Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 42 of 141
Found at i:13164839 original size:17 final size:17
Alignment explanation
Indices: 13164817--13164877 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
13164807 AATCTTAGAG
13164817 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
13164834 TTCTAATTATGTCTTAGAG-
1 TTCTAA-T-TGT-ATACAGC
13164853 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
13164870 TTTTAATT
1 TTCTAATT
13164878 ATAGCCTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.11
17 16 0.46
18 2 0.06
19 9 0.26
20 4 0.11
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:13164850 original size:36 final size:36
Alignment explanation
Indices: 13164809--13164879 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
13164799 GATTATTTAA
13164809 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
13164845 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTAT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTAT
13164880 AGCCTTTGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:13164858 original size:19 final size:18
Alignment explanation
Indices: 13164809--13164860 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
13164799 GATTATTTAA
13164809 TCTTAGAGTTCTAA-TTG
1 TCTTAGAGTTCTAATTTG
* *
13164826 T-ATACAGCTTCTAATTATG
1 TCTTAGAG-TTCTAATT-TG
13164845 TCTTAGAGTTCTAATT
1 TCTTAGAGTTCTAATT
13164861 GTATACAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 1 0.04
19 11 0.41
20 4 0.15
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTTG
Found at i:13170854 original size:36 final size:36
Alignment explanation
Indices: 13170813--13170883 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
13170803 GATTATTTAA
*
13170813 TCTTAGAGTTTTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
13170849 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTAT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTAT
13170884 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:13171287 original size:19 final size:19
Alignment explanation
Indices: 13171265--13171308 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
13171255 ATATAAAAAA
13171265 TAATATTATTATAAATTTT
1 TAATATTATTATAAATTTT
* * *
13171284 TAATATTTTTTTGAATTTT
1 TAATATTATTATAAATTTT
13171303 T-ATATT
1 TAATATT
13171309 TAAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TAATATTATTATAAATTTT
Found at i:13173389 original size:31 final size:33
Alignment explanation
Indices: 13173326--13173391 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 33
13173316 ATTTAGAAGC
*
13173326 AAGAAAATAGTAAATGAAAGTGGAGAAAATGAG
1 AAGAAAATAGGAAATGAAAGTGGAGAAAATGAG
* * *
13173359 AAGAAAAT-GGAAA-GAAAGTTGTGAAGATGAG
1 AAGAAAATAGGAAATGAAAGTGGAGAAAATGAG
13173390 AA
1 AA
13173392 AGGAATGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 17 0.59
32 4 0.14
33 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.15
Consensus pattern (33 bp):
AAGAAAATAGGAAATGAAAGTGGAGAAAATGAG
Found at i:13180292 original size:158 final size:158
Alignment explanation
Indices: 13180036--13180345 Score: 620
Period size: 158 Copynumber: 2.0 Consensus size: 158
13180026 TTAGCATTCT
13180036 TACATATTTTTAAGGGTTTTTTAGTAATTTTTAATAATTTTATTTTTTAATATATATTTATAAAA
1 TACATATTTTTAAGGGTTTTTTAGTAATTTTTAATAATTTTATTTTTTAATATATATTTATAAAA
13180101 TTTTGGAAAAAAATTATAAATATTTTGAATTTTTATTATTTTTTGAGAGGGACTAATTTGCTCAT
66 TTTTGGAAAAAAATTATAAATATTTTGAATTTTTATTATTTTTTGAGAGGGACTAATTTGCTCAT
13180166 TTTCGGAACTATCAAGGTCACAGCATCC
131 TTTCGGAACTATCAAGGTCACAGCATCC
13180194 TACATATTTTTAAGGGTTTTTTAGTAATTTTTAATAATTTTATTTTTTAATATATATTTATAAAA
1 TACATATTTTTAAGGGTTTTTTAGTAATTTTTAATAATTTTATTTTTTAATATATATTTATAAAA
13180259 TTTTGGAAAAAAATTATAAATATTTTGAATTTTTATTATTTTTTGAGAGGGACTAATTTGCTCAT
66 TTTTGGAAAAAAATTATAAATATTTTGAATTTTTATTATTTTTTGAGAGGGACTAATTTGCTCAT
13180324 TTTCGGAACTATCAAGGTCACA
131 TTTCGGAACTATCAAGGTCACA
13180346 AAGGGTATTT
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 152 1.00
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (158 bp):
TACATATTTTTAAGGGTTTTTTAGTAATTTTTAATAATTTTATTTTTTAATATATATTTATAAAA
TTTTGGAAAAAAATTATAAATATTTTGAATTTTTATTATTTTTTGAGAGGGACTAATTTGCTCAT
TTTCGGAACTATCAAGGTCACAGCATCC
Found at i:13181341 original size:111 final size:112
Alignment explanation
Indices: 13180937--13181433 Score: 643
Period size: 116 Copynumber: 4.4 Consensus size: 112
13180927 TACAGTAAAA
* * * *
13180937 TTTTTTT--TGTCAGAATAAGATATAAATATACGAAAAAAGTAAAAAAAAA-TTTTTTGGGTGCT
1 TTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATAAAAAAAAATTTTTTTGGGTGCT
**
13180999 GGCCTGTCAATGGCCGGCACCCAGTACAA-TT--AAAATTTTTTTTT
66 GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTTTTT
* *
13181043 CATTTTTTTCGTGTCAGAGTTAGATATAATTATATGAAAAAAATAAAAAAAAAATTTTTTTGGGT
1 --TTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAAT-AAAAAAAAATTTTTTTGGGT
