Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 87 of 253
Found at i:26914938 original size:40 final size:40
Alignment explanation
Indices: 26914855--26915117 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
26914845 TTGAATGCTG
* * * * * *
26914855 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
26914895 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
26914935 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
26914975 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
26915015 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
26915055 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
26915094 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
26915118 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:26915137 original size:79 final size:80
Alignment explanation
Indices: 26914894--26915152 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
26914884 AAGTGAATAT
* * * * * * *
26914894 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
26914958 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
26914974 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
26915039 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
26915054 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
26915118 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
26915133 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
26915153 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:26922824 original size:46 final size:46
Alignment explanation
Indices: 26922774--26922949 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
26922764 TGGTTGAGCA
*
26922774 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
26922820 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
26922865 CATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
26922913 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
26922950 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:26922930 original size:93 final size:93
Alignment explanation
Indices: 26922771--26922942 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
26922761 GGATGGTTGA
* * *
26922771 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
26922836 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
26922864 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
26922929 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
26922943 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACCCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:26926074 original size:27 final size:27
Alignment explanation
Indices: 26926001--26926074 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 27
26925991 AAATGAAAAT
* *
26926001 TTATTATAAAATTA-ATTA-AAATTAA
1 TTATTTTATAATTATATTATAAATTAA
* * *
26926026 ATATTTTGATAATT-TGAGTATAATTTAA
1 TTATTTT-ATAATTAT-ATTATAAATTAA
26926054 TTATTTTATAATTATATTATA
1 TTATTTTATAATTATATTATA
26926075 TTTTTTGACA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
25 5 0.14
26 5 0.14
27 14 0.38
28 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TTATTTTATAATTATATTATAAATTAA
Found at i:26929143 original size:17 final size:17
Alignment explanation
Indices: 26929118--26929150 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26929108 ATAACAATCA
*
26929118 CATATATATTCATATTT
1 CATACATATTCATATTT
26929135 CATACATATTCATATT
1 CATACATATTCATATT
26929151 ATATGGCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
CATACATATTCATATTT
Found at i:26932525 original size:67 final size:68
Alignment explanation
Indices: 26932417--26932556 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 68
26932407 GAGGAAGCGT
* * * *
26932417 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCATATATATCTA-TTCTGGTGACTTCA-TCAC
1 TCTGGCAGCCTCGCCGCAATCTGGTGGCCTCGCCACATATATATAGTTCTGGTGACTT-AGGCAC
26932480 AATA
65 AATA
* *
26932484 TCTGGCAGCCTCGCCGCAATCTGGTGGCTTCGCCACATATATATATGTTCTGGTGGCTTAGGCAC
1 TCTGGCAGCCTCGCCGCAATCTGGTGGCCTCGCCACATATATATA-GTTCTGGTGACTTAGGCAC
26932549 AATA
65 AATA
26932553 TCTG
1 TCTG
26932557 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
67 41 0.64
68 1 0.02
69 22 0.34
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (68 bp):
TCTGGCAGCCTCGCCGCAATCTGGTGGCCTCGCCACATATATATAGTTCTGGTGACTTAGGCACA
ATA
Found at i:26932576 original size:27 final size:26
Alignment explanation
Indices: 26932524--26932583 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
26932514 CGCCACATAT
* *
26932524 ATATATGTTCTGGTGGCTTAGGCACA
1 ATATCTGTTCTGGTGACTTAGGCACA
* *
26932550 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACTTAGGCACA
26932577 ATATCTG
1 ATATCTG
26932584 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACTTAGGCACA
Found at i:26951183 original size:40 final size:39
Alignment explanation
Indices: 26951119--26951359 Score: 200
Period size: 40 Copynumber: 6.1 Consensus size: 39
26951109 TTATTGAATG
*
26951119 ATTGCACTTACATGCCTCTGTTTGTACTTCGATACCCCTA
1 ATTGCACTTACATGCCCCTGTTTGTACTTC-ATACCCCTA
* * * **
26951159 ATTGCACTTACCTGCCGCTATTTGTACTTCAGTACCCCCG
1 ATTGCACTTACATGCCCCTGTTTGTACTTCA-TACCCCTA
* * * *
26951199 ATTGGACTTACATGCCCCTGTTTGTAATTCACTACTCCTG
1 ATTGCACTTACATGCCCCTGTTTGTACTTCA-TACCCCTA
* **
26951239 ATTGCACTTACATGCCCCTGTTTGAACTTTGGTACCCCTA
1 ATTGCACTTACATGCCCCTGTTTGTAC-TTCATACCCCTA
* * * *
26951279 ATTACAC-TACGTGCCGCTGTTTGTACTTTAATACCCCTGA
1 ATTGCACTTACATGCCCCTGTTTGTAC-TTCATACCCCT-A
* * * *
26951319 A-TGCACAT-CTTTGCCACTGTTTGCACTTCATTACCCCTA
1 ATTGCACTTAC-ATGCCCCTGTTTGTACTTCA-TACCCCTA
26951358 AT
1 AT
26951360 CACACATTCG
Statistics
Matches: 163, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
39 37 0.23
40 124 0.76
41 2 0.01
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (39 bp):
ATTGCACTTACATGCCCCTGTTTGTACTTCATACCCCTA
Found at i:26951267 original size:20 final size:20
Alignment explanation
Indices: 26951124--26951267 Score: 62
Period size: 20 Copynumber: 7.2 Consensus size: 20
26951114 GAATGATTGC
* *
26951124 ACTTACATGCCTCTGTTTGT
1 ACTTACATGCCCCTGTTTGA
* ** *
26951144 ACTT-CGATACCCCTAATTGC
1 ACTTAC-ATGCCCCTGTTTGA
* * * *
26951164 ACTTACCTGCCGCTATTTGT
1 ACTTACATGCCCCTGTTTGA
* * * *
26951184 ACTT-CAGTACCCCCGATTGG
1 ACTTACA-TGCCCCTGTTTGA
26951204 ACTTACATGCCCCTGTTTGTA
1 ACTTACATGCCCCTGTTTG-A
* * * *
26951225 A-TT-CACTACTCCTGATTGC
1 ACTTACA-TGCCCCTGTTTGA
26951244 ACTTACATGCCCCTGTTTGA
1 ACTTACATGCCCCTGTTTGA
26951264 ACTT
1 ACTT
26951268 TGGTACCCCT
Statistics
Matches: 87, Mismatches: 29, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
19 5 0.06
20 76 0.87
21 6 0.07
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.36
Consensus pattern (20 bp):
ACTTACATGCCCCTGTTTGA
Found at i:26951589 original size:24 final size:23
Alignment explanation
Indices: 26951518--26951589 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
26951508 GTTAAGAACC
*
26951518 TATGAAAAGGTATGAATT-GTTGAT
1 TATGAAAA-GTATG-ATTATTTGAT
* *
26951542 TAT-CAAAGTATGAATATTCATGAT
1 TATGAAAAGTATGATTATT--TGAT
26951566 TATGAAAAGTATGATTTATTTGAT
1 TATGAAAAGTATGA-TTATTTGAT
26951590 GCTATGTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 2 0.05
22 6 0.16
23 3 0.08
24 14 0.37
25 9 0.24
26 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (23 bp):
TATGAAAAGTATGATTATTTGAT
Found at i:26958868 original size:79 final size:78
Alignment explanation
Indices: 26958688--26958910 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
26958678 TTGAATGATG
* * * *
26958688 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
26958751 TTGTGCGAGATACTA
64 TTGTGCGAGATACTA
*
26958766 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCAT
*
26958828 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACT--A
* * * * *
26958845 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
26958910 G
66 G
26958911 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
77 24 0.19
78 32 0.26
79 53 0.42
80 16 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTA
Found at i:26958924 original size:40 final size:40
Alignment explanation
Indices: 26958689--26958910 Score: 244
Period size: 40 Copynumber: 5.6 Consensus size: 40
26958679 TGAATGATGT
* * * *
26958689 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
26958729 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAT--
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
26958767 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
26958807 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
26958845 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
26958886 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
26958911 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
38 37 0.23
39 34 0.21
40 81 0.50
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:26958932 original size:79 final size:78
Alignment explanation
Indices: 26958695--26958943 Score: 242
Period size: 79 Copynumber: 3.2 Consensus size: 78
26958685 ATGTCCGGGC
* * * *
26958695 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
26958758 A-GA-TACTATCCGGAC
64 AGGACTA-TATCCGG-T
*
26958773 TAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* *
26958835 AGTTACTAAATCCGGGT
64 AG-GACTATATCC-GGT
* * **
26958852 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
26958917 GAGCTATATCCGGT
66 GA-CTATATCCGGT
* *
26958931 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
26958944 TACGTGATTT
Statistics
Matches: 142, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
77 19 0.13
78 28 0.20
79 65 0.46
80 30 0.21
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
GACTATATCCGGT
Found at i:26968439 original size:20 final size:20
Alignment explanation
Indices: 26968424--26968461 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26968414 AATCAGCTCA
*
26968424 CTTGAGCTTATTTCAGCTAG
1 CTTGAGCTCATTTCAGCTAG
*
26968444 TTTGAGCTCATTTCAGCT
1 CTTGAGCTCATTTCAGCT
26968462 TCTATCCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (20 bp):
CTTGAGCTCATTTCAGCTAG
Found at i:26971210 original size:21 final size:22
Alignment explanation
Indices: 26971157--26971210 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
