAT
1 ACAT
66602434 TCAAAACCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (25 bp):
ACATAGTTCAACAAATGCTAATTCC
Found at i:66602904 original size:41 final size:41
Alignment explanation
Indices: 66602847--66603147 Score: 383
Period size: 41 Copynumber: 7.4 Consensus size: 41
66602837 GTTATATGAC
* *
66602847 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
66602888 TTTTAGCGGCGTTTTACTGAAAGCGACGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
66602929 TTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
66602970 TTTTAGCGGCATTTTACCGAAAGCACCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
66603011 TTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
66603052 TTTTAGTGGCGTTTTACCGAAAGCGCTGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * * * **
66603092 TTTTAGTGGCGTTTTTTA-CTAAAACGCCACTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCGAAAGCGCCGCTAATGCTCTGGT
66603133 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
66603148 TCTTAAAACG
Statistics
Matches: 229, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.02
40 12 0.05
41 208 0.91
42 5 0.02
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:66609141 original size:17 final size:18
Alignment explanation
Indices: 66609108--66609141 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66609098 CAAAACAGAA
*
66609108 CAATTTACTTAATCAATT
1 CAATATACTTAATCAATT
66609126 CAATATACTT-ATCAAT
1 CAATATACTTAATCAAT
66609142 GCATTTTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATATACTTAATCAATT
Found at i:66611968 original size:16 final size:16
Alignment explanation
Indices: 66611949--66611991 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
66611939 CTATTTTTGT
*
66611949 ATTTTATTATTATTAG
1 ATTTTATTATAATTAG
* * *
66611965 ATTTTGTTACAATTAT
1 ATTTTATTATAATTAG
66611981 ATTTTATTATA
1 ATTTTATTATA
66611992 GTGGAATTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (16 bp):
ATTTTATTATAATTAG
Found at i:66613136 original size:14 final size:14
Alignment explanation
Indices: 66613117--66613144 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66613107 GATAGGTAAG
66613117 GACAAAATAATGAA
1 GACAAAATAATGAA
66613131 GACAAAATAATGAA
1 GACAAAATAATGAA
66613145 ATTATAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
GACAAAATAATGAA
Found at i:66614184 original size:21 final size:21
Alignment explanation
Indices: 66614137--66614198 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
66614127 ATTGGGTGAA
* * *
66614137 TCAGTTCTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTAT
*
66614158 TTAGCTCTTACGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
*
66614179 TCAGCT-TT-CAAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
66614198 T
1 T
66614199 GGTGTATTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 22 0.63
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.45
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAT
Found at i:66616238 original size:27 final size:27
Alignment explanation
Indices: 66616208--66616299 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
66616198 ATTACCAAAG
* * *
66616208 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
66616235 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
66616262 TACCCTC-AGTTTACAAAATTACCGTTT
1 TACCCTCGA-TTTACAAAATTACCGTTT
*
66616289 TACCCTTGATT
1 TACCCTCGATT
66616300 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:66616241 original size:54 final size:53
Alignment explanation
Indices: 66616183--66616309 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 53
66616173 TATTGAAATG
* * *
66616183 CCCTCGACTTGTAAAATTACCAAAGTACCCTC-GATTTATAGAATTATCGTTTTA
1 CCCTCGA-TTGTAAAATTACCAAAGTACCCTCAG-TTTACAAAATTACCGTTTTA
***
66616237 CCCTCGATT-TACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTA
1 CCCTCGATTGT--AAAATTACCAAAGTACCCTCAGTTTACAAAATTACCGTTTTA
* *
66616291 CCCTTGATTGTGAAATTAC
1 CCCTCGATTGTAAAATTAC
66616310 TGAAATACCC
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
52 1 0.02
53 9 0.15
54 49 0.80
55 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (53 bp):
CCCTCGATTGTAAAATTACCAAAGTACCCTCAGTTTACAAAATTACCGTTTTA
Found at i:66616361 original size:27 final size:26
Alignment explanation
Indices: 66616331--66616427 Score: 113
Period size: 27 Copynumber: 3.6 Consensus size: 26
66616321 TGTAGGATAG
66616331 AATTACCAAAATACTCCTAGTTTGTAA
1 AATTACCAAAATAC-CCTAGTTTGTAA
* * *
66616358 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* * *
66616385 AATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
66616412 AATTACCAAAATACCC
1 AATTACCAAAATACCC
66616428 CTGATTTACA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.05
27 56 0.95
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:66616369 original size:54 final size:53
Alignment explanation
Indices: 66616298--66616430 Score: 135
Period size: 54 Copynumber: 2.5 Consensus size: 53
66616288 TTACCCTTGA
* * *
66616298 TTGTGAAATTACTGAAATACCCCTGTAGGAT-AGAATTACCAAAATACTCCT-AGT
1 TTGTAAAATTACCGAAATACCCCTGTAGG-TGA-AATTACCAAAATAC-CCTCAAT
* ** * *
66616352 TTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAAT
1 TTGTAAAATTACCGAAATACCCCT-GTAGGTGAAATTACCAAAATACCCTCAAT
*
66616406 TTGTAAAATTACCAAAATACCCCTG
1 TTGTAAAATTACCGAAATACCCCTG
66616431 ATTTACAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
53 4 0.06
54 58 0.88
55 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (53 bp):
TTGTAAAATTACCGAAATACCCCTGTAGGTGAAATTACCAAAATACCCTCAAT
Found at i:66616434 original size:27 final size:27
Alignment explanation
Indices: 66616331--66616469 Score: 104
Period size: 27 Copynumber: 5.1 Consensus size: 27
66616321 TGTAGGATAG
*
66616331 AATTACCAAAATACTCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * * *
66616358 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* * *
66616385 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
66616412 AATTACCAAAATACCCCTGATTTACAAA
1 AATTACCAAAATACCCCTGATTT-GTAA
* *
66616440 AATTA-CAGAAATACCCTTGACTTTTTAA
1 AATTACCA-AAATACCCCTGA-TTTGTAA
66616468 AA
1 AA
66616470 ATTATAGAAA
Statistics
Matches: 88, Mismatches: 18, Indels: 11
0.75 0.15 0.09
Matches are distributed among these distances:
26 3 0.03
27 56 0.64
28 26 0.30
29 3 0.03
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:66616478 original size:29 final size:28
Alignment explanation
Indices: 66616410--66616511 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
66616400 CTCAATTTGT
66616410 AAAATTACCA-AAATACCCCTGATTTACA
1 AAAATTA-CAGAAATACCCCTGATTTACA
* **
66616438 AAAATTACAGAAATACCCTTGACTTTTTA
1 AAAATTACAGAAATACCCCTGA-TTTACA
* ** *
66616467 AAAATTATAGAAATACCATTGGTTTAC-
1 AAAATTACAGAAATACCCCTGATTTACA
*
66616494 AAAATTACTGAAATACCC
1 AAAATTACAGAAATACCC
66616512 TTGGTTTGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
27 17 0.28
28 21 0.34
29 23 0.38
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAATTACAGAAATACCCCTGATTTACA
Found at i:66616506 original size:27 final size:26
Alignment explanation
Indices: 66616463--66616518 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
66616453 CCCTTGACTT
66616463 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
66616489 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
66616516 TTT
1 TTT
66616519 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:66616610 original size:27 final size:27
Alignment explanation
Indices: 66616580--66616631 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
66616570 TAGGTAAAAA
*
66616580 GACCGTAA-AGCCCTTGTAGGGTAAAGT
1 GACCGTAATA-CCCTTATAGGGTAAAGT
*
66616607 GACCGTAATACCCTTATATGGTAAA
1 GACCGTAATACCCTTATAGGGTAAA
66616632 ATGATGAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
GACCGTAATACCCTTATAGGGTAAAGT
Found at i:66617479 original size:25 final size:24
Alignment explanation
Indices: 66617445--66617514 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
66617435 AGGAAGTGCT
66617445 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGTTTACC
*
66617469 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTCTGCCCCAGTTTACC
*
66617494 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTCTGCCCCAGTT
66617515 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGTTTACC
Found at i:66617721 original size:42 final size:42
Alignment explanation
Indices: 66617662--66617753 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
66617652 TAGTCTCCCC
66617662 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
66617704 AAATGGGCTTGCATACATTCATTGACATTGCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