* * *
13181108 GCTGGCCTGTCAATGGCCGACACCCAGTACAAATTTTTTTAAAAAAA-TTTCTT
63 GCTGGCCTGTCAATGGCCGGCACCCAGTAC-AA---TTTAAAAAAAATTTTTTT
* * *
13181161 TTTTTTTCGTGTCAGAGTCAGATATAATTATATGAAAAAAATTAAAAAAATTTTTTTTGGGTGCT
1 TTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATAAAAAAAAATTTTTTTGGGTGCT
13181226 GGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAATTTTTTT
66 GGCCTGTCAATGGCCGGCACCCAGTAC-AATTTAAAAAAAATTTTTTT
* *
13181274 TTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAAT-TAAAAAAA-TTTTTTGGGTGCA
1 TTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATAAAAAAAAATTTTTTTGGGTGCT
13181337 GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAAATTTTTTTTCCT
66 GGCCTGTCAATGGCCGGCACCCAGTACAATTT--AAAAAAAA--TTTTTT--T
* *
13181390 TTTTTTTCGTGTTAGAGTCAGATATAAATATACGAAAAAAATAA
1 TTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATAA
13181434 TTTTTTTTAA
Statistics
Matches: 348, Mismatches: 22, Indels: 29
0.87 0.06 0.07
Matches are distributed among these distances:
108 7 0.02
110 33 0.09
111 48 0.14
112 63 0.18
113 48 0.14
114 6 0.02
115 50 0.14
116 82 0.24
117 2 0.01
118 5 0.01
119 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (112 bp):
TTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATAAAAAAAAATTTTTTTGGGTGCT
GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTTTTT
Found at i:13181439 original size:111 final size:106
Alignment explanation
Indices: 13181087--13181440 Score: 406
Period size: 111 Copynumber: 3.2 Consensus size: 106
13181077 TGAAAAAAAT
* * * *
13181087 AAAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAAATTTTTTTAAAA
1 AAAAAAATAATTTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAGTACAAA---TTTAAAAA
* * *
13181152 AAA-TTTCTTTTTTTTTCGTGTCAGAGTCAGATATAATTATATG
63 AAATTTTTTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG
*
13181195 AAAAAAATTAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTA
1 AAAAAAA-T-----AA-TTTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAGTACAAATTTA
*
13181260 AAAAAAATTTTTTTTTTTTTTCGTGTCAGAGTCAGATATAATTATACG
59 AAAAAAATTTTTTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG
*
13181308 AAAAAAATTAAAAAAATTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAGTAC-AATTTAAA
1 AAAAAAA-T----AATTTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAGTACAAATTT--A
*
13181372 AAAAAAATTTTTTTTCCTTTTTTTTCGTGTTAGAGTCAGATATAAATATACG
59 AAAAAAA--TTTTTT--TTTTTTTTCGTGTCAGAGTCAGATATAAATATACG
13181424 AAAAAAATAATTTTTTT
1 AAAAAAATAATTTTTTT
13181441 TAAATTTGTA
Statistics
Matches: 222, Mismatches: 10, Indels: 25
0.86 0.04 0.10
Matches are distributed among these distances:
108 7 0.03
110 5 0.02
111 47 0.21
112 24 0.11
113 47 0.21
114 8 0.04
115 44 0.20
116 40 0.18
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (106 bp):
AAAAAAATAATTTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAA
TTTTTTTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG
Found at i:13181727 original size:127 final size:130
Alignment explanation
Indices: 13181487--13181730 Score: 356
Period size: 127 Copynumber: 1.9 Consensus size: 130
13181477 CACCCAAAAT
* ****
13181487 TTTTTTTATAATTTTTTTCGTATAATTATATCTGACTCTGACATGAAAAAAAAAGAATTTTTTTT
1 TTTTTTTATAATTTTTTTCGTATAATTATATCTGACTCTGACATCAAAAAAAAAGAAAAAATTTT
*
13181552 AAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAATTTTAA
66 AAATTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAATTTTAA
*
13181617 TTTTTTT-T-ATTTTTTTCGTATATTTATATCTGACTCTGACA-CAAAAAAAGTAA-AAAAAATT
1 TTTTTTTATAATTTTTTTCGTATAATTATATCTGACTCTGACATCAAAAAAA--AAGAAAAAATT
*
13181678 TTAAA-TTGTACTGGGTGCCAGCCATTGACAGGCCGGCACCC-AAATTTTTTTTT
64 TTAAATTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT
13181731 ATTTTTTTCG
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
126 12 0.12
127 41 0.39
128 41 0.39
129 3 0.03
130 7 0.07
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (130 bp):
TTTTTTTATAATTTTTTTCGTATAATTATATCTGACTCTGACATCAAAAAAAAAGAAAAAATTTT
AAATTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAATTTTAA
Found at i:13181820 original size:103 final size:105
Alignment explanation
Indices: 13181617--13181824 Score: 343
Period size: 106 Copynumber: 2.0 Consensus size: 105
13181607 AAAATTTTAA
13181617 TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAGTAAAAAAAATTTTAA
1 TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAGTAAAAAAAA-TTTAA
*
13181682 ATTGTACTGGGTGCCAGCCATTGACAGGCCGGCACCCAAAT
65 ATTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAT
13181723 TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAAG-AAAAAAAA-TT-A
1 TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACAC-AAAAAAAGTAAAAAAAATTTAA
*
13181785 ATTGTATTGGGTG-CAGGCCATTGACAGGCCAGCACCCAAA
65 ATTGTACTGGGTGCCA-GCCATTGACAGGCCAGCACCCAAA
13181825 AAATAATTTT
Statistics
Matches: 98, Mismatches: 2, Indels: 7
