Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 71 of 444
Found at i:16891352 original size:21 final size:22
Alignment explanation
Indices: 16891328--16891408 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 22
16891318 CCATGGTATC
16891328 TTTCA-ACCATGGTCTTATACA
1 TTTCATACCATGGTCTTATACA
* *
16891349 TTTCATATCATGTTGCCATGGTAT-C-
1 TTTCATACCATG--GTC-T--TATACA
16891374 TTTCA-ACCATGGTCTTATACA
1 TTTCATACCATGGTCTTATACA
*
16891395 TTTCATATCATGGT
1 TTTCATACCATGGT
16891409 TCAACCATGG
Statistics
Matches: 46, Mismatches: 5, Indels: 17
0.68 0.07 0.25
Matches are distributed among these distances:
19 3 0.07
20 1 0.02
21 11 0.24
22 14 0.30
24 7 0.15
25 6 0.13
26 1 0.02
27 3 0.07
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (22 bp):
TTTCATACCATGGTCTTATACA
Found at i:16891417 original size:33 final size:33
Alignment explanation
Indices: 16891375--16891439 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
16891365 CATGGTATCT
16891375 TTCAACCATGGTCTTATACATTTCATATCATGG
1 TTCAACCATGGTCTTATACATTTCATATCATGG
16891408 TTCAACCATGGTCTTATACATTTCATATCATG
1 TTCAACCATGGTCTTATACATTTCATATCATG
16891440 TTGCCATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (33 bp):
TTCAACCATGGTCTTATACATTTCATATCATGG
Found at i:16891428 original size:79 final size:79
Alignment explanation
Indices: 16891329--16891485 Score: 314
Period size: 79 Copynumber: 2.0 Consensus size: 79
16891319 CATGGTATCT
16891329 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
16891394 ATTTCATATCATGG
66 ATTTCATATCATGG
16891408 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
16891473 ATTTCATATCATG
66 ATTTCATATCATG
16891486 TTGCCATGGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (79 bp):
TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
ATTTCATATCATGG
Found at i:16891435 original size:125 final size:125
Alignment explanation
Indices: 16891283--16891531 Score: 489
Period size: 125 Copynumber: 2.0 Consensus size: 125
16891273 CATGGTATCT
16891283 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
16891348 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
66 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
*
16891408 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
16891473 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATG
66 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATG
16891532 TTGCCATGGT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (125 bp):
TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
Found at i:16891447 original size:171 final size:171
Alignment explanation
Indices: 16891237--16891571 Score: 634
Period size: 171 Copynumber: 2.0 Consensus size: 171
16891227 CATGGTATCT
16891237 TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
16891302 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
66 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
16891367 TGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
131 TGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
* * * *
16891408 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
16891473 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
66 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
16891538 TGGTATCTTTCAACCATGGTCTTATACATTTCAT
131 TGGTATCTTTCAACCATGGTCTTATACATTTCAT
16891572 TTCAGAGAGC
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 160 1.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (171 bp):
TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
TGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
Found at i:16891460 original size:46 final size:46
Alignment explanation
Indices: 16891408--16891571 Score: 328
Period size: 46 Copynumber: 3.6 Consensus size: 46
16891398 CATATCATGG
16891408 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
16891454 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
16891500 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
16891546 TTCAACCATGGTCTTATACATTTCAT
1 TTCAACCATGGTCTTATACATTTCAT
16891572 TTCAGAGAGC
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (46 bp):
TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
Found at i:16893727 original size:11 final size:11
Alignment explanation
Indices: 16893711--16893762 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
16893701 TATACTAAAT
16893711 AAATAATAATA
1 AAATAATAATA
*
16893722 AAATAAT-ATT
1 AAATAATAATA
* *
16893732 AAATATCTCATA
1 AAATA-ATAATA
*
16893744 AAATATTAATA
1 AAATAATAATA
16893755 AAATAATA
1 AAATAATA
16893763 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:16896658 original size:46 final size:46
Alignment explanation
Indices: 16896593--16896918 Score: 460
Period size: 46 Copynumber: 7.1 Consensus size: 46
16896583 TTATCTTTGA
* * * * *
16896593 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* * *
16896639 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
16896685 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
16896731 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
16896777 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
16896823 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATAT
16896869 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATAT
16896915 CATG
1 CATG
16896919 GTTCAACCAT
Statistics
Matches: 262, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 258 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:16896864 original size:21 final size:22
Alignment explanation
Indices: 16896840--16896920 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 22
16896830 CCATGGTATC
16896840 TTTCA-ACCATGGTCTTATACA
1 TTTCATACCATGGTCTTATACA
* *
16896861 TTTCATATCATGTTGCCATGGTAT-C-
1 TTTCATACCATG--GTC-T--TATACA
16896886 TTTCA-ACCATGGTCTTATACA
1 TTTCATACCATGGTCTTATACA
*
16896907 TTTCATATCATGGT
1 TTTCATACCATGGT
16896921 TCAACCATGG
Statistics
Matches: 46, Mismatches: 5, Indels: 17
0.68 0.07 0.25
Matches are distributed among these distances:
19 3 0.07
20 1 0.02
21 11 0.24
22 14 0.30
24 7 0.15
25 6 0.13
26 1 0.02
27 3 0.07
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (22 bp):
TTTCATACCATGGTCTTATACA
Found at i:16896929 original size:33 final size:33
Alignment explanation
Indices: 16896887--16896951 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
16896877 CATGGTATCT
16896887 TTCAACCATGGTCTTATACATTTCATATCATGG
1 TTCAACCATGGTCTTATACATTTCATATCATGG
16896920 TTCAACCATGGTCTTATACATTTCATATCATG
1 TTCAACCATGGTCTTATACATTTCATATCATG
16896952 TTGCCATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (33 bp):
TTCAACCATGGTCTTATACATTTCATATCATGG
Found at i:16896940 original size:79 final size:79
Alignment explanation
Indices: 16896841--16896997 Score: 314
Period size: 79 Copynumber: 2.0 Consensus size: 79
16896831 CATGGTATCT
16896841 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
16896906 ATTTCATATCATGG
66 ATTTCATATCATGG
16896920 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
16896985 ATTTCATATCATG
66 ATTTCATATCATG
16896998 TTGCCATGGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (79 bp):
TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
ATTTCATATCATGG
Found at i:16896947 original size:125 final size:125
Alignment explanation
Indices: 16896795--16897043 Score: 489
Period size: 125 Copynumber: 2.0 Consensus size: 125
16896785 CATGGTATCT
16896795 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
16896860 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
66 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
*
16896920 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
16896985 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATG
66 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATG
16897044 TTGCCATGGT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (125 bp):
TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
Found at i:16896959 original size:171 final size:171
Alignment explanation
Indices: 16896749--16897083 Score: 634
Period size: 171 Copynumber: 2.0 Consensus size: 171
16896739 CATGGTATCT
16896749 TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
16896814 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
66 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
16896879 TGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
131 TGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
* * * *
16896920 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATAC
1 TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
16896985 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
66 ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
16897050 TGGTATCTTTCAACCATGGTCTTATACATTTCAT
131 TGGTATCTTTCAACCATGGTCTTATACATTTCAT
16897084 TTCAGAGAGC
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 160 1.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (171 bp):
TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
ATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCA
TGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGG
Found at i:16896972 original size:46 final size:46
Alignment explanation
Indices: 16896920--16897083 Score: 328
Period size: 46 Copynumber: 3.6 Consensus size: 46
16896910 CATATCATGG
16896920 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
16896966 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
16897012 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
16897058 TTCAACCATGGTCTTATACATTTCAT
1 TTCAACCATGGTCTTATACATTTCAT
16897084 TTCAGAGAGC
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (46 bp):
TTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCT
Found at i:16899237 original size:11 final size:11
Alignment explanation
Indices: 16899221--16899272 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
16899211 TATACTAAAT
16899221 AAATAATAATA
1 AAATAATAATA
*
16899232 AAATAAT-ATT
1 AAATAATAATA
* *
16899242 AAATATCTCATA
1 AAATA-ATAATA
*
16899254 AAATATTAATA
1 AAATAATAATA
16899265 AAATAATA
1 AAATAATA
16899273 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:16902466 original size:11 final size:11
Alignment explanation
Indices: 16902450--16902474 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16902440 TCCAATGCCG
16902450 AATCATTGTCA
1 AATCATTGTCA
16902461 AATCATTGTCA
1 AATCATTGTCA
16902472 AAT
1 AAT
16902475 ATGTCCGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (11 bp):
AATCATTGTCA
Found at i:16903243 original size:16 final size:16
Alignment explanation
Indices: 16903222--16903262 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16903212 CTTTTGTTTT
16903222 AATTTACTT-ATTAACC
1 AATTTA-TTAATTAACC
16903238 AATTTATTAATTAACC
1 AATTTATTAATTAACC
16903254 --TTTATTAAT
1 AATTTATTAAT
16903263 ATTCACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 2 0.08
16 13 0.54
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTATTAATTAACC
Found at i:16911584 original size:38 final size:38
Alignment explanation
Indices: 16911536--16911645 Score: 211
Period size: 38 Copynumber: 2.9 Consensus size: 38
16911526 GGACTGTGAA
16911536 AAGAATTATTTATGAATGTAATTAAAAACACTTTGGTG
1 AAGAATTATTTATGAATGTAATTAAAAACACTTTGGTG
16911574 AAGAATTATTTATGAATGTAATTAAAAACACTTTGGTG
1 AAGAATTATTTATGAATGTAATTAAAAACACTTTGGTG
*
16911612 AAGAATTATTTATAAATGTAATTAAAAACACTTT
1 AAGAATTATTTATGAATGTAATTAAAAACACTTT
16911646 CATGAAAAGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (38 bp):
AAGAATTATTTATGAATGTAATTAAAAACACTTTGGTG
Found at i:16913092 original size:18 final size:18
Alignment explanation