66617746 AAATGGGC
1 AAATGGGC
66617754 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:66617812 original size:31 final size:31
Alignment explanation
Indices: 66617777--66617922 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
66617767 CATTTACAGT
*
66617777 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
66617808 AAAGGCTTCGACCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
66617839 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
66617870 AATGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
66617901 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
66617923 TCAAGACTAA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.05
31 102 0.95
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:66620257 original size:48 final size:48
Alignment explanation
Indices: 66620175--66620504 Score: 383
Period size: 48 Copynumber: 6.8 Consensus size: 48
66620165 AGGGTTTTGT
* * * *
66620175 GAGCTAGTGTAAGGCCATGTTTGGAACATGGCATCGACATTGATATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGA
* * * * *
66620223 GAGCTAGTGTAAGACCATGTATGGGACATAGCATCGACCTCGATATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGA
* * * *
66620271 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGA
* * * * *
66620319 GAGCTAGTGTAAGACCAAGTTTGGAACATGGCATCGGTACTGATATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGA
* *
66620367 GAGCTAGTGTAAGACCATGTCTGGGACATGGGATCGGC-TTCGATATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-GATATGA
* * * *
66620415 GAGCTAGTGTAAGATCATGTTTGGAACATGGCATCGGCACTGATATATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--ATATGA
* * *
66620465 AAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
66620505 CTTACCCTTT
Statistics
Matches: 238, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.00
48 198 0.83
49 1 0.00
50 38 0.16
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGA
Found at i:66620353 original size:96 final size:95
Alignment explanation
Indices: 66620175--66620505 Score: 430
Period size: 96 Copynumber: 3.4 Consensus size: 95
66620165 AGGGTTTTGT
* * * * * *
66620175 GAGCTAGTGTAAGGCCATGTTTGGAACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAGACCA
* * *
66620240 TGTATGGGACATAGCATCGACCTCGATATGA
66 TGTTTGGAACATGGCATCGACCT-GATATGA
* *
66620271 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCTAGTGTAAGACCA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAGACCA
*
66620336 AGTTTGGAACATGGCATCGGTA-CTGATATGA
66 TGTTTGGAACATGGCATC-G-ACCTGATATGA
* * *
66620367 GAGCTAGTGTAAGACCATGTCTGGGACATGGGATCGGCTTCGATATGTGAGCTAGTGTAAGATCA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAGACCA
*
66620432 TGTTTGGAACATGGCATCGGCACTGATATATGA
66 TGTTTGGAACATGGCATCGAC-CTG--ATATGA
* * *
66620465 AAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
66620506 TTACCCTTTT
Statistics
Matches: 206, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
95 1 0.00
96 159 0.77
97 3 0.01
98 43 0.21
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (95 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAGACCA
TGTTTGGAACATGGCATCGACCTGATATGA
Found at i:66620434 original size:144 final size:144
Alignment explanation
Indices: 66620172--66620503 Score: 450
Period size: 144 Copynumber: 2.3 Consensus size: 144
66620162 ACTAGGGTTT
* * *
66620172 TGTGAGCTAGTGTAAGGCCATGTTTGGAACATGGCATCGACATTGATATGAGAGCTAGTGTAAGA
1 TGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACTGATATGAGAGCTAGTGTAAGA
* *
66620237 CCATGTATGGGACATAGCATCGACCTCGATATGAGTGCTAGTGTAAGACCATGTCTGGGACATGG
66 CCATGTATGGGACATAGCATCGACCTCGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGG
66620302 CATCGGC-CTCGATA
131 CATCGGCACT-GATA
* *
66620316 TGTGAGCTAGTGTAAGACCAAGTTTGGAACATGGCATCGGTACTGATATGAGAGCTAGTGTAAGA
1 TGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACTGATATGAGAGCTAGTGTAAGA
* * * * * * * *
66620381 CCATGTCTGGGACATGGGATCGGCTTCGATATGTGAGCTAGTGTAAGATCATGTTTGGAACATGG
66 CCATGTATGGGACATAGCATCGACCTCGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGG
66620446 CATCGGCACTGATA
131 CATCGGCACTGATA
* * * * *
66620460 TATGAAAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA
1 TGTG--AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
66620504 TCTTACCCTT
Statistics
Matches: 163, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
144 129 0.79
145 2 0.01
146 32 0.20
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (144 bp):
TGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACTGATATGAGAGCTAGTGTAAGA
CCATGTATGGGACATAGCATCGACCTCGATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGG
CATCGGCACTGATA
Found at i:66622776 original size:46 final size:46
Alignment explanation
Indices: 66622708--66622890 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
66622698 TATGTATACA
* * * *
66622708 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
66622754 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
66622800 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
66622846 CATCTCATACACATTTCGGATTAGCCATTCGGCTTTCCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
66622891 ATACACTTCC
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:66622935 original size:47 final size:47
Alignment explanation
Indices: 66622869--66623195 Score: 476
Period size: 47 Copynumber: 7.0 Consensus size: 47
66622859 TTTCGGATTA
* ** * * *
66622869 GCCATTCGGCTTTCCCACATATATACACT-TCCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTG
* * *
66622916 GCCATTCTGCATTATCACATAAATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
66622963 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
66623010 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
66623057 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
66623104 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * **
66623151 GCCATTCAGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
66623196 AAAATCCTAA
Statistics
Matches: 260, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 259 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:66623005 original size:25 final size:25
Alignment explanation
Indices: 66622976--66623053 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
66622966 ATTCGGCCTT
66622976 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
66623001 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
66623023 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
66623048 ATCACA
1 ATCACA
66623054 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:66623196 original size:25 final size:23
Alignment explanation
Indices: 66623133--66623196 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
66623123 TATATGCATG
*
66623133 TTCACATTCATCACAT-TTGCCA
1 TTCACATTCATCACATATTACCA
* *
66623155 TTCAGCCTT-ATCTCATATATACACA
1 TTCA-CATTCATCACATAT-TAC-CA
66623180 TTCACATTCATCACATA
1 TTCACATTCATCACATA
66623197 AAATCCTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
22 10 0.31
23 4 0.12
24 5 0.16
25 13 0.41
ACGTcount: A:0.31, C:0.30, G:0.03, T:0.36
Consensus pattern (23 bp):
TTCACATTCATCACATATTACCA
Found at i:66628905 original size:35 final size:35
Alignment explanation
Indices: 66628859--66628928 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
66628849 GAGCATAAGG
66628859 ATGCTACTTCATATGCAGCTTGCTAGTTAGAGTTT
1 ATGCTACTTCATATGCAGCTTGCTAGTTAGAGTTT
66628894 ATGCTACTTCATATGCAGCTTGCTAGTTAGAGTTT
1 ATGCTACTTCATATGCAGCTTGCTAGTTAGAGTTT
66628929 TTGACATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (35 bp):
ATGCTACTTCATATGCAGCTTGCTAGTTAGAGTTT
Found at i:66630349 original size:36 final size:36
Alignment explanation
Indices: 66630302--66630434 Score: 125
Period size: 35 Copynumber: 3.8 Consensus size: 36
66630292 TTTCTATTGA
* *
66630302 TATTCTTATTCGCATGTTAAGCATGCCATTATTACT
1 TATTCTGATTCGCATGCTAAGCATGCCATTATTACT
* *
66630338 TATTCTGATTCGCATGCTAAGCATGTCATTAAATT-GT
1 TATTCTGATTCGCATGCTAAGCATGCCATT--ATTACT
* *
66630375 T-TT-TGATTTGCATGCTAAGCATGCCACTA-TAC-
1 TATTCTGATTCGCATGCTAAGCATGCCATTATTACT
*
66630407 TATTTCTGAATT-GCATGTTAAGCATGCC
1 TA-TTCTG-ATTCGCATGCTAAGCATGCC
66630435 TATTGAAATT
Statistics
Matches: 81, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
32 2 0.02
33 1 0.01
34 2 0.02
35 39 0.48
36 32 0.40
37 2 0.02
38 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (36 bp):
TATTCTGATTCGCATGCTAAGCATGCCATTATTACT
Found at i:66635452 original size:820 final size:826
Alignment explanation
Indices: 66634081--66635711 Score: 2415
Period size: 820 Copynumber: 2.0 Consensus size: 826
66634071 AGCATGATGT
* * * * **