0.92 0.02 0.07
Matches are distributed among these distances:
102 2 0.02
103 36 0.37
104 2 0.02
106 50 0.51
107 8 0.08
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (105 bp):
TTTTTTTTATTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAGTAAAAAAAATTTAAA
TTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAT
Found at i:13188041 original size:4 final size:4
Alignment explanation
Indices: 13188032--13188058 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13188022 TTCGACTTGA
13188032 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
13188059 AAAGGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:13188175 original size:30 final size:31
Alignment explanation
Indices: 13188136--13188197 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
13188126 AAAATGTCGC
*
13188136 TGAACTATTCAAAAACT-TTCATT-AAGTCAT
1 TGAACTATTCAAAAA-TATTAATTCAAGTCAT
* *
13188166 TGAATTATTCGAAAATATTAATTCAAGTCAT
1 TGAACTATTCAAAAATATTAATTCAAGTCAT
13188197 T
1 T
13188198 CAGCTGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.04
30 18 0.67
31 8 0.30
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (31 bp):
TGAACTATTCAAAAATATTAATTCAAGTCAT
Found at i:13189731 original size:12 final size:13
Alignment explanation
Indices: 13189704--13189742 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
13189694 TCAAATCTCC
13189704 AATTTATCACAAAAA
1 AATTTAT-A-AAAAA
13189719 AA-TTATAAAAAA
1 AATTTATAAAAAA
13189731 AATTTATAAAAA
1 AATTTATAAAAA
13189743 TTACAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
14 4 0.17
15 2 0.09
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTTATAAAAAA
Found at i:13189832 original size:18 final size:17
Alignment explanation
Indices: 13189792--13189834 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
13189782 TAAAAATAAT
13189792 TTAAAAAT-TAAAATTA
1 TTAAAAATATAAAATTA
13189808 -TAGAAAATATAATAATTA
1 TTA-AAAATATAA-AATTA
13189826 TTAAAAATA
1 TTAAAAATA
13189835 ATTAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.09
16 5 0.22
17 3 0.13
18 11 0.48
19 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAAAATATAAAATTA
Found at i:13190368 original size:19 final size:20
Alignment explanation
Indices: 13190346--13190384 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
13190336 ATTTTCTATA
*
13190346 TTTTTCTGATTTT-TAAACT
1 TTTTTCAGATTTTCTAAACT
*
13190365 TTTTTGAGATTTTCTAAACT
1 TTTTTCAGATTTTCTAAACT
13190385 CTTTGCTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTTTCAGATTTTCTAAACT
Found at i:13190527 original size:129 final size:129
Alignment explanation
Indices: 13190264--13190504 Score: 279
Period size: 129 Copynumber: 1.9 Consensus size: 129
13190254 ATTTTTGCTG
* * *
13190264 TTTTTTGAATTTTCATTTTTTTGTATTTTAAGTATTTTAAAAAAAGTAATGTATAGTTTTAAATT
1 TTTTTTGAATTTTCACTTTTTTGTATTTTAAGTATTTTAAAAAAAGAAAAGTATAGTTTTAAATT
* * * * * ****
13190329 TTTGGAAATTTTCTATATTTTTCTGATTTTTAAACTTTTTTGAGATTTTCTAAACTCTTTGCTC
66 TCTAGAAAATTTCTATATTTTTATGATTTTTAAACTTTTTGGAGATTTTCTAAACTCTTTAAAA
* * * * *
13190393 TTTTTTTAATTTTCACTTTTTTGTATTTTATGTGTTTTTAAAAAAGAAAAGTATA-TTTTTAATT
1 TTTTTTGAATTTTCACTTTTTTGTATTTTAAGTATTTTAAAAAAAGAAAAGTATAGTTTTAAATT
* ** *
13190457 TCTAGAAAATTTCTATATTTTTATGCTTTTTTTA-TTTTTGGATATTTT
66 TCTAGAAAATTTCTATATTTTTATGATTTTTAAACTTTTTGGAGATTTT
13190505 TATTTTACTT
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
127 12 0.13
128 35 0.37
129 48 0.51
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.59
Consensus pattern (129 bp):
TTTTTTGAATTTTCACTTTTTTGTATTTTAAGTATTTTAAAAAAAGAAAAGTATAGTTTTAAATT
TCTAGAAAATTTCTATATTTTTATGATTTTTAAACTTTTTGGAGATTTTCTAAACTCTTTAAAA
Found at i:13192820 original size:25 final size:25
Alignment explanation
Indices: 13192792--13192841 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
13192782 TTCCTGATGC
* *
13192792 TTGGCTCTCATGAGCTTCTCGATAT
1 TTGGCTCGCAAGAGCTTCTCGATAT
13192817 TTGGCTCGCAAGAGCTTCTCGATAT
1 TTGGCTCGCAAGAGCTTCTCGATAT
13192842 ACAGCTCGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
TTGGCTCGCAAGAGCTTCTCGATAT
Found at i:13196782 original size:540 final size:539
Alignment explanation
Indices: 13195765--13196848 Score: 1906
Period size: 540 Copynumber: 2.0 Consensus size: 539
13195755 CTTTTGACCG
* *
13195765 TATCATTAACATTGTTACTGAAATAAATTAGTGACTTCTTGAAATTCATCATCTGACTTGATATC
1 TATCATTAACATTGTTACTGAAATAAATTAGTGACTACTTGAAATTCACCATCTGACTTGATATC
13195830 TTTTCGTATTCATTGACCACTGACCTTATGGCTAATGTCCCTCCACTGTTGCTTTTCCAACTAAG
66 TTTTCGTATTCATTGACCACTGACCTTATGGCTAATGTCCCTCCACTGTTGCTTTTCCAACTAAG
* * *
13195895 ATGCTATCATTAGAGAAAAAGAAGTGGGTTATGGATAAACCACATCTTCCAATTCTTGCTTTTAA
131 ATGCTATCATTAGAGAAAAAGAAATGGGTTATGGATAAACCACATCTCCCAATTCTTGCTTCTAA
13195960 TATTCTTCCTTCACTTCGTGCGTTATTTAGGAGTCTTGATAACCCCTCAACGCAAAGGATGAAAA
196 TATTCTTCCTTCACTTCGTGCGTTATTTAGGAGTCTTGATAACCCCTCAACGCAAAGGATGAAAA
* *
