Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 17 of 145
Found at i:5538400 original size:5 final size:5
Alignment explanation
Indices: 5538378--5538412 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
5538368 TTAAGTTCAA
5538378 TATAT ATATAT ATATAT TATAT TATAT TATAT TAT
1 TATAT -TATAT -TATAT TATAT TATAT TATAT TAT
5538413 TAAACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:5547102 original size:44 final size:44
Alignment explanation
Indices: 5546995--5547114 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 44
5546985 AGCAAATATT
* * *
5546995 ATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACAAATCTC
* *
5547039 ATCTCCCTGTAGTTACAGTGGAGCAGATTAAAGCGACAAATC-C
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACAAATCTC
*
5547082 TATAC-CTCTGAAGTTGCAGTGG-GTCAGATTAAA
1 -AT-CTCCCTGAAGTTGCAGTGGAG-CAGATTAAA
5547115 TCTACCATAG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 62 0.95
45 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACAAATCTC
Found at i:5549813 original size:45 final size:45
Alignment explanation
Indices: 5549743--5549849 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
5549733 GTAACGGTAG
* *
5549743 CAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGTTGAAT
1 CAGTAACAGTAACAGTAACAATATTCAACACACAAAGTATCGAAT
* * **
5549788 CTGTAACAGTAAC-GATAACAGTATTCAACACATGAAGTATCGAAT
1 CAGTAACAGTAACAG-TAACAATATTCAACACACAAAGTATCGAAT
5549833 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
5549850 GTCAGCACAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 1 0.02
45 51 0.96
46 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAATATTCAACACACAAAGTATCGAAT
Found at i:5551128 original size:42 final size:43
Alignment explanation
Indices: 5551067--5551176 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
5551057 GACTAGGGAT
* *
5551067 TTACGTGTAAGACCATGTCTGGGACATTGACATCG-TATATGA
1 TTACGTGTAACACCATGTCTGGGACAATGACATCGTTATATGA
* *
5551109 TTACGTGTAACACTC-TGTCTGGGACAATGGCATCGTTATTTGA
1 TTACGTGTAACAC-CATGTCTGGGACAATGACATCGTTATATGA
** * *
5551152 TTAAATGTAAGACCACGTCTGGGAC
1 TTACGTGTAACACCATGTCTGGGAC
5551177 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
42 31 0.54
43 26 0.46
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TTACGTGTAACACCATGTCTGGGACAATGACATCGTTATATGA
Found at i:5551172 original size:43 final size:42
Alignment explanation
Indices: 5551028--5551176 Score: 122
Period size: 42 Copynumber: 3.5 Consensus size: 42
5551018 TGTGATTTTG
** * * **
5551028 TGTAAGACCATGTCTGGGACGTTGGCATCG-ACTAGGGATTTACG
1 TGTAAGACCATGTCTGGGACAATGACATCGTA-TA-TGA-TTAAA
* **
5551072 TGTAAGACCATGTCTGGGACATTGACATCGTATATGATTACG
1 TGTAAGACCATGTCTGGGACAATGACATCGTATATGATTAAA
* * *
5551114 TGTAACACTC-TGTCTGGGACAATGGCATCGTTATTTGATTAAA
1 TGTAAGAC-CATGTCTGGGACAATGACATCG-TATATGATTAAA
*
5551157 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
5551177 GTTGGCATTG
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 31 0.34
43 28 0.31
44 30 0.33
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAATGACATCGTATATGATTAAA
Found at i:5551183 original size:43 final size:42
Alignment explanation
Indices: 5551027--5551184 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
5551017 ATGTGATTTT
* *
5551027 GTGTAAGACCATGTCTGGGACGTTGGCATCG-ACTAGGGATTTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTA-TA-TGA-TTAC
*
5551071 GTGTAAGACCATGTCTGGGACATTGACATCGTATATGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTAC
* * * *
5551113 GTGTAACACTC-TGTCTGGGACAATGGCATCGTTATTTGATTAA
1 GTGTAAGAC-CATGTCTGGGACATTGGCATCG-TATATGATTAC
* * *
5551156 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACATTGGCAT
5551185 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
42 31 0.32
43 34 0.35
44 31 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTAC
Found at i:5555937 original size:22 final size:22
Alignment explanation
Indices: 5555908--5555959 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
5555898 AAACAAATAT
*
5555908 TCTCTCAATTTCCTTC-CAAAA
1 TCTCTCAATTTCCTTCAAAAAA
5555929 TCCTCTCAATTTCCTTCAAAAAA
1 T-CTCTCAATTTCCTTCAAAAAA
5555952 TCTCTCAA
1 TCTCTCAA
5555960 ATCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.79
23 5 0.18
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.37
Consensus pattern (22 bp):
TCTCTCAATTTCCTTCAAAAAA
Found at i:5556058 original size:29 final size:29
Alignment explanation
Indices: 5555997--5556058 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
5555987 AATTTCATTT
* * *
5555997 TTTTAAAGAAAATTTTAAATATTTTTATT
1 TTTTAAAGAAAATTTTAAAAATTTTAATA
5556026 TTTTAAA-AATAATTTTAAAAATTTTAATA
1 TTTTAAAGAA-AATTTTAAAAATTTTAATA
5556055 TTTT
1 TTTT
5556059 CAACAATGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTTAAAGAAAATTTTAAAAATTTTAATA
Found at i:5556058 original size:31 final size:29
Alignment explanation
Indices: 5555995--5556050 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
5555985 TCAATTTCAT
*
5555995 TTTTTTAAAGAAAATTTTAAATATTTTTA
1 TTTTTTAAAGAAAATTTTAAAAATTTTTA
5556024 TTTTTTAAA-AATAATTTTAAAAATTTT
1 TTTTTTAAAGAA-AATTTTAAAAATTTT
5556051 AATATTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTTTTAAAGAAAATTTTAAAAATTTTTA
Found at i:5556178 original size:14 final size:15
Alignment explanation
Indices: 5556149--5556182 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5556139 AAATTTTAAA
5556149 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
5556164 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
5556178 TTTTA
1 TTTTA
5556183 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:5558210 original size:29 final size:29
Alignment explanation
Indices: 5558158--5558413 Score: 496
Period size: 29 Copynumber: 8.9 Consensus size: 29
5558148 TTTTGATATT
*
5558158 ATTTGATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
5558186 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
5558215 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
5558244 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
5558273 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
5558302 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
5558331 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
5558360 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
5558389 ATTTAATTAAAAACCCTAACCCTAA
1 ATTTAATTAAAAACCCTAACCCTAA
5558414 NNNNNNNNNN
Statistics
Matches: 226, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
28 18 0.08
29 208 0.92
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:5559007 original size:29 final size:29
Alignment explanation
Indices: 5558910--5559004 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 29
5558900 NNNNNNNNNN
***
5558910 ATTAAAAACCCTAACCCTAGTTTAATTTA
1 ATTAAAAACCCTAACCCTAAACTAATTTA
* * *
5558939 ATTAAAAACCCTAACCCTAACCCATTTTA
1 ATTAAAAACCCTAACCCTAAACTAATTTA
5558968 ATTAAAAACCCTAACCCTAAACTAATTTA
1 ATTAAAAACCCTAACCCTAAACTAATTTA
5558997 AGTTAAAA
1 A-TTAAAA
5559005 CCCATTTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 51 0.89
30 6 0.11
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.29
Consensus pattern (29 bp):
ATTAAAAACCCTAACCCTAAACTAATTTA
Found at i:5560954 original size:16 final size:16
Alignment explanation
Indices: 5560933--5560966 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5560923 TGAAATATAA
5560933 TATATAAACTCAAAAT
1 TATATAAACTCAAAAT
* *
5560949 TATATAAATTCAACAT
1 TATATAAACTCAAAAT
5560965 TA
1 TA
5560967 ATTAGATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (16 bp):
TATATAAACTCAAAAT
Found at i:5566318 original size:77 final size:79
Alignment explanation
Indices: 5566227--5566382 Score: 298
Period size: 77 Copynumber: 2.0 Consensus size: 79
5566217 ATGCATTTTT
5566227 TATTTTACCATTATTATTTTATTATTCATATTAATATTATGATAGTAATTATAACATTATTATCG
1 TATTTTACCATTATTATTTTATTATTCATATTAATATTATGATAGTAATTATAACATTATTATCG
5566292 -T-TTAGTACTATA
66 TTATTAGTACTATA
5566304 TATTTTACCATTATTATTTTATTATTCATATTAATATTATGATAGTAATTATAACATTATTATCG
1 TATTTTACCATTATTATTTTATTATTCATATTAATATTATGATAGTAATTATAACATTATTATCG
5566369 TTATTAGTACTATA
66 TTATTAGTACTATA
5566383 AATTGATGTT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
77 65 0.84
78 1 0.01
79 11 0.14
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (79 bp):
TATTTTACCATTATTATTTTATTATTCATATTAATATTATGATAGTAATTATAACATTATTATCG
TTATTAGTACTATA
Found at i:5571581 original size:19 final size:18
Alignment explanation
Indices: 5571541--5571584 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
5571531 TTCATTCATT
**
5571541 TTTCATTCATAGCATTTCA
1 TTTCA-TCATAGCATTAAA
5571560 TTTCATCATATGCATTAAA
1 TTTCATCATA-GCATTAAA
5571579 TTTCAT
1 TTTCAT
5571585 AAAAAGACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.48
Consensus pattern (18 bp):
TTTCATCATAGCATTAAA
Found at i:5577467 original size:94 final size:95
Alignment explanation
Indices: 5577304--5577498 Score: 254
Period size: 94 Copynumber: 2.1 Consensus size: 95
5577294 AAGTAAAACC
* *
5577304 ACAAA-CCATATACCCCTGAAGTTATAGTGGGTCGGATTGAAGTCATAATAACAAATCTTATCTC
1 ACAAATCCATATACCCATGAAGTTACAGTGGGTCGGATTGAAGTCATAATAACAAATCTTATCTC
* *
5577368 TCTGAAGTTGCAATAGAGCAGATTGAAGCT
66 CCTGAAGTTGCAATAGAACAGATTGAAGCT
* * *
5577398 ACAAATCC-TATACCCATGAAGTTGCAGTGGGTCGGATTG-AGTC-TACCATAGCGAATCTTATC
1 ACAAATCCATATACCCATGAAGTTACAGTGGGTCGGATTGAAGTCATA--ATAACAAATCTTATC
* * *
5577460 TCCCTGAAGTTGTAGTGGAACAGATTGAAGCT
64 TCCCTGAAGTTGCAATAGAACAGATTGAAGCT
5577492 ACAAATC
1 ACAAATC
5577499 TTATCTCTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
92 2 0.02
93 4 0.05
94 80 0.91
95 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (95 bp):
ACAAATCCATATACCCATGAAGTTACAGTGGGTCGGATTGAAGTCATAATAACAAATCTTATCTC
CCTGAAGTTGCAATAGAACAGATTGAAGCT
Found at i:5577513 original size:94 final size:94
Alignment explanation
Indices: 5577304--5577520 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 94
5577294 AAGTAAAACC
*
5577304 ACAAA-CCATATACCC-CTGAAGTTATAGTGGGTCGGATTGAAGTCATAATAACAAATCTTATCT
1 ACAAATCC-TATACCCAC-GAAGTTACAGTGGGTCGGATTGAAGTCATAATAACAAATCTTATCT
* *
5577367 CTCTGAAGTTGCAATAGAGCAGATTGAAGCT
64 CCCTGAAGTTGCAATAGAACAGATTGAAGCT
* * * *
5577398 ACAAATCCTATACCCATGAAGTTGCAGTGGGTCGGATTG-AGTC-TACCATAGCGAATCTTATCT
1 ACAAATCCTATACCCACGAAGTTACAGTGGGTCGGATTGAAGTCATA--ATAACAAATCTTATCT
* * *
5577461 CCCTGAAGTTGTAGTGGAACAGATTGAAGCT
64 CCCTGAAGTTGCAATAGAACAGATTGAAGCT
*
5577492 ACAAATCTTAT-CTCTC-CGAAGTTACAGTG
1 ACAAATCCTATAC-C-CACGAAGTTACAGTG
5577521 AAGCAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
92 2 0.02
93 5 0.05
94 94 0.90
95 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (94 bp):
ACAAATCCTATACCCACGAAGTTACAGTGGGTCGGATTGAAGTCATAATAACAAATCTTATCTCC
CTGAAGTTGCAATAGAACAGATTGAAGCT
Found at i:5577514 original size:44 final size:43
Alignment explanation
Indices: 5577451--5577609 Score: 153
Period size: 44 Copynumber: 3.6 Consensus size: 43
5577441 TACCATAGCG
5577451 AATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGT-GAACAGATTGAAGCTACA
** * *
5577495 AATCTTATCTCTCC-GAAGTTACAGTGAAGCA-ATTTAAAGCAACA
1 AATCTTATCTC-CCTGAAGTTGTAGTGAA-CAGA-TTGAAGCTACA
* *
5577539 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAAGA-TGCAGCTACA
1 AATCTTATCTCCCTGAAGTTGTAGT-GAAC-AGATTGAAGCTACA
* ** *
5577583 ATTCTTATAGCCCTGAAGTTGCAGTGA
1 AATCTTATCTCCCTGAAGTTGTAGTGA
5577610 GTTGAAATGA
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
43 8 0.09
44 80 0.85
45 5 0.05
46 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGTAGTGAACAGATTGAAGCTACA
Found at i:5578358 original size:17 final size:17
Alignment explanation
Indices: 5578338--5578370 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5578328 TATAAGATAT
5578338 TTATTATTTATTATTAG
1 TTATTATTTATTATTAG
5578355 TTATTATTTATTATTA
1 TTATTATTTATTATTA
5578371 AATTAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATTATTTATTATTAG
Found at i:5586716 original size:151 final size:151
Alignment explanation
Indices: 5586431--5586721 Score: 429
Period size: 151 Copynumber: 1.9 Consensus size: 151
5586421 TTTCACAGGT
* * * *
5586431 CTGCTTACACAAGCTGTCAGTCTTTTGTTACTACTCAGTGCTGCTCACACAAGCTGTCAAGTATC
1 CTGCTCACACAAGCTATCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGTCAAGTATC
* * * *
5586496 CGCAACATATGCCGATATACCCAGCCACTGGTAGAACTTAAGACCAGCACCCGAGTTCACATTAA
66 CGCAACATATGACGATATACCCAGCCACTGGTAGAACTTAAGACCAGCACCAGAATCCACATTAA
*
5586561 TCACAGTTTCGCATCACGGGC
131 TCACAATTTCGCATCACGGGC
* *
5586582 CTGCTCACACAAGCTATTAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGTCAGGTATC
1 CTGCTCACACAAGCTATCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGTCAAGTATC
* * * * * *
5586647 CGCAACATATGACGGTATACCTAGCCACTGGTAGAACTTATGACCAGCGCCAGAATCCACTTTAT
66 CGCAACATATGACGATATACCCAGCCACTGGTAGAACTTAAGACCAGCACCAGAATCCACATTAA
5586712 TCACAATTTC
131 TCACAATTTC
5586722 ACATAGATCT
Statistics
Matches: 123, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
151 123 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (151 bp):
CTGCTCACACAAGCTATCAGTCATTCGTTACTACTCAGTGCTGCTCACACAAGCTGTCAAGTATC
CGCAACATATGACGATATACCCAGCCACTGGTAGAACTTAAGACCAGCACCAGAATCCACATTAA
TCACAATTTCGCATCACGGGC
Found at i:5587819 original size:2 final size:2
Alignment explanation
Indices: 5587814--5587852 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
5587804 TATATATATA
* *
5587814 TG TG TG TG TG TG TG TG TG TG TG TC TG TG TC TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
5587853 AAATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.05, G:0.44, T:0.51
Consensus pattern (2 bp):
TG
Found at i:5589841 original size:20 final size:23
Alignment explanation
Indices: 5589797--5589851 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 23
5589787 GACTATTGCC
*
5589797 ATTAGTATTATGAATTAACATTT
1 ATTATTATTATGAATTAACATTT
5589820 ATTATTATTAT-AATT-ACA-TT
1 ATTATTATTATGAATTAACATTT
5589840 ATTATTATTATG
1 ATTATTATTATG
5589852 GTATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 13 0.43
21 3 0.10
22 4 0.13
23 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (23 bp):
ATTATTATTATGAATTAACATTT
Found at i:5590000 original size:20 final size:23
Alignment explanation
Indices: 5589956--5590010 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 23
5589946 GACTATTGCC
*
5589956 ATTAGTATTATGAATTAACATTT
1 ATTATTATTATGAATTAACATTT
5589979 ATTATTATTAT-AATT-ACA-TT
1 ATTATTATTATGAATTAACATTT
5589999 ATTATTATTATG
1 ATTATTATTATG
5590011 GTATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 13 0.43
21 3 0.10
22 4 0.13
23 10 0.33
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (23 bp):
ATTATTATTATGAATTAACATTT
Found at i:5590004 original size:159 final size:160
Alignment explanation
Indices: 5589741--5590062 Score: 637
Period size: 159 Copynumber: 2.0 Consensus size: 160
5589731 GTTATTACAT
5589741 ATTTTTATTTATTTATTTATTTATTTTGGTATTATGTTAGTGATATGACTATTGCCATTAGTATT
1 ATTTTTATTTATTTATTTATTTATTTTGGTATTATGTTAGTGATATGACTATTGCCATTAGTATT
5589806 ATGAATTAACATTTATTATTATTATAATTACATTATTATTATTATGGTATATATTTATTTATTAT
66 ATGAATTAACATTTATTATTATTATAATTACATTATTATTATTATGGTATATATTTATTTATTAT
5589871 TTATCATTCTAATATAGATG-TTTACCCAC
131 TTATCATTCTAATATAGATGTTTTACCCAC
5589900 ATTTTTATTTATTTATTTATTTATTTTGGTATTATGTTAGTGATATGACTATTGCCATTAGTATT