66634081 AATGCAAAAAGGTTGCTACCCATACTATCCGCTACACACCACGAGTTCCCCAGAACCCGTCATTT
1 AATGCAAAAAGGTTCCTACCCATACCATCCGCTACACACCACAAGTTCCCAAGAACCCGTCATCC
*
66634146 GAACTCCAAAACATTAGGGGCTTAAGCCCATTATGGTTAAAACCATTGATAACAATATGCAGAAA
66 GAACTCCAAAACATTAGGGGCTTAAGCCCATTATGGTTAAAACCACTGATAACAATATGCAGAAA
* * **
66634211 ATTCTACCAGTAAGAATGCAGACAAGTTGCCAGTAAAAATGCGATAAATTGCCATTCCCCTCAGT
131 ATTCTACCAGTAAGAATGCAGACAAGCTGCCAGTAAAAATGCAATAAATCACCATTCCCCTCAGT
* *
66634276 ACTCTAGGTGCAGTGCACTGACTACGAATAATGTGGACTTAATATGCTGTCGTACTCTACGGAAC
196 ACTCCAGGTGCAGTGCACTGACTACGAATAATGTGGACTTAATATGCTGTCGTACTCCACGGAAC
*
66634341 TCCTCCGTCAACCAAAAAAATCCAAACCCAATGCATATTCAATATGTCACACAATCTCAAACATA
261 TCCT-CGTCAACCAAAAAAATCCAAACCCAATGCATATGCAATATGTCACACAATCTCAAACATA
* * * *
66634406 ATCATATCTCAATACTTTTCACATTCATTTGACATGCTTAGCATGTCCTCAATAATCACATACGT
325 ATCATATATCAATACTTTTCACATTCATTTGACATGCTCAACATGTCCTCAATAATCACATACAT
* * *
66634471 TCTTGTAAAAGGAAACATTGTTCCAATCTTTTAAATTACCATTGTGTTGGTATCAATCAATATTG
390 TCTTGTAAAAGGAAACAGTGTTCCAATCTTTCAAATTACCATTGTGTTGGTATCAATAAATATTG
*
66634536 TTCAATTTCACATACGTTACGGATTTTCATTATACATAAATAGCACCCTTTTTAGTACACAATAT
455 TTCAATTTCACATACGTTACGGATTTTCATTATACATAAATAGCACCCTTTTCAGTACACAATAT
* * * *
66634601 AACAACTATCTCATACGTTTAAATCATACATAAGCTTAATACCTCAACACATTATA-CTATTTAG
520 AAAAAATATCTCAGACGTTTAAATCATACATAAGCTTAATACCTCAACACATTATAGC-ATTCAG
* *
66634665 TCAAACATTCTCATATCTCAAAACTCAAATATGGAATTACAAACTCAATCAAACATTCATACT-T
584 TCAAACATTCTCATATCTCAAAACTCAAATATGCAATTACAAACTCAATCAAACACTCATACTAT
*** * * *
66634729 CAAGTTAAAAATTTTGCCAACATGTTAACCTTTTAAGGCTCAAAACATACCTGGTTCGATCACTC
649 CAAACCAAAAATTTTGCCAACATGTCAACCTTTTAAGGCTCAAAACATACCTAGTTCGACCACTC
* * * * *
66634794 AAAAAATCAATAATTTGGCTATTAAGTCAATCCCATCAGCAAGCTAATTTATCAAATATAACATG
714 AAAAAATCAATAATTTGACTATTAAGCCAATCCAACCAGCAAGATAATTTATCAAATATAACATG
* *
66634859 ATATTTAATATTTTCAAACAATTTTATAAGTTGTCATGAGCACGATAC
779 ATATTTAACATTTTCAAACAATTTTAAAAGTTGTCATGAGCACGATAC
*
66634907 AATGCAAAAAGGTTCCTACCCATACCATTCGCTACACACCACAAGTTCCCAAGAACCCGTCATCC
1 AATGCAAAAAGGTTCCTACCCATACCATCCGCTACACACCACAAGTTCCCAAGAACCCGTCATCC
* * *
66634972 GAACTCCAAAACATTATGGG-TTGAAGCCCGTTGTGGTTAAAACCACTGATAACAATAT-CAGAA
66 GAACTCCAAAACATTAGGGGCTT-AAGCCCATTATGGTTAAAACCACTGATAACAATATGCAGAA
* * * * * *
66635035 AATTCTGCCAGTAAGAATGTAGACAAGCTGCTAGTAGAAATGCAATAAATCATCATTCCCCTCGG
130 AATTCTACCAGTAAGAATGCAGACAAGCTGCCAGTAAAAATGCAATAAATCACCATTCCCCTCAG
* * *
66635100 TACTCCAGGTGCAGTGCACTGACTATGAATAATGTGGACTTAATATGCCAT-TGGTACTCCATGG
195 TACTCCAGGTGCAGTGCACTGACTACGAATAATGTGGACTTAATATG-C-TGTCGTACTCCACGG
* * * * **
66635164 AACT-CT-GTCAACCAAAAAAATCCCAACCCAATGCATATGCAATATTTCATAGAATCTCGTACA
258 AACTCCTCGTCAACCAAAAAAATCCAAACCCAATGCATATGCAATATGTCACACAATCTCAAACA
*
66635227 TAATCATATATCAATAC-TTTCACATTCATTTGACATGCTCAACATGTCTTCAATAATCACATA-
323 TAATCATATATCAATACTTTTCACATTCATTTGACATGCTCAACATGTCCTCAATAATCACATAC
66635290 ATT-TTAGTAAATA-GAAACAGTGTTCCAATC-TTCAAATTACCATTGTGTTGGTATCAATAAAT
388 ATTCTT-GTAAA-AGGAAACAGTGTTCCAATCTTTCAAATTACCATTGTGTTGGTATCAATAAAT
* * *
66635352 ATTGTTCAATTTCACATACTTTATGGATTTTCATTATGCATAAATAGCA-CCTTCTTCAGTACAC
451 ATTGTTCAATTTCACATACGTTACGGATTTTCATTATACATAAATAGCACCCTT-TTCAGTACAC
* * * *
66635416 ATTATAAAAAATATCTCAGATGTTTAAATTATACATAAGCTTAATATCTCAACACATTATAGCAT
515 AATATAAAAAATATCTCAGACGTTTAAATCATACATAAGCTTAATACCTCAACACATTATAGCAT
* * *
66635481 TCATTCAAACATTTTCATATCTCATAACTCAAATATGCAATTACAAACTCAATCAAACACTCATA
580 TCAGTCAAACATTCTCATATCTCAAAACTCAAATATGCAATTACAAACTCAATCAAACACTCATA
* ** *
66635546 CTATCAAACCAACAATTTTGCCAACATGTCAACCTTTTAAGGCTTGAAACCTACCTAGTTCGACC
645 CTATCAAACCAAAAATTTTGCCAACATGTCAACCTTTTAAGGCTCAAAACATACCTAGTTCGACC
*
66635611 ACTCAAAAAATCAATAATTTGACTATTAAGCCAATCCAACCAGCAAGATAATTTATTAAATATAA
710 ACTCAAAAAATCAATAATTTGACTATTAAGCCAATCCAACCAGCAAGATAATTTATCAAATATAA
66635676 CATGATATTTAACATTTTCAAACAATTTTAAAAGTT
775 CATGATATTTAACATTTTCAAACAATTTTAAAAGTT
66635712 TAGGACCCAC
Statistics
Matches: 721, Mismatches: 76, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
819 4 0.01
820 204 0.28
821 169 0.23
822 44 0.06
823 66 0.09
825 109 0.15
826 124 0.17
827 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (826 bp):
AATGCAAAAAGGTTCCTACCCATACCATCCGCTACACACCACAAGTTCCCAAGAACCCGTCATCC
GAACTCCAAAACATTAGGGGCTTAAGCCCATTATGGTTAAAACCACTGATAACAATATGCAGAAA
ATTCTACCAGTAAGAATGCAGACAAGCTGCCAGTAAAAATGCAATAAATCACCATTCCCCTCAGT
ACTCCAGGTGCAGTGCACTGACTACGAATAATGTGGACTTAATATGCTGTCGTACTCCACGGAAC
TCCTCGTCAACCAAAAAAATCCAAACCCAATGCATATGCAATATGTCACACAATCTCAAACATAA
TCATATATCAATACTTTTCACATTCATTTGACATGCTCAACATGTCCTCAATAATCACATACATT
CTTGTAAAAGGAAACAGTGTTCCAATCTTTCAAATTACCATTGTGTTGGTATCAATAAATATTGT
TCAATTTCACATACGTTACGGATTTTCATTATACATAAATAGCACCCTTTTCAGTACACAATATA
AAAAATATCTCAGACGTTTAAATCATACATAAGCTTAATACCTCAACACATTATAGCATTCAGTC
AAACATTCTCATATCTCAAAACTCAAATATGCAATTACAAACTCAATCAAACACTCATACTATCA
AACCAAAAATTTTGCCAACATGTCAACCTTTTAAGGCTCAAAACATACCTAGTTCGACCACTCAA
AAAATCAATAATTTGACTATTAAGCCAATCCAACCAGCAAGATAATTTATCAAATATAACATGAT
ATTTAACATTTTCAAACAATTTTAAAAGTTGTCATGAGCACGATAC
Found at i:66638964 original size:15 final size:17
Alignment explanation
Indices: 66638934--66638965 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
66638924 ACTTGTATTC
66638934 ATATTGTCATTGAATTG
1 ATATTGTCATTGAATTG
66638951 ATATTGT-A-TGAATTG
1 ATATTGTCATTGAATTG
66638966 CTAAGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (17 bp):
ATATTGTCATTGAATTG
Found at i:66639147 original size:47 final size:45
Alignment explanation
Indices: 66639075--66639389 Score: 224
Period size: 47 Copynumber: 6.8 Consensus size: 45
66639065 TGATTTGTGC
* * * *
66639075 GCCAGTGTAAGAGATGTCTAGGACATGCTTCGGCCACATTATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * *
66639121 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGAGA
* * * * *
66639169 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * * * *
66639215 GCTAGAGTAAGACATGTCTGGGACATGCATTGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATATGAGA
* * * * * * *
66639262 GCCAATGTAAGACGTGTCTGGGACACGCATCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATG-AGA
* * *
66639306 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC---CACATATGAGA
66639354 GCCAGTGTAAGACTATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
66639390 AATTTATCCC
Statistics
Matches: 209, Mismatches: 43, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 30 0.14
45 1 0.00
46 51 0.24
47 61 0.29
48 37 0.18
49 18 0.09
50 7 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGA
Found at i:66645835 original size:14 final size:13
Alignment explanation
Indices: 66645815--66645851 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
66645805 AATAGTTGAT
66645815 TTGTTCTTAATTA
1 TTGTTCTTAATTA
66645828 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
66645842 TTGTT-TTAAT
1 TTGTTCTTAAT
66645852 ATTCCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:66651839 original size:20 final size:19
Alignment explanation
Indices: 66651811--66651848 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
66651801 TTTTAAAGAC
*
66651811 TTTACTTTATTTTTATTTT
1 TTTACTTTATCTTTATTTT
66651830 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
66651849 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTT
Found at i:66658091 original size:27 final size:27
Alignment explanation
Indices: 66658050--66658103 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
66658040 TGTCATGTGA
* *
66658050 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
66658077 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
66658104 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:66658409 original size:49 final size:50
Alignment explanation
Indices: 66658329--66658561 Score: 263
Period size: 49 Copynumber: 4.7 Consensus size: 50
66658319 ATCTATTGTG
*
66658329 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * **
66658379 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCAATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
66658429 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
66658479 AGGTCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTGCCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
66658529 -GGTCGCATGTGTAGTACTAAGTGGAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
66658562 TGCATACCAG
Statistics
Matches: 150, Mismatches: 31, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
49 69 0.46
50 45 0.30
51 36 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:66667553 original size:39 final size:40
Alignment explanation