13196025 CATATGGGCTTAAGGGGTCTCATTGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTTCCCT
261 CATATGGGCTTAAGAGGTCTCAATGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTTCCCT
13196090 CCATTAAACACAACAGAATATGAGACACTTTTAATGCAACACATGATTAAAGAAACCCACTTATC
326 CCATTAAACACAACAGAATATGAGACACTTTTAATGCAACACATGATTAAAGAAACCCACTTATC
* *
13196155 GTGGAAACTAGGCTTCCTCATCATATTTTCAACGAAAGTCCACTCTACCCTATCGTATGCTTTTC
391 GTGGAAACTAGGCTTCCTAATCATATTTTCAACGAAAGTCCACTCTACCCTATCATATGCTTTTC
* * **
13196220 TCGTGTCTAGTTTTAGGGAAAAATTTCCAATTTCATATCGTTTCTTCTTAAAGGAATGCAACAAT
456 TCATGCCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCAACAAT
13196285 TTGTATGCCACTAATACGT
521 TTGTATGCCACTAATACGT
13196304 TATCATTAACATTGTTACTGAAATAAATTAGTGACTACTTGAAATTCACCATCTGACTTGATATC
1 TATCATTAACATTGTTACTGAAATAAATTAGTGACTACTTGAAATTCACCATCTGACTTGATATC
*
13196369 TTTTCGTATTCATTGACCACTGACCTTATGGCTAATGCTCCCTCCACTGTTGTTTTTCCAACTAA
66 TTTTCGTATTCATTGACCACTGACCTTATGGCTAATG-TCCCTCCACTGTTGCTTTTCCAACTAA
* * *
13196434 GATGCTATCATTAGCGGAAAAGAAATGGGTTACT-GATAAACCACCTCTCCCAATTCTCT-CTTC
130 GATGCTATCATTAGAGAAAAAGAAATGGGTTA-TGGATAAACCACATCTCCCAATTCT-TGCTTC
*
13196497 TAATATTCTTCCTTCACTTCGTGCGTTATTTAGGAGTCTTGATAACCCCTTC-ATGCAAAGGATG
193 TAATATTCTTCCTTCACTTCGTGCGTTATTTAGGAGTCTTGATAACCCC-TCAACGCAAAGGATG
13196561 AAAACATATGGGCTTAAGAGGTCTCAATGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTT
257 AAAACATATGGGCTTAAGAGGTCTCAATGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTT
* *
13196626 CCCTCCATTAAACACAACAGAATATGAGACACTTTTAATGTAACGCATGATTAAAGAAACCCACT
322 CCCTCCATTAAACACAACAGAATATGAGACACTTTTAATGCAACACATGATTAAAGAAACCCACT
13196691 TATC-TCGGAAACTAGGCTTCCTAATCATATTTTCAACGAAAGTCCACTCTACCCTATCATATGC
387 TATCGT-GGAAACTAGGCTTCCTAATCATATTTTCAACGAAAGTCCACTCTACCCTATCATATGC
*
13196755 TTTTTTCATGCCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCA
451 TTTTCTCATGCCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCA
13196820 ACAATTTGTATGCCACTAATACGT
516 ACAATTTGTATGCCACTAATACGT
13196844 TATCA
1 TATCA
13196849 ATAATTTGTC
Statistics
Matches: 519, Mismatches: 21, Indels: 9
0.95 0.04 0.02
Matches are distributed among these distances:
539 101 0.19
540 414 0.80
541 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (539 bp):
TATCATTAACATTGTTACTGAAATAAATTAGTGACTACTTGAAATTCACCATCTGACTTGATATC
TTTTCGTATTCATTGACCACTGACCTTATGGCTAATGTCCCTCCACTGTTGCTTTTCCAACTAAG
ATGCTATCATTAGAGAAAAAGAAATGGGTTATGGATAAACCACATCTCCCAATTCTTGCTTCTAA
TATTCTTCCTTCACTTCGTGCGTTATTTAGGAGTCTTGATAACCCCTCAACGCAAAGGATGAAAA
CATATGGGCTTAAGAGGTCTCAATGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTTCCCT
CCATTAAACACAACAGAATATGAGACACTTTTAATGCAACACATGATTAAAGAAACCCACTTATC
GTGGAAACTAGGCTTCCTAATCATATTTTCAACGAAAGTCCACTCTACCCTATCATATGCTTTTC
TCATGCCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCAACAAT
TTGTATGCCACTAATACGT
Found at i:13200356 original size:21 final size:24
Alignment explanation
Indices: 13200326--13200371 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 24
13200316 AATAAAACAC
13200326 AAATAATATT-TA-TTTAA-TAGA
1 AAATAATATTCTACTTTAACTAGA
*
13200347 AAATACTATTCTACTTTAACTAGA
1 AAATAATATTCTACTTTAACTAGA
13200371 A
1 A
13200372 TGGGGTAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 2 0.10
23 5 0.24
24 5 0.24
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (24 bp):
AAATAATATTCTACTTTAACTAGA
Found at i:13208000 original size:13 final size:15
Alignment explanation
Indices: 13207969--13208001 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
13207959 AAATTATTTG
13207969 TTGTAATAGCTAGCC
1 TTGTAATAGCTAGCC
13207984 TTGTAAT-GCTA-CC
1 TTGTAATAGCTAGCC
13207997 TTGTA
1 TTGTA
13208002 CCAAATCCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 4 0.22
15 7 0.39
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (15 bp):
TTGTAATAGCTAGCC
Found at i:13211762 original size:98 final size:95
Alignment explanation
Indices: 13211616--13211797 Score: 294
Period size: 98 Copynumber: 1.9 Consensus size: 95
13211606 AGGGTTTAGG
* * *
13211616 TTAATTATAAATTTTAAAAAATTAGATTGGGGTTTAGTGTTTATGGTTTTTAAGGAAAAAATCAA
1 TTAATTATAAATTTTAAAAAATTAGATTAGGATTTAGTGTTTATGGTTTTTAAAG-AAAAATCAA
13211681 ATAAATTAGGGTTTGGGGTTACTTGAGTAAA
65 ATAAATTAGGGTTTGGGGTTACTTGAGTAAA
13211712 TTAATTATAAATTTTAAAAAAAATTAGATTAGGATTTAGTGTTT-TGGGTTTTTAAAGAAAAATC
1 TTAATTATAAATTTT--AAAAAATTAGATTAGGATTTAGTGTTTAT-GGTTTTTAAAGAAAAATC
13211776 AAATAAATTAGGGTTTGGGGTT
63 AAATAAATTAGGGTTTGGGGTT
13211798 TAGGGTTACT
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
96 15 0.19
97 30 0.38
98 35 0.44
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (95 bp):
TTAATTATAAATTTTAAAAAATTAGATTAGGATTTAGTGTTTATGGTTTTTAAAGAAAAATCAAA
TAAATTAGGGTTTGGGGTTACTTGAGTAAA
Found at i:13212073 original size:126 final size:126
Alignment explanation
Indices: 13211848--13212092 Score: 429