1 ATTTTTATTTATTTATTTATTTATTTTGGTATTATGTTAGTGATATGACTATTGCCATTAGTATT
5589965 ATGAATTAACATTTATTATTATTATAATTACATTATTATTATTATGGTATATATTTATTTATTAT
66 ATGAATTAACATTTATTATTATTATAATTACATTATTATTATTATGGTATATATTTATTTATTAT
5590030 TTATCATTCTAATATAGATGTTTTACCCAC
131 TTATCATTCTAATATAGATGTTTTACCCAC
5590060 ATT
1 ATT
5590063 GCTATTTTAT
Statistics
Matches: 162, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 150 0.93
160 12 0.07
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.54
Consensus pattern (160 bp):
ATTTTTATTTATTTATTTATTTATTTTGGTATTATGTTAGTGATATGACTATTGCCATTAGTATT
ATGAATTAACATTTATTATTATTATAATTACATTATTATTATTATGGTATATATTTATTTATTAT
TTATCATTCTAATATAGATGTTTTACCCAC
Found at i:5591242 original size:24 final size:24
Alignment explanation
Indices: 5591211--5591258 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
5591201 ATAAAGTGAC
5591211 ATTTTAATTCATTCTATATAAAAT
1 ATTTTAATTCATTCTATATAAAAT
5591235 ATTTTAATTCATTCTATATAAAAT
1 ATTTTAATTCATTCTATATAAAAT
5591259 TATCTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTTAATTCATTCTATATAAAAT
Found at i:5592869 original size:13 final size:13
Alignment explanation
Indices: 5592851--5592876 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5592841 CAACGCTTCT
5592851 CAGACACGTGCCA
1 CAGACACGTGCCA
5592864 CAGACACGTGCCA
1 CAGACACGTGCCA
5592877 ATACCAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.23, T:0.08
Consensus pattern (13 bp):
CAGACACGTGCCA
Found at i:5594384 original size:9 final size:9
Alignment explanation
Indices: 5594366--5594399 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
5594356 ATTATTTTTT
5594366 AAAAAT-TA
1 AAAAATATA
5594374 AAAAATATA
1 AAAAATATA
5594383 AAAAATAT-
1 AAAAATATA
5594391 AAAAATATA
1 AAAAATATA
5594400 TTTTAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 14 0.58
9 10 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATATA
Found at i:5594388 original size:17 final size:17
Alignment explanation
Indices: 5594365--5594399 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5594355 AATTATTTTT
*
5594365 TAAAAATTA-AAAAATA
1 TAAAAAATATAAAAATA
5594381 TAAAAAATATAAAAATA
1 TAAAAAATATAAAAATA
5594398 TA
1 TA
5594400 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAATATAAAAATA
Found at i:5596237 original size:22 final size:23
Alignment explanation
Indices: 5596212--5596267 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
5596202 TATACGAAAG
5596212 TTATAAAATAAAAGTATG-TATA
1 TTATAAAATAAAAGTATGATATA
*
5596234 TTATATAAA-AAATGTATGCATATA
1 TTATA-AAATAAAAGTATG-ATATA
*
5596258 TTTTAAAATA
1 TTATAAAATA
5596268 TGTATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TTATAAAATAAAAGTATGATATA
Found at i:5596765 original size:15 final size:15
Alignment explanation
Indices: 5596726--5596775 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
5596716 AAAAACTGAT
* *
5596726 AATAATAAATAGTAAT
1 AATAATTAATA-TAAA
5596742 AATAA-TAATATAAA
1 AATAATTAATATAAA
5596756 AATAATTAAT-TAAA
1 AATAATTAATATAAA
5596770 CAATAA
1 -AATAA
5596776 AAATGCTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 12 0.40
15 13 0.43
16 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AATAATTAATATAAA
Found at i:5598284 original size:46 final size:44
Alignment explanation
Indices: 5598220--5599615 Score: 585
Period size: 44 Copynumber: 31.9 Consensus size: 44
5598210 TAGGATAGTG
* * *
5598220 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAAAT
1 TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTG-TAT
* * *
5598266 TCTTCGGTCCACTCCACTGTAACCTCAGGGAGATAAGACTTG-A-
1 TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGTAT
* * * *
5598309 --TACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGA-CCTGTAT
* * * * *
5598353 T-TT-AATCCACTCCATTGTAACTTCAAGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * * * *
5598393 GTCTTCGATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGAAAG
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTG-TAT
*
5598440 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-A-
1 TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGTAT
* * * *
5598483 --TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGA-CCTGTAT
* * * *
5598527 TC-T-AATCCACTCCTCTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * * * * *
5598567 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAATATCTGAAAG
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTG-TAT
*
5598614 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-A-
1 TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGTAT
* * * *
5598657 T-GT-GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGA-CCTGTAT
* * *
5598701 TC-T-AATCCACTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * * * *
5598741 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCTGAAAG
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTG-TAT
** *
5598788 TCTTC--TCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * *
5598828 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGTAT
* ** *
5598875 TC-T-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * *
5598915 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGTAT
* ** *
5598962 TC-T-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * *
5599002 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGTAT
* ** *
5599049 TC-T-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * *
5599089 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGTAT
* ** *
5599136 TC-T-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * *
5599176 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGTAT
* ** *
5599223 TC-T-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * *
5599263 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGTAT
* ** *
5599310 TC-T-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * *
5599350 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGTAT
* ** *
5599397 TC-T-AATCCGCTCCACTGTAACTTCAGGGAGATAGGA--T-TAT
1 TCTTCGATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGTAT
* * * *
5599437 GTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGTAT
** ** *
5599484 AT-TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGA--T-TACT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGTA-T
* * * *
5599527 ATCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTG-TAT
* ** * *
5599574 TCTTCGGTCTGTTCCACTATAATCTCAGGGAAATAAGACCTG
1 TCTTCGATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTG
5599616 ACGCGATCTA
Statistics
Matches: 1034, Mismatches: 198, Indels: 236
0.70 0.13 0.16
Matches are distributed among these distances:
40 34 0.03
41 120 0.12
42 23 0.02
43 289 0.28
44 327 0.32
45 11 0.01
46 200 0.19
47 29 0.03
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTACTCCACTGTAACTCAGGGAGATAAGACCTGTAT
Found at i:5598326 original size:87 final size:88
Alignment explanation
Indices: 5598138--5599578 Score: 938
Period size: 87 Copynumber: 16.5 Consensus size: 88
5598128 ACTTGGACGT
* * * *** * *
5598138 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCCGCTCCATTGTAACT
1 GATCTACTCCACTGTAAC-TCAGGGAGATAAGACCTGAAATTCTTCAATCCACTCCACTGTAACT
* * *
5598201 TTAGGGAGATAGGA-TAGTGTCTTC
65 TCAGGGAGATAAGACTA-TGTATTC
* * ** *
5598225 AATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAAATTCTTCGGTCCACTCCACTGTAACC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGAAATTCTTCAATCCACTCCACTGTAACT
*
5598290 TCAGGGAGATAAGACT-TG-ATAC
65 TCAGGGAGATAAGACTATGTATTC
* * ** *
5598312 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATT-TT-AATCCACTCCATTGTAAC
1 GATCTACTCCACTGTAAC-TCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5598374 TTCAAGGAGATAGGATTATGTCTTC
64 TTCAGGGAGATAAGACTATGTATTC
* * * * * ** * *
5598399 GATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGAAATTCTTCAATCCACTCCACTGTAACT
* *
5598464 TCAGGGAGATAAGAC-CTG-ATGC
65 TCAGGGAGATAAGACTATGTATTC
* * ** *
5598486 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTC-T-AATCCACTCCTCTGTAAC
1 GATCTACTCCACTGTAAC-TCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5598548 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * * * * ** * *
5598573 GATCTACCCCGCTGTAACCTCAGGGAGATAATATCTGAAAGTCTTCGGTCTACTCCACTGTAACC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGAAATTCTTCAATCCACTCCACTGTAACT
*
5598638 TCAGGGAGATAAGAC-CTG-ATGT-
65 TCAGGGAGATAAGACTATGTAT-TC
* * **
5598660 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTC-T-AATCCACTCCACTGTAAC
1 GATCTACTCCACTGTAAC-TCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5598722 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * * * *
5598747 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCTGAAAGTCTTC--TCCGCTCCACTGTAACT
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGAAATTCTTCAATCCACTCCACTGTAACT
* * * *
5598810 TCAGGGAGATAGGATTATGTCTTT
65 TCAGGGAGATAAGACTATGTATTC
* * ** *
5598834 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCCGCTCCACTGTAAC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5598896 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * ** *
5598921 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCCGCTCCACTGTAAC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5598983 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * ** *
5599008 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCCGCTCCACTGTAAC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5599070 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * ** *
5599095 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCCGCTCCACTGTAAC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5599157 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * ** *
5599182 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCCGCTCCACTGTAAC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5599244 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * ** *
5599269 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCCGCTCCACTGTAAC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5599331 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * ** *
5599356 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCCGCTCCACTGTAAC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CCTGAAATTCTTCAATCCACTCCACTGTAAC
* * * *
5599418 TTCAGGGAGATAGGATTATGTCTTT
64 TTCAGGGAGATAAGACTATGTATTC
* * * * *
5599443 GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATATT-TT-AATCCGCTCCACTGTAA
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGA-CC-TGAAATTCTTCAATCCACTCCACTGTAA
* * * *
5599506 -TCTCAGGGAGATAGGATTACTATCTTC
63 CT-TCAGGGAGATAAGACTA-TGTATTC
* * *
5599533 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
1 GATCTACTCCACTGTAA-CTCAGGGAGATAAGACCTGAAATTCTTC
5599579 GGTCTGTTCC
Statistics
Matches: 1185, Mismatches: 129, Indels: 77
0.85 0.09 0.06
Matches are distributed among these distances:
85 83 0.07
86 21 0.02
87 891 0.75
88 33 0.03
89 121 0.10
90 36 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (88 bp):
GATCTACTCCACTGTAACTCAGGGAGATAAGACCTGAAATTCTTCAATCCACTCCACTGTAACTT
CAGGGAGATAAGACTATGTATTC
Found at i:5598398 original size:174 final size:176
Alignment explanation
Indices: 5598137--5599567 Score: 1808
Period size: 174 Copynumber: 8.2 Consensus size: 176
5598127 GACTTGGACG
* * * ** * *
5598137 TGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGGTTTTAATCCGCTCCATTGTAACT
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCT-TTATTCTAATCCGCTCCACTGTAACT
* ** * * * *
5598201 TTAGGGAGATAGGA-TAGTGTCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-CCTGAA
65 TCAGGGAGATAGGATTA-TGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTGAA
** * * * * *
5598264 ATTCTTCGGTCCACTCCACTGTAACCTCAGGGAGATAAGACT-TG-ATA
129 ATTCTT-AATCCGCTCCACTGTAACCTCAGGGAGATAGGATTATGTCTT
* * * * * * *
5598311 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCATTGTAACTT
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
* * * * * * *
5598376 CAAGGAGATAGGATTATGTCTTCGATCTGCTCCGCTGTAATCTTAGGGAGATAAGAT-CTGAAAG
66 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTGAAAT
** ** * *
5598440 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATG-C--
131 TCTT-AATCCGCTCCACTGTAACCTCAGGGAGATAGGA--TTATGTCTT
* * * * *
5598486 -GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCACTCCTCTGTAACTT
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
* *
5598550 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAATAT-CTGAAAG
66 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTGAAAT
** ** * ** * *
5598614 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATG
131 TCTT-AATCCGCTCCACTGTAACCTCAGGGAGATAGGATTATGTCTT
* * * *
5598659 TGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCACTCCACTGTAACTT
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
*
5598724 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGAT-CTGAAAG
66 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTGAAAT
* *
5598788 TCTT-CTCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTT
131 TCTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTATGTCTT
* *
5598833 TGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
**
5598898 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTAT
66 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTGAAAT
*
5598962 TC-TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTT
131 TCTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTATGTCTT
* *
5599007 TGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
**
5599072 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTAT
66 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTGAAAT
*
5599136 TC-TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTT
131 TCTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTATGTCTT
* *
5599181 TGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
**
5599246 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTAT
66 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTGAAAT
*
5599310 TC-TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTT
131 TCTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTATGTCTT
* *
5599355 TGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
* *
5599420 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATA
66 CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCC-TGAAA
* *
5599485 TT-TTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTT
130 TTCTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTA-TGTCTT
* * * * * *
5599532 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
1 TGATCTACCCCACTGTAACCTCAGAGAGATAAGATC
5599568 TGAAATTCTT
Statistics
Matches: 1184, Mismatches: 56, Indels: 31
0.93 0.04 0.02
Matches are distributed among these distances:
171 2 0.00
172 27 0.02
173 3 0.00
174 1067 0.90
175 7 0.01
176 39 0.03
177 39 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (176 bp):
TGATCTACCCCACTGTAACCTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTT
CAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTGAAAT
TCTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTATGTCTT
Found at i:5598690 original size:261 final size:259
Alignment explanation
Indices: 5598149--5599567 Score: 1721
Period size: 261 Copynumber: 5.4 Consensus size: 259
5598139 ATCTACTCTA