Indices: 66667396--66667620 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
66667386 GCTACTCGTT
* *
66667396 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
66667436 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
*
66667476 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
* * * * *
66667516 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
* ** * * * *
66667555 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CA
*
66667596 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
66667621 CATCATTCGA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.73
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
Found at i:66667580 original size:119 final size:120
Alignment explanation
Indices: 66667398--66667620 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
66667388 TACTCGTTCA
*
66667398 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
*
66667463 TTAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTCAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * * **
66667518 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTT-TGGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
66667580 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTCAGCACAAAGCCTTCGGGACTTAACCCGGA
66667621 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 66 0.75
120 18 0.20
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTCAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:66683570 original size:55 final size:55
Alignment explanation
Indices: 66683500--66683632 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 55
66683490 CACTCTCATT
* * * * *
66683500 TTAATCTGATAGGTTCGCCCACGGTTGCTCGGCACGGGCCTGTTGCACACCCGTG
1 TTAATTTGACAGGTTCGCCCACGGTTGCTAGGCACGGGCCTGTCGCACACCCATG
* * * *
66683555 TTAATTTGACAGGTTCGGCCACGGTTTCTAGGCACGGGCGTGTCGCACGCCCATG
1 TTAATTTGACAGGTTCGCCCACGGTTGCTAGGCACGGGCCTGTCGCACACCCATG
** * *
66683610 TTGTTTTGCCAGGTTCACCCACG
1 TTAATTTGACAGGTTCGCCCACG
66683633 ACCATGTCGC
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.27
Consensus pattern (55 bp):
TTAATTTGACAGGTTCGCCCACGGTTGCTAGGCACGGGCCTGTCGCACACCCATG
Found at i:66690397 original size:79 final size:81
Alignment explanation
Indices: 66690261--66690443 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
66690251 TCGAATGATG
* *
66690261 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
66690325 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
66690340 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
66690402 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
66690420 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
66690444 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:66690459 original size:40 final size:40
Alignment explanation
Indices: 66690262--66690445 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
66690252 CGAATGATGT
* * * *
66690262 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
66690302 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
66690342 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66690380 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66690421 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
66690446 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:66690467 original size:79 final size:79
Alignment explanation
Indices: 66690314--66690478 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
66690304 GGACTAAGAT
* **
66690314 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
66690379 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
66690393 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
66690456 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
66690472 CCGAAGG
1 CCGAAGG
66690479 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:66698586 original size:40 final size:40
Alignment explanation
Indices: 66698389--66698572 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
66698379 CGAATGATGT
* * * *
66698389 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
66698429 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
66698469 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66698507 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66698548 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
66698573 AACGAGTGGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:66698594 original size:79 final size:78
Alignment explanation
Indices: 66698389--66698605 Score: 233
Period size: 79 Copynumber: 2.7 Consensus size: 78
66698379 CGAATGATGT
* * *
66698389 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTATATCCGG-TTAAG-TCCGAAGGCATTT
*
66698453 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
* * *
66698469 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC-GGTTAAGT-CCGAAGGCATTTG
*
66698533 TGCGAGTTACT-ATAA
64 TGCGAGATACTAAT-A
* ** * *
66698548 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTGGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGTT-AAGTCCGAAGG
66698606 TACGTGATTC
Statistics
Matches: 115, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 66 0.57
80 46 0.40
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:66711320 original size:41 final size:41
Alignment explanation
Indices: 66711275--66711357 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
66711265 TATTCCAATT
* *
66711275 TTTGGTATGCCTTAACACCTTTTGTTAATGGTTGAGCTTGG
1 TTTGGTATGCCGTAACACCTTTTGTTAATGGTTGAGATTGG
66711316 TTTGGTATGCCGTAACACCTTTTGTTAATGGTTGAGATTGG
1 TTTGGTATGCCGTAACACCTTTTGTTAATGGTTGAGATTGG
66711357 T
1 T
66711358 CTTTTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.43
Consensus pattern (41 bp):
TTTGGTATGCCGTAACACCTTTTGTTAATGGTTGAGATTGG
Found at i:66716364 original size:16 final size:16
Alignment explanation
Indices: 66716343--66716384 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
66716333 AACCGGTGAT
66716343 ATGAGGTTTACATGCA
1 ATGAGGTTTACATGCA
66716359 ATGAGGTTTACATGCA
1 ATGAGGTTTACATGCA
66716375 ATGAGGTTTA
1 ATGAGGTTTA
66716385 TCAAGGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (16 bp):
ATGAGGTTTACATGCA
Found at i:66720560 original size:72 final size:70
Alignment explanation
Indices: 66720435--66720572 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 70
66720425 AATTTTACTA
* *
66720435 CCCAAAATTTTTTCTTTTATTTTCTTCCTAATTCTTTTATTTCCTCTAAAAAAATTTAGTTTCTT
1 CCCAAAATTTTTTCTTTTACTTTCTTCCTAATTCTTTCATTTCCTCTAAAAAAATTTA-TTTCTT
66720500 CAAACC
65 CAAACC
**
66720506 CCCAAAATTTTTTTCTTTTACTTTC-TCCTTAATAT-TTTCACTTTCCT-TTCAAAAATTTATTT
1 CCCAAAA-TTTTTTCTTTTACTTTCTTCC-TAAT-TCTTTCA-TTTCCTCTAAAAAAATTTATTT
*
66720568 TTTCA
62 CTTCA
66720573 CAAACTCTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
71 17 0.29
72 34 0.59
73 7 0.12
ACGTcount: A:0.25, C:0.21, G:0.01, T:0.53
Consensus pattern (70 bp):
CCCAAAATTTTTTCTTTTACTTTCTTCCTAATTCTTTCATTTCCTCTAAAAAAATTTATTTCTTC
AAACC
Found at i:66730717 original size:32 final size:32
Alignment explanation
Indices: 66730681--66730746 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
66730671 ACATGATGAG
66730681 TAGTTGACTTACCACTTTTGACCACAAACATC
1 TAGTTGACTTACCACTTTTGACCACAAACATC
66730713 TAGTTGACTTACCACTTTTGACCACAAACATC
1 TAGTTGACTTACCACTTTTGACCACAAACATC
66730745 TA
1 TA
66730747 AGTTTTGTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (32 bp):
TAGTTGACTTACCACTTTTGACCACAAACATC
Found at i:66732810 original size:41 final size:44
Alignment explanation
Indices: 66732753--66732949 Score: 201
Period size: 45 Copynumber: 4.6 Consensus size: 44
66732743 TCAATGCCAC
* * * *
66732753 TGTCCCAGACAGGGTCTTACACGAATCA-A-ATAT-GATATCGA
1 TGTCCCAGACATGGTCTTACACGAACCACATATATCGATGTCAA
*
66732794 TGTCCCAGACATGGTCTTACACGTAACCACATATATCGATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AACCACATATATCGATGTCAA
* * * * *
66732839 CGTCCCAAACGTGGTCTTACACGAATCA-A-ATA-CG-TTTCCAA
1 TGTCCCAGACATGGTCTTACACGAACCACATATATCGATGT-CAA
* *
66732880 TGTCTCAGACATGGTCTTACACATAACCACATATATCGATGTCAA
1 TGTCCCAGACATGGTCTTACAC-GAACCACATATATCGATGTCAA
*
66732925 TGTCCCAGACGTGGTCTTACACGAA
1 TGTCCCAGACATGGTCTTACACGAA
66732950 AATAGATATC
Statistics
Matches: 125, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
40 1 0.01
41 45 0.36
42 11 0.09
43 3 0.02
44 13 0.10
45 50 0.40
46 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGGTCTTACACGAACCACATATATCGATGTCAA
Found at i:66732830 original size:86 final size:86
Alignment explanation
Indices: 66732740--66732949 Score: 291
Period size: 86 Copynumber: 2.4 Consensus size: 86
66732730 ATACTATCTC
* * *
66732740 ATATCAATGCCACTGTCCCAGACAG-GGTCTTACACGAATCAAATATGATAT-CGATGTCCCAGA