Period size: 126 Copynumber: 1.9 Consensus size: 126
13211838 TCCCATGTGG
*
13211848 ACGCTCTTTTGCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTG
1 ACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTG
* * *
13211913 TCAAAAACGCTTTAACTAGGATGCAGTGTTAGCAAAAGTACTGAAAGAAGCTCTCACGTAA
66 TCAAAAACGCTTCAACTAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCTCACGTAA
*
13211974 ACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAGCAAATAGTG
1 ACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTG
13212039 TCAAAAACGCTTCAAGC-AGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCT
66 TCAAAAACGCTTCAA-CTAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCT
13212093 TTTACTACAG
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
126 112 0.99
127 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (126 bp):
ACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTG
TCAAAAACGCTTCAACTAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCTCACGTAA
Found at i:13226311 original size:27 final size:25
Alignment explanation
Indices: 13226233--13226311 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 25
13226223 TGGCACCCAG
*
13226233 TGCCTCATCGGACTAGTCGAAGTATT
1 TGCCTCATCGGACTAG-CTAAGTATT
* *
13226259 TGCGCTCATC--ACTCATCTATGTATT
1 TGC-CTCATCGGACT-AGCTAAGTATT
13226284 TGGCCTCATCGGACTAGCTAAAGTATT
1 T-GCCTCATCGGACTAGCT-AAGTATT
13226311 T
1 T
13226312 TTCTGCACGT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
25 17 0.40
26 9 0.21
27 16 0.38
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (25 bp):
TGCCTCATCGGACTAGCTAAGTATT
Found at i:13227105 original size:231 final size:232
Alignment explanation
Indices: 13226670--13227137 Score: 868
Period size: 231 Copynumber: 2.0 Consensus size: 232
13226660 CGAATTCGTA
*
13226670 TCAA-TTCAACCTTTGTAGCTGTATACATGTTTTTCATATTTCAAATAGCAATTCATATACATTT
1 TCAATTTCAACCTTTGTAGCTGTATACATCTTTTTCATATTTCAAATAGCAATTCATATACATTT
13226734 TAACCATGTAATATCAACATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCA
66 TAACCATGTAATATCAACATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCA
*
13226799 TTCAACTACACTAATGTACCTCAAAATGGTACCTAAATCATACCAATTCAATTTATACAAATCTA
131 TTCAACTAAACTAATGTACCTCAAAATGGTACCTAAATCATACCAATTCAATTTATACAAATCTA
13226864 ACCCATATCATATAACATGCAACCATTTATAATCCAT
196 ACCCATATCATATAACATGCAACCATTTATAATCCAT
13226901 TCAATTTCAACCTTTGTAGCTGTATACA-CTTTTTCATATTTCAAATAGCAATTCATATACATTT
1 TCAATTTCAACCTTTGTAGCTGTATACATCTTTTTCATATTTCAAATAGCAATTCATATACATTT
*
13226965 TAACCATGTAATATCAATATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCA
66 TAACCATGTAATATCAACATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCA
*
13227030 TTCAACTAAACTAATGTACCTCAAAATGGTACCTAAATCATACCAGTTCAATTTATACAAATCTA
131 TTCAACTAAACTAATGTACCTCAAAATGGTACCTAAATCATACCAATTCAATTTATACAAATCTA
* *
13227095 ACCTATATCATATAACATTCAACCATTTATAATCCAT
196 ACCCATATCATATAACATGCAACCATTTATAATCCAT
13227132 TCAATT
1 TCAATT
13227138 CCATAGTATT
Statistics
Matches: 230, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
231 207 0.90
232 23 0.10
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (232 bp):
TCAATTTCAACCTTTGTAGCTGTATACATCTTTTTCATATTTCAAATAGCAATTCATATACATTT
TAACCATGTAATATCAACATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCA
TTCAACTAAACTAATGTACCTCAAAATGGTACCTAAATCATACCAATTCAATTTATACAAATCTA
ACCCATATCATATAACATGCAACCATTTATAATCCAT
Found at i:13236038 original size:248 final size:249
Alignment explanation
Indices: 13235600--13236100 Score: 995
Period size: 248 Copynumber: 2.0 Consensus size: 249
13235590 ATGAACTTTG
13235600 ATAACTTTTAATGGTATTTTGTTGATGTTAGGTGTGGAGCATGTAGGAGGAGATATGTTCAACAA
1 ATAACTTTTAATGGTATTTTGTTGATGTTAGGTGTGGAGCATGTAGGAGGAGATATGTTCAACAA
13235665 AGTTCCTAATGCAGAAGTTATTTTTATGAAGGTTAGCGATTAAGATCAAGTTTTTTATTTTATAT
66 AGTTCCTAATGCAGAAGTTATTTTTATGAAGGTTAGCGATTAAGATCAAGTTTTTTATTTTATAT
13235730 AACAACTTTATTTGTTTGCTAAATTTTCTAATTTTATAAAGACATGATTATTATATATCTATTAC
131 AACAACTTTATTTGTTTGCTAAATTTTCTAATTTTATAAAGACATGATTATTATATATCTATTAC
13235795 AACATTTGAAATTCACATCATATTTAAATTTTAAAAAAAATTAAATT-AAAAAT
196 AACATTTGAAATTCACATCATATTTAAATTTTAAAAAAAATTAAATTAAAAAAT
13235848 ATAACTTTTAATGGTATTTTGTTGATGTTAGGTGTGGAGCATGTAGGAGGAGATATGTTCAACAA
1 ATAACTTTTAATGGTATTTTGTTGATGTTAGGTGTGGAGCATGTAGGAGGAGATATGTTCAACAA
13235913 AGTTCCTAATGCAGAAGTTATTTTTATGAAGGTTAGCGATTAAGATCAAGTTTTTTATTTTATAT
66 AGTTCCTAATGCAGAAGTTATTTTTATGAAGGTTAGCGATTAAGATCAAGTTTTTTATTTTATAT
13235978 AACAACTTTATTTGTTTGCTAAATTTTCTAATTTTATAAAGACATGATTATTATATATCTATTAC
131 AACAACTTTATTTGTTTGCTAAATTTTCTAATTTTATAAAGACATGATTATTATATATCTATTAC
13236043 AACATTTGAAATTCACATCATATTTAAATTTTAAAAAAAATTAAATTAAAAAAT
196 AACATTTGAAATTCACATCATATTTAAATTTTAAAAAAAATTAAATTAAAAAAT
13236097 ATAA
1 ATAA
13236101 TATATTAATA
Statistics
Matches: 252, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
248 242 0.96
249 10 0.04