* * ** * * * *
5598149 CTGTAACTTCAGAGAGATAAGAT-CTGTGGTTTTAATCCGCTCCATTGTAACTTTAGGGAGATAG
1 CTGTAACCTCAGGGAGATAAGATCCT-TTATTCTAATCCACTCCACTGTAACTTCAGGGAGATAG
* * * * * ** **
5598213 GA-TAGTGTCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-CCTGAAATTCTTCGGTCC
65 GATTA-TGTC-T-GATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCC
* * * * * ** * ** * *
5598276 ACTCCACTGTAACCTCAGGGAGATAAGACT-TG-ATACGATCTACTCTACTGTAACTTCAGAGAG
124 GCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAG
* * * * *
5598339 ATAAGATCCTTTATTTTAATCCACTCCATTGTAACTTCAAGGAGATAGGATTATGTCTTCGATCT
189 ATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCT
* *
5598404 GCTCCG
254 ACCCCG
* * ** * ** * *
5598410 CTGTAATCTTAGGGAGATAAGAT-CTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
1 CTGTAACCTCAGGGAGATAAGATCCT-TTATTC-T-AATCCACTCCACTGTAACTTCAGGGAGAT
* * * ** * * *
5598474 AAGACCTGATG-C-GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCAC
63 AGGA--TTATGTCTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGC
*
5598537 TCCTCTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGAT
126 TCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGAT
* ** * ** ** * * ** * *
5598602 AATAT-CTGAAAGTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGTGATC
191 AAGATCCT-TTATTC-T-AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATC
* **
5598664 TACTCTA
253 TACCCCG
* *
5598671 CTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCACTCCACTGTAACTTCAGGGAGATAGG
1 CTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCACTCCACTGTAACTTCAGGGAGATAGG
** * **
5598736 ATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGAT-CTGAAAGTCTTCTCCGCTC
66 ATTATGTC--TGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCT-TTATTCTAATCCGCTC
5598800 CACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAA
128 CACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAA
5598865 GATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCC
193 GATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCC
5598930 CG
258 CG
*
5598932 CTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 CTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCACTCCACTGTAACTTCAGGGAGATAGG
5598997 ATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCC
66 ATTATGTC--TGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCC
5599062 ACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAG
129 ACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAG
5599127 ATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCC
194 ATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCC
5599192 G
259 G
*
5599193 CTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 CTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCACTCCACTGTAACTTCAGGGAGATAGG
5599258 ATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCC
66 ATTATGTC--TGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCC
5599323 ACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAG
129 ACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAG
5599388 ATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCC
194 ATCCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCC
5599453 G
259 G
* *
5599454 CTGTAACCTCAGGGAGATAAGATCCTTTATATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGAT
1 CTGTAACCTCAGGGAGATAAGATCC-TT-TATTCTAATCCACTCCACTGTAACT-TCAGGGAGAT
* * * *
5599518 AGGATTACTATCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
63 AGGATTA-TGTC-T-GATCTACCCCGCTGTAACCTCAGGGAGATAAGATC
5599568 TGAAATTCTT
Statistics
Matches: 1017, Mismatches: 115, Indels: 49
0.86 0.10 0.04
Matches are distributed among these distances:
257 4 0.00
258 1 0.00
259 84 0.08
260 11 0.01
261 770 0.76
262 16 0.02
263 92 0.09
264 36 0.04
265 2 0.00
266 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (259 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCACTCCACTGTAACTTCAGGGAGATAGG
ATTATGTCTGATCTACCCCGCTGTAACCTCAGGGAGATAAGATCCTTTATTCTAATCCGCTCCAC
TGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCGCTGTAACCTCAGGGAGATAAGAT
CCTTTATTCTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATGTCTTTGATCTACCCCG
Found at i:5599782 original size:87 final size:87
Alignment explanation
Indices: 5599658--5600090 Score: 562
Period size: 87 Copynumber: 5.0 Consensus size: 87
5599648 TAAGATCCTT
* * * * * * * * * * *
5599658 TCTTCAATCAGCTTCATTGCAACCAATAGAGGCAAGGCTTTGTTTTCGATCTACTTTGTTGTTAA
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
*
5599723 CGCAGGAAGGCAAGATCTGCTA
66 CGCAGGAAGGCCAGATCTGCTA
*
5599745 TCTTCAATCAACTCCACTACAACCGATGGAGATAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
*
5599810 CGCAAGAAGGCCAGATCTGCTA
66 CGCAGGAAGGCCAGATCTGCTA
*
5599832 TCTTCAATCAACTCCACTACAACCGATGGATACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
*
5599897 CGCAGGAATGCCAGATCTGCTA
66 CGCAGGAAGGCCAGATCTGCTA
5599919 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
5599984 CGCAGGAAGGCCAGATCTGCTA
66 CGCAGGAAGGCCAGATCTGCTA
* * ** ** * * * * * *
5600006 TCTTTAACCAGTTCCACCGCAACCGATGAAGACAAAGC-TTGTATCTTCGATCTGCTTCACTATC
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTT
* * *
5600070 AAGGCAGGACGGCAAGATCTG
64 AACGCAGGAAGGCCAGATCTG
5600091 TTGTCTTTGA
Statistics
Matches: 309, Mismatches: 35, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
86 4 0.01
87 272 0.88
88 33 0.11
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (87 bp):
TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
CGCAGGAAGGCCAGATCTGCTA
Found at i:5599882 original size:42 final size:42
Alignment explanation
Indices: 5599834--5599969 Score: 98
Period size: 42 Copynumber: 3.2 Consensus size: 42
5599824 ATCTGCTATC
5599834 TTCAATCAACTCCACTACAACCGATGGATACAAGGCTTTGTT
1 TTCAATCAACTCCACTACAACCGATGGATACAAGGCTTTGTT
** * * ** * * * *
5599876 TTCAATCTGCTTCGCTGTTAA-CGCA-GGAATGCCA-GATCTGCTAT
1 TTCAATCAACTCCACT-ACAACCG-ATGG-ATACAAGGCTTTG-T-T
*
5599920 CTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTT
1 -TTCAATCAACTCCACTACAACCGATGGATACAAGGCTTTGTT
5599963 TTCAATC
1 TTCAATC
5599970 TGCTTCGCTG
Statistics
Matches: 64, Mismatches: 21, Indels: 18
0.62 0.20 0.17
Matches are distributed among these distances:
42 27 0.42
43 9 0.14
44 8 0.12
45 20 0.31
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
TTCAATCAACTCCACTACAACCGATGGATACAAGGCTTTGTT
Found at i:5602202 original size:6 final size:6
Alignment explanation
Indices: 5602191--5602234 Score: 70
Period size: 6 Copynumber: 7.0 Consensus size: 6
5602181 TGACCTCTCC
5602191 TTTTCT TTTTCT TTTTCT TTTTCTT TTTTCT TCTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT T-TTTCT TTTTCT
5602235 CCTATTTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 24 0.67
7 12 0.33
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:5602233 original size:13 final size:12
Alignment explanation
Indices: 5602191--5602234 Score: 70
Period size: 13 Copynumber: 3.5 Consensus size: 12
5602181 TGACCTCTCC
5602191 TTTTCTTTTTCT
1 TTTTCTTTTTCT
5602203 TTTTCTTTTTCTT
1 TTTTCTTTTTC-T
5602216 TTTTCTTCTTTCT
1 TTTTCTT-TTTCT
5602229 TTTTCT
1 TTTTCT
5602235 CCTATTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.37
13 15 0.50
14 4 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:5602275 original size:7 final size:8
Alignment explanation
Indices: 5602259--5602303 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 8
5602249 ATTTTTTTGA
5602259 TTATTTTT
1 TTATTTTT
5602267 TTATTTTT
1 TTATTTTT
5602275 TTATTTTTT
1 TTA-TTTTT
5602284 TTGATTTTT
1 TT-ATTTTT
*
5602293 TGAATTTTT
1 T-TATTTTT
5602302 TT
1 TT
5602304 TTGAGTCTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 11 0.34
9 20 0.62
10 1 0.03
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.82
Consensus pattern (8 bp):
TTATTTTT
Found at i:5602275 original size:19 final size:18
Alignment explanation
Indices: 5602251--5602305 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
5602241 TTTCTTTAAT
5602251 TTTTTTGATTATTTTTTTA
1 TTTTTTGATT-TTTTTTTA
* *
5602270 TTTTTTTATTTTTTTTGA
1 TTTTTTGATTTTTTTTTA
5602288 TTTTTTGAATTTTTTTTT
1 TTTTTTG-ATTTTTTTTT
5602306 GAGTCTGAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 13 0.42
19 18 0.58
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTTGATTTTTTTTTA
Found at i:5604195 original size:19 final size:17
Alignment explanation
Indices: 5604173--5604215 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
5604163 GTGAAATTTG
5604173 ATGCATGCAATGAAATGCA
1 ATGCATGC-ATGAAATG-A
5604192 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
5604211 ATGCA
1 ATGCA
5604216 AAAAAAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:5606283 original size:22 final size:23
Alignment explanation
Indices: 5606258--5606313 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
5606248 TATACGAAAG
5606258 TTATAAAATAAAAGTATG-TATA
1 TTATAAAATAAAAGTATGATATA
*
5606280 TTATATAAA-AAATGTATGCATATA
1 TTATA-AAATAAAAGTATG-ATATA
*
5606304 TTTTAAAATA
1 TTATAAAATA
5606314 TGTATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 13 0.46
23 6 0.21
24 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TTATAAAATAAAAGTATGATATA
Found at i:5606811 original size:15 final size:15
Alignment explanation
Indices: 5606772--5606821 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
5606762 AAAAACTGAT
* *
5606772 AATAATAAATAGTAAT
1 AATAATTAATA-TAAA
5606788 AATAA-TAATATAAA
1 AATAATTAATATAAA
5606802 AATAATTAAT-TAAA
1 AATAATTAATATAAA
5606816 CAATAA
1 -AATAA
5606822 AAATGCTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 12 0.40
15 13 0.43
16 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AATAATTAATATAAA
Found at i:5608818 original size:15 final size:15
Alignment explanation
Indices: 5608798--5608835 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
5608788 TTGCATGGAT
5608798 ATTTTCTTGCTTTTC
1 ATTTTCTTGCTTTTC
5608813 ATTTTCTTGCTTTTC
1 ATTTTCTTGCTTTTC
*
5608828 GTTTTCTT
1 ATTTTCTT
5608836 TTCCCACTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.18, G:0.08, T:0.68
Consensus pattern (15 bp):
ATTTTCTTGCTTTTC
Found at i:5612055 original size:6 final size:6
Alignment explanation
Indices: 5612044--5612078 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
5612034 TGTTGGTAGT
5612044 TTTGCA TTTGCA TTTTGCA TTTGCA TTTTGCA TTT
1 TTTGCA TTTGCA -TTTGCA TTTGCA -TTTGCA TTT
5612079 TACCCTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (6 bp):
TTTGCA
Found at i:5612061 original size:13 final size:13
Alignment explanation
Indices: 5612043--5612078 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
5612033 ATGTTGGTAG
5612043 TTTTGCATTTGCA
1 TTTTGCATTTGCA
5612056 TTTTGCATTTGCA
1 TTTTGCATTTGCA
5612069 TTTTGCATTT
1 TTTTGCATTT
5612079 TACCCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (13 bp):
TTTTGCATTTGCA
Found at i:5612062 original size:7 final size:7
Alignment explanation
Indices: 5612043--5612079 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
5612033 ATGTTGGTAG
5612043 TTTTGCA
1 TTTTGCA
5612050 -TTTGCA
1 TTTTGCA
5612056 TTTTGCA
1 TTTTGCA
5612063 -TTTGCA
1 TTTTGCA
5612069 TTTTGCA
1 TTTTGCA
5612076 TTTT
1 TTTT
5612080 ACCCTTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (7 bp):
TTTTGCA
Found at i:5614872 original size:18 final size:18
Alignment explanation
Indices: 5614836--5614875 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
5614826 GCAAATGTTC
*
5614836 TTTCATTCTTTACGTTTT
1 TTTCATTCTTTACGATTT
5614854 TTTCATTCTTT-CAGATTT
1 TTTCATTCTTTAC-GATTT
5614872 TTTC
1 TTTC
5614876 TGCCAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.12, C:0.17, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTCATTCTTTACGATTT
Found at i:5615826 original size:21 final size:21
Alignment explanation
Indices: 5615786--5615827 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5615776 AAGTGATGTG
*
5615786 AAAAAATGAAAAGATGAAAAT
1 AAAAAATGAAAAGATAAAAAT
5615807 AAAAAATGAAAA-AGTAAAAAT
1 AAAAAATGAAAAGA-TAAAAAT
5615828 GGAGAGGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAAAATGAAAAGATAAAAAT
Found at i:5617827 original size:397 final size:395
Alignment explanation
Indices: 5617084--5618451 Score: 1546
Period size: 397 Copynumber: 3.5 Consensus size: 395
5617074 TAGAGCAGGT
* *
5617084 AGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
1 AGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCC
* * *
5617149 TAGACAACAGTGGAATAGATGGAAGATTACAGATCTGATCCCCCTAAGCAGTAGTGGAGCAGATC
66 TAGACAACAATGGAATAGATGGAAGATTACAGATCTGA-CCCCCTAAGCAGCAGTGAAGCAGATC
* * *
5617214 AAAGATGGTAGATTTTACCTCCCTGTGGTTACAGTGAAGTGCATTGAAGCCAATAATTCTACTTC
130 AAAGACGGTAAATTTTACCTCCCTGTGGTTACAGTGAAGTACATTGAAGCCAATAATTCTACTTC
** * *
5617279 CCTGGGCAGCAATGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTACTGGAGTAGA
195 CCTGGGCAGCAATGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTACTGGAGCAGA
* *
5617344 TCAAAGATGGCGAATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT
260 TCAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTACT
* * * * * *
5617409 TCCCTGGGCAGCAGCGAAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCA
325 TCCCTAGGCAACAGCGAAATAGAATAAAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAG-A
5617474 AG-TCAA
389 AGATCAA
5617480 AGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCC
1 AGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCC
* * * * ** *
5617545 TGGGCAGCAATGGAATAGATTGAAGATTTTAGATCTTG-CCTTCCT--GCATAGACAGTGAAGCA
66 TAGACAACAATGGAATAGATGGAAGATTACAGATC-TGACC-CCCTAAGC--AG-CAGTGAAGCA
** * * *
5617607 GATCGTAGACGGTAAATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
126 GATCAAAGACGGTAAATTTTACCTCCCTGTGGTTACAGTGAAGTACATTGAAGCCAATAATTCTA
* *
5617672 CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAG
191 CTTCCCTGGGCAGCAATGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTACTGGAG
*
5617737 CAGATCAAAGATGGC-AGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCTAGTAATT
256 CAGATCAAAGATGGCGA-ATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAATT
* * *
5617801 CTA-TCTCCCTAGGCAACAGTGAAATAGAATAAAGATTACAGATCTTATCTCCCTAGGCAGTAGT
320 CTACT-TCCCTAGGCAACAGCGAAATAGAATAAAGATTACAGATCTTACCTCCCTAAGCAGTAGT
* *
5617865 GGAGTAGATCGA
384 GGAGAAGATCAA
*
5617877 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA--T---
1 AGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCC
* *
5617937 T-G-----AA--G-AT---T--ACAGATT-----T-TG-CCTCCCTAAGCAGTAGTGGAGCAGAT
66 TAGACAACAATGGAATAGATGGA-AGATTACAGATCTGACC-CCCTAAGCAGCAGTGAAGCAGAT
* * * * * *
5617981 CGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGT-AGAGTACATTGAAGCCAGTAATTCTACT
129 CAAAGACGGTAAATTTTACCTCCCTGTGGTTACAGTGA-AGTACATTGAAGCCAATAATTCTACT
* * * * * *
5618045 TCCCTGGGCAGCAGTGGAATAAATTGAAGATTTCAAATCTTGTCTCCCCAAGCAGTAGTGGAGCA
193 TCCCTGGGCAGCAATGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTACTGGAGCA
* * * *
5618110 GATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATGATTCTA
258 GATCAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTA
* * * * * * * ** *
5618175 CTTCCCTAGGCAGCAGTGGAATAGATTGAATATTTCAGATCTTGTCTCCCTAATCAGTAGTGGAG
323 CTTCCCTAGGCAACAGCGAAATAGAATAAAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAG
*
5618240 CAGATCAA
388 AAGATCAA
* * *