1 ATATCGATGCCACTGTCCCAGAC-GTGGTCTTACACGAATCAAATACG-TATCCAATGTCCCAGA
*
66732803 CATGGTCTTACACGTAACCACAT
64 CATGGTCTTACACATAACCACAT
* * *
66732826 ATATCGATGCCAAC-GTCCCAAACGTGGTCTTACACGAATCAAATACGTTTCCAATGTCTCAGAC
1 ATATCGATGCC-ACTGTCCCAGACGTGGTCTTACACGAATCAAATACGTATCCAATGTCCCAGAC
66732890 ATGGTCTTACACATAACCACAT
65 ATGGTCTTACACATAACCACAT
* *
66732912 ATATCGATGTCAATGTCCCAGACGTGGTCTTACACGAA
1 ATATCGATGCCACTGTCCCAGACGTGGTCTTACACGAA
66732950 AATAGATATC
Statistics
Matches: 110, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
85 4 0.04
86 104 0.95
87 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (86 bp):
ATATCGATGCCACTGTCCCAGACGTGGTCTTACACGAATCAAATACGTATCCAATGTCCCAGACA
TGGTCTTACACATAACCACAT
Found at i:66732854 original size:45 final size:45
Alignment explanation
Indices: 66732660--66732947 Score: 221
Period size: 43 Copynumber: 6.7 Consensus size: 45
66732650 ATATCGAACA
* * *
66732660 ATGCCAATGTCCCAGACCTGGTCTTACA--T-ACTATC-TCATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCA-CAT-ATATCG
* * * *
66732703 ATGCCACTGTCCCAGACCTGGTCTTACA--T-ACTATC-TCATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCA-CAT-ATATCG
* * *
66732746 ATGCCACTGTCCCAGACAGGGTCTTACACG-AATCA-A-ATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
** *
66732787 ATATCGATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
* * * *
66732832 ATGCCAACGTCCCAAACGTGGTCTTACACG-AATCA-A-ATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
* * * *
66732873 TTTCCAATGTCTCAGACATGGTCTTACACATAACCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
* *
66732918 ATGTCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
66732948 AAAATAGATA
Statistics
Matches: 200, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
41 50 0.25
42 15 0.08
43 71 0.35
44 11 0.05
45 53 0.26
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
Found at i:66735159 original size:40 final size:40
Alignment explanation
Indices: 66735100--66735317 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
66735090 CGGATGATAA
* *
66735100 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
66735140 CCGGGCTAAGCCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66735180 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66735220 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
66735260 CCAGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
66735300 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66735318 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 146 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66737299 original size:14 final size:15
Alignment explanation
Indices: 66737282--66737310 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66737272 GCACAAAAAT
66737282 TTCACACAT-ATAAA
1 TTCACACATAATAAA
66737296 TTCACACATAATAAA
1 TTCACACATAATAAA
66737311 CATAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:66752687 original size:13 final size:13
Alignment explanation
Indices: 66752669--66752693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66752659 TTACAATTTA
66752669 GTCTGATCCATTG
1 GTCTGATCCATTG
66752682 GTCTGATCCATT
1 GTCTGATCCATT
66752694 TACGATTCAT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (13 bp):
GTCTGATCCATTG
Found at i:66758303 original size:43 final size:43
Alignment explanation
Indices: 66758247--66758469 Score: 304
Period size: 43 Copynumber: 5.2 Consensus size: 43
66758237 ACATTTTTGA
* * * *
66758247 GTTGGCATCGATATGTGATTACGTGCAAGACCACGTTTTGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGAC
* * *
66758290 GTTGGCATTGATATGTAATTACGTGTAAGACCATGTCTAGGAT
1 GTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGAC
* *
66758333 GTTGGCATCGATATGTGATTATGTGTAAGACCATGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGAC
* * *
66758376 GTTGGCATCGATATGTGATTACGTGTAAGATCACGTCTGGGAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGAC
* *
66758419 AG-TGGCATCGATATGTGATTATGTGAAAGACCATGTCTAGGAC
1 -GTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGAC
66758462 GTTGGCAT
1 GTTGGCAT
66758470 TGTACAATAT
Statistics
Matches: 158, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 156 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (43 bp):
GTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGAC
Found at i:66763367 original size:33 final size:33
Alignment explanation
Indices: 66763330--66763395 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
66763320 GTTTGAGAGG
66763330 GGGGTTAAAAGGTGTTTTAATTAGAAGTAGATA
1 GGGGTTAAAAGGTGTTTTAATTAGAAGTAGATA
66763363 GGGGTTAAAAGGTGTTTTAATTAGAAGTAGATA
1 GGGGTTAAAAGGTGTTTTAATTAGAAGTAGATA
66763396 TACTTTTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (33 bp):
GGGGTTAAAAGGTGTTTTAATTAGAAGTAGATA
Found at i:66766194 original size:14 final size:14
Alignment explanation
Indices: 66766175--66766210 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
66766165 TTTATTCAAG
66766175 ACTAAGCTGCAATC
1 ACTAAGCTGCAATC
66766189 ACTAAGCTGCAATC
1 ACTAAGCTGCAATC
66766203 ACTAAGCT
1 ACTAAGCT
66766211 TAACTTATGT
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:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (14 bp):
ACTAAGCTGCAATC
Found at i:66768177 original size:26 final size:26
Alignment explanation
Indices: 66768148--66768255 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
66768138 TGGTACAAAT
66768148 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
66768174 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66768200 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66768226 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66768252 TGAT
1 TGAT
66768256 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66769719 original size:26 final size:26
Alignment explanation
Indices: 66769667--66769719 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
66769657 TTTACAGTTT
*
66769667 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
66769693 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
66769719 T
1 T
66769720 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:66770957 original size:13 final size:13
Alignment explanation
Indices: 66770939--66770977 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
66770929 GAAGTAATCG
66770939 CACATGGGCGTGT
1 CACATGGGCGTGT
66770952 CACATGGGCGTGT
1 CACATGGGCGTGT
*
66770965 CACACGGGCGTGT
1 CACATGGGCGTGT
66770978 TCCTGTCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (13 bp):
CACATGGGCGTGT
Found at i:66772679 original size:40 final size:40
Alignment explanation
Indices: 66772625--66772792 Score: 241
Period size: 40 Copynumber: 4.2 Consensus size: 40
66772615 CCTTTGGGGT
* *
66772625 TTAG-CCGGATATAGTTACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
66772664 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
66772704 TTAGCCCGAAAATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
66772744 TTAG-CCGAGAAATAGTAACTCGCACAAATACCTTCGGGAC
1 TTAGCCCG-GATATAGTAACTCGCACAAATGCCTTCGGGAC
66772784 TTAGCCCGG
1 TTAGCCCGG
66772793 TTATCATCCG
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 7 0.06
40 106 0.91
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:66780853 original size:40 final size:40
Alignment explanation
Indices: 66780784--66781000 Score: 348
Period size: 40 Copynumber: 5.5 Consensus size: 40
66780774 CAACCAAGTA
* * * *
66780784 CCTTCGGG-TTTAG-CCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
** *
66780822 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
66780862 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
66780902 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
*
66780942 CCTTCGGGACTTAGCCCGAAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
66780982 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
66781001 TTATCATCCG
Statistics
Matches: 167, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
38 8 0.05
39 4 0.02
40 155 0.93
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
Found at i:66785619 original size:30 final size:30
Alignment explanation
Indices: 66785585--66785645 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
66785575 TCCTTAACTC
66785585 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
66785615 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
66785645 A
1 A
66785646 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:66792939 original size:17 final size:17
Alignment explanation
Indices: 66792919--66792957 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
66792909 CTTTTATTAA