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (249 bp):
ATAACTTTTAATGGTATTTTGTTGATGTTAGGTGTGGAGCATGTAGGAGGAGATATGTTCAACAA
AGTTCCTAATGCAGAAGTTATTTTTATGAAGGTTAGCGATTAAGATCAAGTTTTTTATTTTATAT
AACAACTTTATTTGTTTGCTAAATTTTCTAATTTTATAAAGACATGATTATTATATATCTATTAC
AACATTTGAAATTCACATCATATTTAAATTTTAAAAAAAATTAAATTAAAAAAT
Found at i:13238718 original size:94 final size:93
Alignment explanation
Indices: 13238581--13238804 Score: 269
Period size: 94 Copynumber: 2.4 Consensus size: 93
13238571 TTAAAGGTGT
* * * * *
13238581 AAAAA-GCCCTCAAACTTTTTC-AAAAAAATCAATTAAGCTCTTGCTCTTTT-TTTTTTGTATTC
1 AAAAAGGCCTTCAAACTTTTTCAAAAAAAAACAATTAAGCCCTTGC-CTTTTATTTTTTGCACTC
* *
13238643 AATTGGGTACTTGTACT-TTCAAAATGCATC-
65 AA-TGGGTACTTGAACTACT-AAAATGCA-CA
**
13238673 AAAAAGGCCTTCAATTTTTTTCAAAAAAAAACAATTAAGCCCTTGCCTTTTAATTTTTTGCACTC
1 AAAAAGGCCTTCAAACTTTTTCAAAAAAAAACAATTAAGCCCTTGCCTTTT-ATTTTTTGCACTC
13238738 AATGGGTACTTGAACTACTAAAATGCACA
65 AATGGGTACTTGAACTACTAAAATGCACA
*
13238767 AAAAAGGTCTTCAAACTTTTTCAAAAAAAAAACAATTA
1 AAAAAGGCCTTCAAACTTTTTC-AAAAAAAAACAATTA
13238805 TTGTTATATG
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
92 5 0.04
93 19 0.17
94 61 0.54
95 28 0.25
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (93 bp):
AAAAAGGCCTTCAAACTTTTTCAAAAAAAAACAATTAAGCCCTTGCCTTTTATTTTTTGCACTCA
ATGGGTACTTGAACTACTAAAATGCACA
Found at i:13262649 original size:12 final size:12
Alignment explanation
Indices: 13262632--13262658 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13262622 AACTACGAGT
13262632 GCATCATAAAAG
1 GCATCATAAAAG
13262644 GCATCATAAAAG
1 GCATCATAAAAG
13262656 GCA
1 GCA
13262659 GTTTCAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.15
Consensus pattern (12 bp):
GCATCATAAAAG
Found at i:13265386 original size:19 final size:19
Alignment explanation
Indices: 13265345--13265387 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13265335 AACAAACTTG
*
13265345 ATTGTTATAATAAAAAGTG
1 ATTGTTATAATAAAAAGTA
*
13265364 ATTGTTATAA-AGAAAGCTA
1 ATTGTTATAATAAAAAG-TA
13265383 ATTGT
1 ATTGT
13265388 AGTCAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (19 bp):
ATTGTTATAATAAAAAGTA
Found at i:13270777 original size:20 final size:20
Alignment explanation
Indices: 13270752--13270812 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
13270742 AATAAATTGC
13270752 GTATAACAATTTATTATTAT
1 GTATAACAATTTATTATTAT
*** *
13270772 GTATAATTTTTTGTTATTAAT
1 GTATAACAATTTATTATT-AT
13270793 -TATAACAATATTA-TATTAT
1 GTATAACAAT-TTATTATTAT
13270812 G
1 G
13270813 GGTTAATATT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
19 2 0.07
20 24 0.80
21 4 0.13
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (20 bp):
GTATAACAATTTATTATTAT
Found at i:13282524 original size:25 final size:24
Alignment explanation
Indices: 13282496--13282731 Score: 101
Period size: 25 Copynumber: 9.6 Consensus size: 24
13282486 AGGGAATAGA
13282496 AAGCTCATATGAGCCATGTAACGGG
1 AAGCTCATATGAGCCAT-TAACGGG
* * * *
13282521 AAGCTCATAAGAGCTA-TAATCAGA
1 AAGCTCATATGAGCCATTAA-CGGG
* *
13282545 AAGCTCATGTGAGCCATTATCGGG
1 AAGCTCATATGAGCCATTAACGGG
** **
13282569 AAGCTTCGGA-GAGCCATTAATCATG
1 AAGC-TCATATGAGCCATTAA-CGGG
*
13282594 AAGCTCATGA-GAGCCAATTATCGGG
1 AAGCTCAT-ATGAGCC-ATTAACGGG
* **
13282619 AAGCTC-TGGA-GAGCCAATTATCAAG
1 AAGCTCAT--ATGAGCC-ATTAACGGG
* *
13282644 AAGCTCATACGAGCCATAAACGGG
1 AAGCTCATATGAGCCATTAACGGG
* *
13282668 AAGCTCA-A-GAGACCCAATTATCGAG
1 AAGCTCATATGAG--CC-ATTAACGGG
*
13282693 AAGCTCATGA-GAGCCATATAACGAG
1 AAGCTCAT-ATGAGCCAT-TAACGGG
* *
13282718 ATGCTCATAAGAGC
1 AAGCTCATATGAGC
13282732 TAAATAATGG
Statistics
Matches: 163, Mismatches: 32, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
22 3 0.02
23 4 0.02
24 51 0.31
25 96 0.59
26 5 0.03
27 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (24 bp):
AAGCTCATATGAGCCATTAACGGG
Found at i:13282558 original size:49 final size:48
Alignment explanation
Indices: 13282493--13282731 Score: 170
Period size: 49 Copynumber: 4.9 Consensus size: 48
13282483 GCCAGGGAAT
*
13282493 AGAAAGCTCAT-ATGAGCCATGTAACGGGAAGCTCATAAGAGCTATAATC
1 AGAAAGCTCATGA-GAGCCAT-TAACGGGAAGCTCATAAGAGCAATAATC
* * ** *
13282542 AGAAAGCTCATGTGAGCCATTATCGGGAAGCTTC-GGAGAGCCATTAATC
1 AGAAAGCTCATGAGAGCCATTAACGGGAAGC-TCATAAGAG-CAATAATC
* * *
13282591 ATG-AAGCTCATGAGAGCCAATTATCGGGAAGCTC-TGGAGAGCCAATTATC
1 A-GAAAGCTCATGAGAGCC-ATTAACGGGAAGCTCAT-AAGAG-CAATAATC
* * *
13282641 A-AGAAGCTCAT-ACGAGCCATAAACGGGAAGCTCA-AGAGACCCAATTATC
1 AGA-AAGCTCATGA-GAGCCATTAACGGGAAGCTCATA-AGA-GCAATAATC
* *
13282690 -GAGAAGCTCATGAGAGCCATATAACGAGATGCTCATAAGAGC
1 AGA-AAGCTCATGAGAGCCAT-TAACGGGAAGCTCATAAGAGC
13282732 TAAATAATGG
Statistics
Matches: 156, Mismatches: 18, Indels: 32
0.76 0.09 0.16
Matches are distributed among these distances:
48 14 0.09
49 86 0.55
50 55 0.35
51 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (48 bp):