26971147 CAAATAAAGT
*
26971157 TCATGTA-CAAATATCATCATC
1 TCATGTATCATATATCATCATC
* *
26971178 TCATGTTTTCATATATCAT-ATG
1 TCATG-TATCATATATCATCATC
26971200 TCATGTATCAT
1 TCATGTATCAT
26971211 CATTTACTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 10 0.37
22 8 0.30
23 9 0.33
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (22 bp):
TCATGTATCATATATCATCATC
Found at i:26980122 original size:18 final size:18
Alignment explanation
Indices: 26980099--26980143 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
26980089 ATTCTAGAAT
* * *
26980099 TATGGGCTCACATGCCCG
1 TATGGGCCCACACGACCG
26980117 TATGGGCCCACACGACCG
1 TATGGGCCCACACGACCG
26980135 TAT-GGCCCA
1 TATGGGCCCA
26980144 TACGGCCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.20, C:0.36, G:0.27, T:0.18
Consensus pattern (18 bp):
TATGGGCCCACACGACCG
Found at i:26985696 original size:22 final size:22
Alignment explanation
Indices: 26985671--26985712 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
26985661 TTGGGGAAGT
*
26985671 GTGGGAGCG-AATTTAGGGATAA
1 GTGGGAG-GAAATTAAGGGATAA
26985693 GTGGGAGGAAATTAAGGGAT
1 GTGGGAGGAAATTAAGGGAT
26985713 TATGGGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.33, C:0.02, G:0.43, T:0.21
Consensus pattern (22 bp):
GTGGGAGGAAATTAAGGGATAA
Found at i:26989247 original size:28 final size:28
Alignment explanation
Indices: 26989207--26989262 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
26989197 ACAAGTAACT
26989207 CAGTACACTCCATTGGTGCTTTGTGCAA
1 CAGTACACTCCATTGGTGCTTTGTGCAA
26989235 CAGTACACTCCATTGGTGCTTTGTGCAA
1 CAGTACACTCCATTGGTGCTTTGTGCAA
26989263 ACTCGTGTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
CAGTACACTCCATTGGTGCTTTGTGCAA
Found at i:26999513 original size:28 final size:30
Alignment explanation
Indices: 26999456--26999523 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
26999446 TCAAAATTTC
*
26999456 AAAATAAA-T-AAAAATAAAATATATCGAT
1 AAAATAAATTAAAAAATAAAATATATCAAT
*
26999484 AAAATAAATTAAAAAATTAAA-A-ATCAAT
1 AAAATAAATTAAAAAATAAAATATATCAAT
*
26999512 AAAGT-AATTAAA
1 AAAATAAATTAAA
26999524 TTTTGTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 7 0.20
28 17 0.49
29 2 0.06
30 9 0.26
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (30 bp):
AAAATAAATTAAAAAATAAAATATATCAAT
Found at i:27001609 original size:15 final size:15
Alignment explanation
Indices: 27001589--27001618 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27001579 AATACTTTTC
*
27001589 TTAAAATTCTAAATT
1 TTAAAATTATAAATT
27001604 TTAAAATTATAAATT
1 TTAAAATTATAAATT
27001619 CTAACGCACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAAATTATAAATT
Found at i:27005318 original size:49 final size:49
Alignment explanation
Indices: 27005246--27005433 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
27005236 TGAGGTCACG
*
27005246 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * * *
27005295 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
27005346 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
27005395 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
27005434 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 76 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:27005416 original size:100 final size:100
Alignment explanation
Indices: 27005241--27005428 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
27005231 TATTGTGAGG
*
27005241 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
27005306 AAGTGTAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
27005341 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
27005406 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
27005429 AGATAGCTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:27014580 original size:40 final size:40
Alignment explanation
Indices: 27014506--27014631 Score: 209
Period size: 40 Copynumber: 3.2 Consensus size: 40
27014496 AACCCAAGTA
* * *
27014506 CCTTCGGGATTTAG-CCGGATATAGCAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
27014545 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
27014585 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
27014625 CCTTCGG
1 CCTTCGG
27014632 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.16
40 69 0.84
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:27016062 original size:13 final size:13
Alignment explanation
Indices: 27016046--27016073 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27016036 TTTATTATTT
27016046 TTAACACAAAATA
1 TTAACACAAAATA
27016059 TTAACACAAAATA
1 TTAACACAAAATA
27016072 TT
1 TT
27016074 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:27022739 original size:40 final size:40
Alignment explanation
Indices: 27022567--27022732 Score: 273
Period size: 40 Copynumber: 4.2 Consensus size: 40
27022557 AACCCAAGTA
* *
27022567 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
27022606 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
27022646 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
27022686 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
27022726 CCTTCGG
1 CCTTCGG
27022733 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.11
40 105 0.88
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:27030642 original size:47 final size:47
Alignment explanation
Indices: 27030581--27030696 Score: 205
Period size: 47 Copynumber: 2.5 Consensus size: 47
27030571 GATGCGAATG
*
27030581 TCCGAGCTCGTTGAGTTGAGTCTAAGTTTGTGAGATGTAACTAGGCA
1 TCCGAGCTCATTGAGTTGAGTCTAAGTTTGTGAGATGTAACTAGGCA
*
27030628 TCCGAGCTCATTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAGCTCATTGAGTTGAGTCTAAGTTTGTGAGATGTAACTAGGCA
*
27030675 TCCAAGCTCATTGAGTTGAGTC
1 TCCGAGCTCATTGAGTTGAGTC
27030697 CGAGTTCGCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (47 bp):
TCCGAGCTCATTGAGTTGAGTCTAAGTTTGTGAGATGTAACTAGGCA
Found at i:27034587 original size:64 final size:64
Alignment explanation
Indices: 27034507--27034690 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
27034497 AGACATTATG
* * *
27034507 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
27034571 ATGTAGCTAGGTCGCATGTGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
27034635 TAA
62 TAA
* * * *
27034638 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
27034691 CGAACTCTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 23 0.24
65 4 0.04
66 18 0.19
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:27051727 original size:31 final size:31
Alignment explanation
Indices: 27051692--27051751 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
27051682 ATTTGGAGAC
27051692 ACCATTTGTATGGTAAGACATGCCGTGTATT
1 ACCATTTGTATGGTAAGACATGCCGTGTATT
*
27051723 ACCATTTGTATGGTGAGACATGCCGTGTA
1 ACCATTTGTATGGTAAGACATGCCGTGTA
27051752 ATCACCAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (31 bp):
ACCATTTGTATGGTAAGACATGCCGTGTATT
Found at i:27056259 original size:35 final size:32
Alignment explanation
Indices: 27056220--27056290 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
27056210 ACGATCGTAA
27056220 AAAGCCTCATAAGGTGCCATTTTGATACTTGAGTG
1 AAAGCCT-AT-AGGTG-CATTTTGATACTTGAGTG
* * *
27056255 AAAG-CTATTGTTGTATTTTGATACTTGAGTG
1 AAAGCCTATAGGTGCATTTTGATACTTGAGTG
27056286 AAAGC
1 AAAGC
27056291 TATTATTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
31 21 0.66
32 3 0.09
33 2 0.06
34 2 0.06
35 4 0.12
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (32 bp):
AAAGCCTATAGGTGCATTTTGATACTTGAGTG
Found at i:27056273 original size:31 final size:31
Alignment explanation
Indices: 27056238--27056300 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
27056228 ATAAGGTGCC
*
27056238 ATTTTGATACTTGAGTGAAAGCTATTGTTGT
1 ATTTTGATACTTGAGTGAAAGCTATTATTGT
27056269 ATTTTGATACTTGAGTGAAAGCTATTATTGT
1 ATTTTGATACTTGAGTGAAAGCTATTATTGT
27056300 A
1 A
27056301 CACAAATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (31 bp):
ATTTTGATACTTGAGTGAAAGCTATTATTGT
Found at i:27062799 original size:40 final size:40
Alignment explanation
Indices: 27062744--27062961 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
27062734 CGGATGATAA
* *
27062744 CCGGGCTAAGTCCCGAAAGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* *
27062784 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* * * * *
27062824 CCAGGCTAAGCCCCAAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
27062864 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
27062904 CCGAGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
*
27062944 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27062962 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.10
40 141 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:27079084 original size:22 final size:21
Alignment explanation
Indices: 27079059--27079099 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27079049 GTTTTAAAAG
*
27079059 AAATAATATATAGTAAATAAAT
1 AAATAAAATAT-GTAAATAAAT
*
27079081 AAATAAAATATGTATATAA
1 AAATAAAATATGTAAATAA
27079100 TGTGGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
AAATAAAATATGTAAATAAAT
Found at i:27079234 original size:18 final size:19
Alignment explanation
Indices: 27079189--27079236 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
27079179 CATGATATAC
27079189 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
27079209 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
27079227 A-AACATAATA
1 ATAACATAATA
27079237 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:27079435 original size:20 final size:20
Alignment explanation
Indices: 27079399--27079436 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27079389 GGAAAATAAT
*
27079399 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
27079419 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
27079437 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:27080027 original size:8 final size:8
Alignment explanation
Indices: 27080014--27080040 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
27080004 CCACGCGCCG
27080014 GCCCACGC
1 GCCCACGC
27080022 GCCCACGC
1 GCCCACGC