66792919 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
* *
66792936 GTTTTTAAGATTTATTT
1 GTTTTTAAGATTCATTC
66792953 GTTTT
1 GTTTT
66792958 CTTTTTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:66795600 original size:21 final size:22
Alignment explanation
Indices: 66795576--66795620 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
66795566 TGAAATATGG
66795576 ATGTGTCATGATTATT-GAT-AT
1 ATGTG-CATGATTATTCGATGAT
*
66795597 ATGTGCATGGTTATTCGATGAT
1 ATGTGCATGATTATTCGATGAT
66795619 AT
1 AT
66795621 CCGGGCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (22 bp):
ATGTGCATGATTATTCGATGAT
Found at i:66795677 original size:40 final size:40
Alignment explanation
Indices: 66795617--66795799 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
66795607 TTATTCGATG
*
66795617 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
66795657 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
66795697 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
66795736 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
66795776 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
66795800 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 33 0.27
40 86 0.70
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:66795817 original size:79 final size:80
Alignment explanation
Indices: 66795617--66795831 Score: 251
Period size: 79 Copynumber: 2.7 Consensus size: 80
66795607 TTATTCGATG
* * * * *
66795617 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAG-TCCCGAAGGC
* *
66795681 ATTTGTGCGAGTTGCT
65 ATTTATGCGAGTTGCC
*
66795697 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
*
66795761 TTTATGCTAG-TGACC
66 TTTATGCGAGTTG-CC
* * * * *
66795776 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTTATATTC-GGCTAAATCCC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCC
66795832 AAAGATACTT
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
78 21 0.18
79 64 0.55
80 32 0.27
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
TTTATGCGAGTTGCC
Found at i:66807666 original size:68 final size:64
Alignment explanation
Indices: 66807551--66807801 Score: 206
Period size: 68 Copynumber: 3.8 Consensus size: 64
66807541 ACAGATGGTT
** * * *
66807551 TGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGTGTACAAGAGAGCTACGAGACATT
1 TGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTGTACAAGAGAGCTACGAG--A-T
66807615 ATGA
62 AT-A
* *
66807619 TGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGATATA
1 TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGT-GTACAAGAGAGCTACGAGATATA
* * * * * * *
66807683 TGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGATACCATGTAG-ACAAGAGAGCTACGAGAT
1 TGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGT-GTACAAGAGAGCTACGAGAT
*
66807747 AAA
62 ATA
* * *
66807750 CTG--GCTAGGTCACATGGGTTGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 -TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGC
66807802 CAAAATTATG
Statistics
Matches: 149, Mismatches: 27, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 24 0.16
65 3 0.02
66 21 0.14
67 31 0.21
68 50 0.34
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (64 bp):
TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGCTACGAGATATA
Found at i:66808344 original size:54 final size:54
Alignment explanation
Indices: 66808280--66808388 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
66808270 TTTGAGAGAC
66808280 TGGTTCAGAATGACTACGTGATCCCCTGTTCTGACTTGGAAAAATAATTAACAA
1 TGGTTCAGAATGACTACGTGATCCCCTGTTCTGACTTGGAAAAATAATTAACAA
*
66808334 TGGTTCAGAATGACTACGTGATCCCCTGTTCTGACTTGGAAAAATCATTAACAA
1 TGGTTCAGAATGACTACGTGATCCCCTGTTCTGACTTGGAAAAATAATTAACAA
66808388 T
1 T
66808389 TGTAAAAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (54 bp):
TGGTTCAGAATGACTACGTGATCCCCTGTTCTGACTTGGAAAAATAATTAACAA
Found at i:66814874 original size:13 final size:13
Alignment explanation
Indices: 66814856--66814884 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
66814846 GGTTGTTTAT
66814856 TAAACTAATTAAC
1 TAAACTAATTAAC
66814869 TAAACTAATTAAC
1 TAAACTAATTAAC
66814882 TAA
1 TAA
66814885 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:66834142 original size:47 final size:47
Alignment explanation
Indices: 66834070--66834617 Score: 764
Period size: 47 Copynumber: 11.6 Consensus size: 47
66834060 CCCTTCGGGA
* * * *
66834070 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
66834117 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66834164 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
66834211 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
66834258 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
66834305 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
66834352 CTTATCTCATATATGCA-TGTTCACATTCATCACCTTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
66834399 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66834448 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
66834495 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
66834544 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
66834591 CTTATCACATATATAAACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
66834618 TATTCAAATA
Statistics
Matches: 464, Mismatches: 31, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 373 0.80
49 89 0.19
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:66836125 original size:56 final size:56
Alignment explanation
Indices: 66836058--66836177 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
66836048 TATTAGTTTA
66836058 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
66836114 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
66836170 TTGCCCAT
1 TTGCCCAT
66836178 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:66842247 original size:42 final size:42
Alignment explanation
Indices: 66842182--66842264 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
66842172 ATCATGTGGA
* *
66842182 GAAAGGACTCTTTACCTCATTCTCCTCTACTAACAGTTTCGG
1 GAAAGGACTCTCTAACTCATTCTCCTCTACTAACAGTTTCGG
*
66842224 GAAAGGACTCTCTAACTCCTTCTCCTCTACTAACAGTTTCG
1 GAAAGGACTCTCTAACTCATTCTCCTCTACTAACAGTTTCG
66842265 AGTCTACTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (42 bp):
GAAAGGACTCTCTAACTCATTCTCCTCTACTAACAGTTTCGG
Found at i:66844314 original size:44 final size:44
Alignment explanation
Indices: 66844249--66844332 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
66844239 CATGTATCAT
**
66844249 ATCCATAATGAACATGGACCAACTCAACAAGCTCAAATGCTCGC
1 ATCCATAATGAACATAAACCAACTCAACAAGCTCAAATGCTCGC
* *
66844293 ATCCATAATGAAC-TCAAACCAACTCAACGAGCTCAGATGC
1 ATCCATAATGAACAT-AAACCAACTCAACAAGCTCAAATGC
66844333 CTTATACATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.03
44 34 0.97
ACGTcount: A:0.39, C:0.30, G:0.13, T:0.18
Consensus pattern (44 bp):
ATCCATAATGAACATAAACCAACTCAACAAGCTCAAATGCTCGC
Found at i:66853603 original size:77 final size:77
Alignment explanation
Indices: 66853382--66853592 Score: 235
Period size: 77 Copynumber: 2.7 Consensus size: 77
66853372 TATAAGATGA
* * * *
66853382 TATACCGATTTGGCTTCGGGCCATGCATATCGGATGAATTGGCTTCGGGCAATGATATTAGCACT
1 TATACCAATTAGGCTTCGGGCCATGCATATCAGATGAATTGGCTTCGGGCCATGATATTAGCACT
* * *
66853447 TTGGGTGCAAGC
66 TCGAGTACAAGC
* * * * ** *
66853459 TATACCTATTTA-ACTTCGGGCCATGCATGTCAGATGAGTCAGCTTCAGGCCATGATATTAGCAC
1 TATACC-AATTAGGCTTCGGGCCATGCATATCAGATGAATTGGCTTCGGGCCATGATATTAGCAC
* *
66853523 TTCGAGTACGAGT
65 TTCGAGTACAAGC
* * *
66853536 TATACCAATTAGGCTTCGAGCCATGCATATCAGATGATTTGGCTTTGGGCCATGATA
1 TATACCAATTAGGCTTCGGGCCATGCATATCAGATGAATTGGCTTCGGGCCATGATA
66853593 GTAGTTCTTC
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
76 4 0.04
77 101 0.94
78 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (77 bp):
TATACCAATTAGGCTTCGGGCCATGCATATCAGATGAATTGGCTTCGGGCCATGATATTAGCACT
TCGAGTACAAGC
Found at i:66860075 original size:46 final size:47
Alignment explanation
Indices: 66860008--66860131 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 47
66859998 TTTGTGTGCT
*
66860008 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-A-CGGGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGAGCGAGAGCC
* *
66860054 AGTGTAAGACATGTCTGGGACATGCATCAG--CATTGAGGCGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGA-GCGAGAGCC
*
66860100 AGTGTAAGATATGTCTGGGACATGCATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
66860132 TCGCGAGATA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 4 0.06
44 1 0.01
46 63 0.93
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGAGCGAGAGCC
Found at i:66862915 original size:24 final size:24
Alignment explanation
Indices: 66862843--66862918 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
66862833 AGTAAGCCTG
* *
66862843 AATAACTTGAAAGTAAACTTACCG
1 AATAACTAGAAAGTAAACTTACCA
66862867 AATAACTAGAAAGTAAACTTACCA
1 AATAACTAGAAAGTAAACTTACCA
*
66862891 AATAACTAGAAAGTAAACTTTCCA
1 AATAACTAGAAAGTAAACTTACCA
66862915 AATA
1 AATA
66862919 TCGCAAACTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.24
Consensus pattern (24 bp):
AATAACTAGAAAGTAAACTTACCA
Found at i:66865168 original size:72 final size:72
Alignment explanation
Indices: 66865082--66865234 Score: 270
Period size: 72 Copynumber: 2.1 Consensus size: 72
66865072 GCTAGTGCTC
* * *
66865082 TTTGACCCTGATTACCTTTCCTATTTTGATTCTGATTACGGCCCCTCTGAGCACCCTAATTACCT
1 TTTGACCCCGATTACCTTTCCCATTTCGATTCTGATTACGGCCCCTCTGAGCACCCTAATTACCT
66865147 CTTTAAT
66 CTTTAAT
*
66865154 TTTGACCCCGATTACCTTTCCCATTTCGATTCTGATTACGGCCCCTCTGAGCACCCTGATTACCT
1 TTTGACCCCGATTACCTTTCCCATTTCGATTCTGATTACGGCCCCTCTGAGCACCCTAATTACCT
66865219 CTTTAAT
66 CTTTAAT
66865226 TTTGACCCC
1 TTTGACCCC
66865235 CAACTTGGCC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.18, C:0.32, G:0.12, T:0.38
Consensus pattern (72 bp):
TTTGACCCCGATTACCTTTCCCATTTCGATTCTGATTACGGCCCCTCTGAGCACCCTAATTACCT
CTTTAAT
Found at i:66877252 original size:47 final size:47
Alignment explanation
Indices: 66877180--66877878 Score: 904
Period size: 47 Copynumber: 14.6 Consensus size: 47
66877170 CCCTTCGGGA
* * * *
66877180 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
66877227 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
66877274 GTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
66877321 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
66877368 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
66877415 CTTATCACACATACACA-TGTTCACATTCATAACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
66877462 CTTATCTCATATATGCA-TGTTCACATTCATCACCTTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
66877509 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66877558 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66877605 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66877654 CTTATCACATATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC------ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
66877707 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
66877754 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
66877801 CTTATCACATATATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
66877852 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
66877879 TATTCAAATA
Statistics
Matches: 601, Mismatches: 37, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.00
47 416 0.69
49 90 0.15
50 1 0.00
51 45 0.07
53 48 0.08
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:66879392 original size:56 final size:56
Alignment explanation
Indices: 66879325--66879444 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
66879315 TATTAGTTTA
66879325 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
66879381 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
66879437 TTGCCCAT
1 TTGCCCAT
66879445 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:66889098 original size:53 final size:53
Alignment explanation
Indices: 66889035--66889140 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
66889025 GAATGATTTA
*
66889035 TTTACGATTTATTTGATGGTAGTTGCTTCGGAAACAACTGTAGCATCTTGTAG
1 TTTACGATTTATTTGATGGTAGTTGCTTCAGAAACAACTGTAGCATCTTGTAG
66889088 TTTACGATTTATTTGATGGTAGTTGCTTCAGAAACAACTGTAGCATCTTGTAG
1 TTTACGATTTATTTGATGGTAGTTGCTTCAGAAACAACTGTAGCATCTTGTAG
66889141 CTCGGACCCG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (53 bp):
TTTACGATTTATTTGATGGTAGTTGCTTCAGAAACAACTGTAGCATCTTGTAG
Found at i:66894989 original size:18 final size:19
Alignment explanation
Indices: 66894968--66895012 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
66894958 TTGAAAATAC
66894968 AAAATTGTAAATAATTATA
1 AAAATTGTAAATAATTATA
* *
66894987 AAAAAT-TAAATAATTTTA
1 AAAATTGTAAATAATTATA
*
66895005 ATAATTGT
1 AAAATTGT
66895013 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AAAATTGTAAATAATTATA
Found at i:66896759 original size:42 final size:42
Alignment explanation
Indices: 66896713--66896841 Score: 186
Period size: 42 Copynumber: 3.1 Consensus size: 42
66896703 CATATGCCCG
*
66896713 TGTTCTAGGCCGTGTGGCACACATGGCTGAGACACGTCCCCA
1 TGTTCTAGGCCGTGTGGCACACACGGCTGAGACACGTCCCCA
*
66896755 TGTTCTAGGCCGTGTGGCACACACGGCTGAGACACGTCCCCG
1 TGTTCTAGGCCGTGTGGCACACACGGCTGAGACACGTCCCCA
* * * * * *
66896797 TGTTCTGGGCCGTGTGGCAGATACGGTTGAGACACATGCCCA
1 TGTTCTAGGCCGTGTGGCACACACGGCTGAGACACGTCCCCA
66896839 TGT
1 TGT
66896842 CTCTGCCCGT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.22
Consensus pattern (42 bp):
TGTTCTAGGCCGTGTGGCACACACGGCTGAGACACGTCCCCA
Found at i:66904023 original size:40 final size:40
Alignment explanation
Indices: 66903962--66904187 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
66903952 CTAACGGGGT
* * * *
66903962 TAAGTCCCGAAGACATGTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * *
66904002 TAAGTCCCGAAAGCATTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * * *
66904042 TAAGTCCCGAAGGCATTGGTGCGAGTTATTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
66904082 TAAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCCGGGC
* * * *
66904122 TAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* * *
66904162 TAAGACCCAAAGGC-CTTGTGCGAGTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTG
66904188 GTTATATCCG
Statistics
Matches: 159, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 13 0.08
40 145 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:66904161 original size:80 final size:80
Alignment explanation
Indices: 66903992--66904211 Score: 234
Period size: 80 Copynumber: 2.8 Consensus size: 80
66903982 GCTAGTGATT
* * * *
66903992 AATTCCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTAC-AAATTCCGGGCTAAGTCCCGAAGGC
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA-TCCGGGCTAAGACCCGAAGGC
* * **
66904056 ATTGGTGCGAGTTATT
65 ATTGATGCGAGTGACC
*
66904072 AATTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
* *
66904137 TTTATGCTAGTGACC
66 TTGATGCGAGTGACC
* * * * *
66904152 -ATATCCGGGCTAAGACCCAAAGGC-CTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 AAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGA-CCCGAAG
66904212 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
77 1 0.01
78 13 0.11
79 20 0.17
80 84 0.70
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
AATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
TTGATGCGAGTGACC
Found at i:66912232 original size:40 final size:40
Alignment explanation
Indices: 66912171--66912395 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
66912161 CTAACGGGGT
* * * *
66912171 TAAGTCCCGAAGACATGTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
66912211 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * *
66912251 TAAGTCCCGAAGGCATTGGTGCAAGTTACTAATT-CGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
66912290 TAAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TCCGGGC
* * * *
66912330 TAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
66912370 TAAGACCCGAAGGC-CTTGTGCGAGTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTG
66912396 GTTATATCCG
Statistics
Matches: 162, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 42 0.26
40 118 0.73
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:66912303 original size:79 final size:79
Alignment explanation
Indices: 66912171--66912394 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 79
66912161 CTAACGGGGT
* *
66912171 TAAGTCCCGAAGACA-TGTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTG-GTGCTAGTGACTAATT-CGGGCTAAGTCCCGAAGGCATTTGTGCGA
66912235 GTTACAA-ATTCCGGGC
64 GTTACAATA-TCCGGGC
* *
66912251 TAAGTCCCGAAGGCATTGGTGCAAGTTACTAATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
1 TAAGTCCCGAAGGCATTGGTGCTAGTGACTAATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
* *
66912316 TGCTATATCCGGGC
66 TACAATATCCGGGC
* ** * * * *
66912330 TAAGACCCGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAG
1 TAAGTCCCGAAGGCATTGGTGCTAGTGACTA-ATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
66912394 T
65 T
66912395 GGTTATATCC
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 76 0.60
80 48 0.38
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGGTGCTAGTGACTAATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