5618248 AGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTAAGTACATTGAAGCCAGTAATTCTATC
1 AGATGGCGGATTTTACCTCCCTGAGGTTACAGT-G-G--AGTACATTGAAGCCAGTAATTCTATT
* * * * * * * * *
5618313 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
62 TCCCTAGACAACAATGGAATAGATGGAAGATTACAGATCTGA-CCCCCTAAGCAGCAGTGAAGCA
* ** *
5618378 GATCAAAGATGGTGGATTTTACCTCCCTGAT-GTTACAGTGAAGTACATTGAAGCCAGTAATTCT
126 GATCAAAGACGGTAAATTTTACCTCCCTG-TGGTTACAGTGAAGTACATTGAAGCCAATAATTCT
5618442 A-TCTCCCTGG
190 ACT-TCCCTGG
5618452 TTGGTAGTGG
Statistics
Matches: 843, Mismatches: 81, Indels: 92
0.83 0.08 0.09
Matches are distributed among these distances:
371 276 0.33
372 13 0.02
373 1 0.00
374 3 0.00
375 24 0.03
377 1 0.00
378 1 0.00
379 5 0.01
380 2 0.00
381 1 0.00
383 2 0.00
384 1 0.00
386 3 0.00
388 1 0.00
389 2 0.00
391 1 0.00
392 2 0.00
393 5 0.01
394 3 0.00
395 3 0.00
396 100 0.12
397 303 0.36
398 1 0.00
399 2 0.00
400 85 0.10
401 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (395 bp):
AGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCC
TAGACAACAATGGAATAGATGGAAGATTACAGATCTGACCCCCTAAGCAGCAGTGAAGCAGATCA
AAGACGGTAAATTTTACCTCCCTGTGGTTACAGTGAAGTACATTGAAGCCAATAATTCTACTTCC
CTGGGCAGCAATGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTACTGGAGCAGAT
CAAAGATGGCGAATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAATTCTACTT
CCCTAGGCAACAGCGAAATAGAATAAAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAGAAG
ATCAA
Found at i:5617936 original size:132 final size:132
Alignment explanation
Indices: 5617084--5617935 Score: 1147
Period size: 132 Copynumber: 6.4 Consensus size: 132
5617074 TAGAGCAGGT
* *
5617084 AGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
1 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
* * * * * *
5617149 TAGACAACAGTGGAATAGATGGAAGATTACAGATC-TGATCCCCCTAAGCAGTAGTGGAGCAGAT
66 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTG-TCTCCCTAAGCAGTAGTGGAGCAGAT
5617213 CAA
130 CAA
** * * *
5617216 AGATGGTAGATTTTACCTCCCTGTGGTTACAGTGAAGTGCATTGAAGCCAATAATTCTACTTCCC
1 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
* ** * *
5617281 TGGGCAGCAATGGAATAGATTGAAGATTTTGGATCTTGTCTCCCTAAGCAGTACTGGAGTAGATC
66 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC
5617346 AA
131 AA
* *
5617348 AGATGGCGAATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
1 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
* * *
5617413 TGGGCAGCAGCGAAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCA-AGT
66 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA-T
5617477 CAA
130 CAA
* *
5617480 AGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATTTCCC
1 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
* * * * * *
5617545 TGGGCAGCAATGGAATAGATTGAAGATTTTAGATCTTGCCTTCCT--GCATAGACAGTGAAGCAG
66 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGC--AG-TAGTGGAGCAG
**
5617608 ATCGT
128 ATCAA
* *** *
5617613 AGACGGTAAATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
1 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
*
5617678 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATC
66 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC
5617743 AA
131 AA
* * *
5617745 AGATGGCAGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCTAGTAATTCTA-TCTCC
1 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCC
* * * * * * * * *
5617809 CTAGGCAACAGTGAAATAGAATAAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGAT
65 CTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGAT
*
5617874 CGA
130 CAA
5617877 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
1 AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA
5617936 TTGAAGATTA
Statistics
Matches: 631, Mismatches: 80, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
130 2 0.00
131 2 0.00
132 512 0.81
133 112 0.18
134 1 0.00
135 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC
AA
Found at i:5618022 original size:107 final size:107
Alignment explanation
Indices: 5617832--5618042 Score: 350
Period size: 107 Copynumber: 2.0 Consensus size: 107
5617822 AAATAGAATA
* * * *
5617832 AAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCC
1 AAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCC
* *
5617897 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATTG
66 CTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATTG
* *
5617939 AAGATTACAGATTTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCC
1 AAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCC
5618004 CTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTA
66 CTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTA
5618043 CTTCCCTGGG
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 96 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (107 bp):
AAGATTACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCC
CTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATTG
Found at i:5618121 original size:239 final size:239
Alignment explanation
Indices: 5617696--5618174 Score: 719
Period size: 239 Copynumber: 2.0 Consensus size: 239
5617686 AGTGGAATAG
*
5617696 ATTGAAGATTTCAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATTACAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* ** * * * *
5617761 CTCCCTGTGGTTACAGCGGAGTACATTGAAGCTAGTAATTCTATCTCCCTAGGCAACAGTGAAAT
66 CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
* * * * *
5617826 AGAA-TAAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCGGATTT
131 A-AATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTT
5617890 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
195 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
5617935 ATTGAAGATTACAGATTTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTAC
1 ATTGAAGATTACAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
5618000 CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGCAGTGGAA
66 CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGCAGTGGAA
* * * * *
5618064 TAAATTGAAGATTTCAAATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTT
130 TAAATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTT
* *
5618129 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATGATTCT
195 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
5618174 A
1 A
5618175 CTTCCCTAGG
Statistics
Matches: 215, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
238 3 0.01
239 212 0.99
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (239 bp):
ATTGAAGATTACAGATATTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
AAATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTT
ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
Found at i:5618173 original size:132 final size:132
Alignment explanation
Indices: 5617935--5618451 Score: 752
Period size: 132 Copynumber: 3.9 Consensus size: 132
5617925 CAGTAATTCT
* * *
5617935 ATTGAAGATTACAGATTTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTAC
1 ATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
*
5618000 CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGCAGTGGAA
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGCAGTGGAA
*
5618064 TAA
130 TAG
* * * *
5618067 ATTGAAGATTTCAAATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGG-TGAATTTTA
1 ATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTTTA
* * * *
5618131 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATGATTCTA-CTTCCCTAGGCAGCAGTGGA
65 CCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGCAGTGGA
5618195 ATAG
129 ATAG
* * *
5618199 ATTGAATATTTCAGATCTTGTCTCCCTAATCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
*
5618264 CTCCCTGAGGTTGCAGTGGAGTAAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
66 CTCCCTGAGGTTACAGT-G-G--AGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
5618329 GAATAG
127 GAATAG
* **
5618335 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTAC
1 ATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* *
5618400 CTCCCTGATGTTACAGTGAAGTACATTGAAGCCAGTAATTCTATCTCCCTGG
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGG
5618452 TTGGTAGTGG
Statistics
Matches: 346, Mismatches: 32, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
131 1 0.00
132 223 0.64
133 2 0.01
134 1 0.00
135 1 0.00
136 117 0.34
137 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (132 bp):
ATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
AG
Found at i:5618464 original size:268 final size:264
Alignment explanation
Indices: 5617935--5618442 Score: 804
Period size: 268 Copynumber: 1.9 Consensus size: 264
5617925 CAGTAATTCT
* *
5617935 ATTGAAGATTACAGATTTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTAC
1 ATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
5618000 CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
* *
5618065 AAATTGAAGATTTCAAATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTT
131 AAATTGAAGATTACAAATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTT
* *
5618130 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATGATTCTACTTCCCTAGGCAGCAGTGGA
196 ACCTCCCTGTGGTTACAGTGAAGTACATTGAAGCCAATAATTCTACTTCCCTAGGCAGCAGTGGA
5618195 ATAG
261 ATAG
* * * *
5618199 ATTGAATATTTCAGATCTTGTCTCCCTAATCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
*
5618264 CTCCCTGAGGTTGCAGTGGAGTAAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGT
66 CTCCCTGAGGTTACAGT--AG--AGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGT
* * * *
5618328 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGG
126 GGAATAAATTGAAGATTACAAATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGA
*
5618393 ATTTTACCTCCCTGAT-GTTACAGTGAAGTACATTGAAGCCAGTAATTCTA
191 ATTTTACCTCCCTG-TGGTTACAGTGAAGTACATTGAAGCCAATAATTCTA
5618443 TCTCCCTGGT
Statistics
Matches: 222, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
264 75 0.34
266 2 0.01
267 1 0.00
268 143 0.64
269 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (264 bp):
ATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
CTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
AAATTGAAGATTACAAATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTT
ACCTCCCTGTGGTTACAGTGAAGTACATTGAAGCCAATAATTCTACTTCCCTAGGCAGCAGTGGA
ATAG
Found at i:5618532 original size:44 final size:44
Alignment explanation
Indices: 5618466--5618579 Score: 183
Period size: 44 Copynumber: 2.6 Consensus size: 44
5618456 TAGTGGAATC
*
5618466 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTCAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATCAAGTA
* *
5618510 GATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTA
1 GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATCAAGTA
* *
5618554 GATCAAAGAGAGCAGATCTTGTCTTC
1 GATCGAAGAAAGCAGATCTTGTCTTC
5618580 CCATACTGGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (44 bp):
GATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATCAAGTA
Found at i:5621751 original size:25 final size:25
Alignment explanation
Indices: 5621710--5621766 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
5621700 ACAGTCCATG
** * *
5621710 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
5621735 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
5621760 TATATCA
1 TAAATCA
5621767 ATTCTTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:5622214 original size:23 final size:22
Alignment explanation
Indices: 5622157--5622240 Score: 78
Period size: 23 Copynumber: 3.5 Consensus size: 22
5622147 GAGCCATGAT
5622157 CGGTAAGCTCATTCCGAGCTGATAAA
1 CGGTAAGCTCATT--GAGCTG--AAA
*
5622183 TGGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCTC-ATTGAGCTGAAA
* * *
5622206 CGGTAAGCTCCGTAGAGTTGAAA
1 CGGTAAGCT-CATTGAGCTGAAA
5622229 CGGTAAGCTCAT
1 CGGTAAGCTCAT
5622241 ACGAGCTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
22 2 0.04
23 29 0.58
24 1 0.02
25 6 0.12
26 9 0.18
27 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
CGGTAAGCTCATTGAGCTGAAA
Found at i:5634998 original size:21 final size:21
Alignment explanation
Indices: 5634925--5635019 Score: 67
Period size: 21 Copynumber: 4.8 Consensus size: 21
5634915 TATTAAAAAT
*
5634925 AAAAATA-AATAAAATTT-ATA
1 AAAAATATAA-AAATTTTAATA
**
5634945 AAAAATAT-TGAATTTTAATA
1 AAAAATATAAAAATTTTAATA
* *
5634965 AAAAATATTAAAATTTTATTA
1 AAAAATATAAAAATTTTAATA
* * *
5634986 GAAATTATAAAAATTGT-A-A
1 AAAAATATAAAAATTTTAATA
5635005 AAAAATA-AAAAATTT
1 AAAAATATAAAAATTT
5635020 GTAAAATTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
18 7 0.12
19 11 0.19
20 18 0.31
21 22 0.38
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAATATAAAAATTTTAATA
Found at i:5635035 original size:19 final size:19
Alignment explanation
Indices: 5634987--5635036 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
5634977 ATTTTATTAG
*
5634987 AAATTATAAAAATTGTAAA
1 AAATTATAAAATTTGTAAA
* *
5635006 AAAATAAAAAATTTGTAAA
1 AAATTATAAAATTTGTAAA
**
5635025 ATTTTATAAAAT
1 AAATTATAAAAT
5635037 GCATCAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAATTATAAAATTTGTAAA
Found at i:5635155 original size:245 final size:245
Alignment explanation
Indices: 5634858--5635362 Score: 1010
Period size: 245 Copynumber: 2.1 Consensus size: 245
5634848 TTGTCCCTAA
5634858 TTTTTTCAGTTAAAGTCACCCCGTTTCATAATCACGACGTGACATGTGACAAAAAATTATTAAAA
1 TTTTTTCAGTTAAAGTCACCCCGTTTCATAATCACGACGTGACATGTGACAAAAAATTATTAAAA
5634923 ATAAAAATAAATAAAATTTATAAAAAATATTGAATTTTAATAAAAAATATTAAAATTTTATTAGA
66 ATAAAAATAAATAAAATTTATAAAAAATATTGAATTTTAATAAAAAATATTAAAATTTTATTAGA
5634988 AATTATAAAAATTGTAAAAAAATAAAAAATTTGTAAAATTTTATAAAATGCATCAAAAAGGTCCT
131 AATTATAAAAATTGTAAAAAAATAAAAAATTTGTAAAATTTTATAAAATGCATCAAAAAGGTCCT
5635053 TTAACCGTTAACTTTAACGGCCAACCGTTAAAGTTAATGATCCCTAGTTC
196 TTAACCGTTAACTTTAACGGCCAACCGTTAAAGTTAATGATCCCTAGTTC
5635103 TTTTTTCAGTTAAAGTCACCCCGTTTCATAATCACGACGTGACATGTGACAAAAAATTATTAAAA
1 TTTTTTCAGTTAAAGTCACCCCGTTTCATAATCACGACGTGACATGTGACAAAAAATTATTAAAA
5635168 ATAAAAATAAATAAAATTTATAAAAAATATTGAATTTTAATAAAAAATATTAAAATTTTATTAGA
66 ATAAAAATAAATAAAATTTATAAAAAATATTGAATTTTAATAAAAAATATTAAAATTTTATTAGA
5635233 AATTATAAAAATTGTAAAAAAATAAAAAATTTGTAAAATTTTATAAAATGCATCAAAAAGGTCCT
131 AATTATAAAAATTGTAAAAAAATAAAAAATTTGTAAAATTTTATAAAATGCATCAAAAAGGTCCT
5635298 TTAACCGTTAACTTTAACGGCCAACCGTTAAAGTTAATGATCCCTAGTTC
196 TTAACCGTTAACTTTAACGGCCAACCGTTAAAGTTAATGATCCCTAGTTC
5635348 TTTTTTCAGTTAAAG
1 TTTTTTCAGTTAAAG
5635363 CCATCACGTG
Statistics
Matches: 260, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 260 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (245 bp):
TTTTTTCAGTTAAAGTCACCCCGTTTCATAATCACGACGTGACATGTGACAAAAAATTATTAAAA
ATAAAAATAAATAAAATTTATAAAAAATATTGAATTTTAATAAAAAATATTAAAATTTTATTAGA
AATTATAAAAATTGTAAAAAAATAAAAAATTTGTAAAATTTTATAAAATGCATCAAAAAGGTCCT
TTAACCGTTAACTTTAACGGCCAACCGTTAAAGTTAATGATCCCTAGTTC
Found at i:5635243 original size:21 final size:21
Alignment explanation
Indices: 5635170--5635264 Score: 67
Period size: 21 Copynumber: 4.8 Consensus size: 21
5635160 TATTAAAAAT
*
5635170 AAAAATA-AATAAAATTT-ATA
1 AAAAATATAA-AAATTTTAATA
**
5635190 AAAAATAT-TGAATTTTAATA
1 AAAAATATAAAAATTTTAATA
* *
5635210 AAAAATATTAAAATTTTATTA
1 AAAAATATAAAAATTTTAATA
* * *
5635231 GAAATTATAAAAATTGT-A-A
1 AAAAATATAAAAATTTTAATA
5635250 AAAAATA-AAAAATTT
1 AAAAATATAAAAATTT