27080030 GCCCACGC
1 GCCCACGC
27080038 GCC
1 GCC
27080041 GTCCTAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.63, G:0.26, T:0.00
Consensus pattern (8 bp):
GCCCACGC
Found at i:27084148 original size:26 final size:26
Alignment explanation
Indices: 27084112--27084221 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
27084102 CATGAAATTC
27084112 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
27084138 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
27084164 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
27084190 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
27084216 TTATCA
1 TTATCA
27084222 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:27088799 original size:40 final size:40
Alignment explanation
Indices: 27088744--27088959 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
27088734 CGGATGATAA
*
27088744 CCGGGCCAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA-T
*
27088784 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
* *
27088823 TCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTATAT
* * *
27088862 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
* * *
27088902 CCGGGCTAAGTCTCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CTATAT
*
27088942 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27088960 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
37 1 0.01
38 23 0.14
39 36 0.23
40 99 0.62
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
Found at i:27088884 original size:78 final size:80
Alignment explanation
Indices: 27088740--27088959 Score: 272
Period size: 78 Copynumber: 2.8 Consensus size: 80
27088730 TATTCGGATG
* * *
27088740 ATAACCGGGCCAAGTCCCGAAGGCATTTGTGCT-AGTGACTA-ATTCCGGGCTAAGCCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATA-TCCGGGCTAAGTCCCGAAGG
*
27088803 CATTTGTGCTAGTGACT
64 CATTTGTGCGAGTGACT
**
27088820 A-ATTCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
27088883 TTTGTGCGAGTTACT
66 TTTGTGCGAGTGACT
* * * *
27088898 ATAACCGGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
27088960 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 13, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 58 0.48
79 37 0.30
80 26 0.21
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTGACT
Found at i:27096796 original size:40 final size:40
Alignment explanation
Indices: 27096739--27096916 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
27096729 CGGATGATAA
27096739 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
27096779 CCGGGCTAAG-CCTCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCTAGTGACTAATT
* * * *
27096819 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
* *
27096859 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CTAAT-T
*
27096899 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27096917 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
39 20 0.16
40 105 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
Found at i:27110823 original size:21 final size:21
Alignment explanation
Indices: 27110797--27110837 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27110787 CTTGCAAAGA
*
27110797 AAAAAAAATTCTTCTCGTCGG
1 AAAAAAAATTCCTCTCGTCGG
*
27110818 AAAAAAATTTCCTCTCGTCG
1 AAAAAAAATTCCTCTCGTCG
27110838 AATTAGATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (21 bp):
AAAAAAAATTCCTCTCGTCGG
Found at i:27111638 original size:13 final size:13
Alignment explanation
Indices: 27111620--27111644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27111610 TCAAAGAAAC
27111620 ATTGTTGTCAAAA
1 ATTGTTGTCAAAA
27111633 ATTGTTGTCAAA
1 ATTGTTGTCAAA
27111645 CGGTCAAAGG
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTGTTGTCAAAA
Found at i:27119060 original size:17 final size:17
Alignment explanation
Indices: 27119038--27119162 Score: 70
Period size: 17 Copynumber: 7.5 Consensus size: 17
27119028 TATCAAGATA
*
27119038 AATATTAGATTAAATTT
1 AATATTAAATTAAATTT
27119055 AATATTAAATTAAA-TT
1 AATATTAAATTAAATTT
27119071 AA-ATT-AA-TAGAATATT
1 AATATTAAATTA-AAT-TT
* * * *
27119087 TATA-TACA--AGA-TA
1 AATATTAAATTAAATTT
*
27119100 AAAATTAAATTAAATTT
1 AATATTAAATTAAATTT
*
27119117 AATAATAAGA-TAATCACTTT
1 AATATTAA-ATTAA--A-TTT
27119137 AATATTAAATTAAATTT
1 AATATTAAATTAAATTT
27119154 AATATTAAA
1 AATATTAAA
27119163 CCTATTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
13 5 0.06
14 7 0.09
15 4 0.05
16 11 0.14
17 37 0.46
18 2 0.02
19 2 0.02
20 13 0.16
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:27122836 original size:9 final size:9
Alignment explanation
Indices: 27122820--27122853 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
27122810 TTTATTAACA
27122820 AATTAATTT
1 AATTAATTT
*
27122829 AGTTAATTT
1 AATTAATTT
*
27122838 AAATAATTT
1 AATTAATTT
27122847 AATTAAT
1 AATTAAT
27122854 ACATTAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
AATTAATTT
Found at i:27124160 original size:13 final size:13
Alignment explanation
Indices: 27124144--27124168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27124134 CAAGAATTGC
27124144 ACACAAGTGCCAT
1 ACACAAGTGCCAT
27124157 ACACAAGTGCCA
1 ACACAAGTGCCA
27124169 ACTATATTCG
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:0.40, C:0.32, G:0.16, T:0.12
Consensus pattern (13 bp):
ACACAAGTGCCAT
Found at i:27125620 original size:28 final size:29
Alignment explanation
Indices: 27125571--27125626 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
27125561 TATAGGGGTT
27125571 TTCACACAGCCAAGCACACGCCTGTGTCC
1 TTCACACAGCCAAGCACACGCCTGTGTCC
* *
27125600 TTCACACGGCCTAG-ACACGCCTGTGTC
1 TTCACACAGCCAAGCACACGCCTGTGTC
27125627 TAAAAACTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.21, C:0.39, G:0.20, T:0.20
Consensus pattern (29 bp):
TTCACACAGCCAAGCACACGCCTGTGTCC
Found at i:27127556 original size:16 final size:16
Alignment explanation
Indices: 27127535--27127566 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27127525 ACATTACCCA
27127535 AGCCTAGCCGAATGTT
1 AGCCTAGCCGAATGTT
27127551 AGCCTAGCCGAATGTT
1 AGCCTAGCCGAATGTT
27127567 CTTTCCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (16 bp):
AGCCTAGCCGAATGTT
Found at i:27142541 original size:6 final size:6
Alignment explanation
Indices: 27142513--27142568 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
27142503 TAAACCTAAT
* * * *
27142513 ATTAAA AGTAAA AATATAG ATTAAA ATTAAA ATT-AA ATTCAAA ATTGAA
1 ATTAAA ATTAAA ATTA-AA ATTAAA ATTAAA ATTAAA ATT-AAA ATTAAA
27142562 ATTAAA A
1 ATTAAA A
27142569 AATAAAAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
5 5 0.12
6 26 0.65
7 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (6 bp):
ATTAAA
Found at i:27144218 original size:49 final size:49
Alignment explanation
Indices: 27144144--27144346 Score: 211
Period size: 49 Copynumber: 4.2 Consensus size: 49
27144134 TATGTGTCAA
* * *
27144144 TGTAAGACCTGCCTGGGACAGGGCATCGAGACAGATAAGTGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
* *
27144193 TGTAAGACCTGTCTGGGACATGGCATCGACATAGATAAGTGAGAGCCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
* * * *
27144242 TGTAAGACCTGTCTGGGACATGGCATC-AGC-CTTGATGTACGT-A-AGTCAT
1 TGTAAGACCTGTCTGGGACATGGCATCGA-CAC-AGA--TAAGTGAGAGCCAG
* ** *
27144291 TGTAAGACCTATCTGGGACATGGCATCGACTTAGAT--GTAAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
27144338 TGTAAGACC
1 TGTAAGACC
27144347 ATGTTTGAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 14 0.11
48 1 0.01
49 107 0.82
50 2 0.02
51 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
Found at i:27156570 original size:24 final size:24
Alignment explanation
Indices: 27156538--27156588 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
27156528 ATAGGCTATG
*
27156538 ACAGGTGCACGAGCCTCGGGTCTA
1 ACAGGTGCACGAGCCTCGAGTCTA
*
27156562 ACAGGTGCATGAGCCTCGAGTCTA
1 ACAGGTGCACGAGCCTCGAGTCTA
27156586 ACA
1 ACA
27156589 ATTGTATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.18
Consensus pattern (24 bp):
ACAGGTGCACGAGCCTCGAGTCTA
Found at i:27161772 original size:142 final size:142
Alignment explanation
Indices: 27161511--27161792 Score: 354
Period size: 142 Copynumber: 2.0 Consensus size: 142
27161501 TGGGTGATAT
* **
27161511 GTGTGTCAGTGTAACACCTGTCTGGGACACGGCATCGACACAGCTAAGTGCGAGCCAGTGTAAGA
1 GTGTGTCAGTGTAACACCTGTCTGGGACACGGCATCGACACAGATAAGTAAGAGCCAGTGTAAGA
* * **
27161576 CTAGTCTAGAACATGGTATCGGCCTCAAGATATGCAAGCTAGTGTAAGGTCTGTCTGGAACATGG
66 CTAGTCTAGAACATGGCATCGACCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGAACATGG
*
27161641 CATCGGCTTAAG
131 CATCGACTTAAG
* * * * * *
27161653 GTGTGTTAGTGTAAGACCTGTTTGGGACATGGCATTGACACAGATAAGTAAGAGCCCGTGTAAGA
1 GTGTGTCAGTGTAACACCTGTCTGGGACACGGCATCGACACAGATAAGTAAGAGCCAGTGTAAGA
* * * *
27161718 CCT-GTCTAGGACATGGCATCGACCTCGATG-TATGTAAG-TCAGTGTAAGACCTGTCTGGGACA
66 -CTAGTCTAGAACATGGCATCGACCTC-AAGATATGCAAGCT-AGTGTAAGACCTGTCTGGAACA
27161780 TGGCATCGACTTA
128 TGGCATCGACTTA
27161793 GATGTGAGAG
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
141 1 0.01
142 114 0.96
143 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (142 bp):
GTGTGTCAGTGTAACACCTGTCTGGGACACGGCATCGACACAGATAAGTAAGAGCCAGTGTAAGA
CTAGTCTAGAACATGGCATCGACCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGAACATGG
CATCGACTTAAG
Found at i:27161797 original size:49 final size:51
Alignment explanation
Indices: 27161660--27161797 Score: 158
Period size: 49 Copynumber: 2.8 Consensus size: 51
27161650 AAGGTGTGTT
* * *
27161660 AGTGTAAGACCTGTTTGGGACATGGCATTGACACAGA--TAAGTAAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATGTAAGTAAGAGCC
* * * * * *
27161709 CGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATGTATGT-A-AGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATGTAAGTAAGAGCC
*
27161758 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATGT
27161798 GAGAGCTAGT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
49 69 0.93
50 1 0.01
51 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (51 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATGTAAGTAAGAGCC
Found at i:27165389 original size:30 final size:30