AGAAAGCTCATGAGAGCCATTAACGGGAAGCTCATAAGAGCAATAATC
Found at i:13282724 original size:74 final size:74
Alignment explanation
Indices: 13282593--13282731 Score: 183
Period size: 74 Copynumber: 1.9 Consensus size: 74
13282583 CATTAATCAT
* * * * *
13282593 GAAGCTCATGAGAGCCAATTATCGGGAAGCTCTGGAGAGCCAATTATCAAGAAGCTCATACGAGC
1 GAAGCTCAAGAGACCCAATTATCGAGAAGCTCTGGAGAGCCAATTAACAAGAAGCTCATAAGAGC
13282658 CATAAACGG
66 CATAAACGG
* *
13282667 GAAGCTCAAGAGACCCAATTATCGAGAAGCTCAT-GAGAGCC-ATATAACGAGATGCTCATAAGA
1 GAAGCTCAAGAGACCCAATTATCGAGAAGCTC-TGGAGAGCCAAT-TAACAAGAAGCTCATAAGA
13282730 GC
64 GC
13282732 TAAATAATGG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
73 2 0.04
74 53 0.95
75 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (74 bp):
GAAGCTCAAGAGACCCAATTATCGAGAAGCTCTGGAGAGCCAATTAACAAGAAGCTCATAAGAGC
CATAAACGG
Found at i:13282731 original size:99 final size:99
Alignment explanation
Indices: 13282496--13282731 Score: 236
Period size: 99 Copynumber: 2.4 Consensus size: 99
13282486 AGGGAATAGA
* * **
13282496 AAGCTCAT-ATGAGCCATGTAACGGGAAGCTCATAAGAG-CTATAATCAGAAAGCTCATGTGAGC
1 AAGCTCATGA-GAGCCATATAACGGGAAGCTCATAAGAGCCAATAATCAGAAAGCTCATACGAGC
* * * *
13282559 CATTATCGGGAAGCTTCGGAGAGCCATTAATCATG
65 CATAAACGGGAAGCTTCAGAGACCCATTAATCATG
* * *
13282594 AAGCTCATGAGAGCCA-ATTATCGGGAAGCTC-TGGAGAGCCAATTATCA-AGAAGCTCATACGA
1 AAGCTCATGAGAGCCATA-TAACGGGAAGCTCAT-AAGAGCCAATAATCAGA-AAGCTCATACGA
13282656 GCCATAAACGGGAAGC-TCAAGAGACCCAATT-ATCGA-G
63 GCCATAAACGGGAAGCTTC-AGAGACCC-ATTAATC-ATG
* *
13282693 AAGCTCATGAGAGCCATATAACGAGATGCTCATAAGAGC
1 AAGCTCATGAGAGCCATATAACGGGAAGCTCATAAGAGC
13282732 TAAATAATGG
Statistics
Matches: 113, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
97 1 0.01
98 33 0.29
99 73 0.65
100 6 0.05
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (99 bp):
AAGCTCATGAGAGCCATATAACGGGAAGCTCATAAGAGCCAATAATCAGAAAGCTCATACGAGCC
ATAAACGGGAAGCTTCAGAGACCCATTAATCATG
Found at i:13286883 original size:3 final size:3
Alignment explanation
Indices: 13286875--13286912 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13286865 GATTTTTCTT
13286875 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13286913 CAAACTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13292266 original size:3 final size:3
Alignment explanation
Indices: 13292258--13292291 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13292248 NNNNNNNNNN
13292258 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
13292292 TAAATTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:13294058 original size:45 final size:45
Alignment explanation
Indices: 13293957--13294350 Score: 251
Period size: 45 Copynumber: 8.7 Consensus size: 45
13293947 TTTTAATCCA
* * **
13293957 CTCCACTGCAAATTTAGGGAGATAAGACTTG-TATCTTCAACTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTTTG
* ** *
13294001 CCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCATCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTTTG
* * * * * *
13294046 CTCCACTGCAACTTCAAGTAGATAAGACTTGTTAGCTACAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTTTG
* ** *
13294091 CTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGAT-AGATTTAAT
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAG-TTT--G
* * * * ** * * *
13294138 CTGACCTATTGCAACTTTAGAGG-TATATGA-TTCGTCGT-TTTAATCTG
1 CT--CC-ACTGCAACTTCAG-GGAGATAAGACTT-GTTATCTTCAGTTTG
* * * * **
13294185 CTCCACTACAAATTCAGGGAGATAGGACTT-ATATCTTCAACTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTTTG
* * ** * *
13294229 CCCCACTGCAACTTTAGGGAGATAAGGTTTGTTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTTTG
* ****
13294274 CTCCACTGTAACTTCAGGGAGATAAGACTTGTTATCTTCAGCCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTTTG
* * *
13294319 CTCTACTGCAACCTCAGTGAGATAAGACTTGT
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGT
13294351 AGCCTCAACT
Statistics
Matches: 263, Mismatches: 73, Indels: 27
0.72 0.20 0.07
Matches are distributed among these distances:
43 3 0.01
44 71 0.27
45 157 0.60
47 4 0.02
49 7 0.03
50 19 0.07
51 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTTTG
Found at i:13294235 original size:228 final size:228
Alignment explanation
Indices: 13293853--13294350 Score: 703
Period size: 228 Copynumber: 2.2 Consensus size: 228
13293843 GATCCACTAT
* * * * * *
13293853 CTACAGTCTGCTCCACTACAACTTTAGGGAGATAAAACTTGTTATGATAGATTTAATCTGACTTT
1 CTACAGTCTACTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACTAT
* * *
13293918 CTGCAACTTCAGAGGTATAGGATTCATTGTTTTAATCCACTCCACTGCAAATTTAGGGAGATAAG
66 CTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCCACTACAAATTCAGGGAGATAAG
* * *
13293983 ACTTGTATCTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCATCAGTTTGCT
131 ACTTATATCTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCATCAGTCTACT
*
13294048 CCACTGCAACTTCAAGTAGATAAGACTTGTTAG