5635265 GTAAAATTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
18 7 0.12
19 11 0.19
20 18 0.31
21 22 0.38
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAATATAAAAATTTTAATA
Found at i:5635280 original size:19 final size:19
Alignment explanation
Indices: 5635232--5635281 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
5635222 ATTTTATTAG
*
5635232 AAATTATAAAAATTGTAAA
1 AAATTATAAAATTTGTAAA
* *
5635251 AAAATAAAAAATTTGTAAA
1 AAATTATAAAATTTGTAAA
**
5635270 ATTTTATAAAAT
1 AAATTATAAAAT
5635282 GCATCAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAATTATAAAATTTGTAAA
Found at i:5635488 original size:10 final size:9
Alignment explanation
Indices: 5635462--5635517 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
5635452 TTTTGGTATG
5635462 ATAATTTTT
1 ATAATTTTT
5635471 ATAATTTTT
1 ATAATTTTT
*
5635480 ATAACTTTT
1 ATAATTTTT
*
5635489 ATTAATATTT
1 A-TAATTTTT
*
5635499 ATTTATTTTT
1 A-TAATTTTT
*
5635509 ATCATTTTT
1 ATAATTTTT
5635518 TACCATATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
9 25 0.62
10 15 0.38
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (9 bp):
ATAATTTTT
Found at i:5644071 original size:14 final size:14
Alignment explanation
Indices: 5644052--5644083 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
5644042 AGGTCATTTA
5644052 GCCCAACCAAACTG
1 GCCCAACCAAACTG
5644066 GCCCAACCAAACTG
1 GCCCAACCAAACTG
5644080 GCCC
1 GCCC
5644084 GGTAATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:5645633 original size:30 final size:27
Alignment explanation
Indices: 5645557--5645634 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 27
5645547 TTTTTATTTT
*
5645557 AAATGAAAAATGAAATAAAAAAACTAAA
1 AAATGAAAAATGAAA-AACAAAACTAAA
*
5645585 AAAAGAAAAAAT-ACAAAACAAAACTAAGA
1 AAATG-AAAAATGA-AAAACAAAACTAA-A
5645614 ATAATGAAAAATGGAAAAACA
1 A-AATGAAAAAT-GAAAAACA
5645635 CCTTTTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
28 15 0.37
29 16 0.39
30 9 0.22
31 1 0.02
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (27 bp):
AAATGAAAAATGAAAAACAAAACTAAA
Found at i:5650263 original size:23 final size:22
Alignment explanation
Indices: 5650220--5650315 Score: 71
Period size: 19 Copynumber: 4.6 Consensus size: 22
5650210 AAAGGGTATC
* *
5650220 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
5650241 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
5650264 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
5650283 TATATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
5650302 TACATATCATATCT
1 TACAAATCATATCT
5650316 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
19 35 0.56
21 3 0.05
22 15 0.24
23 10 0.16
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:5650277 original size:57 final size:55
Alignment explanation
Indices: 5650216--5650359 Score: 150
Period size: 57 Copynumber: 2.5 Consensus size: 55
5650206 GATTAAAGGG
5650216 TATCTACAAATTA-A-ATC-TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCA
1 TATCTA-AAATTATATATCATCTAAGATTAC-AAATCATA---TCTAAGATTGCATATCA
* *
5650273 TATCTAAGATTATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCA
1 TATCTAAAATTATATATC--ATCTAAGATTACAAATCATATCTAAGATTGCATATCA
* *
5650330 TATCTAAGATTATATAACATATCTAAGATT
1 TATCTAAAATTATATATC--ATCTAAGATT
5650360 GCATATCCCT
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
56 5 0.06
57 53 0.67
58 3 0.04
60 7 0.09
61 11 0.14
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.38
Consensus pattern (55 bp):
TATCTAAAATTATATATCATCTAAGATTACAAATCATATCTAAGATTGCATATCA
Found at i:5650280 original size:19 final size:19
Alignment explanation
Indices: 5650233--5650366 Score: 169
Period size: 19 Copynumber: 6.8 Consensus size: 19
5650223 AAATTAAATC
*
5650233 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
5650253 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
*
5650275 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
5650294 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
5650313 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
5650332 TCTAAGATTATATAACATA
1 TCTAAGATTACATATCATA
*
5650351 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
5650367 CCTGAAGATT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
19 82 0.83
22 7 0.07
23 10 0.10
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:5650365 original size:57 final size:55
Alignment explanation
Indices: 5650249--5650366 Score: 200
Period size: 57 Copynumber: 2.1 Consensus size: 55
5650239 ATTACAAAAT
*
5650249 CATATCTTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTA
1 CATATCTTCTAAGATTGCATATCATATCTAAGATTATATAACATATCTAAGATTA
*
5650304 CATATCATATCTAAGATTGCATATCATATCTAAGATTATATAACATATCTAAGATTG
1 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTATATAACATATCTAAGATTA
5650361 CATATC
1 CATATC
5650367 CCTGAAGATT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
55 6 0.10
56 1 0.02
57 52 0.88
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (55 bp):
CATATCTTCTAAGATTGCATATCATATCTAAGATTATATAACATATCTAAGATTA
Found at i:5650724 original size:44 final size:44
Alignment explanation
Indices: 5650675--5650800 Score: 207
Period size: 44 Copynumber: 2.9 Consensus size: 44
5650665 ACAATATCAA
*
5650675 GGAGATAGGACTTACAATCTTCAACCTATTCTACTGCTGACCAG
1 GGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAG
* * * *
5650719 GGAGATATGACTCATAATCTTCAACCTATTCCACTGTTGACCAG
1 GGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAG
5650763 GGAGATAGGACTTACAATCTTCAACCTATTCCACTGCT
1 GGAGATAGGACTTACAATCTTCAACCTATTCCACTGCT
5650801 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
GGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAG
Found at i:5651342 original size:132 final size:132
Alignment explanation
Indices: 5651099--5651574 Score: 803
Period size: 132 Copynumber: 3.6 Consensus size: 132
5651089 NNNNNNNNNN
*
5651099 GTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACCACAAGGAGGTAAAATCCGC
1 GTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACCACAAGGAGGTAAAATCCGC
*
5651164 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG
66 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG
5651229 TT
131 TT
*
5651231 GTTCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACCACAAGGAGGTAAAATCCGC
1 GTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACCACAAGGAGGTAAAATCCGC
*
5651296 CATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG
66 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG
5651361 TT
131 TT
* * * **
5651363 G-CCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTT
1 GTCCAAG-GAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACCACAAGGAGGTAAAATCCG
* *
5651427 CCATCTTCGATCTGCTCAAATACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
65 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
5651492 GTT
130 GTT
* *
5651495 GTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCAC-AGTGAGGTAAAATCCG
1 GTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACCACAAG-GAGGTAAAATCCG
5651559 CCATCTTCGATCTGCT
65 CCATCTTCGATCTGCT
5651575 TCGCTGTCAA
Statistics
Matches: 325, Mismatches: 16, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
131 4 0.01
132 318 0.98
133 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
GTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTACAACCACAAGGAGGTAAAATCCGC
CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTG
TT
Found at i:5658301 original size:42 final size:42
Alignment explanation
Indices: 5658196--5658531 Score: 310
Period size: 42 Copynumber: 7.9 Consensus size: 42
5658186 AGAGCCTCCA
** *
5658196 GCACCTTGGTGGCTCAGATGTGTGGGAGCCTC-AGACACCATCG
1 GCACCTTGGT-GCTTGGATGTGCGGGAGCCTCGAG-CACCATCG
* *
5658239 GTAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCG
1 G-CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCG
* *
5658282 GCACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCATCG
1 GCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAG-CACCATCG
* ** * *
5658324 GCAAACTAT-GCCCTTGGTTGTG-GGAAGCCTCGGAG-ACCATCG
1 GC-ACCT-TGGTGCTTGGATGTGCGGGAGCCTC-GAGCACCATCG
* * **
5658366 GCACCTCGGTGCTAT-GATGTACGGGAGCCTCG-GACACTGTCG
1 GCACCTTGGTGCT-TGGATGTGCGGGAGCCTCGAG-CACCATCG
* **
5658408 GCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAGCACCATCG
1 GC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGAGCACCATCG
*
5658451 GTACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCG
1 GCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCG
* * *
5658493 GCACCTTGGTGCATGGATGAGCGGGAGCCTTGAGCACCA
1 GCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCA
5658532 AAGCTAAAGT
Statistics
Matches: 237, Mismatches: 39, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.00
41 12 0.05
42 141 0.59
43 71 0.30
44 12 0.05
ACGTcount: A:0.18, C:0.28, G:0.34, T:0.21
Consensus pattern (42 bp):
GCACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCG
Found at i:5658340 original size:85 final size:84
Alignment explanation
Indices: 5658212--5658495 Score: 337
Period size: 85 Copynumber: 3.4 Consensus size: 84
5658202 TGGTGGCTCA
* * *
5658212 GATGTGTGGGAGCCTCAGACACCATCGGTAACCTTGATG--CTTGGATGTGCGGGAGCCTCGAGC
1 GATGTGCGGGAGCCTCGGACACCATCGGCAACC-T-ATGCCCTTGG-TGTGCGGGAGCCTCGAGC
5658275 ACCATCGGCACCTTGGTGCATG
63 ACCATCGGCACCTTGGTGCATG
* * *
5658297 GATGTGCGGGAGCATCGGACACCATCGGCAAACTATGCCCTTGGTTGTG-GGAAGCCTCGGAG-A
1 GATGTGCGGGAGCCTCGGACACCATCGGCAACCTATGCCCTTGG-TGTGCGGGAGCCTC-GAGCA
*
5658360 CCATCGGCACCTCGGTGCTAT-
64 CCATCGGCACCTTGGTGC-ATG
* ** *
5658381 GATGTACGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCAC
1 GATGTGCGGGAGCCTCGGACACCATCGGCAACCTATGCCCTTGGT-GTGCGGGAGCCTCGAGCAC
* *
5658446 CATCGGTACCTTGGTGCTTG
65 CATCGGCACCTTGGTGCATG
5658466 GATGTGCGGGAGCCTC-GAGCACCATCGGCA
1 GATGTGCGGGAGCCTCGGA-CACCATCGGCA
5658496 CCTTGGTGCA
Statistics
Matches: 169, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
83 4 0.02
84 74 0.44
85 91 0.54
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.20
Consensus pattern (84 bp):
GATGTGCGGGAGCCTCGGACACCATCGGCAACCTATGCCCTTGGTGTGCGGGAGCCTCGAGCACC
ATCGGCACCTTGGTGCATG
Found at i:5658773 original size:24 final size:24
Alignment explanation
Indices: 5658741--5658813 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
5658731 CTGGTTAGGT
*
5658741 TCCCGACGGTGCTTCGGCGATCCG
1 TCCCGACGGTGCTTCGGCGAACCG
5658765 TCCCGACGGTGC-TCTGGCGAACCG
1 TCCCGACGGTGCTTC-GGCGAACCG
* *
5658789 TCCCGTCGGTGCTCCGGCGAACCG
1 TCCCGACGGTGCTTCGGCGAACCG
5658813 T
1 T
5658814 TCCGGAAGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 2 0.05
24 41 0.93
25 1 0.02
ACGTcount: A:0.10, C:0.38, G:0.33, T:0.19
Consensus pattern (24 bp):
TCCCGACGGTGCTTCGGCGAACCG
Found at i:5659283 original size:43 final size:43
Alignment explanation
Indices: 5659184--5659285 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 43
5659174 NTGGGAGGGG
* * **
5659184 CTCGGGCACCATCAGCAAACTAAGCCCTTGGTCGTGCGGGAGC
1 CTCGGGCACCATCGGCAAAATAAGCCCTTGGTCGTGCAAGAGC
* *
5659227 CTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCAAGAGC
1 CTCGGGCACCATCGGCAAAATAAGCCCTTGGTCGTGCAAGAGC
*
5659270 CTCGGCCACCATCGGC
1 CTCGGGCACCATCGGC
5659286 CCCTAGGTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (43 bp):
CTCGGGCACCATCGGCAAAATAAGCCCTTGGTCGTGCAAGAGC
Found at i:5666592 original size:42 final size:43
Alignment explanation
Indices: 5666487--5666616 Score: 142
Period size: 42 Copynumber: 3.0 Consensus size: 43
5666477 AGAGCCTCCA
* *
5666487 TCACCTTGGTGGCTCGGATGTGTGGGAGCTTC-AGACACCATCGG
1 TCACCTTGGT-GCT-GGATGTGCGGGAGCATCGAGACACCATCGG
* * *
5666531 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAG-CACCATCGG
1 TCACCTTGGTGC-TGGATGTGCGGGAGCATCGAGACACCATCGG
*
5666574 -CACCTTGGTGCATGGATGTACGGGAGCATCG-GACACCATCGG
1 TCACCTTGGTGC-TGGATGTGCGGGAGCATCGAGACACCATCGG
5666616 T
1 T
5666617 AAACTAGGCC
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 35 0.48
43 26 0.36
44 11 0.15
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.23
Consensus pattern (43 bp):
TCACCTTGGTGCTGGATGTGCGGGAGCATCGAGACACCATCGG
Found at i:5666799 original size:42 final size:43
Alignment explanation
Indices: 5666731--5666820 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 43
5666721 GTGGCTCGGC
* *
5666731 CACCATCGGTAACCTTGATGCTTGGATGTGCGGGAGCC-TCGAG
1 CACCATCGGTAACCTTGATGCATGGATGAGCGGGAGCCGT-GAG
*
5666774 CACCATCGGT-ACCTTGGTGCATGGATGAGCGGGAGCCGTGAG
1 CACCATCGGTAACCTTGATGCATGGATGAGCGGGAGCCGTGAG
5666816 CACCA
1 CACCA
5666821 AAGCTAAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 32 0.74
43 11 0.26
ACGTcount: A:0.20, C:0.27, G:0.33, T:0.20
Consensus pattern (43 bp):
CACCATCGGTAACCTTGATGCATGGATGAGCGGGAGCCGTGAG
Found at i:5667056 original size:24 final size:24
Alignment explanation
Indices: 5667029--5667102 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
5667019 CCGGTTAGGT
*
5667029 TCCCGGCGGTGCTCCGGCGATCCG
1 TCCCGGCGGTGCTCCGGCGAACCG
* *
5667053 TCCCGGTGGTGCTCCAGCGAACCG
1 TCCCGGCGGTGCTCCGGCGAACCG
* * *
5667077 TCCCGTCGATGCTCCGGCGTACCG
1 TCCCGGCGGTGCTCCGGCGAACCG
5667101 TC
1 TC
5667103 TCGTTGATCC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.08, C:0.41, G:0.32, T:0.19
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGCGAACCG
Found at i:5667240 original size:42 final size:42
Alignment explanation
Indices: 5667192--5668131 Score: 318
Period size: 43 Copynumber: 22.1 Consensus size: 42
5667182 TGGTCATGCA
* *
5667192 GGAGCCTCGGGCGCCATCGGTACCTCGGTGCTTTGATGTGCG
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
* * * *
5667234 GGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGAT-GTGCG
* * *
5667277 GGAGCCTCGGGCACCATCGGCAGCTCGGTGCTATGATGTGCG
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
* * ** * * * * *
5667319 GGAGCCTCAGACACTGTCGACAACCTAGG-CCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCG-GAACCTCGGTGCTTTGAT-GTGCG
* * * * *
5667362 GGAGCCTCGAGTACCATCGGCACCTTGGTGCTTGGATGTGCG
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
* * * * * * * *
5667404 AGAACCTCGCGCACTATCGGCAACCTAGG-CCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGAT-GTGCG
* * * * ** ** * ** *
5667447 AGAGGCTCGAGCACCATCGGCAAACTAAGCCCTTGGCCGTGTG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGATGTGCG
* ** * * * *
5667490 GGAGCCTTGGGCACCATCGGCAAAATAGG-CCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGAT-GTGCG
* ** * **
5667533 GGAGCCTCGGCCACCATCGGCCCCTAGGTGCTGGGATGTGCG
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
* * * * * * *
5667575 GGAGCCTCGGACACCATCGGCAAACTAGG-CCCTTGGTCGTGTG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGAT-GTGCG
* * * *
5667618 GGAGCCTCGGGCACCATCGGCAGCTCGGTGCTCTGATGTGCA
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
* ** * * * * *
5667660 GGAGCCTCGGACACTGTCAGCAACCTAGG-CCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATC-GGAACCTCGGTGCTTTGAT-GTGCG
* * * *
5667703 GGAGCCTCGAGCACCATCGGTAACCTAGG-GCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGAT-GTGCG
* * * * ** * * *
5667746 AGAGGCTCGGGTACCATCGGCAAACTAAG-CCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGAT-GTGCG
* * * * *
5667789 AGAGCCTCGGGCACCATCGGCAGCTCGATGCTATGATGTGCG
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
* * ** * ** * **