Alignment explanation
Indices: 27165345--27165428 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
27165335 ACACTTCCAC
*
27165345 AAGGGCTGGGCACATGCCCGTGTGAGCCAT
1 AAGGGCTGGCCACATGCCCGTGTGAGCCAT
* *
27165375 AAGGGTTGGCCACATGCCCGTGTGAGCCAC
1 AAGGGCTGGCCACATGCCCGTGTGAGCCAT
* *
27165405 ACA-GGCTGGCCATACGCCCGTGTG
1 A-AGGGCTGGCCACATGCCCGTGTG
27165429 CCAGCCCGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 46 0.98
31 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.35, T:0.17
Consensus pattern (30 bp):
AAGGGCTGGCCACATGCCCGTGTGAGCCAT
Found at i:27168922 original size:41 final size:41
Alignment explanation
Indices: 27168875--27168994 Score: 118
Period size: 41 Copynumber: 3.2 Consensus size: 41
27168865 CATCTTCTTT
27168875 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
1 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
* * * *
27168916 TTTTTCA---TTC-TCACA--T-C-T-AAAGCATCT-TCT-
1 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
*
27168946 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCCCTC
1 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
27168987 TTTTTCAT
1 TTTTTCAT
27168995 GCTTTTATCC
Statistics
Matches: 59, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
30 7 0.12
31 3 0.05
32 6 0.10
33 4 0.07
34 5 0.08
35 1 0.02
36 1 0.02
37 5 0.08
38 4 0.07
39 6 0.10
40 2 0.03
41 15 0.25
ACGTcount: A:0.13, C:0.35, G:0.01, T:0.51
Consensus pattern (41 bp):
TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
Found at i:27168982 original size:71 final size:72
Alignment explanation
Indices: 27168832--27168994 Score: 265
Period size: 71 Copynumber: 2.3 Consensus size: 72
27168822 TCAACTTTAC
* ** *
27168832 CCTTCTCCCTCTTTTTTATTCTCATGTCTGAAGCATCTTCTTTTTTTTCATTCTTCTTCCCATTT
1 CCTTCTCCCTCTTTTTCATTCTCACATCTAAAGCATCTTC-TTTTTTTCATTCTTCTTCCCATTT
27168897 CCTTCCAA
65 CCTTCCAA
*
27168905 CCTTCTCTCTCTTTTTCATTCTCACATCTAAAGCATCTTC-TTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCCCTCTTTTTCATTCTCACATCTAAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
27168969 CTTCCAA
66 CTTCCAA
27168976 CCTTCTCCCTCTTTTTCAT
1 CCTTCTCCCTCTTTTTCAT
27168995 GCTTTTATCC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 49 0.58
73 35 0.42
ACGTcount: A:0.13, C:0.34, G:0.02, T:0.51
Consensus pattern (72 bp):
CCTTCTCCCTCTTTTTCATTCTCACATCTAAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
CTTCCAA
Found at i:27171455 original size:44 final size:44
Alignment explanation
Indices: 27171392--27171476 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
27171382 AATAAGTCTG
*
27171392 TTTTTCAGTCAGTTTGGTATTGGGATTAAAAACTTACTGAACTA
1 TTTTTCAGTCAGTTTGGTATTCGGATTAAAAACTTACTGAACTA
* *
27171436 TTTTTCAGTCAGTTTGGTATTCTGATTAAAAACTTATTGAA
1 TTTTTCAGTCAGTTTGGTATTCGGATTAAAAACTTACTGAA
27171477 TTAACCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (44 bp):
TTTTTCAGTCAGTTTGGTATTCGGATTAAAAACTTACTGAACTA
Found at i:27172117 original size:33 final size:33
Alignment explanation
Indices: 27172077--27172143 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
27172067 AACTCTTGTT
*
27172077 TCCATCATGGATGTTTGAACTTGATCAAATTGG
1 TCCATCATGGATATTTGAACTTGATCAAATTGG
* *
27172110 TCCATCATGGATATTTGGATTTGATCAAATTGG
1 TCCATCATGGATATTTGAACTTGATCAAATTGG
27172143 T
1 T
27172144 TGGTTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (33 bp):
TCCATCATGGATATTTGAACTTGATCAAATTGG
Found at i:27172624 original size:16 final size:16
Alignment explanation
Indices: 27172603--27172634 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27172593 ATCAAAAATG
27172603 TTATTAAATTATATTT
1 TTATTAAATTATATTT
27172619 TTATTAAATTATATTT
1 TTATTAAATTATATTT
27172635 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTAAATTATATTT
Found at i:27172854 original size:16 final size:16
Alignment explanation
Indices: 27172833--27172887 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
27172823 TGAATTACTG
*
27172833 ATTACAACTCTGTTCA
1 ATTACAACTCTATTCA
* *
27172849 ATTACAGCCCTATTCA
1 ATTACAACTCTATTCA
* *
27172865 AATACAACTCTATTCC
1 ATTACAACTCTATTCA
27172881 ATTACAA
1 ATTACAA
27172888 TAAACCAAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:27174218 original size:17 final size:19
Alignment explanation
Indices: 27174196--27174243 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
27174186 AATTCATGTC
27174196 TAAAATTACT-AATT-AAG
1 TAAAATTACTCAATTCAAG
*
27174213 TAAAATTCACTCATTTCAAG
1 TAAAATT-ACTCAATTCAAG
*
27174233 TATAATTACTC
1 TAAAATTACTC
27174244 GAGTAAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 3 0.12
19 7 0.27
20 9 0.35
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAAATTACTCAATTCAAG
Found at i:27181503 original size:48 final size:46
Alignment explanation
Indices: 27181445--27181555 Score: 125
Period size: 48 Copynumber: 2.4 Consensus size: 46
27181435 CTTGTCTTAG
* **
27181445 ACATGTTTTACACTAGCTCTCGTCTTAGT-GCCAATGCCATGTCCCAA
1 ACATGTTTTACACTAGCTCTCATAAT-GTAGCCAATG-CATGTCCCAA
* * *
27181492 ACATGGTTTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCCAG
1 ACAT-GTTTTACACTAGCTCTCATAATGTAGCCAATGCATGTCCCAA
*
27181539 ACATGTCTTACACTAGC
1 ACATGTTTTACACTAGC
27181556 ACACAAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 11 0.20
47 19 0.35
48 24 0.44
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (46 bp):
ACATGTTTTACACTAGCTCTCATAATGTAGCCAATGCATGTCCCAA
Found at i:27184805 original size:24 final size:24
Alignment explanation
Indices: 27184758--27184806 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
27184748 TTAACATCCT
**
27184758 TTTGTAACAACCTTGTCATTGGAG
1 TTTGTAACAACCTTGTCACCGGAG
27184782 TTTGTAACAACCTTGTCACCGGAG
1 TTTGTAACAACCTTGTCACCGGAG
27184806 T
1 T
27184807 GGCTATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (24 bp):
TTTGTAACAACCTTGTCACCGGAG
Found at i:27210002 original size:34 final size:34
Alignment explanation
Indices: 27209950--27210023 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
27209940 TGTACTACTA
*
27209950 ATACTGTTACTGTAATGGGCTAAGGCCTACATTG
1 ATACTGTTACTGTAATGGGCTAAGGCCCACATTG
*
27209984 ATACTGTTATTGCT-ATGGGCTAAGGCCCACATTG
1 ATACTGTTACTG-TAATGGGCTAAGGCCCACATTG
*
27210018 AAACTG
1 ATACTG
27210024 GACTGTCACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (34 bp):
ATACTGTTACTGTAATGGGCTAAGGCCCACATTG
Found at i:27210713 original size:27 final size:27
Alignment explanation
Indices: 27210678--27210789 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
27210668 AATTTCGACA
27210678 AAAGGCTTCCTTTTCATAGATCACCAC
1 AAAGGCTTCCTTTTCATAGATCACCAC
* **
27210705 AAAGGCTTCCTTTTCATAAATTGCCAC
1 AAAGGCTTCCTTTTCATAGATCACCAC
* ** *
27210732 AAAGGATTTCC-TTTCATAGATCATTAT
1 AAAGG-CTTCCTTTTCATAGATCACCAC
* * * *
27210759 GAGGGCTTCCTTTTCATAGATCGCCAT
1 AAAGGCTTCCTTTTCATAGATCACCAC
27210786 AAAG
1 AAAG
27210790 TTGTCCTTTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
26 4 0.06
27 57 0.88
28 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (27 bp):
AAAGGCTTCCTTTTCATAGATCACCAC
Found at i:27214268 original size:42 final size:42
Alignment explanation
Indices: 27214219--27214330 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
27214209 TGAGATTACC
* * *
27214219 TGTAAGACCATATTTGGGATATGGCATCGATATGAGA-CTTCT
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATC-TCA
* *
27214261 TGTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATCTCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATATGAGATCTCA
*
27214304 TGTAAGACCATATGTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
27214331 TGGTATTGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.40
43 35 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATCTCA
Found at i:27223465 original size:44 final size:43
Alignment explanation
Indices: 27223417--27223617 Score: 269
Period size: 44 Copynumber: 4.7 Consensus size: 43
27223407 TGTGTTTTTA
27223417 TGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATT-AGATTACG
*
27223461 TGTAAGACCATGTTTGGGACATTGGCATCGATATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATT-AGATTACG
* * * *
27223505 TGTAAGACCATGTTTGGGACATTGGCATTG-TATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTAGATTACG
* * * * *
27223547 TGTAAGACCTTGTCGGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTAGATTACG
* *
27223590 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
27223618 TGTATGAACT
Statistics
Matches: 140, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 31 0.22
43 37 0.26
44 72 0.51
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATTAGATTACG
Found at i:27223578 original size:86 final size:86
Alignment explanation
Indices: 27223416--27223622 Score: 281
Period size: 86 Copynumber: 2.4 Consensus size: 86
27223406 ATGTGTTTTT
* **
27223416 ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGAGATTACGTGTAAGACCATGTTTGGGAC
1 ATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGAGATTACGTGTAAGACCATGTCGGGGAC
*
27223481 ATTGGCATCGATATTGAGATTAC
65 AGTGGCATCGATATT-AGATTAC
* * * * *
27223504 GTGTAAGACCATGTTTGGGACATTGGCATTGTATT-TGATTTCGTGTAAGACCTTGTCGGGGACA
1 ATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTAAGACCATGTCGGGGACA
*
27223568 GTGGCATCGATATTTGATTAC
66 GTGGCATCGATATTAGATTAC
* *
27223589 ATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 ATGTAAGACCATGTCTGGGACATTGGCATTGTAT
27223623 GAACTTTCCG
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
85 36 0.34
86 37 0.35
87 4 0.04
88 28 0.27
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (86 bp):
ATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTAAGACCATGTCGGGGACA
GTGGCATCGATATTAGATTAC
Found at i:27224387 original size:22 final size:24
Alignment explanation
Indices: 27224362--27224406 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
27224352 GTTTTTGGCT
27224362 TATGGAATG-ACATGA-ATTGGTA
1 TATGGAATGAACATGAGATTGGTA
**
27224384 TATGTTATGAACATGAGATTGGT
1 TATGGAATGAACATGAGATTGGT
27224407 TGATAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGAATGAACATGAGATTGGTA
Found at i:27226215 original size:35 final size:35
Alignment explanation