Indices: 16913054--16913093 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16913044 ATTGTTTCTC
* * *
16913054 AAAAGCACTTTTGGGACA
1 AAAAGAACTTTTGAGAAA
16913072 AAAAGAACTTTTGAGAAA
1 AAAAGAACTTTTGAGAAA
16913090 AAAA
1 AAAA
16913094 ATCTCTAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (18 bp):
AAAAGAACTTTTGAGAAA
Found at i:16916081 original size:116 final size:116
Alignment explanation
Indices: 16915941--16916169 Score: 404
Period size: 116 Copynumber: 2.0 Consensus size: 116
16915931 TAATTAGAGT
* *
16915941 GGGTGAATAGGTATGGTTTGGTTTTAAAGTAGCATGGTTTTTGGGTCAAATTTGGTGCACACAAC
1 GGGTGAATAGGTATGGTTTGGTTTTAAAATAGCATAGTTTTTGGGTCAAATTTGGTGCACACAAC
16916006 CATATGTCATTTGAGAGTTTCTTAGTGTTTCAAGCCAATGAGTTACACAGC
66 CATATGTCATTTGAGAGTTTCTTAGTGTTTCAAGCCAATGAGTTACACAGC
* *
16916057 GGGTGAATAGGTATGGTTTGGTTTTAAAATGGCATAGTTTTTTGGTCAAATTTGGTGCACACAAC
1 GGGTGAATAGGTATGGTTTGGTTTTAAAATAGCATAGTTTTTGGGTCAAATTTGGTGCACACAAC
* *
16916122 CATGTGTCATTTGAGAGTTTCTTAGTGTTTCAAGTCAATGAGTTACAC
66 CATATGTCATTTGAGAGTTTCTTAGTGTTTCAAGCCAATGAGTTACAC
16916170 GGCCTAGCAC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 107 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (116 bp):
GGGTGAATAGGTATGGTTTGGTTTTAAAATAGCATAGTTTTTGGGTCAAATTTGGTGCACACAAC
CATATGTCATTTGAGAGTTTCTTAGTGTTTCAAGCCAATGAGTTACACAGC
Found at i:16916675 original size:14 final size:14
Alignment explanation
Indices: 16916656--16916684 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16916646 GGCCTGATGT
16916656 CATAATGTGACATA
1 CATAATGTGACATA
16916670 CATAATGTGACATA
1 CATAATGTGACATA
16916684 C
1 C
16916685 TATTTGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (14 bp):
CATAATGTGACATA
Found at i:16917617 original size:20 final size:21
Alignment explanation
Indices: 16917575--16917617 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16917565 GATAAATTTT
* *
16917575 AAAAAATAATTTCTTTTGCTA
1 AAAAAATAATTTCCTTTGATA
16917596 AAAAAATAATTTCCTTT-ATA
1 AAAAAATAATTTCCTTTGATA
16917616 AA
1 AA
16917618 CTATGACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAAATAATTTCCTTTGATA
Found at i:16920494 original size:116 final size:116
Alignment explanation
Indices: 16920359--16920628 Score: 396
Period size: 116 Copynumber: 2.3 Consensus size: 116
16920349 TTAGAAAATG
* * *
16920359 CCGCTAAAGATAAAACATTAGCGGCGTTTTTTAAAAAGCCCCGCAAAAAAAGTTGAACAAAACGA
1 CCGCTAAAGATAGAGCATTAGCGGCGTTTTCTAAAAAGCCCCGCAAAAAAAGTTGAACAAAACGA
* *
16920424 CATTGCCCTTTGTTTAGAAGATAGATCTTTAGCAGCGGTTTTTGAAAAACA
66 CATCGCCCTTTGTTTAGAAGATAGATCTTTAGCAGCGCTTTTTGAAAAACA
* * * * *
16920475 CCGCTAAAGATAGAGCATTAGCGGCATTTTCTGAAAAGCGCTGCAAAAAAAGTTGACCAAAACGA
1 CCGCTAAAGATAGAGCATTAGCGGCGTTTTCTAAAAAGCCCCGCAAAAAAAGTTGAACAAAACGA
* * *
16920540 CGTCGCCCTTTGTTTAGAAGATAGATCTTTAGCGGCGCTTTTTGAAAAACG
66 CATCGCCCTTTGTTTAGAAGATAGATCTTTAGCAGCGCTTTTTGAAAAACA
* *
16920591 CCGCTAAAGATAGAGCATTAGAGGCGGTTTCTGAAAAA
1 CCGCTAAAGATAGAGCATTAGCGGCGTTTTCT-AAAAA
16920629 CGCCGCTAAA
Statistics
Matches: 136, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
116 132 0.97
117 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (116 bp):
CCGCTAAAGATAGAGCATTAGCGGCGTTTTCTAAAAAGCCCCGCAAAAAAAGTTGAACAAAACGA
CATCGCCCTTTGTTTAGAAGATAGATCTTTAGCAGCGCTTTTTGAAAAACA
Found at i:16920626 original size:40 final size:40
Alignment explanation
Indices: 16920557--16920641 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
16920547 CTTTGTTTAG
* * * *
16920557 AAGATAGATCTTTAGCGGCGCTTTTTGAAAAACGCCGCTA
1 AAGATAGAGCATTAGAGGCGCTTTCTGAAAAACGCCGCTA
*
16920597 AAGATAGAGCATTAGAGGCGGTTTCTGAAAAACGCCGCTA
1 AAGATAGAGCATTAGAGGCGCTTTCTGAAAAACGCCGCTA
16920637 AAGAT
1 AAGAT
16920642 CACCTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (40 bp):
AAGATAGAGCATTAGAGGCGCTTTCTGAAAAACGCCGCTA
Found at i:16921754 original size:80 final size:81
Alignment explanation
Indices: 16921658--16921887 Score: 284
Period size: 80 Copynumber: 2.8 Consensus size: 81
16921648 GTGTTTATTT
* * *
16921658 AAAAAACACTGCAAAAAACATAGCAGTTTAACGAAAACGACATCGTTTTAATTGGATATTTAGGG
1 AAAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCATCGTTTTAATTGGATATTTAGGG
16921723 GAGTA-GCGGTTTTTG
66 GAGTACGCGGTTTTTG
* *
16921738 AAAAAACGCCGCAAAAAACATAGCAGTTTAATGAAAACGGCGTCGTTTTAATTGGATATTTAGGG
1 AAAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCATCGTTTTAATTGGATATTTAGGG
*
16921803 GAGTATCGGCGTTTTTTG
66 GAGTA-C-GCGGTTTTTG
* * * ** * * * *
16921821 AAAAAACGCCACAAAAAGCAAAAAAGTATAACGTAAACGGCATCGTTTT-ATATGGAGATGTAGG
1 AAAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCATCGTTTTAAT-TGGATATTTAGG
16921885 GGA
65 GGA
16921888 TTAATATGGG
Statistics
Matches: 129, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
80 65 0.50
82 2 0.02
83 62 0.48
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (81 bp):
AAAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCATCGTTTTAATTGGATATTTAGGG
GAGTACGCGGTTTTTG
Found at i:16921860 original size:83 final size:80
Alignment explanation
Indices: 16921686--16921887 Score: 244
Period size: 83 Copynumber: 2.5 Consensus size: 80
16921676 CATAGCAGTT
* *
16921686 TAACGAAAACGACATCGTTTTAATTGGATATTTAGGGGAGTAGCGGTTTTTGAAAAAACGCCGCA
1 TAACGAAAACGGCATCGTTTTAATTGGATATTTAGGGGAGTAGCGGTTTTTGAAAAAACGCCACA
* ** *
16921751 AAAAACATAGCAGTT
66 AAAAACAAAAAAGTA
* * *
16921766 TAATGAAAACGGCGTCGTTTTAATTGGATATTTAGGGGAGTATCGGCGTTTTTTGAAAAAACGCC
1 TAACGAAAACGGCATCGTTTTAATTGGATATTTAGGGGAGTA---GCGGTTTTTGAAAAAACGCC
*
16921831 ACAAAAAGCAAAAAAGTA
63 ACAAAAAACAAAAAAGTA
* * *
16921849 TAACGTAAACGGCATCGTTTT-ATATGGAGATGTAGGGGA
1 TAACGAAAACGGCATCGTTTTAAT-TGGATATTTAGGGGA
16921888 TTAATATGGG
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 39 0.38
82 2 0.02
83 62 0.60
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (80 bp):
TAACGAAAACGGCATCGTTTTAATTGGATATTTAGGGGAGTAGCGGTTTTTGAAAAAACGCCACA
AAAAACAAAAAAGTA
Found at i:16924146 original size:27 final size:27
Alignment explanation
Indices: 16924108--16924161 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16924098 CCTACGTAGA
16924108 AGTGGAGAAAAAACTGCTCGGTATGTC
1 AGTGGAGAAAAAACTGCTCGGTATGTC
16924135 AGTGGAGAAAAAACTGCTCGGTATGTC
1 AGTGGAGAAAAAACTGCTCGGTATGTC
16924162 CTAGTGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (27 bp):
AGTGGAGAAAAAACTGCTCGGTATGTC
Found at i:16924170 original size:26 final size:27
Alignment explanation
Indices: 16924112--16924170 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
16924102 CGTAGAAGTG
* *
16924112 GAGAAAAAACTGCTCGGTATGTCAGTG
1 GAGAAAAAACTGCTCGGTATGTCACTA
16924139 GAGAAAAAACTGCTCGGTATGTC-CTA
1 GAGAAAAAACTGCTCGGTATGTCACTA
*
16924165 GTGAAA
1 GAGAAA
16924171 TCCAATACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (27 bp):
GAGAAAAAACTGCTCGGTATGTCACTA
Found at i:16926673 original size:14 final size:14
Alignment explanation
Indices: 16926649--16926681 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16926639 ACGAAAAATA
16926649 ATTTT-AATATTTG
1 ATTTTAAATATTTG
16926662 ATTTTAAATATTTG
1 ATTTTAAATATTTG
16926676 ATTTTA
1 ATTTTA
16926682 TTTTAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
ATTTTAAATATTTG
Found at i:16926682 original size:112 final size:107
Alignment explanation
Indices: 16926547--16927029 Score: 583
Period size: 99 Copynumber: 4.7 Consensus size: 107
16926537 AAGTTGTATA
* *
16926547 AATATTT-TTTATCTTTTATTTTATTTTCAAATTACCTAATTAAATTAAATTATATTTAAAGTTT
1 AATATTTATTT-TATTTTATTTTATTTT-AAATTACCTAATTAAATTAAATTGTATTTAAAGTTT
* * *
16926611 CATTTTAAATATTTTATTT-TTTTGAATCACGAAAAATAATTTT
64 TATTTTAAATATTTCATTTAATTTGAATCACGAAAAATAATTTT
16926654 AATATTTGATTTTAAATATTTGATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAA
1 AATATTT-ATTTT--AT-TTT-ATTTTATTTTAA-ATTACCTAATTAAATTAAATTGTATTTAAA
16926719 GTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAAAATAA-TTT
60 GTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAAAATAATTTT
* *
16926766 CA-A--TATTTTATTTTATTTTA----ACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
1 AATATTTATTTTATTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
16926824 TTTTAAATATTTCATTTAATTTGAATCACGAAAAATAA-TTT
66 TTTTAAATATTTCATTTAATTTGAATCACGAAAAATAATTTT
* *
16926865 CA-A--TATTTTA-TTT-TTTTA----ACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
1 AATATTTATTTTATTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
*
16926921 TTTTAAATATTTCATTT-TTTTGAATCACGAAAAATAA-TTT
66 TTTTAAATATTTCATTTAATTTGAATCACGAAAAATAATTTT
* *
16926961 CA-A--TATTTTATTTTATTTTA----ACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
1 AATATTTATTTTATTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
16927019 TTTTAAATATT
66 TTTTAAATATT
16927030 CTATTTTATT
Statistics
Matches: 358, Mismatches: 8, Indels: 29
0.91 0.02 0.07
Matches are distributed among these distances:
96 32 0.09
97 63 0.18
98 57 0.16
99 87 0.24
100 1 0.00
104 6 0.02
105 3 0.01
106 2 0.01
107 7 0.02
108 6 0.02
109 4 0.01
110 1 0.00
111 6 0.02
112 64 0.18
113 19 0.05
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (107 bp):
AATATTTATTTTATTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
TTTTAAATATTTCATTTAATTTGAATCACGAAAAATAATTTT
Found at i:16926771 original size:99 final size:99
Alignment explanation
Indices: 16926668--16927029 Score: 685
Period size: 99 Copynumber: 3.7 Consensus size: 99
16926658 TTTGATTTTA
*
16926668 AATATTTGATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
16926733 ATTTCATTTAATTTGAATCACGAAAAATAATTTC
66 ATTTCATTTAATTTGAATCACGAAAAATAATTTC
16926767 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
16926832 ATTTCATTTAATTTGAATCACGAAAAATAATTTC
66 ATTTCATTTAATTTGAATCACGAAAAATAATTTC
16926866 AATATTTTA-TTT-TTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
*
16926929 ATTTCATTT-TTTTGAATCACGAAAAATAATTTC
66 ATTTCATTTAATTTGAATCACGAAAAATAATTTC
16926962 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
16927027 ATT
66 ATT
16927030 CTATTTTATT
Statistics
Matches: 259, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
96 32 0.12
97 63 0.24
98 57 0.22
99 107 0.41
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (99 bp):
AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
ATTTCATTTAATTTGAATCACGAAAAATAATTTC
Found at i:16927015 original size:195 final size:198
Alignment explanation
Indices: 16926668--16927029 Score: 685
Period size: 195 Copynumber: 1.8 Consensus size: 198
16926658 TTTGATTTTA
16926668 AATATTTGATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTGATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
16926733 ATTTCATTTAATTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTACCTAAT
66 ATTTCATTTAATTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTACCTAAT
16926798 TAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAAAATAAT
131 TAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAAAATAAT
16926863 TTC
196 TTC
*
16926866 AATATTTTA-TTT-TTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTGATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
*
16926929 ATTTCATTT-TTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTACCTAAT
66 ATTTCATTTAATTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTACCTAAT
16926993 TAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
131 TAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
16927030 CTATTTTATT
Statistics
Matches: 162, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
195 91 0.56
196 60 0.37
197 3 0.02
198 8 0.05
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (198 bp):
AATATTTGATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
ATTTCATTTAATTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTACCTAAT
TAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAAAATAAT
TTC
Found at i:16927172 original size:34 final size:32
Alignment explanation
Indices: 16927134--16927243 Score: 109
Period size: 34 Copynumber: 3.4 Consensus size: 32
16927124 GTTCACCAGC
16927134 AACTTACATAATTTACTTAGTTTACATAATACAT
1 AACTTACATAATTTAC-TAG-TTACATAATACAT
* * *
16927168 AACTTACATAATTTA-AAGTT-CGA-ATTTCAT
1 AACTTACATAATTTACTAGTTAC-ATAATACAT
*
16927198 AACTTACATAATTTACATAACTTACATAATACAT
1 AACTTACATAATTTAC-T-AGTTACATAATACAT
*
16927232 ATCTTACATAAT
1 AACTTACATAAT
16927244 ACATGACTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
30 21 0.34
31 3 0.05
32 2 0.03
33 4 0.06
34 32 0.52
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (32 bp):
AACTTACATAATTTACTAGTTACATAATACAT
Found at i:16927175 original size:9 final size:9
Alignment explanation
Indices: 16927134--16927297 Score: 72
Period size: 9 Copynumber: 18.2 Consensus size: 9
16927124 GTTCACCAGC
16927134 AACTTACAT
1 AACTTACAT
* *
16927143 AATTTACTT
1 AACTTACAT
**
16927152 AGTTTACAT
1 AACTTACAT
16927161 AA--TACAT
1 AACTTACAT
16927168 AACTTACAT
1 AACTTACAT
* *
16927177 AATTTAAAGTT
1 AACTTACA--T
*
16927188 CGAA-TTTCAT
1 --AACTTACAT
16927198 AACTTACAT
1 AACTTACAT
*
16927207 AATTTACAT
1 AACTTACAT
16927216 AACTTACAT
1 AACTTACAT
16927225 AA--TACAT
1 AACTTACAT
*
16927232 ATCTTACAT
1 AACTTACAT
16927241 AA--TACAT
1 AACTTACAT
* *
16927248 GACTTACAC
1 AACTTACAT
* *
16927257 AATTTAAAGAT
1 AACTT--ACAT
* *
16927268 CAAATTTCAT
1 -AACTTACAT
16927278 AACTTACAT
1 AACTTACAT
*
16927287 AATTTACAT
1 AACTTACAT
16927296 AA
1 AA
16927298 AATTAACACA
Statistics
Matches: 115, Mismatches: 26, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
7 19 0.17
8 2 0.02
9 79 0.69
10 3 0.03
11 3 0.03
12 7 0.06
13 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (9 bp):
AACTTACAT
Found at i:16927176 original size:16 final size:16
Alignment explanation
Indices: 16927155--16927255 Score: 91
Period size: 16 Copynumber: 6.3 Consensus size: 16
16927145 TTTACTTAGT
16927155 TTACATAATACATAAC
1 TTACATAATACATAAC
** *
16927171 TTACATAATTTA-AAG
1 TTACATAATACATAAC
* *
16927186 TT-CGA-ATTTCATAAC
1 TTAC-ATAATACATAAC
16927201 TTACATAATTTACATAAC
1 TTACATAA--TACATAAC
*
16927219 TTACATAATACATATC
1 TTACATAATACATAAC
*
16927235 TTACATAATACATGAC
1 TTACATAATACATAAC
16927251 TTACA
1 TTACA
16927256 CAATTTAAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
14 5 0.07
15 10 0.15
16 38 0.56
18 15 0.22
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.37
Consensus pattern (16 bp):
TTACATAATACATAAC
Found at i:16927444 original size:9 final size:9
Alignment explanation
Indices: 16927430--16927498 Score: 63
Period size: 9 Copynumber: 7.9 Consensus size: 9
16927420 TCGTACATAA
16927430 TACATAACT
1 TACATAACT
*
16927439 TACATAATT
1 TACATAACT
16927448 TACATAACT
1 TACATAACT
16927457 TACATAA--
1 TACATAACT
*
16927464 TACATAA-A
1 TACATAACT
* * *
16927472 TATATATCA
1 TACATAACT
16927481 TATCATAACT
1 TA-CATAACT
16927491 TACATAAC
1 TACATAAC
16927499 ATAATTATAC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
7 7 0.14
8 5 0.10
9 32 0.64
10 6 0.12
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:16927453 original size:18 final size:18
Alignment explanation
Indices: 16927430--16927464 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
16927420 TCGTACATAA
16927430 TACATAACTTACATAATT
1 TACATAACTTACATAATT
16927448 TACATAACTTACATAAT
1 TACATAACTTACATAAT
16927465 ACATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (18 bp):
TACATAACTTACATAATT
Found at i:16927461 original size:34 final size:34
Alignment explanation
Indices: 16927423--16927497 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
16927413 CTTTATGTCG
* *
16927423 TACATAATACATAACT-TACATAATTTACATAACT
1 TACATAATACATAAATATACATAATAT-CATAACT
* *
16927457 TACATAATACATAAATATATATCATATCATAACT
1 TACATAATACATAAATATACATAATATCATAACT
16927491 TACATAA
1 TACATAA
16927498 CATAATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (34 bp):
TACATAATACATAAATATACATAATATCATAACT
Found at i:16933023 original size:15 final size:15
Alignment explanation
Indices: 16932975--16933024 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
16932965 AACTTAGAGC
*
16932975 GGAGGCAGCAGAGAG
1 GGAGGCAGCAGCGAG
*
16932990 GGAGGCAGCGGC-A-
1 GGAGGCAGCAGCGAG
*
16933003 -GCGGCAGCAGCGAG
1 GGAGGCAGCAGCGAG
16933017 GGAGGCAG
1 GGAGGCAG
16933025 AGCAGAGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
12 9 0.33
13 1 0.04
14 1 0.04
15 16 0.59
ACGTcount: A:0.26, C:0.20, G:0.54, T:0.00
Consensus pattern (15 bp):
GGAGGCAGCAGCGAG
Found at i:16934434 original size:5 final size:5
Alignment explanation
Indices: 16934424--16934448 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16934414 TTTTTAGTTA
16934424 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
16934449 CTTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:16936618 original size:25 final size:24
Alignment explanation
Indices: 16936577--16936627 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
16936567 ACAAACGCAA
*
16936577 CTCTTTATGAGTGTCCTGGTATAGG
1 CTCTTTATGAGTGTCCTGATAT-GG
*
16936602 CTCTTTGTGAGCT-TCCTGATATGG
1 CTCTTTATGAG-TGTCCTGATATGG
16936626 CT
1 CT
16936628 TGCTTGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 18 0.78
26 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (24 bp):
CTCTTTATGAGTGTCCTGATATGG
Found at i:16937752 original size:13 final size:13
Alignment explanation
Indices: 16937734--16937765 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16937724 TGTGCACAGG
16937734 CGTGTGGTTTGGC
1 CGTGTGGTTTGGC
16937747 CGTGTGGTTTGGC
1 CGTGTGGTTTGGC
*
16937760 TGTGTG
1 CGTGTG
16937766 TCCATTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.47, T:0.41
Consensus pattern (13 bp):
CGTGTGGTTTGGC
Found at i:16946588 original size:19 final size:20
Alignment explanation
Indices: 16946566--16946603 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16946556 AAAATAATAA
*
16946566 TATATAA-AAAATATATACG
1 TATATAACAAAACATATACG
16946585 TATATAACAAAACATATAC
1 TATATAACAAAACATATAC
16946604 TACGGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (20 bp):
TATATAACAAAACATATACG
Found at i:16946987 original size:3 final size:3
Alignment explanation
Indices: 16946979--16947026 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
16946969 ACAAAAGCAC
16946979 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16947027 TGAAAATAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16948726 original size:54 final size:54
Alignment explanation
Indices: 16948605--16948802 Score: 344
Period size: 54 Copynumber: 3.7 Consensus size: 54
16948595 ATGTGACCCG
* *
16948605 AGGCTCAACTCACCTCTTGCAATATGAATTGATTTTTG-AAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
16948658 AGGCTCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
16948712 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
16948766 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
16948803 TTAGAAACTT
Statistics
Matches: 136, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
53 34 0.25
54 102 0.75
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:16948920 original size:54 final size:54
Alignment explanation
Indices: 16948854--16949563 Score: 1109
Period size: 54 Copynumber: 13.0 Consensus size: 54
16948844 GCGTGCCTTG
16948854 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
16948908 AGGGTCAACTCACCTCTCGCAATATGAATTGATTTTTG-AAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
16948961 AGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
16949015 AAGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
16949069 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAA
* *
16949124 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGGAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* * *
16949178 AGGTTCAACCCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
* * *
16949234 AGGCTCAACTCACCTCTTGCAATATGAATTGATTCTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
16949288 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
* * * * *
16949343 AGGTTCAACTTACCTCTCCCAATATGAGTTGATTCTTGAAAAACAGAATTTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
16949397 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAA
* * *
16949453 AGGTTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAACCAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
16949507 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAA
16949563 A
1 A
16949564 CAAAAATTGA
Statistics
Matches: 603, Mismatches: 42, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
53 55 0.09
54 326 0.54
55 113 0.19
56 109 0.18
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:16948957 original size:249 final size:249
Alignment explanation
Indices: 16948519--16949330 Score: 902
Period size: 249 Copynumber: 3.2 Consensus size: 249
16948509 TGTGATCCTG
** * *
16948519 AGCTCAACTCATTTTTCGCAATATGAGTTG--GTTTTTGAAACTTAATTTGAAAAGCAGATTTTA
1 AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACTTAATTTGAAAAGCAGATTTTA
* *
16948582 AAAATACCTTGACATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAATTGATTTTTGAAAA
66 AAAATACCTT-ACACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAA
* *
16948647 CAGAAATTAAAAGGCTCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
130 CAGAAATTAAAAGGCTCAACCCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAA
*
16948712 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
195 AGGCTCAACCCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
*
16948767 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAGAAACTTAATTTGAAAAGCAGATTTT
1 AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAACTTAATTTGAAAAGCAGATTTT
* * *
16948832 GAAAATACC-T-CAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
65 AAAAATACCTTACA-CGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTG-A
* *
16948894 AAACAGAAATTAAAAGGGTCAACTCACCTCTCGCAATATGAATTGATTTTTG-AAAACAGAAATT
127 AAACAGAAATTAAAAGGCTCAACCCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATT
*
16948958 AAAAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
192 AAAAGGCTCAACCCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
* *** ** *
16949016 AGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAGGCTCA-ACT
1 AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACTTAATTTGAAAA-G--CAGA-T
* ** * ** ****
16949079 CACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGC
62 ----T-TTA-AA-A--A--T-A--CCTT---ACAC-GTGA-CCCGAGGCTCAACTCACCTCTCGC
* * * *
16949144 AATATGAATTGATTTTTGAAAAACAGGAATTAAAAGGTTCAACCCACCTCTTGCAATATGAGTTG
108 AATATGAATTGATTTTTG-AAAACAGAAATTAAAAGGCTCAACCCACCTCTCGCAATATGAATTG
* ** * *
16949209 ATTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTTGCAATATGAATTGATTCTTGAA
172 A--TTTTTGAAAAACAGAAATTAAAAGGCTCAACCCACCTCCCGCAATATGAGTTGATTTTTGAA
16949274 AAACAGAAATTAAAA
235 AAACAGAAATTAAAA
*
16949289 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
16949331 ACAGAAATTA
Statistics
Matches: 479, Mismatches: 50, Indels: 45
0.83 0.09 0.08
Matches are distributed among these distances:
247 4 0.01
248 39 0.08
249 143 0.30
250 58 0.12
251 34 0.07
254 1 0.00
255 1 0.00
256 2 0.00
257 1 0.00
259 1 0.00
261 1 0.00
262 1 0.00
265 1 0.00
268 1 0.00
269 2 0.00
270 80 0.17
272 6 0.01
273 103 0.22
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (249 bp):
AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACTTAATTTGAAAAGCAGATTTTA
AAAATACCTTACACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAC
AGAAATTAAAAGGCTCAACCCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAAA
GGCTCAACCCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
Found at i:16949141 original size:109 final size:109
Alignment explanation
Indices: 16948854--16949563 Score: 1151
Period size: 109 Copynumber: 6.5 Consensus size: 109
16948844 GCGTGCCTTG
*
16948854 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGGTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGTTCAACT
16948918 CACCTCTCGCAATATGAATTGATTTTTG-AAAACAGAAATTAAA
66 CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAA
* *
16948961 AGGCTCAACCCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAAGTTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGTTCAACT
*
16949025 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
66 CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAA
* *
16949069 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGTTCAACT
*
16949134 CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGGAATTAAA
66 CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAA
* * * *
16949178 AGGTTCAACCCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAGGTTCAAC
* *
16949243 TCACCTCTTGCAATATGAATTGATTCTTGAAAAACAGAAATTAAA
65 TCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAA
16949288 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTAAAAGGTTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAGGTTCAAC
* * * * *
16949352 TTACCTCTCCCAATATGAGTTGATTCTTGAAAAACAGAATTTAAA
65 TCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAA
16949397 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAGGTTCAAC
*
16949462 TCACCTCTCGCAATAT-AAGTTGATTTTTGAAAACCAGAAATTAAA
65 TCACCTCTCGCAATATGAA-TTGATTTTTGAAAAACAGAAATTAAA
* *
16949507 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAA
16949564 CAAAAATTGA
Statistics
Matches: 563, Mismatches: 34, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
107 88 0.16
108 45 0.08
109 223 0.40
110 207 0.37
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (109 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGTTCAACT
CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATTAAA
Found at i:16949286 original size:219 final size:219
Alignment explanation
Indices: 16948854--16949563 Score: 1164
Period size: 219 Copynumber: 3.3 Consensus size: 219
16948844 GCGTGCCTTG
*
16948854 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGGTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
16948918 CACCTCTCGCAATATGAATTGATTTTTG-AAAACAGAAATTAAAAGGCTCAACCCACCTCTCGCA
66 CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGGAATTAAAAGGCTCAACCCACCTCTCGCA
* *
16948982 ATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAAGTTCAACTCACCTCTCGCAATATGAGTT
131 ATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAATT
16949045 GATTTTTGAAAAACAGAAATTAAA
196 GATTTTTGAAAAACAGAAATTAAA
*
16949069 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
* *
16949134 CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGGAATTAAAAGGTTCAACCCACCTCTTGCA
66 CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGGAATTAAAAGGCTCAACCCACCTCTCGCA
* *
16949199 ATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTTGCAATATGAATT
131 ATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAATT
*
16949264 GATTCTTGAAAAACAGAAATTAAA
196 GATTTTTGAAAAACAGAAATTAAA
*
16949288 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTAAAAGGTTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAGGCTCAAC
* * * * *
16949352 TTACCTCTCCCAATATGAGTTGATTCTTGAAAAACA-GAATTTAAAAGGCTCAACTCACCTCTCG
65 TCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGGAA-TTAAAAGGCTCAACCCACCTCTCG
16949416 CAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATAT-AA
129 CAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAA
*
16949480 GTTGATTTTTGAAAACCAGAAATTAAA
194 -TTGATTTTTGAAAAACAGAAATTAAA
* *
16949507 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAA
16949564 CAAAAATTGA
Statistics
Matches: 461, Mismatches: 25, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
215 31 0.07
216 59 0.13
217 44 0.10
218 12 0.03
219 304 0.66
220 11 0.02
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (219 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAATTGATTTTTGAAAAACAGGAATTAAAAGGCTCAACCCACCTCTCGCA
ATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTCTCGCAATATGAATT
GATTTTTGAAAAACAGAAATTAAA
Found at i:16949562 original size:14 final size:14
Alignment explanation
Indices: 16949543--16949576 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
16949533 AGTTGATTTT
*
16949543 TTGAAAAACATAAA
1 TTGAAAAACAAAAA
16949557 TTG-AAAACAAAAA
1 TTGAAAAACAAAAA
16949570 TTGAAAA
1 TTGAAAA
16949577 TACCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:16949690 original size:74 final size:74
Alignment explanation
Indices: 16949557--16950691 Score: 1330
Period size: 74 Copynumber: 15.0 Consensus size: 74
16949547 AAAACATAAA
* * * * *
16949557 TTGAAAACAAAAATTGAAAATACCTCAGCATGTGACCTGAGACTCAACTCGCCTCTCGCAATACG
1 TTGACAACAGAAATTGAAATTACCTCAGC--GTGTCCTGAGGCTCAACTCGCCTCTCGCAATACG
16949622 AGTTGATTTTT
64 AGTTGATTTTT
*
16949633 TTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
16949698 TTGATTTTT
66 TTGATTTTT
* * *
16949707 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
16949772 TTGATTTTTTT
66 TTGA--TTTTT
* * * * *** *
16949783 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGA
16949848 GTTGATTTTT
65 GTTGATTTTT
* * * *
16949858 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAA
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
16949923 TTGATTTTT
66 TTGATTTTT
* * *
16949932 CTGACAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTTGCAATACGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
16949997 TTGATTTTT
66 TTGATTTTT
16950006 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
16950071 TTGATTTTT
66 TTGATTTTT
16950080 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
16950145 TTGATTTTTTT
66 TTGA--TTTTT
** * * * * * * * **
16950156 TTGA-AAGGCAGAAATTGAAAAACGAAAATTGAAAAT-A-CCTCGGCGTGTGACCTGAGGCTCAA
1 TTGACAA--CAGAAATT-------G-AAATT--ACCTCAGCGT-GTCCTGAG-GCTCA-ACTCGC
*
16950218 CTCGCCTCTCGCAATACGAGTTGATTTTT
51 CTC-T----CGCAATACGAGTTGATTTTT
* * * *
16950247 TTGACAACAGAAATTGAAAATACCTCGGCGTATGACCTGAGGCTCAACTTGCCTCTCGCAATACG
1 TTGACAACAGAAATTGAAATTACCTCAGCG--TGTCCTGAGGCTCAACTCGCCTCTCGCAATACG
16950312 AGTTGATTTTT
64 AGTTGATTTTT
16950323 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
16950388 TTGATTTTT
66 TTGATTTTT
16950397 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
*
16950462 TTAATTTTTT
66 TTGA-TTTTT
* * ** * *** *
16950472 TTTACAATAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
*
16950537 TTGA--GTT
66 TTGATTTTT
* * * * *** *
16950544 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGACAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGA
*
16950609 GTTGA--ATT
65 GTTGATTTTT
* * * *** *
16950617 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
*
16950682 TTGAATTTT
66 TTGATTTTT
16950691 T
1 T
16950692 GAAATAGAAA
Statistics
Matches: 939, Mismatches: 86, Indels: 70
0.86 0.08 0.06
Matches are distributed among these distances:
72 68 0.07
73 68 0.07
74 490 0.52
75 74 0.08
76 91 0.10
77 67 0.07
80 2 0.00
81 5 0.01
82 8 0.01
83 6 0.01
84 2 0.00
85 7 0.01
86 6 0.01
87 5 0.01
88 6 0.01
90 8 0.01
91 9 0.01
92 2 0.00
93 15 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (74 bp):
TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAG
TTGATTTTT
Found at i:16950471 original size:317 final size:313
Alignment explanation
Indices: 16949868--16950691 Score: 1094
Period size: 317 Copynumber: 2.7 Consensus size: 313
16949858 TTGACAACAG
* *
16949868 AAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTC
1 AAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAATTGATTTTTC
* * * *
16949933 TGACAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTTGCAATACGAGT
66 TGACAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
16949998 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGC
131 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGC
16950063 AATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
196 AATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
*
16950128 GCCTCTCGCAATACGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGA
261 GCCTCTCGCAATACGAGTTAATTTTTTTTTGAAAGGCAGAAATTGAAAAACGA
* * * *
16950181 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAATTGATTTT
* * *
16950246 TTTGACAACAGAAATTGAAAATACCTCGGCGTATGACCTGAGGCTCAACTTGCCTCTCGCAATAC
64 TCTGACAACAGAAATTGAAAATACCTCAGCG--TGACCTGAGGCTCAACTCGCCTCTCGCAATAC
16950311 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTC
127 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTC
16950376 TCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
192 TCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
16950441 ACTCGCCTCTCGCAATACGAGTTAATTTTTTTTT---A--C---AA-T-----A-G-
257 ACTCGCCTCTCGCAATACGAGTTAATTTTTTTTTGAAAGGCAGAAATTGAAAAACGA
* ** * * ** * * *
16950482 AAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-GTTT-
1 AAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAATTGATTTTTC
* * * * *** *
16950545 TGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TGACAA-CAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
* * * * ***
16950610 TTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
130 TTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCG
* *
16950673 CAATATGAGTTGAATTTTT
195 CAATACGAGTTGATTTTTT
16950692 GAAATAGAAA
Statistics
Matches: 463, Mismatches: 43, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
294 69 0.15
296 32 0.07
297 5 0.01
298 24 0.05
299 31 0.07
301 19 0.04
302 1 0.00
303 1 0.00
308 1 0.00
309 2 0.00
312 1 0.00
313 21 0.05
314 1 0.00
315 63 0.14
317 192 0.41
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (313 bp):
AAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAATTGATTTTTC
TGACAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCCTCTCGC
AATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
GCCTCTCGCAATACGAGTTAATTTTTTTTTGAAAGGCAGAAATTGAAAAACGA
Found at i:16950613 original size:465 final size:462
Alignment explanation
Indices: 16949717--16950618 Score: 1342
Period size: 465 Copynumber: 1.9 Consensus size: 462
16949707 TTGACAACAG
* * *
16949717 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TTTTT
* * ** *
16949782 TTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATACG
16949847 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCT
130 AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCT
* *
16949912 CGCAATATGAATTGATTTTTCTGACAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
195 CGCAATACGAATTGATTTTTCTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
* * *
16949977 CTCGCCTCTTGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCT
260 CTCGCCTCTCGCAATACGAGTTAATTTTTTTGACAACAGAAATTGAAATTACCTCAACGTGTCCT
* * * *
16950042 GAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCA
325 GAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TGTTTTGAAAACAGAAATTGAAAATACCTCA
* * *
16950107 GCGTGTCCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTGAAAGGCAGAAATT
389 ACGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAATTTTTTTTGAAAGGCAGAAATT
16950172 GAAAAACGA
454 GAAAAACGA