5667831 GGAGCCTCAGACACTGTCGGTAACCTAGGCCCTTGGCCGTGCG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGATGTGCG
* * * *
5667874 GGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCG
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
* * * * * * * * *
5667916 AGAACCTCGCGCACCATCAGCAACCTAGG-CCCTTGGTCGTGTG
1 GGAGCCTCGGGCACCATC-GGAACCTCGGTGCTTTGAT-GTGCG
** * * * *
5667959 GGAGCCTCGGGCACCATCGGCAAAATAGG-CCCTTGCTCGTGCG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGAT-GTGCG
* * * ** * **
5668002 GGAGCGTCAGCCACCATCGGCCCCTAGGTGCTGGGATGTGCG
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
* * * * * * * *
5668044 GGAGCCTCGGACACTATCGGCAAACTAGG-CCCTTGGTCGTGTG
1 GGAGCCTCGGGCACCATCGG-AACCTCGGTGCTTTGAT-GTGCG
** *
5668087 GGAGCCTCGGGCACCATCGTCAGCTCGGTGCTTTGATGTGCG
1 GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
5668129 GGA
1 GGA
5668132 ACCTTGGACA
Statistics
Matches: 653, Mismatches: 219, Indels: 52
0.71 0.24 0.06
Matches are distributed among these distances:
42 245 0.38
43 404 0.62
44 4 0.01
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.19
Consensus pattern (42 bp):
GGAGCCTCGGGCACCATCGGAACCTCGGTGCTTTGATGTGCG
Found at i:5667254 original size:85 final size:85
Alignment explanation
Indices: 5667111--5667980 Score: 953
Period size: 85 Copynumber: 10.2 Consensus size: 85
5667101 TCTCGTTGAT
* * * * * *
5667111 CCTCGGGCACCATCGACACCTTGGTGCTAGGATGTGCAGGAGCCCCGGACACCATCGGCAAACTA
1 CCTCGGGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
* * *
5667176 AGCCCTTGGTCATGCAGGAG
66 GGCCCTTGGTCGTGCGGGAG
* * * *
5667196 CCTCGGGCGCCATCGGTACCTCGGTGCTTTGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTA
1 CCTCGGGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
5667261 GGCCCTTGGTCGTGCGGGAG
66 GGCCCTTGGTCGTGCGGGAG
* * ** *
5667281 CCTCGGGCACCATCGGCAGCTCGGTGCTAT-GATGTGCGGGAGCCTCAGACACTGTCGACAACCT
1 CCTCGGGCACCATCGGCACCTCGGTGCT-TGGATGTGCGGGAGCCTCGGACACCATCGGCAACCT
5667345 AGGCCCTTGGTCGTGCGGGAG
65 AGGCCCTTGGTCGTGCGGGAG
* * * * * *
5667366 CCTCGAGTACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG-CACTATCGGCAACCT
1 CCTCGGGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAGCCTCG-GACACCATCGGCAACCT
*
5667430 AGGCCCTTGGTCGTGCGAGAG
65 AGGCCCTTGGTCGTGCGGGAG
* * * ** ** ** * * * **
5667451 GCTCGAGCACCATCGGCAAACTAAGCCCTTGGCCGTGTGGGAGCCTTGGGCACCATCGGCAAAAT
1 CCTCGGGCACCATCGGC-ACCTCGGTGCTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCT
5667516 AGGCCCTTGGTCGTGCGGGAG
65 AGGCCCTTGGTCGTGCGGGAG
* * * * *
5667537 CCTCGGCCACCATCGGCCCCTAGGTGCTGGGATGTGCGGGAGCCTCGGACACCATCGGCAAACTA
1 CCTCGGGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
*
5667602 GGCCCTTGGTCGTGTGGGAG
66 GGCCCTTGGTCGTGCGGGAG
* * ** *
5667622 CCTCGGGCACCATCGGCAGCTCGGTGCTCT-GATGTGCAGGAGCCTCGGACACTGTCAGCAACCT
1 CCTCGGGCACCATCGGCACCTCGGTGCT-TGGATGTGCGGGAGCCTCGGACACCATCGGCAACCT
5667686 AGGCCCTTGGTCGTGCGGGAG
65 AGGCCCTTGGTCGTGCGGGAG
* * * * * ** *
5667707 CCTCGAGCACCATCGGTAACCTAGG-GCCTTGG-TCGTGCGAGAGGCTCGGGTACCATCGGCAAA
1 CCTCGGGCACCATCGG-CACCTCGGTG-CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAC
* *
5667770 CTAAGCCCTTGGTCGTGCGAGAG
63 CTAGGCCCTTGGTCGTGCGGGAG
* * * ** *
5667793 CCTCGGGCACCATCGGCAGCTCGATGCTAT-GATGTGCGGGAGCCTCAGACACTGTCGGTAACCT
1 CCTCGGGCACCATCGGCACCTCGGTGCT-TGGATGTGCGGGAGCCTCGGACACCATCGGCAACCT
*
5667857 AGGCCCTTGGCCGTGCGGGAG
65 AGGCCCTTGGTCGTGCGGGAG
* * * * *
5667878 CCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG-CACCATCAGCAACCT
1 CCTCGGGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAGCCTCG-GACACCATCGGCAACCT
*
5667942 AGGCCCTTGGTCGTGTGGGAG
65 AGGCCCTTGGTCGTGCGGGAG
5667963 CCTCGGGCACCATCGGCA
1 CCTCGGGCACCATCGGCA
5667981 AAATAGGCCC
Statistics
Matches: 649, Mismatches: 121, Indels: 30
0.81 0.15 0.04
Matches are distributed among these distances:
84 2 0.00
85 512 0.79
86 135 0.21
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (85 bp):
CCTCGGGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
GGCCCTTGGTCGTGCGGGAG
Found at i:5667573 original size:256 final size:256
Alignment explanation
Indices: 5667111--5668065 Score: 1127
Period size: 256 Copynumber: 3.7 Consensus size: 256
5667101 TCTCGTTGAT
* * * * * * * *
5667111 CCTCGGGCACCATCGACACCTTGGTGCTAGGATGTGC-AGGAGCCCCG-GACACCATCGGCAAAC
1 CCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGA-GAACCTCGCG-CACTATCAGCAACC
* * * * * * * * ** * **
5667174 TAAGCCCTTGGTCATGCAGGAGCCTCGGGCGCCATCGG-TACCTCGGTGCTTTGATGTGCGGGAG
64 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCAAACTAGGCCCTTGGCCGTGCGGGAG
*
5667238 CCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAGCTC
129 CCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAGCTC
*
5667303 GGTGCTATGATGTGCGGGAGCCTCAGACACTGTCGACAACCTAGGCCCTTGGTCGTGCGGGAG
194 GGTGCTATGATGTGCGGGAGCCTCAGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* *
5667366 CCTCGAGTACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACTATCGGCAACCTA
1 CCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACTATCAGCAACCTA
* * * *
5667431 GGCCCTTGGTCGTGCGAGAGGCTCGAGCACCATCGGCAAACTAAGCCCTTGGCCGTGTGGGAGCC
66 GGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCAAACTAGGCCCTTGGCCGTGCGGGAGCC
* * * ** *
5667496 TTGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCCCCTAGG
131 TCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAGCTCGG
** * ** * *
5667561 TGCTGGGATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGTGGGAG
196 TGCTATGATGTGCGGGAGCCTCAGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
* * * * *
5667622 CCTCGGGCACCATCGGCAGCTCGGTGCTCT-GATGTGC-AGGAGCCTCG-GACACTGTCAGCAAC
1 CCTCGAGCACCATCGGCACCTTGGTGCT-TGGATGTGCGA-GAACCTCGCG-CACTATCAGCAAC
* * * * *
5667684 CTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGTAACCTAGGGCCTTGGTCGTGCGAGA
63 CTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCAAACTAGGCCCTTGGCCGTGCGGGA
* * * *
5667749 GGCTCGGGTACCATCGGCAAACTAAGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAGCT
128 GCCTCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAGCT
* * *
5667814 CGATGCTATGATGTGCGGGAGCCTCAGACACTGTCGGTAACCTAGGCCCTTGGCCGTGCGGGAG
193 CGGTGCTATGATGTGCGGGAGCCTCAGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
*
5667878 CCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACCATCAGCAACCTA
1 CCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACTATCAGCAACCTA
* * *
5667943 GGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTT-GCTCGTGCGGGAGC
66 GGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCAAACTAGGCCCTTGGC-CGTGCGGGAGC
* * * ** ** * * *
5668007 GTCAGCCACCATCGGC-CCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACTATCGGCA
130 CTCGGGCACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCA
5668066 AACTAGGCCC
Statistics
Matches: 585, Mismatches: 104, Indels: 22
0.82 0.15 0.03
Matches are distributed among these distances:
255 118 0.20
256 464 0.79
257 3 0.01
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (256 bp):
CCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACTATCAGCAACCTA
GGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCAAACTAGGCCCTTGGCCGTGCGGGAGCC
TCGGGCACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAGCTCGG
TGCTATGATGTGCGGGAGCCTCAGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAG
Found at i:5667836 original size:341 final size:337
Alignment explanation
Indices: 5667111--5667980 Score: 1111
Period size: 341 Copynumber: 2.5 Consensus size: 337
5667101 TCTCGTTGAT
* * * * * *
5667111 CCTCGGGCACCATCGACACCTTGGTGCTAGGATGTGCAGGAGCCCCGGACACCATCGGCAAACTA
1 CCTCGGGCACCATCGGCAAC-TGATGCTATGATGTGCGGGAGCCTCGGACACCATCGGCAAACTA
* * * * * * *
5667176 AGCCCTTGGTCATGCAGGAGCCTCGGGCGCCATCGGTACCTCGGTGCTTTGATGTGCGGGAGCCT
65 GGCCCTTGGTCGTGCGGGAGCCTC-GGCACCATCGGCACCTAGGTGCTTGGATGTGCGGGAGCCT
*
5667241 CGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAGCTCGGT
129 C-GGCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCAGCTCGGT
*
5667306 GCTATGATGTGCGGGAGCCTCAGACACTGTCGACAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
193 GCTATGATGTGCAGGAGCCTCAGACACTGTCGACAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
* * * * * *
5667371 AGTACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACTATCGGCAACCTAGGCCC
258 AGCACCATCGGAACCTAGGTGCTTGGATGTGCGAGAACCTCGCGCACCATCGGCAAACTAAGCCC
5667436 TTGGTCGTGCGAGAG
323 TTGGTCGTGCGAGAG
* * * ** * * *
5667451 GCTCGAGCACCATCGGCAAACT-AAGCCCT-TGGCCGTGTGGGAGCCTTGGGCACCATCGGCAAA
1 CCTCGGGCACCATCGGC-AACTGATG--CTAT-GATGTGCGGGAGCCTCGGACACCATCGGCAAA
* * *
5667514 ATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCCCCTAGGTGCTGGGATGTGCGGGAG
62 CTAGGCCCTTGGTCGTGCGGGAGCCTCGG-CACCATCGGCACCTAGGTGCTTGGATGTGCGGGAG
*
5667579 CCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCAGCTC
126 CCTCGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCAGCTC
* *
5667644 GGTGCTCTGATGTGCAGGAGCCTCGGACACTGTC-AGCAACCTAGGCCCTTGGTCGTGCGGGAGC
190 GGTGCTATGATGTGCAGGAGCCTCAGACACTGTCGA-CAACCTAGGCCCTTGGTCGTGCGGGAGC
** * *
5667708 CTCGAGCACCATCGGTAACCTAGG-GCCTTGG-TCGTGCGAGAGGCTCGGGTACCATCGGCAAAC
254 CTCGAGCACCATCGG-AACCTAGGTG-CTTGGAT-GTGCGAGAACCTCGCGCACCATCGGCAAAC
5667771 TAAGCCCTTGGTCGTGCGAGAG
316 TAAGCCCTTGGTCGTGCGAGAG
* * ** * *
5667793 CCTCGGGCACCATCGGCAGCTCGATGCTATGATGTGCGGGAGCCTCAGACACTGTCGGTAACCTA
1 CCTCGGGCACCATCGGCAACT-GATGCTATGATGTGCGGGAGCCTCGGACACCATCGGCAAACTA
* * * *
5667858 GGCCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCT
65 GGCCCTTGGTCGTGCGGGAGCCTCG-GCACCATCGGCACCTAGGTGCTTGGATGTGCGGGAGCCT
*
5667923 CGCGCACCATCAGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCA
129 CG-GCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCA
5667981 AAATAGGCCC
Statistics
Matches: 453, Mismatches: 62, Indels: 29
0.83 0.11 0.05
Matches are distributed among these distances:
339 1 0.00
340 20 0.04
341 356 0.79
342 74 0.16
343 2 0.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (337 bp):
CCTCGGGCACCATCGGCAACTGATGCTATGATGTGCGGGAGCCTCGGACACCATCGGCAAACTAG
GCCCTTGGTCGTGCGGGAGCCTCGGCACCATCGGCACCTAGGTGCTTGGATGTGCGGGAGCCTCG
GCACCATCGGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCAGCTCGGTGCT
ATGATGTGCAGGAGCCTCAGACACTGTCGACAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGC
ACCATCGGAACCTAGGTGCTTGGATGTGCGAGAACCTCGCGCACCATCGGCAAACTAAGCCCTTG
GTCGTGCGAGAG
Found at i:5668028 original size:85 final size:84
Alignment explanation
Indices: 5667111--5668105 Score: 929
Period size: 85 Copynumber: 11.7 Consensus size: 84
5667101 TCTCGTTGAT
* * * * * *
5667111 CCTCGGGCACCATCGACACCTTGGTGCTAGGATGTGCAGGAGCCCCGGACACCATCGGCAAACTA
1 CCTCGGGCACCATCGGCACCTAGGTGCT-TGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
* * *
5667176 AGCCCTTGGTCATGCAGGAG
65 GGCCCTTGGTCGTGCGGGAG
* * * *
5667196 CCTCGGGCGCCATCGGTACCTCGGTGCTTTGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTA
1 CCTCGGGCACCATCGGCACCTAGGTGC-TTGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
5667261 GGCCCTTGGTCGTGCGGGAG
65 GGCCCTTGGTCGTGCGGGAG
* * * ** *
5667281 CCTCGGGCACCATCGGCAGCTCGGTGCTATGATGTGCGGGAGCCTCAGACACTGTCGACAACCTA
1 CCTCGGGCACCATCGGCACCTAGGTGCT-TGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
5667346 GGCCCTTGGTCGTGCGGGAG
65 GGCCCTTGGTCGTGCGGGAG
* * * * * *
5667366 CCTCGAGTACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG-CACTATCGGCAACCT
1 CCTCGGGCACCATCGGCACCTAGGTGCTT-GATGTGCGGGAGCCTCG-GACACCATCGGCAACCT
*
5667430 AGGCCCTTGGTCGTGCGAGAG
64 AGGCCCTTGGTCGTGCGGGAG
* * * * ** ** * * * **
5667451 GCTCGAGCACCATCGGCAAACTAAGCCCTTGGCCGTGTGGGAGCCTTGGGCACCATCGGCAAAAT
1 CCTCGGGCACCATCGGC-ACCTAGGTGCTT-GATGTGCGGGAGCCTCGGACACCATCGGCAACCT
5667516 AGGCCCTTGGTCGTGCGGGAG
64 AGGCCCTTGGTCGTGCGGGAG
* * * *
5667537 CCTCGGCCACCATCGGCCCCTAGGTGCTGGGATGTGCGGGAGCCTCGGACACCATCGGCAAACTA
1 CCTCGGGCACCATCGGCACCTAGGTGCT-TGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
*
5667602 GGCCCTTGGTCGTGTGGGAG
65 GGCCCTTGGTCGTGCGGGAG
* * * ** *
5667622 CCTCGGGCACCATCGGCAGCTCGGTGCTCTGATGTGCAGGAGCCTCGGACACTGTCAGCAACCTA
1 CCTCGGGCACCATCGGCACCTAGGTGCT-TGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
5667687 GGCCCTTGGTCGTGCGGGAG
65 GGCCCTTGGTCGTGCGGGAG
* * * * * ** *
5667707 CCTCGAGCACCATCGGTAACCTAGG-GCCTTGGTCGTGCGAGAGGCTCGGGTACCATCGGCAAAC
1 CCTCGGGCACCATCGG-CACCTAGGTG-CTTGAT-GTGCGGGAGCCTCGGACACCATCGGCAACC
* *
5667771 TAAGCCCTTGGTCGTGCGAGAG
63 TAGGCCCTTGGTCGTGCGGGAG
* * * * ** *
5667793 CCTCGGGCACCATCGGCAGCTCGATGCTATGATGTGCGGGAGCCTCAGACACTGTCGGTAACCTA
1 CCTCGGGCACCATCGGCACCTAGGTGCT-TGATGTGCGGGAGCCTCGGACACCATCGGCAACCTA
*
5667858 GGCCCTTGGCCGTGCGGGAG
65 GGCCCTTGGTCGTGCGGGAG
* * * * *
5667878 CCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG-CACCATCAGCAACCT
1 CCTCGGGCACCATCGGCACCTAGGTGCTT-GATGTGCGGGAGCCTCG-GACACCATCGGCAACCT
*
5667942 AGGCCCTTGGTCGTGTGGGAG
64 AGGCCCTTGGTCGTGCGGGAG
** ** * * * * *
5667963 CCTCGGGCACCATCGGCAAAATAGGCCCTTGCTCGTGCGGGAGCGTCAGCCACCATCGGC-CCCT
1 CCTCGGGCACCATCGGC-ACCTAGGTGCTTGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCT
** *
5668027 AGGTGCTGGGAT-GTGCGGGAG
64 AGGCCCTTGG-TCGTGCGGGAG
* * * ** * * *
5668048 CCTCGGACACTATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCG
1 CCTCGGGCACCATCGGC-ACCTAGGTGCTTGAT-GTGCGGGAGCCTCGGACACCATCG
5668106 TCAGCTCGGT
Statistics
Matches: 745, Mismatches: 147, Indels: 36
0.80 0.16 0.04
Matches are distributed among these distances:
84 3 0.00
85 580 0.78
86 162 0.22
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (84 bp):
CCTCGGGCACCATCGGCACCTAGGTGCTTGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAG
GCCCTTGGTCGTGCGGGAG
Found at i:5668119 original size:213 final size:212
Alignment explanation
Indices: 5667229--5668206 Score: 693
Period size: 213 Copynumber: 4.6 Consensus size: 212
5667219 GTGCTTTGAT
* * ** *
5667229 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
1 GTGCGGGAGCCTCGAGCACCATCGGC-ACCTCGGTGCTTGGAT-GTGCGGGAACCTC-GGCACCA
* * ** * * * ** * * * *
5667293 TCGGC-AGCTCGGTGCTATGAT-GTGCGGGAGCCTCAGACACTGTCGACAACCTAGGCCCTTGGT
63 TCGGCAACCTAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAAGCCCTTGCT
* * * * * * * *
5667356 CGTGCGGGAGCCTCGAG-TACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTC-GCGCACT
127 CGTGCGAGAGCCTC-AGCCACCATCGGCACCTAGATGCTAGGATGTGCGGGAGCCTCAG-ACACT
* *
5667419 ATCGGCAACCTAGGCCCTTGGTC
190 ATCGGCAAACTAGGCCCTTGGCC
* * * ** ** ** * * *
5667442 GTGCGAGAGGCTCGAGCACCATCGGCAAACTAAGCCCTTGGCCGTGTGGGAGCCTTGGGCACCAT
1 GTGCGGGAGCCTCGAGCACCATCGGC-ACCTCGGTGCTTGGATGTGCGGGAACC-TCGGCACCAT
** * ** * ** * *
5667507 CGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-CCCTAGGTGCTGGGAT-
64 CGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAAGCCCT-TGCTC
* * * * *** * * * * *
5667570 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGTGGGAGCCTCGGGCACCA
128 GTGCGAGAGCCTCAGCCACCATCGGC-ACCTAGATGCTAGGAT-GTGCGGGAGCCTCAGACACTA
* * ** **
5667634 TCGGC-AGCTCGGTGCTCT-GAT
191 TCGGCAAACTAGGCCCT-TGGCC
* ** * * ** *
5667655 GTGCAGGAGCCTCG-GACACTGTCAGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGAGCACC
1 GTGCGGGAGCCTCGAG-CACCATCGGC-ACCTCGGTGCTTGGAT-GTGCGGGAACCTCG-GCACC
* * * * * *
5667718 ATCGGTAACCTAGGGCCTTGGTCGTGCGAGAGGCTCGGGTACCATCGGCAAACTAAGCCCTTGGT
62 ATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAAGCCCTTGCT
* * * * * *