Indices: 27226167--27226252 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
27226157 TACACGGTTA
* * * *
27226167 ACCATCCAACACACTAAATGCTCATAGGAGCCAGT
1 ACCATCTAGCACACTAAATGCTCATAAGAGCAAGT
* *
27226202 ACCATCTAGCACACTAGATGCTTATAAGAGCAAGT
1 ACCATCTAGCACACTAAATGCTCATAAGAGCAAGT
*
27226237 ACCATCTAGAACACTA
1 ACCATCTAGCACACTA
27226253 GATAACATTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (35 bp):
ACCATCTAGCACACTAAATGCTCATAAGAGCAAGT
Found at i:27226253 original size:35 final size:35
Alignment explanation
Indices: 27226177--27226255 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
27226167 ACCATCCAAC
* * * *
27226177 ACACTAAATGCTCATAGGAGCCAGTACCATCTAGC
1 ACACTAGATGCTCATAAGAGCAAGTACCATCTAGA
*
27226212 ACACTAGATGCTTATAAGAGCAAGTACCATCTAGA
1 ACACTAGATGCTCATAAGAGCAAGTACCATCTAGA
27226247 ACACTAGAT
1 ACACTAGAT
27226256 AACATTGTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (35 bp):
ACACTAGATGCTCATAAGAGCAAGTACCATCTAGA
Found at i:27229916 original size:14 final size:13
Alignment explanation
Indices: 27229892--27229921 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
27229882 TTAAATTACG
27229892 ATGTGATTAAATC
1 ATGTGATTAAATC
27229905 ATGTGCATTAAATC
1 ATGTG-ATTAAATC
27229919 ATG
1 ATG
27229922 CTCTATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTGATTAAATC
Found at i:27230133 original size:40 final size:40
Alignment explanation
Indices: 27230050--27230312 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
27230040 TTGAATGCTG
* * * * * *
27230050 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
27230090 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27230130 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27230170 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
27230210 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27230250 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27230289 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27230313 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27230332 original size:79 final size:80
Alignment explanation
Indices: 27230089--27230347 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
27230079 AAGTGAATAT
* * * * * * *
27230089 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
27230153 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
27230169 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
27230234 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
27230249 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
27230313 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
27230328 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
27230348 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:27238090 original size:40 final size:40
Alignment explanation
Indices: 27238007--27238269 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
27237997 TTGAATGCTG
* * * * * *
27238007 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
27238047 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27238087 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27238127 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
27238167 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27238207 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27238246 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27238270 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27238289 original size:79 final size:80
Alignment explanation
Indices: 27238046--27238304 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
27238036 AAGTGAATAT
* * * * * * *
27238046 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
27238110 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
27238126 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
27238191 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
27238206 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
27238270 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
27238285 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
27238305 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:27242655 original size:11 final size:12
Alignment explanation
Indices: 27242632--27242661 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
27242622 AATCTTATGG
27242632 CCAAAATCATAA
1 CCAAAATCATAA
27242644 CCAAAA-CATAA
1 CCAAAATCATAA
27242655 CCAAAAT
1 CCAAAAT
27242662 GACTCAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (12 bp):
CCAAAATCATAA
Found at i:27243179 original size:28 final size:29
Alignment explanation
Indices: 27243148--27243202 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
27243138 ATTCAAAATT
27243148 CTGATAT-CATGGCCCGAAGCCAAATCAA
1 CTGATATGCATGGCCCGAAGCCAAATCAA
* *
27243176 CTGATATGCATGGCCTGAAGGCAAATC
1 CTGATATGCATGGCCCGAAGCCAAATC
27243203 GGTTTATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (29 bp):
CTGATATGCATGGCCCGAAGCCAAATCAA
Found at i:27243248 original size:38 final size:38
Alignment explanation
Indices: 27243197--27243272 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
27243187 GGCCTGAAGG
*
27243197 CAAATCGGTTTATCTTGCACCCGAAGTGATATATCAAA
1 CAAATCGGTTTATCTCGCACCCGAAGTGATATATCAAA
*
27243235 CAAATCGGTTTATCTCGCACCCGAAGTGCTATATCAAA
1 CAAATCGGTTTATCTCGCACCCGAAGTGATATATCAAA
27243273 GTATCCCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (38 bp):
CAAATCGGTTTATCTCGCACCCGAAGTGATATATCAAA
Found at i:27247070 original size:48 final size:47
Alignment explanation
Indices: 27247018--27247277 Score: 220
Period size: 48 Copynumber: 5.6 Consensus size: 47
27247008 GTCGAGGAAA
* *
27247018 ATGCCATGTCCCAGACATGGTCTTGCACTAGCTCTCGTCTTAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCATAATGCCG
* *
27247066 ATGCCATG-CCCTAGACGTGGTCTTACACT-G-GCTCTCATAAT---G
1 ATGCCATGTCCC-AGACATGGTCTTACACTAGCTCTCTCATAATGCCG
* * * *
27247108 -T--CATGTCCCAGCCATGGTCTTACACTAGCACACAT-ATCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCAT-AATGCCG
* *
27247153 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-ACATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCATA-AT-GCCG
* * * ** *
27247201 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATCGTGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCATAAT-GCCG
27247249 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
27247278 GGCACACATA
Statistics
Matches: 172, Mismatches: 23, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
39 19 0.11
40 4 0.02
41 5 0.03
42 5 0.03
45 7 0.04
46 5 0.03
47 6 0.03
48 121 0.70
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCATAATGCCG
Found at i:27247174 original size:87 final size:87
Alignment explanation
Indices: 27247017--27247189 Score: 240
Period size: 87 Copynumber: 2.0 Consensus size: 87
27247007 TGTCGAGGAA
* * * * * *
27247017 AATGCCATGTCCCAGACATGGTCTTGCACTAGCTCTCGTCTTAATGCCGATGCCATGCCCTAGAC
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGCCCTAGAC
*
27247082 GTGGTCTTACACTGGCTCTCAT
66 ATGGTCTTACACTGGCTCTCAT
* * *
27247104 AATGTCATGTCCCAGCCATGGTCTTACACTAGCACACATATCAATGCTGATGCCATGTCCC-AGA
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATG-CCCTAGA
27247168 CATGGTCTTACACTGGCTCTCA
65 CATGGTCTTACACTGGCTCTCA
27247190 CAACATCGCC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
87 72 0.96
88 3 0.04
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (87 bp):
AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGCCCTAGAC
ATGGTCTTACACTGGCTCTCAT
Found at i:27252366 original size:40 final size:40
Alignment explanation
Indices: 27252272--27252416 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
27252262 TACTCGAATG
*
27252272 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
27252313 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
27252353 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
27252393 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
27252417 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:27263571 original size:14 final size:15
Alignment explanation
Indices: 27263552--27263580 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27263542 TCATGGTTAC
27263552 ATCAAAA-AAAATTA
1 ATCAAAATAAAATTA
27263566 ATCAAAATAAAATTA
1 ATCAAAATAAAATTA
27263581 TAATCCAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
ATCAAAATAAAATTA
Found at i:27272046 original size:46 final size:45
Alignment explanation
Indices: 27271990--27272165 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
27271980 TGTTTGGGCA
*
27271990 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
27272036 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
27272083 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
27272129 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27272166 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:27272145 original size:93 final size:93
Alignment explanation
Indices: 27271986--27272157 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
27271976 AGGATGTTTG
* * *
27271986 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
27272051 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
27272079 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
27272144 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
27272158 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:27277313 original size:41 final size:41
Alignment explanation
Indices: 27277192--27277417 Score: 246
Period size: 41 Copynumber: 5.6 Consensus size: 41
27277182 CTACTCGCTC
* * * *
27277192 AATGCCTTCGGGACATAGCCCAG-ATATAGTAACTCACACAA
1 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCACAC-A
*
27277233 AAT-CCTTCGGGACTTAGCCCGG-ATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCACACA
* *
27277272 AATGCCTCCGGGACTTAGCCTGGAATGTAATAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCACACA
* * *
27277313 AATGCCTTCGGAACTTAGCTCGGAATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCACACA
* * * * * *
27277354 AATGCCTTTGAGACTTAGCCCGGAA-CTAGTCACT-AGCGCAA
1 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCA-CAC-A
27277395 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