* *
16950181 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
* * **
16950245 TTTTG-ACAACAGAAATTGAAAATACCTCGGCGTATGACCTGAGGCTCAACTTGCCTCTCGCAAT
64 TTTTGAAAAACAGAAATTGAAAATACCTCAGC--ATGACCTGAGGCTCAACTCACCTCTCGCAAT
* *
16950309 ACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCGCC
127 ACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACC
* *
16950374 TCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
192 TCTCGCAATACGAATTGATTTTTCTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
* * *
16950439 CAACTCGCCTCTCGCAATACGAGTTAATTTTTTTTTACAATAGAAATTGAAATTACCTCAATGTG
257 CAACTCGCCTCTCGCAATACGAGTTAA-TTTTTTTGACAACAGAAATTGAAATTACCTCAACGTG
* ** *
16950504 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-GTTTTGAAAAGCAGAAATTGAAAATAC
321 TCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATGTTTTGAAAA-CAGAAATTGAAAATAC
* ** *
16950568 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
385 CTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAATTTT
16950619 GAAAACAGAA
Statistics
Matches: 391, Mismatches: 41, Indels: 11
0.88 0.09 0.02
Matches are distributed among these distances:
463 24 0.06
464 37 0.09
465 232 0.59
466 98 0.25
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (462 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTT
TTGAAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATACGA
GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTC
GCAATACGAATTGATTTTTCTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
TCGCCTCTCGCAATACGAGTTAATTTTTTTGACAACAGAAATTGAAATTACCTCAACGTGTCCTG
AGGCTCAACTCACCTCTCGCAATACGAGTTGATGTTTTGAAAACAGAAATTGAAAATACCTCAAC
GTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAATTTTTTTTGAAAGGCAGAAATTGA
AAAACGA
Found at i:16952925 original size:13 final size:13
Alignment explanation
Indices: 16952889--16952932 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
16952879 TTGATTTCTT
16952889 TTTTTGTTTTTTTC
1 TTTTTG-TTTTTTC
* **
16952903 TTGTCCTTTTTTC
1 TTTTTGTTTTTTC
16952916 TTTTTGTTTTTTC
1 TTTTTGTTTTTTC
16952929 TTTT
1 TTTT
16952933 CTTTTCATGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 21 0.88
14 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (13 bp):
TTTTTGTTTTTTC
Found at i:16957346 original size:19 final size:20
Alignment explanation
Indices: 16957324--16957361 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16957314 AAAATAATAA
*
16957324 TATATAA-AAAATATATACG
1 TATATAACAAAACATATACG
16957343 TATATAACAAAACATATAC
1 TATATAACAAAACATATAC
16957362 TACGGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (20 bp):
TATATAACAAAACATATACG
Found at i:16957747 original size:3 final size:3
Alignment explanation
Indices: 16957739--16957780 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
16957729 ACAAAAGCAC
16957739 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16957781 TGAAAATAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16958635 original size:17 final size:18
Alignment explanation
Indices: 16958613--16958652 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
16958603 GTTTGTAGGT
*
16958613 GTGGCAGA-GGCATGGTG
1 GTGGCAGACGGCATGGGG
*
16958630 GTGGCAGACGGTATGGGG
1 GTGGCAGACGGCATGGGG
16958648 GTGGC
1 GTGGC
16958653 CAGGGGATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.55, T:0.17
Consensus pattern (18 bp):
GTGGCAGACGGCATGGGG
Found at i:16965668 original size:44 final size:44
Alignment explanation
Indices: 16965605--16966175 Score: 173
Period size: 44 Copynumber: 12.6 Consensus size: 44
16965595 TACCATAACG
*
16965605 AATCTTATCTCCCTAAAGTTGCAGTGGAGCATATTAAAACTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * *
16965649 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAAATTTAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * * * * * ** * *
16965693 AATCCTA-CACCTTTGAATTTGTAGTGG-GACGGATTGAATCTACCATAGCG
1 AATCTTATCTCC-CTAAAGTTGCAGTGGAG-CAAATT-AA---AAC-TA-CA
* ** * *
16965743 AATCTTATCTCCCTAAAGTTACAGTGGAATAGATTAAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * * * **
16965787 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTATG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * * * * * * **
16965831 AATCTCATCTCCCTGAAGTTGCAGCGAAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * * * * * *
16965875 ATTCCTATAC-CCTTAAAGTTGCAATAGGTTAGAATGAAGTTACAACAACA
1 AATCTTAT-CTCCCTAAAGTTGCAGT-GG--AGCA--AA-TTAAAACTACA
* ** * * * * *
16965925 AATCTTATCTTCCTAAAGTTATAGTGGAGTAGATTGAAGCTACG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * * * * * *
16965969 AATCTCATC-CCCTTGAAGTTGCAGCGGAGTAGATTGAAACTATA
1 AATCTTATCTCCC-TAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * * * * * * *
16966013 ATTCCTATAC-CCCTGAAGTTGCAGTGAATTAGAATGAAGCTACAACAACA
1 AATCTTAT-CTCCCTAAAGTTGCAGTG---GAGCA--AA-TTAAAACTACA
* * * * * *
16966063 AATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCTACG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * * * * *
16966107 AATCTCATCTCCCTGAAGTTACAATGGAGTAGATTAAAACTACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
* * *
16966151 ATTCCTATAC-CCCTGAAGTTGCAGT
1 AATCTTAT-CTCCCTAAAGTTGCAGT
16966176 AGGTTAGAAT
Statistics
Matches: 382, Mismatches: 117, Indels: 56
0.69 0.21 0.10
Matches are distributed among these distances:
43 5 0.01
44 265 0.69
45 12 0.03
46 2 0.01
47 12 0.03
48 2 0.01
49 10 0.03
50 71 0.19
51 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAACTACA
Found at i:16965806 original size:138 final size:138
Alignment explanation
Indices: 16965554--16965828 Score: 415
Period size: 138 Copynumber: 2.0 Consensus size: 138
16965544 ATGAAACCAT
*
16965554 AAATCCTACACCTCTGAAATTGCATTGGGACAGATTGAATCTACCATAACGAATCTTATCTCCCT
1 AAATCCTACACCTCTGAAATTGCAGTGGGACAGATTGAATCTACCATAACGAATCTTATCTCCCT
* * * * *
16965619 AAAGTTGCAGTGGAGCATATTAAAACTACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAAATT
66 AAAGTTACAGTGGAACAGATTAAAACTACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAATT
*
16965684 TAAGCTAC
131 GAAGCTAC
* * * * *
16965692 AAATCCTACACCTTTGAATTTGTAGTGGGACGGATTGAATCTACCATAGCGAATCTTATCTCCCT
1 AAATCCTACACCTCTGAAATTGCAGTGGGACAGATTGAATCTACCATAACGAATCTTATCTCCCT
* * *
16965757 AAAGTTACAGTGGAATAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATT
66 AAAGTTACAGTGGAACAGATTAAAACTACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAATT
16965822 GAAGCTA
131 GAAGCTA
16965829 TGAATCTCAT
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 122 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (138 bp):
AAATCCTACACCTCTGAAATTGCAGTGGGACAGATTGAATCTACCATAACGAATCTTATCTCCCT
AAAGTTACAGTGGAACAGATTAAAACTACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAATT
GAAGCTAC
Found at i:16965926 original size:138 final size:138
Alignment explanation
Indices: 16965784--16966240 Score: 587
Period size: 138 Copynumber: 3.3 Consensus size: 138
16965774 GATTAAAGCT
* *
16965784 ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTATGAATCTCATCTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAAATTGAAGCTACGAATCTCATCTCCCTGAAG
* ** * * *
16965849 TTGCAGCGAAGTAGATTGAAGTTACAATTCCTATACCCTTAAAGTTGCAATAGGTTAGAATGAAG
66 TTGCAGCGGAGTAGATTGAAACTACAATTCCTATACCCCTGAAGTTGCAGTAGGTTAGAATGAAG
*
16965914 TTACAACA
131 CTACAACA
* * ** * * * *
16965922 ACAAATCTTATCTTCCTAAAGTTATAGTGGAGTAGATTGAAGCTACGAATCTCATC-CCCTTGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAAATTGAAGCTACGAATCTCATCTCCC-TGAA
* *
16965986 GTTGCAGCGGAGTAGATTGAAACTATAATTCCTATACCCCTGAAGTTGCAGT-GAATTAGAATGA
65 GTTGCAGCGGAGTAGATTGAAACTACAATTCCTATACCCCTGAAGTTGCAGTAG-GTTAGAATGA
16966050 AGCTACAACA
129 AGCTACAACA
* * * *
16966060 ACAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCTACGAATCTCATCTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAAATTGAAGCTACGAATCTCATCTCCCTGAAG
* ** * *
16966125 TTACAATGGAGTAGATTAAAACTACAATTCCTATACCCCTGAAGTTGCAGTAGGTTAGAATGAGG
66 TTGCAGCGGAGTAGATTGAAACTACAATTCCTATACCCCTGAAGTTGCAGTAGGTTAGAATGAAG
16966190 CTACAACA
131 CTACAACA
* **
16966198 ACAAATATTATCTCTTTGAAGTTGCAATAGAGCAAGA-TGAAGC
1 ACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAA-ATTGAAGC
16966241 CATCTTGCCT
Statistics
Matches: 275, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
137 4 0.01
138 266 0.97
139 5 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (138 bp):
ACAAATCTTATCTCCCTGAAGTTGCAATAGAGCAAATTGAAGCTACGAATCTCATCTCCCTGAAG
TTGCAGCGGAGTAGATTGAAACTACAATTCCTATACCCCTGAAGTTGCAGTAGGTTAGAATGAAG
CTACAACA
Found at i:16969884 original size:19 final size:19
Alignment explanation
Indices: 16969842--16969882 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
16969832 ATTAAAATAC
* *
16969842 TTTTAAATAATATAATTTA
1 TTTTAAATAATAAAAATTA
16969861 TTTTAAAT-ATAAAAATTA
1 TTTTAAATAATAAAAATTA
16969879 TTTT
1 TTTT
16969883 TATAAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAAATAATAAAAATTA
Found at i:16970347 original size:22 final size:20
Alignment explanation
Indices: 16970322--16970375 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
16970312 CTATTCCACT
*
16970322 TAATATTATTATTTATTTAATA
1 TAATATTATT-TTAATTT-ATA
16970344 TAATTATTACTTTTAATTTATA
1 TAA-TATTA-TTTTAATTTATA
16970366 TAAATATTAT
1 T-AATATTAT
16970376 CATGAGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
22 12 0.43
23 13 0.46
24 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATATTATTTTAATTTATA
Found at i:16970351 original size:20 final size:20
Alignment explanation
Indices: 16970326--16970375 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
16970316 TCCACTTAAT
16970326 ATTATTATTT-ATTTAATATA
1 ATTATTATTTAATTT-ATATA
16970346 ATTATTACTTTTAATTTATATA
1 ATTATTA--TTTAATTTATATA
*
16970368 AATATTAT
1 ATTATTAT
16970376 CATGAGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.31
22 14 0.54
23 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTATTTAATTTATATA
Found at i:16970526 original size:14 final size:14
Alignment explanation
Indices: 16970504--16970536 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16970494 CTACTTTTCT
*
16970504 TATACGAATATATA
1 TATATGAATATATA
16970518 TATATGAATATATA
1 TATATGAATATATA
16970532 TATAT
1 TATAT
16970537 ATATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (14 bp):
TATATGAATATATA
Found at i:16972184 original size:16 final size:16
Alignment explanation
Indices: 16972163--16972205 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16972153 GTGAAATTTA
16972163 AATATTTTATTAAAAT
1 AATATTTTATTAAAAT
*
16972179 AATATTTTAACTAAAAT
1 AATATTTT-ATTAAAAT
*
16972196 TAT-TTTTATT
1 AATATTTTATT
16972206 TAATAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 2 0.09
16 12 0.52
17 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATTTTATTAAAAT
Found at i:16976301 original size:32 final size:32
Alignment explanation
Indices: 16976264--16976331 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 32
16976254 AATAATCTTC
16976264 AAATTTTCATAATATTTATATAAA-A-T-TTTTTA
1 AAATTTTCATAA-A--TATATAAATATTATTTTTA
*
16976296 AAATTTTTATAAATATATAAATATTATTTTTA
1 AAATTTTCATAAATATATAAATATTATTTTTA
16976328 AAAT
1 AAAT
16976332 ATATAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 8 0.25
30 1 0.03
31 2 0.06
32 21 0.66
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
AAATTTTCATAAATATATAAATATTATTTTTA
Found at i:16976309 original size:10 final size:11
Alignment explanation
Indices: 16976264--16976308 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
16976254 AATAATCTTC
*
16976264 AAATTTTCATA
1 AAATTTTTATA
* *
16976275 ATATTTATATA
1 AAATTTTTATA
16976286 AAATTTTT-TA