5667783 CGTGCGAGAGCCTCGGGCACCATCGGCAGCTCGATGCTATGATGTGCGGGAGCCTCAGACACTGT
127 CGTGCGAGAGCCTCAGCCACCATCGGCACCTAGATGCTAGGATGTGCGGGAGCCTCAGACACTAT
* *
5667848 CGGTAACCTAGGCCCTTGGCC
192 CGGCAAACTAGGCCCTTGGCC
* *
5667869 GTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGCACCATC
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAACCTCG-GCACCATC
* * * *
5667934 AGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGCTCGT
65 GGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAAGCCCTTGCTCGT
* * * * * *
5667999 GCGGGAGCGTCAGCCACCATCGGCCCCTAGGTGCTGGGATGTGCGGGAGCCTCGGACACTATCGG
130 GCGAGAGCCTCAGCCACCATCGGCACCTAGATGCTAGGATGTGCGGGAGCCTCAGACACTATCGG
*
5668064 CAAACTAGGCCCTTGGTC
195 CAAACTAGGCCCTTGGCC
* * * * * * **
5668082 GTGTGGGAGCCTCGGGCACCATCGTCAGCTCGGTGCTTTGATGTGCGGGAACCTTGGACACTGTC
1 GTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAACCTCGG-CACCATC
* *
5668147 GGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGCGCACTATCGGCAAACTAAGCCCTTG
65 GGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAAGCCCTTG
5668207 GTCCNNNNNN
Statistics
Matches: 606, Mismatches: 138, Indels: 42
0.77 0.18 0.05
Matches are distributed among these distances:
212 5 0.01
213 478 0.79
214 121 0.20
215 2 0.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (212 bp):
GTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTGCTTGGATGTGCGGGAACCTCGGCACCATCG
GCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAACTAAGCCCTTGCTCGTG
CGAGAGCCTCAGCCACCATCGGCACCTAGATGCTAGGATGTGCGGGAGCCTCAGACACTATCGGC
AAACTAGGCCCTTGGCC
Found at i:5668194 original size:128 final size:128
Alignment explanation
Indices: 5667140--5668209 Score: 506
Period size: 128 Copynumber: 8.4 Consensus size: 128
5667130 CTTGGTGCTA
* * * * * **
5667140 GGATGTGCAGGAGCCCCG-GACACCATCGGCAAACTAAGCCCTTGGTCATGCAGGAGCCTCGGGC
1 GGATGTGCGGGAGCCTCGCG-CACTATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGC
* * ** * * * * * *
5667204 GCCATCGG-TACCTCGGTGCTTTGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
65 ACCATCGGCAAAATAGG-CCCTTGATCGTGCGGGAACCTCAGACACCATCGGC-ACCTAGGCCCT
*
5667267 T
128 G
* * * * ** * * * *
5667268 GG-TCGTGCGGGAGCCTCGGGCACCATCGGC-AGCTCGGTGCTATGAT-GTGCGGGAGCCTCAGA
1 GGAT-GTGCGGGAGCCTCGCGCACTATCGGCAAACTAGGCCCT-TGGTCGTGTGGGAGCCTCGGG
** * ** * * * * **
5667330 CACTGTCGACAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GAGTACCATCGGCACCTTGGTGCT
64 CACCATCGGCAAAATAGGCCCTTGATCGTGCGGGAACCTCAGA-CACCATCGGCACCTAGGCCCT
*
5667394 T
128 G
* * * * * * *
5667395 GGATGTGCGAGAACCTCGCGCACTATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGAGCA
1 GGATGTGCGGGAGCCTCGCGCACTATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCA
* * ** * * ** * ** *
5667460 CCATCGGCAAACTAAGCCCTTGGCCGTGTGGGAGCCTTGGGCACCATCGGCAAAATAGGCCCTT
66 CCATCGGCAAAATAGGCCCTTGATCGTGCGGGAACCTCAGACACCATCGGC-ACCTAGGCCCTG
* ** ** * *
5667524 GG-TCGTGCGGGAGCCTCG-GCCACCATCGGC-CCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGG
1 GGAT-GTGCGGGAGCCTCGCG-CACTATCGGCAAACTAGGCCCTTGG-TCGTGTGGGAGCCTCGG
* * * * * * * * * **
5667585 ACACCATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCACCATCGGCAGCTCGGTGCT
63 GCACCATCGGCAAAATAGGCCCTTGATCGTGCGGGAACCTCAGACACCATCGGCACCTAGGCCCT
*
5667650 C
128 G
* * * * * * *
5667651 TGATGTGCAGGAGCCTCG-GACACTGTCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGC
1 GGATGTGCGGGAGCCTCGCG-CACTATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGC
* ** * * * ** * ** * * *
5667715 ACCATCGGTAACCTAGGGCCTTGGTCGTGCGAGAGGCTCGGGTACCATCGGCAAACTAAGCCCTT
65 ACCATCGGCAAAATAGGCCCTTGATCGTGCGGGAACCTCAGACACCATCGGC-ACCTAGGCCCTG
* * * * * *** * * * *
5667780 GG-TCGTGCGAGAGCCTCGGGCACCATCGGC-AGCTCGATGCTATGAT-GTGCGGGAGCCTCAGA
1 GGAT-GTGCGGGAGCCTCGCGCACTATCGGCAAACTAGGCCCT-TGGTCGTGTGGGAGCCTCGGG
** * ** ** * * **
5667842 CACTGTCGGTAACCTAGGCCCTTGGCCGTGCGGGAGCCTC-GAGCACCATCGGCACCTTGGTGCT
64 CACCATCGGCAAAATAGGCCCTTGATCGTGCGGGAACCTCAGA-CACCATCGGCACCTAGGCCCT
*
5667906 T
128 G
* * * * *
5667907 GGATGTGCGAGAACCTCGCGCACCATCAGCAACCTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCA
1 GGATGTGCGGGAGCCTCGCGCACTATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCA
* * * * * **
5667972 CCATCGGCAAAATAGGCCCTTGCTCGTGCGGGAGCGTCAGCCACCATCGGCCCCTAGGTGCTG
66 CCATCGGCAAAATAGGCCCTTGATCGTGCGGGAACCTCAGACACCATCGGCACCTAGGCCCTG
5668035 GGATGTGCGGGAGCCTCG-GACACTATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGC
1 GGATGTGCGGGAGCCTCGCG-CACTATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGC
* ** * * * ** **
5668099 ACCATCGTC-AGCTCGGTGCTTTGAT-GTGCGGGAACCTTGGACACTGTCGGCAACCTAGGCCCT
65 ACCATCGGCAAAATAGG-CCCTTGATCGTGCGGGAACCTCAGACACCATCGGC-ACCTAGGCCCT
*
5668162 T
128 G
*
5668163 GG-TCGTGCGGGAGCCTCGCGCACTATCGGCAAACTAAGCCCTTGGTC
1 GGAT-GTGCGGGAGCCTCGCGCACTATCGGCAAACTAGGCCCTTGGTC
5668210 CNNNNNNNNN
Statistics
Matches: 735, Mismatches: 176, Indels: 62
0.76 0.18 0.06
Matches are distributed among these distances:
127 156 0.21
128 514 0.70
129 64 0.09
130 1 0.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (128 bp):
GGATGTGCGGGAGCCTCGCGCACTATCGGCAAACTAGGCCCTTGGTCGTGTGGGAGCCTCGGGCA
CCATCGGCAAAATAGGCCCTTGATCGTGCGGGAACCTCAGACACCATCGGCACCTAGGCCCTG
Found at i:5668398 original size:43 final size:44
Alignment explanation
Indices: 5668262--5668520 Score: 185
Period size: 43 Copynumber: 6.1 Consensus size: 44
5668252 TGGGTCGGGG
* * ** * *
5668262 GGGA-CCTCCGGCCCCCATCGGCCCCTAGGT-GCTGGGATGTGC
1 GGGAGCCTCGGGCACCCATCGGTACCTTGGTGGCTAGGATGTGC
* * * ** * *
5668304 GGGAGCCTCGGACA-CCATCGGCACCTCGG-CCCTTGG-TCGTAC
1 GGGAGCCTCGGGCACCCATCGGTACCTTGGTGGCTAGGAT-GTGC
* * *
5668346 GGGAGCCTCGGGCA-CTATCGGTACCTTGGTGGCTCGGATGTGT
1 GGGAGCCTCGGGCACCCATCGGTACCTTGGTGGCTAGGATGTGC
* * * * *
5668389 GGGAGCCTCGGGCA-GCACCAGTACCTCGGTGGCTAGGAGGTGC
1 GGGAGCCTCGGGCACCCATCGGTACCTTGGTGGCTAGGATGTGC
** * * *
5668432 GGGAGCCTCGGATA-CCATTGGTAACTTGGT-GCTTGGATGTGC
1 GGGAGCCTCGGGCACCCATCGGTACCTTGGTGGCTAGGATGTGC
* * *
5668474 GGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGATGTGC
1 GGGAGCCTCGGGCACCCATCGGTACCTTGGTGGCTAGGATGTGC
5668518 GGG
1 GGG
5668521 TTAAAGAAGA
Statistics
Matches: 168, Mismatches: 42, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
41 1 0.01
42 71 0.42
43 82 0.49
44 14 0.08
ACGTcount: A:0.13, C:0.29, G:0.38, T:0.20
Consensus pattern (44 bp):
GGGAGCCTCGGGCACCCATCGGTACCTTGGTGGCTAGGATGTGC
Found at i:5668415 original size:85 final size:85
Alignment explanation
Indices: 5668289--5668489 Score: 215
Period size: 85 Copynumber: 2.4 Consensus size: 85
5668279 TCGGCCCCTA
* * * * * *
5668289 GGTGCTGGGATGTGCGGGAGCCTCGGACACCATCGGCACCTCGG-CCCTTGGTCGTACGGGAGCC
1 GGTGCTCGGATGTGCGGGAGCCTCGGGCACCACCAGCACCTCGGTCCCTAGGACGTACGGGAGCC
* * *
5668353 TCGGGCACTATCGGTACCTT
66 TCGGACACCATCGGTAACTT
* * * ** * *
5668373 GGTGGCTCGGATGTGTGGGAGCCTCGGGCAGCACCAGTACCTCGGTGGCTAGGAGGTGCGGGAGC
1 GGT-GCTCGGATGTGCGGGAGCCTCGGGCACCACCAGCACCTCGGTCCCTAGGACGTACGGGAGC
* *
5668438 CTCGGATACCATTGGTAACTT
65 CTCGGACACCATCGGTAACTT
*
5668459 GGTGCTTGGATGTGCGGGAGCCTCGGGCACC
1 GGTGCTCGGATGTGCGGGAGCCTCGGGCACC
5668490 CATCGGCACC
Statistics
Matches: 94, Mismatches: 21, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
84 3 0.03
85 59 0.63
86 32 0.34
ACGTcount: A:0.14, C:0.27, G:0.39, T:0.20
Consensus pattern (85 bp):
GGTGCTCGGATGTGCGGGAGCCTCGGGCACCACCAGCACCTCGGTCCCTAGGACGTACGGGAGCC
TCGGACACCATCGGTAACTT
Found at i:5674913 original size:24 final size:24
Alignment explanation
Indices: 5674879--5674956 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
5674869 CCAGTTAGGT
* * *
5674879 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGCGGTGCTCCAGCGAACCG
*
5674903 TCCCGGCGGTGCTCCAGCAAACCG
1 TCCCGGCGGTGCTCCAGCGAACCG
* *
5674927 TCCCGTCGGTGCTCCTGCGAACCG
1 TCCCGGCGGTGCTCCAGCGAACCG
5674951 TCCCGG
1 TCCCGG
5674957 TAGCATAGGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.09, C:0.41, G:0.32, T:0.18
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCAGCGAACCG
Found at i:5675069 original size:43 final size:43
Alignment explanation
Indices: 5674962--5675212 Score: 193
Period size: 43 Copynumber: 5.9 Consensus size: 43
5674952 CCCGGTAGCA
* * * *
5674962 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCACCGAC-ACC
1 TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATCGGCAAAC
* ** * * * *
5675004 TTGGTGCTAGGAT-GTGTAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCAGGAGCCTCGGGCACCATCGGCAAAC
* ** * * *
5675047 TAAGCCCTTGGTTATGCAGGAGCATCGGGCACCATCGGTAACC
1 TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATCGGCAAAC
* * *
5675090 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATCGGCAAAC
* * * **
5675133 TAGGCCCTTGGTCGTACGGGAGCCTCGGCCACCATCGGC-CCC
1 TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATCGGCAAAC
** * * *
5675175 TAGGTGCTGGGGTCGTGCGGGAGCCTCGAGCACCATCG
1 TAGGCCCT-TGGTCGTGCAGGAGCCTCGGGCACCATCG
5675213 ACACCTTGGT
Statistics
Matches: 163, Mismatches: 42, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
42 34 0.21
43 129 0.79
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATCGGCAAAC
Found at i:5675143 original size:86 final size:86
Alignment explanation
Indices: 5675022--5675212 Score: 213
Period size: 86 Copynumber: 2.2 Consensus size: 86
5675012 AGGATGTGTA
* * * * * *
5675022 GGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTTATGCAGGAGCATCGGGCACCATCGGTA
1 GGAGCCTCGGGCACCATCGGCAAAATAAGCCCTTGGTCATACAGGAGCATCGGCCACCATCGG-A
*
5675087 ACCTAGGCCCT-TGGTCGTGCG
65 ACCTAGGCCCTGGGGTCGTGCG
* * * * * **
5675108 GGAGCCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTACGGGAGCCTCGGCCACCATCGGCC
1 GGAGCCTCGGGCACCATCGGCAAAATAAGCCCTTGGTCATACAGGAGCATCGGCCACCATCGGAA
**
5675173 CCTAGGTGCTGGGGTCGTGCG
66 CCTAGGCCCTGGGGTCGTGCG
*
5675194 GGAGCCTCGAGCACCATCG
1 GGAGCCTCGGGCACCATCG
5675213 ACACCTTGGT
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 8 0.09
86 79 0.91
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.17
Consensus pattern (86 bp):
GGAGCCTCGGGCACCATCGGCAAAATAAGCCCTTGGTCATACAGGAGCATCGGCCACCATCGGAA
CCTAGGCCCTGGGGTCGTGCG
Found at i:5675224 original size:43 final size:43
Alignment explanation
Indices: 5675142--5675224 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
5675132 ATAGGCCCTT
* *
5675142 GGTCGTACGGGAGCCTCGGCCACCATCGGCCCCTAGGTGCTGG
1 GGTCGTACGGGAGCCTCGGCCACCATCGACACCTAGGTGCTGG
* *
5675185 GGTCGTGCGGGAGCCTCGAG-CACCATCGACACCTTGGTGC
1 GGTCGTACGGGAGCCTCG-GCCACCATCGACACCTAGGTGC
5675225 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.13, C:0.34, G:0.36, T:0.17
Consensus pattern (43 bp):
GGTCGTACGGGAGCCTCGGCCACCATCGACACCTAGGTGCTGG
Found at i:5679091 original size:25 final size:25
Alignment explanation
Indices: 5679063--5679131 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
5679053 GAATTAATTA
*
5679063 TTCAAAACTCACCGTTTCAATTGAT
1 TTCAAAACGCACCGTTTCAATTGAT
**
5679088 TTCACCACGCACCGTTTCAATTGAT
1 TTCAAAACGCACCGTTTCAATTGAT
**
5679113 TTCACCACGCACC-TTTCAA
1 TTCAAAACGCACCGTTTCAA
5679132 ATCCCGCCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 6 0.15
25 35 0.85
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (25 bp):
TTCAAAACGCACCGTTTCAATTGAT
Found at i:5683465 original size:77 final size:77
Alignment explanation
Indices: 5683338--5683754 Score: 834
Period size: 77 Copynumber: 5.4 Consensus size: 77
5683328 CCCCGATGTC
5683338 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
1 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
5683403 ACATGAAGAAGG
66 ACATGAAGAAGG
5683415 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
1 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
5683480 ACATGAAGAAGG
66 ACATGAAGAAGG
5683492 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
1 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
5683557 ACATGAAGAAGG
66 ACATGAAGAAGG
5683569 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
1 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
5683634 ACATGAAGAAGG
66 ACATGAAGAAGG
5683646 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
1 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
5683711 ACATGAAGAAGG
66 ACATGAAGAAGG
5683723 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTAT
1 GCAGTGGAGTGGGTTGAAGCACCAGTTTCTAT
5683755 CTCCTCGATG
Statistics
Matches: 340, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 340 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (77 bp):
GCAGTGGAGTGGGTTGAAGCACCAGTTTCTATACCCCTAAAGATGTAGTGGATTAGAACGAGACT
ACATGAAGAAGG
Found at i:5693028 original size:21 final size:21
Alignment explanation
Indices: 5693010--5693054 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
5693000 AATAAATATA
* *
5693010 TACATATAGATAAAAAATAAT
1 TACAGATAAATAAAAAATAAT
5693031 TACAGATAAATAAAAAAATAAT
1 TACAGATAAAT-AAAAAATAAT
5693053 TA
1 TA
5693055 TATTATACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
TACAGATAAATAAAAAATAAT
Found at i:5693146 original size:30 final size:30
Alignment explanation
Indices: 5693110--5693169 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
5693100 TATATTTTCT
5693110 TAAAAAAA-TAACTAAATATAAAAA-AAAGAA
1 TAAAAAAACTAA-TAAATA-AAAAATAAAGAA
*
5693140 TAAAAAAACTAATTAATAAAAAATAAAGAA
1 TAAAAAAACTAATAAATAAAAAATAAAGAA
5693170 AATGAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 5 0.19
30 19 0.70
31 3 0.11
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (30 bp):
TAAAAAAACTAATAAATAAAAAATAAAGAA
Found at i:5693171 original size:27 final size:28
Alignment explanation
Indices: 5693113--5693171 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
5693103 ATTTTCTTAA
*
5693113 AAAAATAACTAAATATAAAAAAAAGAAT
1 AAAAATAACTAAATATAAAAAAAAGAAG
* *
5693141 AAAAA-AACTAATTAATAAAAAATA-AAG
1 AAAAATAACTAAAT-ATAAAAAAAAGAAG
5693168 AAAA
1 AAAA
5693172 TGAAAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (28 bp):
AAAAATAACTAAATATAAAAAAAAGAAG
Found at i:5693759 original size:19 final size:19
Alignment explanation
Indices: 5693734--5693791 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 19
5693724 NNNNNNNNNN
* *
5693734 CATATCTAATATTATATAT
1 CATATCTAAGATTACATAT
* *
5693753 TATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
*
5693772 CATATCTAAGATTGCATAT
1 CATATCTAAGATTACATAT
5693791 C
1 C
5693792 CCTGAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (19 bp):
CATATCTAAGATTACATAT
Found at i:5694398 original size:22 final size:21
Alignment explanation
Indices: 5694363--5694496 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
5694353 AAAGGGTATC
* *
5694363 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
5694384 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
5694407 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
5694426 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
5694445 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
5694464 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
5694483 TGCATATCATATCT
1 TACAAATCATATCT
5694497 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:5694406 original size:23 final size:22
Alignment explanation
Indices: 5694363--5694420 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
5694353 AAAGGGTATC
* *
5694363 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
5694384 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