27277418 TTATCATCCA
Statistics
Matches: 157, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 55 0.35
41 98 0.62
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCACACA
Found at i:27285407 original size:78 final size:79
Alignment explanation
Indices: 27285268--27285447 Score: 217
Period size: 78 Copynumber: 2.3 Consensus size: 79
27285258 TACTCGTTCA
* * *
27285268 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACTAACCCGGATA
*
27285332 TAGTAAC-TCGCACC
66 TAGTAACTTAGCA-C
**
27285346 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGA-C-TAACCCGGA
* *
27285408 TATGGTCACTTAGCAC
64 TATAGTAACTTAGCAC
*
27285424 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
27285448 CATCATTCGA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
76 21 0.24
77 14 0.16
78 38 0.43
79 15 0.17
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGACTAACCCGGATA
TAGTAACTTAGCAC
Found at i:27285447 original size:40 final size:40
Alignment explanation
Indices: 27285247--27285447 Score: 211
Period size: 38 Copynumber: 5.1 Consensus size: 40
27285237 CGGAATTTAA
** *
27285247 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27285287 CCGGTTATAGTAACTCGCACAAATGCCTTC-GGAC-TAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27285325 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
27285364 CCGGA-ATTAGT-ACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27285403 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27285443 CCGGA
1 CCGGA
27285448 CATCATTCGA
Statistics
Matches: 137, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
37 2 0.01
38 48 0.35
39 32 0.23
40 44 0.32
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27293415 original size:79 final size:81
Alignment explanation
Indices: 27293273--27293455 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
27293263 TACTCGTTCA
* * *
27293273 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGTACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGTACTTAACCCGGA
* *
27293337 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
27293353 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGG-ATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGTA-CTTAACCCGG
* *
27293415 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
27293432 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
27293456 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.67
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGTACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:27293455 original size:40 final size:40
Alignment explanation
Indices: 27293252--27293455 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
27293242 CGGAATTTAA
** *
27293252 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
27293292 CCGGTTATAGTAACTCGCACAAATGCCTTTGGTACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27293332 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
27293371 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27293411 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27293451 CCGGA
1 CCGGA
27293456 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27295224 original size:40 final size:42
Alignment explanation
Indices: 27295149--27295243 Score: 149
Period size: 40 Copynumber: 2.3 Consensus size: 42
27295139 GGCTGTCACA
*
27295149 TAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATAGCAACTA-TCGCACAAATGCCTTCGGGACT
*
27295192 TAGCCCGGATATAGTAACT-T-GCACAAATGCCTTCGGGACT
1 TAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACT
27295232 TAGCCCGGATAT
1 TAGCCCGGATAT
27295244 CATCCGAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
40 32 0.64
41 1 0.02
43 17 0.34
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (42 bp):
TAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACT
Found at i:27299034 original size:93 final size:93
Alignment explanation
Indices: 27298920--27299090 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
27298910 GCCCCTTAGT
** *
27298920 GAACTCGGGTTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
27298984 ACTAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
27299013 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27299078 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27299091 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:27299085 original size:46 final size:46
Alignment explanation
Indices: 27298917--27299087 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
27298907 CCCGCCCCTT
** * *
27298917 AGTGAACTCGGGTTCAACTCAACGAGCTCAGG-CGTTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATA
* * *
27298963 AGTGAACTCGGACTCAACTCAACTAGTTCGGATGCCTAGTT-ACAT-C-TC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATA
*
27299011 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
27299056 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
27299088 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 54 0.52
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
Found at i:27299106 original size:46 final size:44
Alignment explanation
Indices: 27298963--27299106 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
27298953 CGCATCCATA
*
27298963 AGTGAACTCGGACTCAACTCAACTAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
27299010 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
27299056 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
27299102 AGTGA
1 AGTGA
27299107 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:27299544 original size:30 final size:30
Alignment explanation
Indices: 27299510--27299569 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
27299500 ATTTAATACG
27299510 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
27299540 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
27299570 GGCTCGGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:27302475 original size:39 final size:40
Alignment explanation
Indices: 27302392--27302534 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
27302382 CTCGCACAAG
* * * * *
27302392 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
27302432 GCCTTCGGGACTTAGCCCGGAT-TAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
27302471 GCCTTC--GATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
27302511 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27302535 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
37 2 0.02
38 11 0.12
39 27 0.30
40 35 0.39
41 12 0.13
42 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:27305440 original size:52 final size:52
Alignment explanation
Indices: 27305362--27305464 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
27305352 AACACCACTG
27305362 CAGCCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTA
1 CAGCCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTA
*
27305414 CAGCCAATTCCAGATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACT
1 CAGCCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACT
27305465 GCCTCGAAGC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (52 bp):
CAGCCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTA
Found at i:27309872 original size:93 final size:93
Alignment explanation
Indices: 27309765--27309935 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
27309755 GCCCCTAAGT
* *
27309765 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27309830 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
27309858 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27309923 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27309936 TCAACCATCC
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:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:27309932 original size:46 final size:46
Alignment explanation
Indices: 27309760--27309932 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
27309750 AACCCGCCCC
* * *
27309760 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
27309806 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
27309854 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
27309899 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27309933 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:27310388 original size:30 final size:30
Alignment explanation
Indices: 27310354--27310413 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
27310344 ATTTAATACG
27310354 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
27310384 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
27310414 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:27314140 original size:36 final size:37
Alignment explanation
Indices: 27314042--27314185 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
27314032 GCTCGGACGA
** * * *
27314042 AATCTCCACACAAAGTTATCGGGTCTTACCCGGATAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
27314079 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
27314116 AATCTCCACACGT-GTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
27314152 AATCTCCACACGTAGTCATCGGGTCTTACTCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27314186 ATATATTTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
36 36 0.36
37 64 0.64
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:27314456 original size:47 final size:47
Alignment explanation
Indices: 27314394--27315415 Score: 1405
Period size: 47 Copynumber: 21.1 Consensus size: 47
27314384 ACACGTTTCG
* * * **
27314394 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
27314441 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
27314488 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
27314535 CATTGGCCATTAGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
27314582 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
27314635 CATTGGCCATTCGGCCTTATCACACATAGGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
27314682 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
27314733 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
27314780 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
27314827 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