1 AAATTTTTATA
16976296 AAATTTTTATA
1 AAATTTTTATA
16976307 AA
1 AA
16976309 TATATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
AAATTTTTATA
Found at i:16976642 original size:21 final size:20
Alignment explanation
Indices: 16976604--16976650 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
16976594 TATACTCAAA
*
16976604 TAAA-TTTATTTGAATGGACT
1 TAAATTTTATTTCAATGGA-T
*
16976624 TAAATTTTATTTCATTGGAT
1 TAAATTTTATTTCAATGGAT
*
16976644 TCAATTT
1 TAAATTT
16976651 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (20 bp):
TAAATTTTATTTCAATGGAT
Found at i:16977868 original size:20 final size:21
Alignment explanation
Indices: 16977843--16977890 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
16977833 ATCCAAACTG
16977843 TTTATAAATTAGAT-AATGTA
1 TTTATAAATTAGATCAATGTA
*
16977863 TTTAT-AATTTGATCAATGTA
1 TTTATAAATTAGATCAATGTA
16977883 TTT-TAAAT
1 TTTATAAAT
16977891 ATGCTTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (21 bp):
TTTATAAATTAGATCAATGTA
Found at i:16980124 original size:22 final size:24
Alignment explanation
Indices: 16980098--16980150 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
16980088 CTTACATTCA
*
16980098 AATGTC-C-GTAGATATATTTATC
1 AATGTCTCTGTAGATATATTGATC
16980120 AATGTCTCTATGTAGATATATTGATC
1 AATGTCTC--TGTAGATATATTGATC
16980146 AATGT
1 AATGT
16980151 ATCTAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 1 0.04
26 19 0.73
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (24 bp):
AATGTCTCTGTAGATATATTGATC
Found at i:16980164 original size:30 final size:26
Alignment explanation
Indices: 16980105--16980155 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
16980095 TCAAATGTCC
* *
16980105 GTAGATATATTTATCAATGTCTCTAT
1 GTAGATATATTGATCAATGTATCTAT
16980131 GTAGATATATTGATCAATGTATCTA
1 GTAGATATATTGATCAATGTATCTA
16980156 AACATGTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (26 bp):
GTAGATATATTGATCAATGTATCTAT
Found at i:16980951 original size:36 final size:36
Alignment explanation
Indices: 16980899--16980970 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
16980889 CTTTTTTAGA
*
16980899 AAAAAAATTTAGGGTTGGGGGTACTAGATGGTCGGC
1 AAAAAAATTTAAGGTTGGGGGTACTAGATGGTCGGC
16980935 AAAAAAATTTAAGGTTGGGGGTACTAGATGGTCGGC
1 AAAAAAATTTAAGGTTGGGGGTACTAGATGGTCGGC
16980971 TTTAGCTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.35, T:0.25
Consensus pattern (36 bp):
AAAAAAATTTAAGGTTGGGGGTACTAGATGGTCGGC
Found at i:16990627 original size:15 final size:15
Alignment explanation
Indices: 16990607--16990635 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16990597 CTTAAATTAG
16990607 AATTATATTAAATTT
1 AATTATATTAAATTT
16990622 AATTATATTAAATT
1 AATTATATTAAATT
16990636 CAAAATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTATATTAAATTT
Found at i:16992030 original size:3 final size:3
Alignment explanation
Indices: 16992024--16992056 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
16992014 TAGCTTTTAA
16992024 TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
16992057 GTGTATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:16993686 original size:73 final size:74
Alignment explanation
Indices: 16993590--16993746 Score: 298
Period size: 73 Copynumber: 2.1 Consensus size: 74
16993580 AAAGGATCGG
16993590 TGGCGACTCCCGTTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCT-AAAAAATGGTT
1 TGGCGACTCCCGTTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCTAAAAAAATGGTT
16993654 ACGACAGCT
66 ACGACAGCT
*
16993663 TGGCCACTCCCGTTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCTAAAAAAATGGTT
1 TGGCGACTCCCGTTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCTAAAAAAATGGTT
16993728 ACGACAGCT
66 ACGACAGCT
16993737 TGGCGACTCC
1 TGGCGACTCC
16993747 GCTGGGGACA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
73 52 0.64
74 29 0.36
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (74 bp):
TGGCGACTCCCGTTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCTAAAAAAATGGTT
ACGACAGCT
Found at i:17001342 original size:40 final size:39
Alignment explanation
Indices: 17001285--17001509 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 39
17001275 TCGAATGATG
* *
17001285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-AAGTTACTAAA
* * *
17001325 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTTACTAAA
* * *
17001365 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTTACTAAA
* *
17001405 TCCGGGCTAAGCCCGAAGGCATTGGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTTACTAAA
* *
17001444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACTA-AA
*
17001485 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
17001510 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.21
40 120 0.74
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:17001461 original size:79 final size:80
Alignment explanation
Indices: 17001285--17001507 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 80
17001275 TCGAATGATG
* * * *
17001285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
17001349 CGTGCGAGTTACTAAA
65 CGTGCAAGTTACTAAA
*
17001365 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
*
17001427 TGGTGCAAGTTACTAAA
64 TCGTGCAAGTTACTAAA
* * * *
17001444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
17001508 TGAACGAGTA
Statistics
Matches: 126, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.55
80 48 0.38
81 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTC
GTGCAAGTTACTAAA
Found at i:17001508 original size:119 final size:120
Alignment explanation
Indices: 17001285--17001509 Score: 307
Period size: 119 Copynumber: 1.9 Consensus size: 120
17001275 TCGAATGATG
* *
17001285 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
17001350 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
* **
17001405 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
17001467 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
17001510 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
118 2 0.02
119 72 0.77
120 19 0.20
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:17001531 original size:79 final size:79
Alignment explanation
Indices: 17001292--17001542 Score: 271
Period size: 79 Copynumber: 3.2 Consensus size: 79
17001282 ATGTCCGGGC
* * *
17001292 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTCGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTCGTGCG
*
17001355 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
* *
17001372 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCA
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTCGTGCG
17001434 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * * **
17001451 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAG
*
17001516 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
17001530 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
17001543 TAAGTGATTC
Statistics
Matches: 147, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 83 0.56
80 55 0.37
81 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAG
TTACTAAATCCGGT
Found at i:17008376 original size:88 final size:88
Alignment explanation
Indices: 17008187--17008378 Score: 210
Period size: 88 Copynumber: 2.2 Consensus size: 88
17008177 TGAAGTAGAT
* * * *
17008187 TGAAGATTTACAGATCTTACCCCCTAAGCAGTAGGGAAACAGATCAAAGGTAACGAGCTTTAACA
1 TGAAGA-TTACAGATCTTACACCCTAAACAGTAGGGAAACAGATCAAAGGAAACGAGCCTTAACA
*
17008252 CTCCTAAGCAGTAGGATAACAAGC
65 CCCCTAAGCAGTAGGATAACAAGC
* * * * *
17008276 CGAA-TTTGCAGATCTTATCACCCTAAACAGTAGGGAAACAGATCAAA-GAAGATGGGCCTTAAC
1 TGAAGATTACAGATCTTA-CACCCTAAACAGTAGGGAAACAGATCAAAGGAA-ACGAGCCTTAAC
* * *
17008339 -CCCCTAAGCAGTAGGGTAATAGGC
64 ACCCCTAAGCAGTAGGATAACAAGC
*
17008363 TGAAGATCACAGATCT
1 TGAAGATTACAGATCT
17008379 CACCTCCCTG
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
87 36 0.43
88 44 0.53
89 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (88 bp):
TGAAGATTACAGATCTTACACCCTAAACAGTAGGGAAACAGATCAAAGGAAACGAGCCTTAACAC
CCCTAAGCAGTAGGATAACAAGC
Found at i:17008595 original size:88 final size:88
Alignment explanation
Indices: 17008462--17008625 Score: 217
Period size: 88 Copynumber: 1.9 Consensus size: 88
17008452 CAAACTACCA
* *
17008462 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGCTTATAGATA-TT-ATCGCCCTAAGCA
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAGCTTATAGA-ACTTAAAC-CCCTAAGCA
17008525 GTAGGGAAACAGATCGAAAGCAACG
64 GTAGGGAAACAGATCGAAAGCAACG
** *
17008550 AGCTTTAACTTCCTAAGCAGTAGGGTAACAAGATGATG-TTCATAGAACCTTAAACCCCTAAGCA
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAGCTT-ATAGAA-CTTAAACCCCTAAGCA
*
17008614 GTAGGGTAACAG
64 GTAGGGAAACAG
17008626 GTTAAATTGC
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
87 3 0.05
88 39 0.59
89 22 0.33
90 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (88 bp):
AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAGCTTATAGAACTTAAACCCCTAAGCAGT
AGGGAAACAGATCGAAAGCAACG
Found at i:17008658 original size:131 final size:130
Alignment explanation
Indices: 17008466--17008753 Score: 300
Period size: 131 Copynumber: 2.2 Consensus size: 130
17008456 CTACCAAGCT
* * *
17008466 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGCTTATAGATATTATCGCCCTAAGCAGTAG-G
1 TTAAACCCCTAAGCAGTAGGGTAAC-AGCTGAAGATTACAGATATTATCGCCCTAAGCAGTAGTG
* * *
17008530 GAAACAGATCGAA-A-GCAACG-AGCTTTAACTTCCTAAGCAGTAGGGTAACAAGATGATGTTCA
65 G-AACAGATCGAAGACG-AA-GAACCTTAAAC-CCCTAAGCAGTAGGGTAACAAGATGA-GTTCA
*
17008592 TAGAACC
125 CAG-ACC
* * * * *
17008599 TTAAACCCCTAAGCAGTAGGGTAACAGGTTAA-ATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
1 TTAAACCCCTAAGCAGTAGGGTAACAGCTGAAGATTACAGATATTATCGCCCTAAGCAGTAGTGG
* * * * *
17008663 AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATC
66 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGATGAGTTCACAGACC
* *
17008728 -TAAAACCCTAAGCAGTAGGGAAACAG
1 TTAAACCCCTAAGCAGTAGGGTAACAG
17008754 ATCAAAGATG
Statistics
Matches: 132, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
128 24 0.18
129 2 0.02
130 6 0.05
131 58 0.44
132 17 0.13
133 25 0.19
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (130 bp):
TTAAACCCCTAAGCAGTAGGGTAACAGCTGAAGATTACAGATATTATCGCCCTAAGCAGTAGTGG
AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGATGAGTTCACAGACC
Found at i:17008698 original size:86 final size:87
Alignment explanation
Indices: 17008593--17008804 Score: 270
Period size: 86 Copynumber: 2.5 Consensus size: 87
17008583 TGATGTTCAT
* ***
17008593 AGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTT-AAATTGCAGATCTTATCTCCCTAAGCAG
1 AGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAATTACAGATC-TAAAACCCTAAGCAG
* *
17008657 TAGTGG-AGCAGATCGAAGACGA-
65 TAG-GGAAACAGATCAAAGACGAC
**
17008679 AGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATCTAAAACCCTAAGCAGT
1 AGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAATTACAGATCTAAAACCCTAAGCAGT
*
17008744 AGGGAAACAGATCAAAGATGAC
66 AGGGAAACAGATCAAAGACGAC
* * *
17008766 A-AGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTGAAA
1 AGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAA
17008805 ATTAAATATC
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
85 2 0.02
86 97 0.89
87 10 0.09
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (87 bp):
AGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAATTACAGATCTAAAACCCTAAGCAGT
AGGGAAACAGATCAAAGACGAC
Found at i:17010405 original size:9 final size:10
Alignment explanation
Indices: 17010347--17010428 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 10