TACAATATCCGGGC
Found at i:66912402 original size:79 final size:78
Alignment explanation
Indices: 66912204--66912418 Score: 240
Period size: 79 Copynumber: 2.7 Consensus size: 78
66912194 AGTGATTAAT
* * *
66912204 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-TACAAATTCCGGGCTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGT-TATA-TCCGGGCTAAGACCCGAAGGCATT
* * *
66912268 GGTGCAAGTTACTAA
64 GATGCAAGTGACCAA
* * *
66912283 TTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGTTATATCCGGGCTAAGACCCGAAGGCATTG
*
66912348 ATGCTAGTGACCATA
65 ATGCAAGTGACCA-A
* * *
66912363 TCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCGAAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GTTATATCCGGGCTAAGACCCGAAG
66912419 ATACTTGGGT
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
77 7 0.06
78 7 0.06
79 80 0.68
80 23 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGTTATATCCGGGCTAAGACCCGAAGGCATTGA
TGCAAGTGACCAA
Found at i:66920430 original size:40 final size:40
Alignment explanation
Indices: 66920381--66920599 Score: 237
Period size: 40 Copynumber: 5.5 Consensus size: 40
66920371 CGGATACTAA
* * * * *
66920381 CGGGTTAAGTCCCGAAGACATGTGTGCTAGTGATTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
* * *
66920421 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
* * * *
66920461 CGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTAATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
66920501 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTAAT-TC
* * * *
66920541 CGGGCTAAGACCCGAAGGCATTTATGCTAGTGAC-CATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TC
*
66920581 CGGGCTAAGACCCGAAGGC
1 CGGGCTAAGTCCCGAAGGC
66920600 CTTGTAAAAG
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 4 0.03
40 152 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
Found at i:66922527 original size:40 final size:40
Alignment explanation
Indices: 66922472--66922639 Score: 309
Period size: 40 Copynumber: 4.2 Consensus size: 40
66922462 TATGTGCATA
* *
66922472 GCATTTGTGCGGGTTATTACAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
66922512 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
66922552 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
66922592 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
66922632 GCATTCGT
1 GCATTCGT
66922640 ACTGGTTGTT
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:66922670 original size:80 final size:80
Alignment explanation
Indices: 66922472--66922670 Score: 245
Period size: 80 Copynumber: 2.5 Consensus size: 80
66922462 TATGTGCATA
* * * ** * *
66922472 GCATTTGTGCGGGTTATTACAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTACGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCAGGTTATTATAACCG
66922537 GGTTAAGTCCCGAAG
66 GGTTAAGTCCCGAAG
* * * ** *
66922552 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATTATAACCG
1 GCATTCGTACGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCAGGTTATTATAACCG
66922617 GGTTAAGTCCCGAAG
66 GGTTAAGTCCCGAAG
* * * *
66922632 GCATTCGTACTGGTTGTTACATCCGAGCCAAATTCCGAA
1 GCATTCGTACGGGTTATTACAACCGAGCCAAATCCCGAA
66922671 AGTATTTATG
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 106 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
GCATTCGTACGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCAGGTTATTATAACCG
GGTTAAGTCCCGAAG
Found at i:66926746 original size:20 final size:19
Alignment explanation
Indices: 66926721--66926762 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
66926711 CTTTTCTATC
66926721 CTTCTCTCATCTCTTCCCCT
1 CTTCTCTCATCT-TTCCCCT
* *
66926741 CTTCTCTCTTCTTTCTCCT
1 CTTCTCTCATCTTTCCCCT
66926760 CTT
1 CTT
66926763 GCCGATTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.52
Consensus pattern (19 bp):
CTTCTCTCATCTTTCCCCT
Found at i:66929996 original size:19 final size:20
Alignment explanation
Indices: 66929974--66930011 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
66929964 ACGAACATTT
*
66929974 ACATAATCATTTAA-CATAC
1 ACATAATAATTTAATCATAC
*
66929993 ACATCATAATTTAATCATA
1 ACATAATAATTTAATCATA
66930012 TTGTCCCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (20 bp):
ACATAATAATTTAATCATAC
Found at i:66932355 original size:8 final size:8
Alignment explanation
Indices: 66932334--66932363 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
66932324 TTTTATGTTT
66932334 TAATAATAA
1 TAATAAT-A
66932343 TAATAATA
1 TAATAATA
66932351 TAATAATA
1 TAATAATA
66932359 TAATA
1 TAATA
66932364 TATTTACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TAATAATA
Found at i:66932432 original size:17 final size:19
Alignment explanation
Indices: 66932391--66932433 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
66932381 AGTATTTCAT
66932391 ATATTATTATATACATATG
1 ATATTATTATATACATATG
*
66932410 ATTATTATT-TTTACATATG
1 A-TATTATTATATACATATG
66932429 -TATTA
1 ATATTA
66932434 ATCCACACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATATTATTATATACATATG
Found at i:66933169 original size:17 final size:18
Alignment explanation
Indices: 66933144--66933181 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
66933134 GAAGTGGTTT
*
66933144 TGAATAAAAGTTA-AAAA
1 TGAACAAAAGTTATAAAA
*
66933161 TGAACAAAATTTATAAAA
1 TGAACAAAAGTTATAAAA
66933179 TGA
1 TGA
66933182 TTTTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.26
Consensus pattern (18 bp):
TGAACAAAAGTTATAAAA
Found at i:66939137 original size:5 final size:5
Alignment explanation
Indices: 66939127--66939157 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
66939117 ATAGTTTTTT
66939127 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
66939158 CCATAACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:66942674 original size:14 final size:14
Alignment explanation
Indices: 66942657--66942687 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
66942647 ACGCCATTCG
66942657 CTTACGGTCATTTC
1 CTTACGGTCATTTC
66942671 CTTACGGTCATTTC
1 CTTACGGTCATTTC
66942685 CTT
1 CTT
66942688 TCTCGTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.13, T:0.45
Consensus pattern (14 bp):
CTTACGGTCATTTC
Found at i:66948653 original size:12 final size:12
Alignment explanation
Indices: 66948636--66948667 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
66948626 CTTGTGCGCC
*
66948636 AGGCCGTGTGCT
1 AGGCCGTGTACT
66948648 AGGCCGTGTACT
1 AGGCCGTGTACT
66948660 AGGCCGTG
1 AGGCCGTG
66948668 CATAACATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.41, T:0.22
Consensus pattern (12 bp):
AGGCCGTGTACT
Found at i:66950567 original size:42 final size:43
Alignment explanation
Indices: 66950520--66950675 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 43
66950510 TACCATACCA
* * * *
66950520 ATGCCATATCCCAAATATAGTCTTATACAGGA-TCTCGTATCG
1 ATGCCATATCCCAAATATGGTCTTACACAGAAGTCTCGTATAG
* * * *
66950562 ATGCCAATAGCCCAACTATGGTCTTACA-AAAAGTCTCGTATTG
1 ATGCC-ATATCCCAAATATGGTCTTACACAGAAGTCTCGTATAG
* * *
66950605 ATGCCATATCCCAGATATGGTCTTACAC-GAAGCCTCATATAG
1 ATGCCATATCCCAAATATGGTCTTACACAGAAGTCTCGTATAG
*
66950647 ATGCCATATCCCAGATATGGTCTTACACA
1 ATGCCATATCCCAAATATGGTCTTACACA
66950676 TAGTCTTAGT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCATATCCCAAATATGGTCTTACACAGAAGTCTCGTATAG
Found at i:66952666 original size:27 final size:27
Alignment explanation
Indices: 66952628--66952682 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
66952618 TACTAAAGTT
*
66952628 CAACTTTGTACCTAGAGCCTCTTATAA
1 CAACTTTGTACCCAGAGCCTCTTATAA
66952655 CAACTTTGTACCCAGAGCCTCTTATAA
1 CAACTTTGTACCCAGAGCCTCTTATAA
66952682 C
1 C
66952683 TTCTTCCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (27 bp):
CAACTTTGTACCCAGAGCCTCTTATAA
Found at i:66968146 original size:27 final size:27
Alignment explanation
Indices: 66968116--66968170 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
66968106 GTGAAATGTG
66968116 TTTATTTTGATGTTTTATGGTAGAATA
1 TTTATTTTGATGTTTTATGGTAGAATA
66968143 TTTATTTTGATGTTTTATGGTAGAATA
1 TTTATTTTGATGTTTTATGGTAGAATA
66968170 T
1 T
66968171 GAAGCTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.56
Consensus pattern (27 bp):
TTTATTTTGATGTTTTATGGTAGAATA
Found at i:66970186 original size:16 final size:16
Alignment explanation
Indices: 66970167--66970197 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66970157 TTGAGATATG
66970167 TTTACTACGAGAATTT
1 TTTACTACGAGAATTT
66970183 TTTACTACGAGAATT
1 TTTACTACGAGAATT
66970198 GTTTGAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (16 bp):
TTTACTACGAGAATTT
Done.