27314878 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
27314925 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
27314972 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
27315023 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
27315070 CATTGGCCATTCGGCCTTATCACACATACGCATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGC--AT----GTTCACATTCATCA
*
27315123 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
27315170 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
27315221 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
27315268 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*** *
27315315 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACTTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
27315366 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
27315413 CAT
1 CAT
27315416 AAAATCCTAA
Statistics
Matches: 879, Mismatches: 64, Indels: 64
0.87 0.06 0.06
Matches are distributed among these distances:
47 568 0.65
49 3 0.00
51 222 0.25
53 86 0.10
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:27314705 original size:22 final size:22
Alignment explanation
Indices: 27314631--27314705 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
27314621 GTTCACATTC
27314631 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
27314653 ATCACACATAGG-CATGTTC-ACATT
1 AT--CACATTGGCCA--TTCGGCCTT
27314677 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
27314700 ATCACA
1 ATCACA
27314706 CATATATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 12 0.30
24 12 0.30
25 5 0.12
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:27314766 original size:98 final size:96
Alignment explanation
Indices: 27314394--27315415 Score: 1395
Period size: 98 Copynumber: 10.5 Consensus size: 96
27314384 ACACGTTTCG
* * *
27314394 CATTAGCCATTCGGCCTTA-C-CACATATAT-TCATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATACATATC-GGTTCACATTCATCACATTGGCCATTCGGC
* * *
27314456 CTTATCTCATATATGCATGTTCACATTCATCA
65 CTTATCACACATACGCATGTTCACATTCATCA
* ** *
27314488 CATTGGCCATCCGGCCTTATCACACATACGCAT--GTTCACATTCATCACATTGGCCATTAGGCC
1 CATTGGCCATTCGGCCTTATCACACATACATATCGGTTCACATTCATCACATTGGCCATTCGGCC
27314551 TTATCACACATACGCATGTTCACATTCATCA
66 TTATCACACATACGCATGTTCACATTCATCA
* *
27314582 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CACATACATAT-C-GGTTCACATTCATCACATTGGCCATTC
*
27314647 GGCCTTATCACACATAGGCATGTTCACATTCATCA
62 GGCCTTATCACACATACGCATGTTCACATTCATCA
*
27314682 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACATAT-C-GGTTCACATTCATCACATTGGCCATTCGG
*
27314747 CCTTATCACACATACGCATGTTCACATCCATCA
64 CCTTATCACACATACGCATGTTCACATTCATCA
* **
27314780 CAGTGGCCATTCGGCCTTATCACACATACGCAT--GTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGGCCTTATCACACATACATATCGGTTCACATTCATCACATTGGCCATTCGGCC
***
27314843 TTATCACACATATATATACGGGTTCACATTCATCA
66 TTATCACACATACGCAT----GTTCACATTCATCA
** * *
27314878 CATTGGCCATTCGGCCTTATCACACATACGCAT--GTTCACATCCATCACAGTGGCCATTCGGCC
1 CATTGGCCATTCGGCCTTATCACACATACATATCGGTTCACATTCATCACATTGGCCATTCGGCC
27314941 TTATCACACATACGCATGTTCACATTCATCA
66 TTATCACACATACGCATGTTCACATTCATCA
*
27314972 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACATAT-C-GGTTCACATTCATCACATTGGCCATTCGG
27315037 CCTTATCACACATACGCATGTTCACATTCATCA
64 CCTTATCACACATACGCATGTTCACATTCATCA
27315070 CATTGGCCATTCGGCCTTATCACACATACGCATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCACACATA--CATAT-C-GGTTCACATTCATCACATTGGCCATTC
*
27315135 GGCCTTATCACACATACACATGTTCACATTCATCA
62 GGCCTTATCACACATACGCATGTTCACATTCATCA
*
27315170 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACATAT-C-GGTTCACATTCATCACATTGGCCATTCGG
*
27315235 CCTTATCACACATACGCATGTTCACATCCATCA
64 CCTTATCACACATACGCATGTTCACATTCATCA
* **
27315268 CAGTGGCCATTCGGCCTTATCACACATACGCAT--GTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGGCCTTATCACACATACATATCGGTTCACATTCATCACATTGGCCATTCGGCC
*** *
27315331 TTATCACACATATATATACGGGTTCACTTTCATCA
66 TTATCACACATACGCAT----GTTCACATTCATCA
** *
27315366 CATTGGCCATTCGGCCTTATCACACATACGCAT--GTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACATATCGGTTCACATTCATCACAT
27315416 AAAATCCTAA
Statistics
Matches: 848, Mismatches: 57, Indels: 42
0.90 0.06 0.04
Matches are distributed among these distances:
94 227 0.27
95 1 0.00
96 13 0.02
97 1 0.00
98 430 0.51
100 176 0.21
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (96 bp):
CATTGGCCATTCGGCCTTATCACACATACATATCGGTTCACATTCATCACATTGGCCATTCGGCC
TTATCACACATACGCATGTTCACATTCATCA
Found at i:27314813 original size:145 final size:142
Alignment explanation
Indices: 27314394--27315415 Score: 1435
Period size: 145 Copynumber: 7.0 Consensus size: 142
27314384 ACACGTTTCG
*
27314394 CATTAGCCATTCGGCCTTA-C-CACATATAT-TCATGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATC--GTTCACATTCATCACATTGGCCATTCGGC
* * *
27314456 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCAT
64 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
27314521 GTTCACATTCATCA
129 GTTCACATTCATCA
* ***
27314535 CATTGGCCATTAGGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
* * * *
27314599 TATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAG
66 TATCA--C----ACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
27314664 GCATGTTCACATTCATCA
125 GCATGTTCACATTCATCA
27314682 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-C--GTTCACATTCATCACATTGGCCATTCGG
* * *
27314747 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
63 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
27314812 TGTTCACATTCATCA
128 TGTTCACATTCATCA
27314827 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-C--GTTCACATTCATCACATTGGCCATTCGG
* * *
27314892 CCTTATCACACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
63 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
27314957 TGTTCACATTCATCA
128 TGTTCACATTCATCA
27314972 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-C--GTTCACATTCATCACATTGGCCATTCGG
*
27315037 CCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
63 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC-
27315102 TATACAGGTTCACATTCATCA
127 -AT----GTTCACATTCATCA
* *
27315123 CATTGGCCATTCGGCCTTATCACACATACACAT-GTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
**
27315187 TATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
66 TATCACACATATGCAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
*
27315252 ATGTTCACATCCATCA
127 ATGTTCACATTCATCA
* ***
27315268 CAGTGGCCATTCGGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
** *
27315332 TATCACACATATATATACGGGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACGC
66 TATCACACATATGCAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
*
27315397 ATGTTCACATCCATCA
127 ATGTTCACATTCATCA
27315413 CAT
1 CAT
27315416 AAAATCCTAA
Statistics
Matches: 825, Mismatches: 33, Indels: 42
0.92 0.04 0.05
Matches are distributed among these distances:
141 52 0.06
142 1 0.00
143 7 0.01
144 1 0.00
145 493 0.60
147 142 0.17
149 3 0.00
151 126 0.15
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
TATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
TCACATTCATCA
Found at i:27317726 original size:85 final size:85
Alignment explanation
Indices: 27317597--27317775 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
27317587 TATTTTATTG
*
27317597 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
27317662 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
27317682 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
27317747 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
27317767 CCCATGCTC
1 CCCATGCTC
27317776 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:27322102 original size:26 final size:26
Alignment explanation
Indices: 27322073--27322132 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
27322063 TCCCTTTGAA
* *
27322073 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTTGCACACTAAGTG
27322099 TCATTCTCAATATCTTGCACACTAAGTG
1 TCA-T-TCAATATCTTGCACACTAAGTG
*
27322127 CCATTC
1 TCATTC
27322133 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTTGCACACTAAGTG
Found at i:27322116 original size:28 final size:28
Alignment explanation
Indices: 27322080--27322139 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
27322070 GAATCATTCG
* *
27322080 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATCTTGCACACTAAGTGCCATTCTCA
27322108 ATATCTTGCACACTAAGTGCCATTCTCA
1 ATATCTTGCACACTAAGTGCCATTCTCA
27322136 ATAT
1 ATAT
27322140 TTCGTACACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (28 bp):
ATATCTTGCACACTAAGTGCCATTCTCA
Found at i:27322158 original size:28 final size:28
Alignment explanation
Indices: 27322080--27322158 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
27322070 GAATCATTCG
* **
27322080 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATCTTGCACACTAAGTACCATTCTCA
*
27322108 ATATCTTGCACACTAAGTGCCATTCTCA
1 ATATCTTGCACACTAAGTACCATTCTCA
* *
27322136 ATAT-TTCGTACACTGAGTACCAT
1 ATATCTT-GCACACTAAGTACCAT
27322159 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
27 2 0.04
28 43 0.96
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
ATATCTTGCACACTAAGTACCATTCTCA
Found at i:27324183 original size:96 final size:96
Alignment explanation
Indices: 27324019--27324328 Score: 347
Period size: 96 Copynumber: 3.2 Consensus size: 96
27324009 GTGAATTGAT
* * * * * *
27324019 GATGCCATGTTCC-AAACATGGTCTTACACTTGCTCACAT-GTAGAGGCCGATGCCATGTCCCAG
1 GATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATAATA-TGGCTGATGCCATGTCCCAG
* *
27324082 ACATGGTCTTACACTAGCTCTCGTCTCAATGCC
64 ACATGGTCTTACACTAGCTCTCATATCAATGCC
* *
27324115 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTATAATATGGCTGATGCCATGTCCCAGAC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATATGGCTGATGCCATGTCCCAGAC
* * * *
27324180 ATGGTCTTACACTAGCACACATATCAATACT
66 ATGGTCTTACACTAGCTCTCATATCAATGCC
* * * * * * *
27324211 GATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCACAACATCGCTGATTCCATGTTCCAAAC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATATGGCTGATGCCATGTCCCAGAC