17010337 TGCTTATATG
17010347 TATATA-TAT
1 TATATATTAT
17010356 ATATTATATTA-
1 -TA-TATATTAT
17010367 TATAGTATTAT
1 TATA-TATTAT
17010378 TA-ATAGCTT-T
1 TATATA--TTAT
17010388 TA-ATATTAT
1 TATATATTAT
17010397 TAT-TATTAT
1 TATATATTAT
*
17010406 TATATATTAG
1 TATATATTAT
* *
17010416 TGTATATTTT
1 TATATATTAT
17010426 TAT
1 TAT
17010429 GTACATACAC
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
8 2 0.03
9 16 0.28
10 30 0.52
11 8 0.14
12 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (10 bp):
TATATATTAT
Found at i:17010530 original size:3 final size:3
Alignment explanation
Indices: 17010516--17010551 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
17010506 TGTATTTCTA
* *
17010516 TAT TAC TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17010552 ATAGTAGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:17012035 original size:73 final size:73
Alignment explanation
Indices: 17011943--17012083 Score: 248
Period size: 73 Copynumber: 1.9 Consensus size: 73
17011933 GGATCGGTGG
17011943 CGACTCCCATTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCT-AAAAAATGGTTACG
1 CGACTCCCATTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTT-TAAAAAAATGGTTACG
17012007 ACAGCTTGA
65 ACAGCTTGA
*
17012016 CGACTCCCGTTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTTAAAAAAAATGGTTACG
1 CGACTCCCATTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTT-AAAAAAATGGTTACG
17012081 ACA
65 ACA
17012084 ACTCAAATGG
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
72 1 0.02
73 47 0.72
74 17 0.26
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (73 bp):
CGACTCCCATTCTTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTTAAAAAAATGGTTACGA
CAGCTTGA
Found at i:17012106 original size:74 final size:73
Alignment explanation
Indices: 17011955--17012107 Score: 166
Period size: 73 Copynumber: 2.1 Consensus size: 73
17011945 ACTCCCATTC
* **
17011955 TTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCTAAAAAATGGTTACGACAGCTTGACGAC
1 TTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCTAAAAAATGGTTACGACAACTAAACGAC
**** **
17012020 TCCCGTTC
66 TAAAATAA
*
17012028 TTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTT-TAAAAAAAATGGTTACGACAACTCAAAT
1 TTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCT--AAAAAATGGTTACGACAACT-AAAC
*
17012092 G-GTAAAATAA
63 GACTAAAATAA
17012102 TTTTAT
1 TTTTAT
17012108 AGCATTAGGA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
72 1 0.02
73 36 0.55
74 27 0.41
75 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (73 bp):
TTTTATTTTCAAAATCCAAGTCGATTCCCGTTTTTTCTAAAAAATGGTTACGACAACTAAACGAC
TAAAATAA
Found at i:17015241 original size:48 final size:46
Alignment explanation
Indices: 17015183--17015283 Score: 139
Period size: 46 Copynumber: 2.1 Consensus size: 46
17015173 TAGTTATAAC
* * *
17015183 TTTTTTGTTTTTATTTGTACTGTTTTAGTCATTTCGTTGTAACTTCTT
1 TTTTTTGTTTTTACTTGTAC--TTTTAATCATTTAGTTGTAACTTCTT
*
17015231 TTTTTTGTTTTTACTTGTACTTTTAATCATTTAGTTGTAACTTTTT
1 TTTTTTGTTTTTACTTGTACTTTTAATCATTTAGTTGTAACTTCTT
17015277 TCTTTTT
1 T-TTTTT
17015284 AGTTGTATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
46 24 0.50
47 5 0.10
48 19 0.40
ACGTcount: A:0.14, C:0.10, G:0.10, T:0.66
Consensus pattern (46 bp):
TTTTTTGTTTTTACTTGTACTTTTAATCATTTAGTTGTAACTTCTT
Found at i:17015301 original size:46 final size:45
Alignment explanation
Indices: 17015158--17015333 Score: 134
Period size: 46 Copynumber: 3.9 Consensus size: 45
17015148 GTGAGTTGCA
* *
17015158 TTTTTTTTCAA-CATTTAGTTATAACTTTTTTGTTTTTATTTGTA-C
1 TTTTTTTT-AATCATTTAGTTGTAACTTTTTT-TTTTTAGTTGTATC
* * * * *
17015203 --TGTTTTAGTCATTTCGTTGTAACTTCTTTTTTTT-GTT-TTTAC
1 TTTTTTTTAATCATTTAGTTGTAACTTTTTTTTTTTAGTTGTAT-C
*
17015245 TTGTACTTTTAATCATTTAGTTGTAACTTTTTTCTTTTTAGTTGTATC
1 TT-T-TTTTTAATCATTTAGTTGTAACTTTTTT-TTTTTAGTTGTATC
* **
17015293 TTTTTTTT-ATCATTTAATTGTATA-TTTTTGGTTTTAGTTGT
1 TTTTTTTTAATCATTTAGTTGTA-ACTTTTTTTTTTTAGTTGT
17015334 TTATTATATT
Statistics
Matches: 104, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 7 0.07
43 22 0.21
44 10 0.10
45 19 0.18
46 29 0.28
47 6 0.06
48 6 0.06
49 2 0.02
ACGTcount: A:0.17, C:0.09, G:0.10, T:0.64
Consensus pattern (45 bp):
TTTTTTTTAATCATTTAGTTGTAACTTTTTTTTTTTAGTTGTATC
Found at i:17015308 original size:24 final size:24
Alignment explanation
Indices: 17015251--17015321 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 24
17015241 TTACTTGTAC
* *
17015251 TTTTAATCATTTAGTTGTAACTTT
1 TTTTTATCATTTAGTTGTATCTTT
*
17015275 TTTCT-T--TTTAGTTGTATCTTT
1 TTTTTATCATTTAGTTGTATCTTT
* *
17015296 TTTTTATCATTTAATTGTATATTT
1 TTTTTATCATTTAGTTGTATCTTT
17015320 TT
1 TT
17015322 GGTTTTAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 18 0.47
22 1 0.03
23 1 0.03
24 18 0.47
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.66
Consensus pattern (24 bp):
TTTTTATCATTTAGTTGTATCTTT
Found at i:17015358 original size:18 final size:17
Alignment explanation
Indices: 17015324--17015362 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
17015314 ATATTTTTGG
17015324 TTTTAGTTGTTTATTAT
1 TTTTAGTTGTTTATTAT
17015341 ATTTTAGTTGTATT-TTAT
1 -TTTTAGTTGT-TTATTAT
17015359 TTTT
1 TTTT
17015363 TGTTTTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 14 0.70
19 2 0.10
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (17 bp):
TTTTAGTTGTTTATTAT
Found at i:17015871 original size:14 final size:14
Alignment explanation
Indices: 17015852--17015885 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
17015842 GTAAATGCTA
17015852 TCGAAACCATTTTT
1 TCGAAACCATTTTT
17015866 TCGAAACCATTTTT
1 TCGAAACCATTTTT
*
17015880 TGGAAA
1 TCGAAA
17015886 AAAATGAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (14 bp):
TCGAAACCATTTTT
Found at i:17027104 original size:99 final size:99
Alignment explanation
Indices: 17026933--17027136 Score: 381
Period size: 99 Copynumber: 2.1 Consensus size: 99
17026923 TGATGTCCAC
* * *
17026933 ACAAACCTAGCTCGGATACCACTTGTTGGAATCGTAGTAATAAAAATAACTCAAATTCTAATTTT
1 ACAAACCTAGCTCGGAGACCACTTGTTGGAATCATAGTAATAAAAATAACTCAAAGTCTAATTTT
17026998 ATTACACACAAATAAACACAATACAAAATACAAT
66 ATTACACACAAATAAACACAATACAAAATACAAT
17027032 ACAAACCTAGCTCGGAGACCACTTGTTGGAATCATAGTAATAAAAATAACTCAAAGTCTAATTTT
1 ACAAACCTAGCTCGGAGACCACTTGTTGGAATCATAGTAATAAAAATAACTCAAAGTCTAATTTT
17027097 ATTACACACAAATAAACACAATACAAAATACAAT
66 ATTACACACAAATAAACACAATACAAAATACAAT
17027131 ACAAAC
1 ACAAAC
17027137 TCTCTTTTAT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 102 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.25
Consensus pattern (99 bp):
ACAAACCTAGCTCGGAGACCACTTGTTGGAATCATAGTAATAAAAATAACTCAAAGTCTAATTTT
ATTACACACAAATAAACACAATACAAAATACAAT
Found at i:17029494 original size:3 final size:3
Alignment explanation
Indices: 17029486--17029754 Score: 129
Period size: 3 Copynumber: 92.7 Consensus size: 3
17029476 AATGATATGG
* * * * *
17029486 TAA TAA TAA TAG TGA TAA T-A CAA TAA TAA TAA TAA -AG TAGA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
*
17029530 TAA CAA TAA TAA TACA TTAA TAA TAA TAA TAA T-A TAA TAA TAA T-A
1 TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
17029575 TAA AAA AAA GAA -AA TAA TAA T-A TAT TAA TAA GAA TAA TTA TAG T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
17029620 TAA -AA -AA TAA TAG TAA AAA TAA TAT TAA TAA -AA GAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
17029665 TAA AAA TAA TGAA T-G TAA TAG TAA CATA TAA TAA TAA TGA -AA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
17029710 CAC TAA TAA TAA AAA T-A TAGA -AGA TAA TAA -AA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA
17029753 TA
1 TA
17029755 TTGATAGGTT
Statistics
Matches: 199, Mismatches: 47, Indels: 40
0.70 0.16 0.14
Matches are distributed among these distances:
2 25 0.13
3 162 0.81
4 10 0.05
5 2 0.01
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:17029516 original size:11 final size:11
Alignment explanation
Indices: 17029500--17029574 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
17029490 AATAATAGTG
17029500 ATAATACAATA
1 ATAATACAATA
17029511 ATAAT--AATA
1 ATAATACAATA
* *
17029520 A-AGTAGAA-A
1 ATAATACAATA
17029529 AT-A-ACAATA
1 ATAATACAATA
*
17029538 ATAATACATTA
1 ATAATACAATA
17029549 ATAAT--AATA
1 ATAATACAATA
*
17029558 ATAATATAATA
1 ATAATACAATA
17029569 ATAATA
1 ATAATA
17029575 TAAAAAAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 5 0.10
9 18 0.35
10 3 0.06
11 25 0.49
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (11 bp):
ATAATACAATA
Found at i:17029517 original size:14 final size:13
Alignment explanation
Indices: 17029486--17029754 Score: 121
Period size: 14 Copynumber: 20.6 Consensus size: 13
17029476 AATGATATGG
*
17029486 TAATAAT-AATAG
1 TAATAATAAATAA
*
17029498 TGATAATACAATAA
1 TAATAATA-AATAA
17029512 TAATAATAAAGTAGA
1 TAATAATAAA-TA-A
* *
17029527 AAATAA-CAATAA
1 TAATAATAAATAA
*
17029539 TAATACATTAATAA
1 TAATA-ATAAATAA
17029553 TAATAATAATATAA
1 TAATAATAA-ATAA
17029567 TAATAATATAA-AA
1 TAATAATA-AATAA
*
17029580 -AA-AAGAAAATAA
1 TAATAA-TAAATAA
*
17029592 TAATATATTAATAA
1 TAATA-ATAAATAA
* * *
17029606 GAATAAT-TATAG
1 TAATAATAAATAA
*
17029618 T-ATAAAAAATAA
1 TAATAATAAATAA
*
17029630 TAGTAA-AAATAA
1 TAATAATAAATAA
* *
17029642 TATTAATAAAAGAA
1 TAATAAT-AAATAA
17029656 TAATAA-AAATAA
1 TAATAATAAATAA
* *
17029668 AAATAATGAATGTAA
1 TAATAAT-AA-ATAA
* * *
17029683 TAGTAACATATAA
1 TAATAATAAATAA
17029696 TAATAATGAAATAA
1 TAATAAT-AAATAA
* *
17029710 CACTAAT-AATAA
1 TAATAATAAATAA
* *
17029722 AAAT-ATAGAA-GA
1 TAATAATA-AATAA
*
17029734 TAATAAAAAATAA
1 TAATAATAAATAA
17029747 TAATAATA
1 TAATAATA
17029755 TTGATAGGTT
Statistics
Matches: 190, Mismatches: 42, Indels: 49
0.68 0.15 0.17
Matches are distributed among these distances:
11 10 0.05
12 57 0.30
13 37 0.19
14 71 0.37
15 15 0.08
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:17029520 original size:17 final size:17
Alignment explanation
Indices: 17029490--17029574 Score: 73
Period size: 17 Copynumber: 4.8 Consensus size: 17
17029480 ATATGGTAAT
* *
17029490 AATAATAGTGATAATAC
1 AATAATAATAATAATAC
*
17029507 AATAATAATAATAAAGTAGAA
1 AATAATAATAAT-AA-T--AC
*
17029528 AATAACAATAATAATAC
1 AATAATAATAATAATAC
*
17029545 ATTAATAATAATAATA-
1 AATAATAATAATAATAC
17029561 ATATAATAATAATA
1 A-ATAATAATAATA
17029575 TAAAAAAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.02
17 36 0.65
18 2 0.04
19 2 0.04
20 2 0.04
21 12 0.22
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATAATAATAATAC
Found at i:17029628 original size:18 final size:19
Alignment explanation
Indices: 17029528--17029631 Score: 78
Period size: 20 Copynumber: 5.6 Consensus size: 19
17029518 TAAAGTAGAA
*
17029528 AATAACAATAATAATACATT
1 AATAA-AATAATAATATATT
*
17029548 AATAATAATAATAATATAAT
1 AATAA-AATAATAATATATT
*
17029568 AATAATATAA-AA-A-A--
1 AATAAAATAATAATATATT
*
17029582 AAGAAAATAATAATATATT
1 AATAAAATAATAATATATT
*
17029601 AATAAGAATAATTATAGTA-T
1 AATAA-AATAATAATA-TATT
17029621 AA-AAAATAATA
1 AATAAAATAATA
17029632 GTAAAAATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.12
15 2 0.03
16 2 0.03
17 2 0.03
18 8 0.12
19 10 0.15
20 34 0.50
21 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
AATAAAATAATAATATATT
Found at i:17029668 original size:45 final size:46
Alignment explanation
Indices: 17029487--17029674 Score: 116
Period size: 50 Copynumber: 3.9 Consensus size: 46
17029477 ATGATATGGT
* * * * *
17029487 AATAATAATAGTGATAATACAATAATAATAATAAAGTAGAAAATAACA-AT
1 AATAATAATA-TAATAAT--AAGAATAATAA-AAA-TAAAAAATAATAGAA