5694407 TGCATATCATATCT
1 TACAAATCATATCT
5694421 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:5694423 original size:19 final size:19
Alignment explanation
Indices: 5694399--5694509 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
5694389 AATCATATCT
5694399 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
5694418 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
5694437 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
5694456 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
5694475 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
5694494 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
5694510 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:5694446 original size:38 final size:38
Alignment explanation
Indices: 5694399--5694502 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
5694389 AATCATATCT
5694399 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
5694437 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
5694475 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
5694503 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:5695856 original size:26 final size:23
Alignment explanation
Indices: 5695810--5695875 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
5695800 GGCTTAAAAA
*
5695810 ATATATATATTAAATATGCATAT
1 ATATATATATAAAATATGCATAT
*
5695833 ATATTATATATAAAATATGCGCATGT
1 ATA-TATATATAAAATAT--GCATAT
* *
5695859 ATATGTATAGAAAATAT
1 ATATATATATAAAATAT
5695876 AATAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.08
24 13 0.36
25 12 0.33
26 8 0.22
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (23 bp):
ATATATATATAAAATATGCATAT
Found at i:5695897 original size:24 final size:24
Alignment explanation
Indices: 5695865--5695911 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5695855 ATGTATATGT
5695865 ATAGAAAAT-ATAATAATAATAATG
1 ATAGAAAATAAT-ATAATAATAATG
*
5695889 ATAGTAAATAATATAATAATAAT
1 ATAGAAAATAATATAATAATAAT
5695912 ACAATGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATATAATAATAATG
Found at i:5696912 original size:21 final size:21
Alignment explanation
Indices: 5696886--5696925 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5696876 AAAATTGGAC
*
5696886 TGAAACATTAGCCTTTGTTTT
1 TGAAACATTAGCCGTTGTTTT
5696907 TGAAACATTAGCCGTTGTT
1 TGAAACATTAGCCGTTGTT
5696926 GTGTAACGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
TGAAACATTAGCCGTTGTTTT
Found at i:5697150 original size:44 final size:44
Alignment explanation
Indices: 5697102--5697805 Score: 422
Period size: 44 Copynumber: 15.9 Consensus size: 44
5697092 GTAAGACTTG
* *** * *
5697102 TATCTTCGATCTACTTCACACTAGTATGGGAAGACACGATCTAC
1 TATCTTCGATCTACTTCACACCAGTACATGAAGACAAGATCCAC
*** *
5697146 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCA-
1 TATCTTC-GATCTACTTCACACCAGTACATGAAGACAAGATCCAC
*** *
5697189 TCATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCCGC
1 T-ATCTTCGATCTACTTCA-CACCAGTACATGAAGACAAGATCCAC
* * * * **
5697235 TATCTTCGATCTACTTCATATCAATACATGAATACAAGATCTGC
1 TATCTTCGATCTACTTCACACCAGTACATGAAGACAAGATCCAC
* * * **
5697279 TTTCTTCGATCTACTTCACGCCAGTACATGAAGATAAGATCTGC
1 TATCTTCGATCTACTTCACACCAGTACATGAAGACAAGATCCAC
* * *
5697323 TTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCCAT
1 TATCTTCGATCTACTTCACACCAGTACATGAAGACAAGATCCAC
*** * * * ** *
5697367 TATCTTCGATCTACTTCATGTCAATACAGGAAGATAAGATTTAA
1 TATCTTCGATCTACTTCACACCAGTACATGAAGACAAGATCCAC
*** * * * **
5697411 TATC-TCTGATCTACTTCATGTCAATACAGGAAGATAAGATTTGA-
1 TATCTTC-GATCTACTTCACACCAGTACATGAAGACAAGA-TCCAC
*** * *
5697455 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTAC
1 TATCTTC-GATCTACTTCACACCAGTACATGAAGACAAGATCCAC
* *** * *
5697499 TATC-TCTGATCTACTCCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCACACCAGTACATGAAGACAAGATCCAC
* *** **
5697543 TACCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-CACCAGTACATGAAGACAAGATCCAC
* *** * *
5697588 TATC-TCTGATCTATTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCACACCAGTACATGAAGACAAGATCCAC
* *** * ***
5697632 TACCTTCGATCTACTTCATGTCAATACATGAAGACAAGATTTGC
1 TATCTTCGATCTACTTCACACCAGTACATGAAGACAAGATCCAC
* **** * *
5697676 TATC-TCTGATCTACTCCTTGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCACACCAGTACATGAAGACAAGATCCAC
**
5697720 TATCTTCGATCTACTTCACCACCAGT--ATGGAAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-CACCAGTACAT-G-AAGACAAGATCCAC
* *
5697765 TATCTTTGATCTACTTCA-AGCCAATACATGAAGACAAGATC
1 TATCTTCGATCTACTTCACA-CCAGTACATGAAGACAAGATC
5697806 TGCTGCTCTT
Statistics
Matches: 538, Mismatches: 102, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
43 12 0.02
44 417 0.78
45 106 0.20
46 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (44 bp):
TATCTTCGATCTACTTCACACCAGTACATGAAGACAAGATCCAC
Found at i:5697351 original size:88 final size:88
Alignment explanation
Indices: 5697102--5697805 Score: 783
Period size: 88 Copynumber: 8.0 Consensus size: 88
5697092 GTAAGACTTG
* ** * *
5697102 TATCTTCGATCTACTTCACACTAGTATGGGAAGACACGATCTACTATCTCTGATCTACTTCATGT
1 TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATGT
5697167 CAATACATGAAGACAAGATCCAT
66 CAATACATGAAGACAAGATCCAT
* ** *
5697190 CATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCCGCTATCT-TCGATCTACTTCAT
1 TATCTTCGATCTACTTCA-CACCAGTACAGGAAGACAAGATCTGCTATCTCT-GATCTACTTCAT
* *
5697254 ATCAATACATGAATACAAGATCTGC-T
64 GTCAATACATGAAGACAAGATC--CAT
* * * * *
5697280 T-TCTTCGATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCT-TCGATCTACTTCACG
1 TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTATCTCT-GATCTACTTCATG
* *
5697343 CCAGTACATGAAGACAAGATCCAT
65 TCAATACATGAAGACAAGATCCAT
*** * * * **
5697367 TATCTTCGATCTACTTCATGTCAATACAGGAAGATAAGATTTAATATCTCTGATCTACTTCATGT
1 TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATGT
* * **
5697432 CAATACAGGAAGATAAGATTTGA-
66 CAATACATGAAGACAAGA-TCCAT
*** * * * *
5697455 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTACTATCTCTGATCTACTCCATG
1 TATCTTC-GATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATG
5697519 TCAATACATGAAGACAAGATCCAT
65 TCAATACATGAAGACAAGATCCAT
* ** *
5697543 TACCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTCTGATCTATTTCATG
1 TATCTTCGATCTACTTCA-CACCAGTACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATG
5697608 TCAATACATGAAGACAAGATCCAT
65 TCAATACATGAAGACAAGATCCAT
* *** * * * * *
5697632 TACCTTCGATCTACTTCATGTCAATACATGAAGACAAGATTTGCTATCTCTGATCTACTCCTTGT
1 TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATGT
5697697 CAATACATGAAGACAAGATCCAT
66 CAATACATGAAGACAAGATCCAT
* * *
5697720 TATCTTCGATCTACTTCACCACCAGTA-TGGAAAGACAAGATCTGCTATCTTTGATCTACTTCAA
1 TATCTTCGATCTACTTCA-CACCAGTACAGG-AAGACAAGATCTGCTATCTCTGATCTACTTCAT
*
5697784 GCCAATACATGAAGACAAGATC
64 GTCAATACATGAAGACAAGATC
5697806 TGCTGCTCTT
Statistics
Matches: 523, Mismatches: 79, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
86 1 0.00
87 6 0.01
88 303 0.58
89 211 0.40
90 1 0.00
91 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (88 bp):
TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGCTATCTCTGATCTACTTCATGT
CAATACATGAAGACAAGATCCAT
Found at i:5697362 original size:177 final size:177
Alignment explanation
Indices: 5697104--5697809 Score: 868
Period size: 177 Copynumber: 4.0 Consensus size: 177
5697094 AAGACTTGTA
* * * *** * *
5697104 TCTTCGATCTACTTCACACTAGTATGGGAAGACACGATCTACTATCTCTGATCTACTTCATGTCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTCTGATCTACTCCATGTCA
* *
5697169 ATACATGAAGACAAGATCCATCATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCCG
66 ATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG
*
5697234 CTATCT-TCGATCTACTTCATATCAATACATGAATACAAGATCTGCTT
131 CTATCTCT-GATCTACTTCATATCAATACATGAAGACAAGATCTGCTT
* * * * * * *
5697281 TCTTCGATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCT-TCGATCTACTTCACGCC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTCT-GATCTACTCCATGTC
* *** * ** * *
5697345 AGTACATGAAGACAAGATCCATTATCTTCGATCTACTTCA-TGTCAATACAGGAAGATAAGATTT
65 AATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCT
** * * * * * *
5697409 AATATCTCTGATCTACTTCATGTCAATACAGGAAGATAAGATTTGATA
130 GCTATCTCTGATCTACTTCATATCAATACATGAAGACAAGATCTGCTT
* *
5697457 TC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTACTATCTCTGATCTACTCCATGTC
1 TCTTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTCTGATCTACTCCATGTC
*
5697521 AATACATGAAGACAAGATCCATTACCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCT
65 AATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCT
* *
5697586 GCTATCTCTGATCTATTTCATGTCAATACATGAAGACAAGATC--CATT
130 GCTATCTCTGATCTACTTCATATCAATACATGAAGACAAGATCTGC-TT
* * * * * *
5697633 ACCTTCGATCTACTTCATGTCAATACATGAAGACAAGATTTGCTATCTCTGATCTACTCCTTGTC
1 -TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTCTGATCTACTCCATGTC
*
5697698 AATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGAAAGACAAGATCT
65 AATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCT
* *
5697763 GCTATCTTTGATCTACTTCA-AGCCAATACATGAAGACAAGATCTGCT
130 GCTATCTCTGATCTACTTCATA-TCAATACATGAAGACAAGATCTGCT
5697810 GCTCTTTAGC
Statistics
Matches: 450, Mismatches: 68, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
175 2 0.00
176 142 0.32
177 302 0.67
178 3 0.01
179 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (177 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTCTGATCTACTCCATGTCA
ATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG
CTATCTCTGATCTACTTCATATCAATACATGAAGACAAGATCTGCTT
Found at i:5699081 original size:14 final size:14
Alignment explanation
Indices: 5699064--5699113 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
5699054 CTTTAGCCTC
5699064 TCCATTTTACTTTT
1 TCCATTTTACTTTT
*
5699078 TCCATTTTTCATTTT
1 TCCATTTTAC-TTTT
5699093 TCC-TTTTCACTTTT
1 TCCATTTT-ACTTTT
5699107 T-CATTTT
1 TCCATTTT
5699114 TTTCATTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 22 0.71
15 8 0.26
ACGTcount: A:0.12, C:0.22, G:0.00, T:0.66
Consensus pattern (14 bp):
TCCATTTTACTTTT
Found at i:5699091 original size:21 final size:21
Alignment explanation
Indices: 5699066--5699113 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
5699056 TTAGCCTCTC
*
5699066 CATTTTACTTTTTC-CATTTTT
1 CATTTTACCTTTTCAC-TTTTT
*
5699087 CATTTTTCCTTTTCACTTTTT
1 CATTTTACCTTTTCACTTTTT
5699108 CATTTT
1 CATTTT
5699114 TTTCATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (21 bp):
CATTTTACCTTTTCACTTTTT
Found at i:5704000 original size:34 final size:33
Alignment explanation
Indices: 5703924--5704001 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 33
5703914 AAGTAAAATG
* *
5703924 AAAATATAAAAATATGTATATGTATATATATTT
1 AAAATATAAAAAAATGTATATGTATATATATAT
* * *
5703957 ACAACATAAAAGAAATGTATATGTATATATCTAT
1 AAAATATAAAA-AAATGTATATGTATATATATAT
5703991 AAAATATAAAA
1 AAAATATAAAA
5704002 TATATAAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 9 0.24
34 28 0.76
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (33 bp):
AAAATATAAAAAAATGTATATGTATATATATAT
Found at i:5704123 original size:30 final size:28
Alignment explanation
Indices: 5704089--5704151 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
5704079 AAAAAGTCGT
5704089 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTT-AAAATTTACCGAAATGGGCC-A
** *
5704119 TTTTTTTATTATTTACCGGAATGGGCCA
1 TTTTTTTAAAATTTACCGAAATGGGCCA
5704147 TTTTT
1 TTTTT
5704152 CGCGAAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 6 0.20
29 17 0.57
30 7 0.23
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCGAAATGGGCCA
Found at i:5704244 original size:40 final size:41
Alignment explanation
Indices: 5704156--5704244 Score: 92
Period size: 42 Copynumber: 2.2 Consensus size: 41
5704146 ATTTTTCGCG
* * * * *
5704156 AAATCGCGTCCACGTCAGCGCGATGTTAGGGTACGTGTCAG
1 AAATCGCATCCACGTCAGCGCAATGTTAGCGTACGTGACAC
*
5704197 AACATCGCATCCACGTCAGCGCAAT-TT-GCTTACGTGGACAC
1 AA-ATCGCATCCACGTCAGCGCAATGTTAGCGTACGT-GACAC
5704238 AAATCGC
1 AAATCGC
5704245 TCCTACGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
40 11 0.28
41 9 0.22
42 20 0.50
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (41 bp):
AAATCGCATCCACGTCAGCGCAATGTTAGCGTACGTGACAC
Found at i:5705164 original size:15 final size:15
Alignment explanation
Indices: 5705146--5705184 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
5705136 TAAAGGCTTA
5705146 AAATATATATATATT
1 AAATATATATATATT
5705161 AAATATGCATATATATT
1 AAATAT--ATATATATT
*
5705178 ATATATA
1 AAATATA
5705185 AAATATGCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.33
17 14 0.67
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (15 bp):
AAATATATATATATT
Found at i:5705196 original size:26 final size:23
Alignment explanation
Indices: 5705148--5705215 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
5705138 AAGGCTTAAA
*
5705148 ATATATATATATTAAATATGCAT
1 ATATATATATATAAAATATGCAT
5705171 ATATATTATATATAAAATATGCGCAT
1 ATATA-TATATATAAAATAT--GCAT
* * *
5705197 GTATATGTATAGAAAATAT
1 ATATATATATATAAAATAT
5705216 AATAATAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.13
24 13 0.34
25 12 0.32
26 8 0.21
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (23 bp):
ATATATATATATAAAATATGCAT
Found at i:5705237 original size:24 final size:24
Alignment explanation
Indices: 5705205--5705251 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5705195 ATGTATATGT
5705205 ATAGAAAAT-ATAATAATAATAATG
1 ATAGAAAATAAT-ATAATAATAATG
*
5705229 ATAGTAAATAATATAATAATAAT
1 ATAGAAAATAATATAATAATAAT
5705252 ACAATGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATATAATAATAATG
Found at i:5708768 original size:12 final size:12
Alignment explanation
Indices: 5708753--5708777 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5708743 GACATACATA
5708753 TATGGATCAGTT
1 TATGGATCAGTT
5708765 TATGGATCAGTT
1 TATGGATCAGTT
5708777 T
1 T
5708778 TTAACAGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TATGGATCAGTT
Found at i:5720953 original size:22 final size:22
Alignment explanation
Indices: 5720917--5720962 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
5720907 AACTCTTACT
5720917 TTTATTTTTAAAAATTTAATCTA
1 TTTATTTTTAAAAATTTAAT-TA
*
5720940 TTTATTTTT-TAAATTTAATTA
1 TTTATTTTTAAAAATTTAATTA
5720961 TT
1 TT
5720963 AACACTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 9 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTATTTTTAAAAATTTAATTA
Found at i:5721315 original size:22 final size:22
Alignment explanation
Indices: 5721287--5721336 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
5721277 ACAAATCCTA
5721287 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
5721309 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
5721331 TCTCAA
1 TCTCAA
5721337 ACTCTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:5721344 original size:30 final size:30
Alignment explanation
Indices: 5721308--5721366 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
5721298 TTCCAAAATC
*
5721308 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAAA
5721338 CTCTCAATTTCCTTCCAAAATCCTCTCAA
1 CTCTCAATTTCCTTCCAAAATCCTCTCAA
5721367 TTTCCTTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.36
Consensus pattern (30 bp):
CTCTCAATTTCCTTCCAAAATCCTCTCAAA
Done.