* * *
27324276 ATGGTCTTACACTGGCTCTCATATC-GTGGTC
66 ATGGTCTTACACTAGCTCTCATATCAAT-GCC
*
27324307 GATGCCATGTCCCAGACATGGT
1 GATGCCATGTCCTAGACATGGT
27324329 ACTAAACTGG
Statistics
Matches: 180, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
95 4 0.02
96 174 0.97
97 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (96 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATATGGCTGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATATCAATGCC
Found at i:27324278 original size:144 final size:143
Alignment explanation
Indices: 27324018--27324328 Score: 371
Period size: 144 Copynumber: 2.2 Consensus size: 143
27324008 GGTGAATTGA
* * * * * *
27324018 TGATGCCATGTTCCAAACATGGTCTTACACTTGCTCACATGTAGAGGCCGATGCCATGTCCCAGA
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATAGAGACCGATGCCATGTCCCAGA
* * *
27324083 CATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
66 CATGGTCTTACACTAGCTCTCGACACAATGCCGATGCCATGTCCTAAACATGGTCTTACACTGGC
*
27324148 TCTTATAAT-ATGG
131 TCTCAT-ATCATGG
* * * *
27324161 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA-ATACTGATGTCATGTCCTA
1 -TGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT-AGAGACCGATGCCATGTCCCA
* *
27324225 GACATGGTCTTACACTAGCTCTC-ACA-ACATCGCTGATTCCATGTTCC-AAACATGGTCTTACA
64 GACATGGTCTTACACTAGCTCTCGACACA-AT-GCCGATGCCATG-TCCTAAACATGGTCTTACA
*
27324287 CTGGCTCTCATATCGTGG
126 CTGGCTCTCATATCATGG
27324305 TCGATGCCATGTCCCAGACATGGT
1 T-GATGCCATGTCCCAGACATGGT
27324329 ACTAAACTGG
Statistics
Matches: 144, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
142 1 0.01
143 6 0.04
144 133 0.92
145 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (143 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATAGAGACCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCGACACAATGCCGATGCCATGTCCTAAACATGGTCTTACACTGGC
TCTCATATCATGG
Found at i:27324339 original size:48 final size:47
Alignment explanation
Indices: 27324019--27324328 Score: 293
Period size: 48 Copynumber: 6.5 Consensus size: 47
27324009 GTGAATTGAT
* * * * * *
27324019 GATGCCATGTTCCAAACATGGTCTTACACTTGCTCACATGT-AGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA-TGG-C
* * *
27324067 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGC
* * *
27324115 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTATAAT-ATGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGC
* * *
27324162 TGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAT-AC
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGC
* * * * *
27324210 TGATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCACAACATCGC
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGC
* * * * *
27324258 TGATTCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGTC
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGG-C
27324307 GATGCCATGTCCCAGACATGGT
1 GATGCCATGTCCCAGACATGGT
27324329 ACTAAACTGG
Statistics
Matches: 214, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
47 8 0.04
48 200 0.93
49 5 0.02
50 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGC
Found at i:27330475 original size:47 final size:46
Alignment explanation
Indices: 27330363--27330626 Score: 211
Period size: 46 Copynumber: 5.7 Consensus size: 46
27330353 GGTAAGATGT
* * *
27330363 CGATGCCATGTCCCAGACACAGTCTTACACGGGC-TCATATC-TCAAGT
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTCATATCGT--AGC
* * *
27330410 CGATGCCATGTCCTAGACACGGTCTTACACTGACTATCATATCGTAGC
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCT-TCATATCGTAGC
* *
27330458 CGATG-CATATCCCAGACATGTCTTACACTGGCTTACGTATCG-AGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTT-CATATCGTA-GC
* * * *
27330504 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTTCGTCTC-AATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGC-TTCATATCGTA-GC
* * * *
27330550 CGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-ATCGTAGC
*
27330598 CGATG-CATGTCCCAAACATGTCTTACACT
1 CGATGCCATGTCCCAGACATGTCTTACACT
27330627 AGCTCACAAA
Statistics
Matches: 183, Mismatches: 22, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
45 2 0.01
46 73 0.40
47 71 0.39
48 28 0.15
49 8 0.04
50 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTCATATCGTAGC
Found at i:27336713 original size:29 final size:29
Alignment explanation
Indices: 27336679--27336764 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 29
27336669 TCGTTTTATT
*
27336679 TTACCCTAACCTCTTTAATTCTTTTACAA
1 TTACCCTAACATCTTTAATTCTTTTACAA
* **
27336708 TTACCCTAA-AT-TTT--CT-TTTTA-TT
1 TTACCCTAACATCTTTAATTCTTTTACAA
*
27336731 TTACCCTAACTTCTTTAATTC-TTTACAA
1 TTACCCTAACATCTTTAATTCTTTTACAA
27336759 TTACCC
1 TTACCC
27336765 AAAATTTTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 13
0.67 0.12 0.20
Matches are distributed among these distances:
23 9 0.21
24 6 0.14
25 4 0.09
27 8 0.19
28 7 0.16
29 9 0.21
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (29 bp):
TTACCCTAACATCTTTAATTCTTTTACAA
Found at i:27336729 original size:52 final size:51
Alignment explanation
Indices: 27336672--27336776 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 51
27336662 TATGTCATCG
*
27336672 TTTTATTTTACCCTAACCTCTTTAATTCTTTTACAATTACCCTAAATTTTCT
1 TTTTATTTTACCCTAACCTCTTTAATTC-TTTACAATTACCCAAAATTTTCT
*
27336724 TTTTATTTTACCCTAACTTCTTTAATTCTTTACAATTACCCAAAATTTTCT
1 TTTTATTTTACCCTAACCTCTTTAATTCTTTACAATTACCCAAAATTTTCT
27336775 TT
1 TT
27336777 CTCTCCACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 24 0.47
52 27 0.53
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (51 bp):
TTTTATTTTACCCTAACCTCTTTAATTCTTTACAATTACCCAAAATTTTCT
Found at i:27338700 original size:42 final size:43
Alignment explanation
Indices: 27338607--27338764 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
27338597 AACGTCCCAA
* * * *
27338607 ACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAG
1 ACATGGTCTTACACGAAATCACATATCGATGCCAATGTCCTAG
* *
27338650 ACAGGGTCTTACACGAAATCACATA-CGAAGCCAATGTCCTAG
1 ACATGGTCTTACACGAAATCACATATCGATGCCAATGTCCTAG
* * * *
27338692 ACATGGTCTTACACGTAAATCTCAAATCGATGCCAACGTCCCA-
1 ACATGGTCTTACACG-AAATCACATATCGATGCCAATGTCCTAG
* * *
27338735 AAAGTGGTCTTACACGATATCACATCTCGA
1 ACA-TGGTCTTACACGAAATCACATATCGA
27338765 AATCATATGT
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.31
43 41 0.43
44 25 0.26
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ACATGGTCTTACACGAAATCACATATCGATGCCAATGTCCTAG
Found at i:27341294 original size:50 final size:49
Alignment explanation
Indices: 27341115--27341344 Score: 223
Period size: 50 Copynumber: 4.6 Consensus size: 49
27341105 ATTGTGAATA
* * *
27341115 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCATACTG-TTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-A-TGATTAGGT
* * * * * *
27341165 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAATGA-TTAGGT
*
27341216 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-ATGATTAGGT
* * *
27341266 CACGTGTGCAGTACTAAGTGCAGACTACTACGTGTATCGGATTG-TT-GGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC--AATGATTAGGT
* * **
27341315 CGCATGTGTAGTAAAAAGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
27341345 TTCGTATCAA
Statistics
Matches: 148, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
49 29 0.20
50 75 0.51
51 43 0.29
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATGATTAGGT
Found at i:27348666 original size:50 final size:50
Alignment explanation
Indices: 27348589--27348818 Score: 216
Period size: 50 Copynumber: 4.6 Consensus size: 50
27348579 ATTGTGAATA
* * * *
27348589 CACATGTATACTACTAAGTGCAAGCTACTACGTGTACCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
* * * **
27348639 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGT
* * * * *
27348690 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGA-TGGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGT
* * * * *
27348740 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
*
27348789 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
27348819 TGCGTATCAG
Statistics
Matches: 150, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 33 0.22
50 74 0.49
51 34 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
Found at i:27348948 original size:27 final size:26
Alignment explanation
Indices: 27348918--27348969 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
27348908 GGGAAAATCG
27348918 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
27348945 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
27348970 GTTTCTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:27356885 original size:42 final size:42
Alignment explanation
Indices: 27356823--27356988 Score: 165
Period size: 42 Copynumber: 3.9 Consensus size: 42
27356813 TAGGGTTATG
* *
27356823 TGTGATTTCGTGTAATACCATATCTGGGATATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
* * *
27356865 TGTGATTTCGTGTAAGACCATGTCTAGGACATGGTATCGATA
1 TGTGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
* * * * *
27356907 TGGGACATT-GTGTAAGCCCATATCTGGGCTATCGGCATCGATA
1 TGTGA-TTTCGTGTAAGACCATATCTAGGATAT-GGCATCGATA
* *
27356950 TTTGTGA-TCCTATGTAAGACCATATCTAGGATATGGCAT
1 --TGTGATTTC-GTGTAAGACCATATCTAGGATATGGCAT
27356989 TGGCATCTTA
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 59 0.60
43 12 0.12
44 5 0.05
45 23 0.23
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:27358387 original size:49 final size:49
Alignment explanation
Indices: 27358257--27358387 Score: 181
Period size: 49 Copynumber: 2.6 Consensus size: 49
27358247 AAATATGCAA
* * * *
27358257 GATCAAATATATCATCACATAAATACTTACCCATATGTCCAAATATACGAG
1 GATC-AATATATCATCACATAAATACTTA-CCTTATGACCAAATACACAAG
* *
27358308 GTTCAATATATCATCACATAAATACTTACCTTATGACCGAATACACAAG
1 GATCAATATATCATCACATAAATACTTACCTTATGACCAAATACACAAG
*
27358357 GATCAATATATCATCACATAAATACCTACCT
1 GATCAATATATCATCACATAAATACTTACCT
27358388 ACATAGCCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 45 0.62
50 24 0.33
51 3 0.04
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (49 bp):
GATCAATATATCATCACATAAATACTTACCTTATGACCAAATACACAAG
Done.