* * *
17029537 AATAATACAT-TAATAATAATAATAATATAATAATAATATAAAAAAAAGAA
1 AATAATA-ATATAATAATAAGAATAATA-AA-AATAA-A-AAATAATAGAA
* ** *
17029587 AATAATAATATATTAATAAGAATAATTATAGTATAAAAAATAATAGTA
1 AATAATAATATAATAATAAGAATAA-TA-AAAATAAAAAATAATAGAA
17029635 AA-AATAATATTAATAA-AAGAATAATAAAAAT-AAAAATAAT
1 AATAATAATA-TAATAATAAGAATAATAAAAATAAAAAATAAT
17029675 GAATGTAATA
Statistics
Matches: 114, Mismatches: 15, Indels: 24
0.75 0.10 0.16
Matches are distributed among these distances:
44 9 0.08
45 3 0.03
46 2 0.02
47 28 0.25
48 19 0.17
49 15 0.13
50 32 0.28
51 6 0.05
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (46 bp):
AATAATAATATAATAATAAGAATAATAAAAATAAAAAATAATAGAA
Found at i:17029738 original size:54 final size:54
Alignment explanation
Indices: 17029626--17029754 Score: 142
Period size: 54 Copynumber: 2.4 Consensus size: 54
17029616 AGTATAAAAA
* *
17029626 ATAATAGTAAAAATAATATTAATAAAAGAATAATAAAAATAAAAATAATGAATG
1 ATAATAGTAAAAATAATAATAATAAAAGAACAATAAAAATAAAAATAATGAATG
* * * * *
17029680 -TAATAGTAACATATAATAATAATGAAATAACACTAATAATAAAAAT-ATAGAA-G
1 ATAATAGTAA-AAATAATAATAATAAAAGAACAATAAAAATAAAAATAAT-GAATG
17029733 ATAATA--AAAAATAATAATAATA
1 ATAATAGTAAAAATAATAATAATA
17029755 TTGATAGGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
51 12 0.19
52 2 0.03
53 12 0.19
54 37 0.59
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.26
Consensus pattern (54 bp):
ATAATAGTAAAAATAATAATAATAAAAGAACAATAAAAATAAAAATAATGAATG
Found at i:17032532 original size:6 final size:6
Alignment explanation
Indices: 17032523--17032548 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17032513 GAAGGATGAG
17032523 GATGGA GATGGA GATGGA GATGGA GA
1 GATGGA GATGGA GATGGA GATGGA GA
17032549 AGGTTTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
GATGGA
Found at i:17034594 original size:85 final size:85
Alignment explanation
Indices: 17034451--17034620 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
17034441 GAATTGAGCT
17034451 CGTTGAAATTTAAGATCAGGCTTCATTTTGAACTTGGGCCCCTCGAACTTAGGCCATGCTTGATA
1 CGTTGAAATTTAAGATCAGGCTTCATTTTGAACTTGGGCCCCTCGAACTTAGGCCATGCTTGATA
17034516 TTGTCGAATTGTGTCGAACC
66 TTGTCGAATTGTGTCGAACC
17034536 CGTTGAAATTTAAGATCAGGCTTCATTTTGAACTTGGGCCCCTCGAACTTAGGCCATGCTTGATA
1 CGTTGAAATTTAAGATCAGGCTTCATTTTGAACTTGGGCCCCTCGAACTTAGGCCATGCTTGATA
17034601 TTGTCGAATTGTGTCGAACC
66 TTGTCGAATTGTGTCGAACC
17034621 ATGATACGTC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (85 bp):
CGTTGAAATTTAAGATCAGGCTTCATTTTGAACTTGGGCCCCTCGAACTTAGGCCATGCTTGATA
TTGTCGAATTGTGTCGAACC
Found at i:17037297 original size:3 final size:3
Alignment explanation
Indices: 17037291--17037315 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17037281 GGCGGTGGTG
17037291 GTT GTT GTT GTT GTT GTT GTT GTT G
1 GTT GTT GTT GTT GTT GTT GTT GTT G
17037316 CAGCACCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (3 bp):
GTT
Found at i:17037438 original size:21 final size:21
Alignment explanation
Indices: 17037408--17037471 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
17037398 GCTGTCAGAT
* *
17037408 GCAGCTGCTGCGGTGGCGGAG
1 GCAGCGGCTGCGATGGCGGAG
* *
17037429 GCAGCGGCTGTGATGGTGGAG
1 GCAGCGGCTGCGATGGCGGAG
* *
17037450 GCAGCGGCTGTGATGGTGGAG
1 GCAGCGGCTGCGATGGCGGAG
17037471 G
1 G
17037472 AGACGGTGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.12, C:0.17, G:0.53, T:0.17
Consensus pattern (21 bp):
GCAGCGGCTGCGATGGCGGAG
Found at i:17037446 original size:24 final size:23
Alignment explanation
Indices: 17037419--17037473 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 23
17037409 CAGCTGCTGC
17037419 GGTGGCGGAGGCAGCGGCTGTGAT
1 GGTGG-GGAGGCAGCGGCTGTGAT
17037443 GGT--GGAGGCAGCGGCTGTGAT
1 GGTGGGGAGGCAGCGGCTGTGAT
17037464 GGTGGAGGAG
1 GGTGG-GGAG
17037474 ACGGTGCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 21 0.75
24 7 0.25
ACGTcount: A:0.15, C:0.13, G:0.56, T:0.16
Consensus pattern (23 bp):
GGTGGGGAGGCAGCGGCTGTGAT
Found at i:17038533 original size:15 final size:14
Alignment explanation
Indices: 17038513--17038548 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
17038503 AATGGGGGTA
17038513 GTGGTGATAGTGGTG
1 GTGGTGA-AGTGGTG
17038528 GTGGTGGAAGTGGTG
1 GTGGT-GAAGTGGTG
17038543 GTGGTG
1 GTGGTG
17038549 GCCGGTGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 17 0.85
16 2 0.10
ACGTcount: A:0.11, C:0.00, G:0.58, T:0.31
Consensus pattern (14 bp):
GTGGTGAAGTGGTG
Found at i:17038549 original size:15 final size:15
Alignment explanation
Indices: 17038521--17038549 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17038511 TAGTGGTGAT
17038521 AGTGGTGGTGGTGGA
1 AGTGGTGGTGGTGGA
17038536 AGTGGTGGTGGTGG
1 AGTGGTGGTGGTGG
17038550 CCGGTGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.62, T:0.28
Consensus pattern (15 bp):
AGTGGTGGTGGTGGA
Found at i:17042677 original size:6 final size:6
Alignment explanation
Indices: 17042659--17042688 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
17042649 AGTTATCAAA
17042659 TTAAAT ATTAAAT TTAAAT TTAAAT TTAAA
1 TTAAAT -TTAAAT TTAAAT TTAAAT TTAAA
17042689 GTAAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:17045922 original size:17 final size:19
Alignment explanation
Indices: 17045891--17045938 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
17045881 ACGATTTTAG
*
17045891 AAAAT-TATAAAAAAAT-A
1 AAAATATATAAAAAATTCA
*
17045908 AAAGTATATAAAAAATTCA
1 AAAATATATAAAAAATTCA
17045927 AAAATATATAAA
1 AAAATATATAAA
17045939 GTGACAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 4 0.15
18 10 0.38
19 12 0.46
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATATATAAAAAATTCA
Found at i:17046060 original size:14 final size:13
Alignment explanation
Indices: 17046027--17046051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17046017 CCCATACTTT
17046027 AAAAAAAAACATA
1 AAAAAAAAACATA
17046040 AAAAAAAAACAT
1 AAAAAAAAACAT
17046052 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAAAACATA
Found at i:17049709 original size:25 final size:24
Alignment explanation
Indices: 17049698--17049746 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
17049688 ATAAATAGTG
*
17049698 AGCTCTATTGAGCTGAAAACGGTA
1 AGCTCTATTGAGCTGAAAACAGTA
17049722 AGCTCTATTGAGCTG--AACAGTA
1 AGCTCTATTGAGCTGAAAACAGTA
17049744 AGC
1 AGC
17049747 GCTTTCAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.38
24 15 0.62
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (24 bp):
AGCTCTATTGAGCTGAAAACAGTA
Found at i:17053634 original size:28 final size:28
Alignment explanation
Indices: 17053594--17053686 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
17053584 ATGTACTAGA
*
17053594 ATACCCCTATGTATACAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
17053622 ATACCCCTATGTATGGAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
17053650 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
17053678 ATACCCCTA
1 ATACCCCTA
17053687 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:17053893 original size:29 final size:28
Alignment explanation
Indices: 17053794--17053882 Score: 135
Period size: 28 Copynumber: 3.1 Consensus size: 28
17053784 GAAGCGTCCA
17053794 GGTGGCTA-TGCCACAAATTATCTGTTCT
1 GGTGGC-ACTGCCACAAATTATCTGTTCT
*
17053822 GGTGGCCCTGCCACAAATTATCTGTTCT
1 GGTGGCACTGCCACAAATTATCTGTTCT
*
17053850 GGTGGCACTGCCACAAAATATCTGTATCT
1 GGTGGCACTGCCACAAATTATCTGT-TCT
17053879 GGTG
1 GGTG
17053883 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (28 bp):
GGTGGCACTGCCACAAATTATCTGTTCT
Found at i:17053907 original size:56 final size:55
Alignment explanation
Indices: 17053794--17053907 Score: 133
Period size: 56 Copynumber: 2.0 Consensus size: 55
17053784 GAAGCGTCCA
* *
17053794 GGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTTCT
1 GGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTTCT
* * *
17053850 GGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTATCT
1 GGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-TCT
17053906 GG
1 GG
17053908 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
55 9 0.18
56 27 0.54
57 14 0.28
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (55 bp):
GGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTTCT
Found at i:17058614 original size:26 final size:26
Alignment explanation
Indices: 17058577--17058712 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
17058567 TGATACAAAT
* *
17058577 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17058603 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
17058629 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17058655 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17058681 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17058707 TGATAA
1 TGATAA
17058713 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:17061927 original size:20 final size:20
Alignment explanation
Indices: 17061902--17061960 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
17061892 TAAATATGGT
17061902 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
17061922 ATGTATGATATGCACATAAT
1 ATGTATGATATGCACATGAC
17061942 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
17061961 TGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:17062038 original size:24 final size:24
Alignment explanation
Indices: 17062011--17062129 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
17062001 GAGGAAGTGA
*
17062011 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
17062035 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
17062058 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
17062082 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
17062106 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17062130 ATGATAAATC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:17062080 original size:47 final size:48
Alignment explanation
Indices: 17062011--17062129 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
17062001 GAGGAAGTGA
17062011 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
17062058 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
17062106 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
17062130 ATGATAAATC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:17062356 original size:31 final size:31
Alignment explanation
Indices: 17062321--17062383 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
17062311 CGTTTACAGT
17062321 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
17062352 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
17062383 A
1 A
17062384 TTATGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:17063733 original size:136 final size:136
Alignment explanation
Indices: 17063488--17063909 Score: 790
Period size: 136 Copynumber: 3.1 Consensus size: 136
17063478 GAGTAGTCTC
*
17063488 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
17063553 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACC
17063618 ACTGTTA
130 ACTGTTA
17063625 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
17063690 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAAGCTGAAAAGGGCTTTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
17063755 CTGTTA
131 CTGTTA
17063761 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
17063826 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
17063891 CTGTTA
131 CTGTTA
**
17063897 CCTGAATGGGCTT
1 CCCAAATGGGCTT
17063910 AGGCCCAATG
Statistics
Matches: 279, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 259 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
CTGTTA
Done.