196 CCACTGCAACTTCAAGGAGATAAGACTTGTTAG
13294081 CTACAGTCTACTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACCTA
1 CTACAGTCTACTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGA-CTA
* * * ** *
13294146 T-TGCAACTTTAGAGGTATATGATTCGTCGTTTTAATCTGCTCCACTACAAATTCAGGGAGATAG
65 TCTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCCACTACAAATTCAGGGAGATAA
* *
13294210 GACTTATATCTTCAACTTGCCCCACTGCAACTTTAGGGAGATAAGGTTTGTTATCTTCAGTCTAC
130 GACTTATATCTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCATCAGTCTAC
* * *
13294275 TCCACTGTAACTTCAGGGAGATAAGACTTGTTAT
195 TCCACTGCAACTTCAAGGAGATAAGACTTGTTAG
* * * * *
13294309 CTTCAGCCCACTCTACTGCAACC-TCAGTGAGATAAGACTTGT
1 CTACAGTCTACTCCACTGC-ACCTTCAGGGAGATAAGACTTGT
13294351 AGCCTCAACT
Statistics
Matches: 239, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
228 233 0.97
229 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (228 bp):
CTACAGTCTACTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACTAT
CTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCCACTACAAATTCAGGGAGATAAG
ACTTATATCTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCATCAGTCTACT
CCACTGCAACTTCAAGGAGATAAGACTTGTTAG
Found at i:13294681 original size:45 final size:46
Alignment explanation
Indices: 13294601--13294911 Score: 375
Period size: 45 Copynumber: 6.9 Consensus size: 46
13294591 AAGGCTGGTG
* * * *
13294601 CTTTTGATCTGCTTCACTGCCAGTATAGGAAGACAAGATCTGCTAT
1 CTTTAGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTAT
* *
13294647 CTTTAG-TCTACTTTGCTGCCAATATAGGAAGACAAGACCTGCTAT
1 CTTTAGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTAT
* * *
13294692 CTTTA-ATCAACTTTGCTGCCAATATAGGAAGACAAGATCTGTTAT
1 CTTTAGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTAT
* * * *
13294737 CTTCAG-TCTACTTCGCTGCCGATACAGGAAGATAAGA-CATGCTAT
1 CTTTAGATCTACTTCGCTGCCAATATAGGAAGACAAGATC-TGCTAT
* * *
13294782 C-TTCGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTGCTAT
1 CTTTAGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTAT
* * *
13294827 C-TTCGATTTACTTTGCTGCCAATATAGGAAGACAAGATCTGCTAT
1 CTTTAGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTAT
* *
13294872 CTTT-GATATACTTCGCTGCCAATACAGGAAGACAAGATCT
1 CTTTAGATCTACTTCGCTGCCAATATAGGAAGACAAGATCT
13294912 ACTGCTTTCA
Statistics
Matches: 231, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
44 3 0.01
45 220 0.95
46 8 0.03
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (46 bp):
CTTTAGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTAT
Found at i:13296216 original size:3 final size:3
Alignment explanation
Indices: 13296203--13296233 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13296193 CCTCTCATTT
13296203 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
13296234 TTTTGAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:13300460 original size:16 final size:16
Alignment explanation
Indices: 13300439--13300469 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13300429 GATATGAGTA
13300439 AATAATAATAATAATT
1 AATAATAATAATAATT
*
13300455 AATAATAATGATAAT
1 AATAATAATAATAAT
13300470 GGTATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AATAATAATAATAATT
Found at i:13301916 original size:19 final size:19
Alignment explanation
Indices: 13301871--13301917 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
13301861 TGTAAAGTTT
*
13301871 ATATTAAAATCCTTAAAGG
1 ATATTAAAATCCTTAAAGC
*
13301890 AT-TTAAAATGC-TAGAAGC
1 ATATTAAAATCCTTA-AAGC
13301908 ATATTAAAAT
1 ATATTAAAAT
13301918 TTTTAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 13 0.54
19 9 0.38
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.32
Consensus pattern (19 bp):
ATATTAAAATCCTTAAAGC
Found at i:13303956 original size:15 final size:15
Alignment explanation
Indices: 13303938--13303971 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
13303928 ATATTTATAT
13303938 ATCATGATTATCTGA
1 ATCATGATTATCTGA
*
13303953 ATCATGGTTATCTGA
1 ATCATGATTATCTGA
13303968 ATCA
1 ATCA
13303972 AACTAGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (15 bp):
ATCATGATTATCTGA
Found at i:13307948 original size:174 final size:174
Alignment explanation
Indices: 13307634--13307954 Score: 437
Period size: 174 Copynumber: 1.8 Consensus size: 174
13307624 ACTCGATCAA
* * * *
13307634 ATTCAACTTTTTTTTATAATCACAAGTGTCTTTATTCATTTTATACTATGAATTTAATCATGTTT
1 ATTCAACTTTTTTTTATAATCACAAATGTCTTTATTCATTTAACACTATGAATTTAATCATGTTC
* ** *
13307699 GAACTAGAGTGATACTCAAATAAAACTCTTCCAATAATGCTGACTTCAAAATTAAAAACTTGGTC
66 GAACTAGAGTAATACTCAAATAAAACTCTTCCAATAATGCCAACTCCAAAATTAAAAACTTGGTC
* *
13307764 CAAGACTAAATTACTATAGTAAAGTGTTAGGTATCATTTACATT
131 AAAAACTAAATTACTATAGTAAAGTGTTAGGTATCATTTACATT
* * * *
13307808 ATTCAATTTTTTTTTATAATCGCAAATGTCTTTATTCATTTAACACTCTGAATTTAATCTTGTTC
1 ATTCAACTTTTTTTTATAATCACAAATGTCTTTATTCATTTAACACTATGAATTTAATCATGTTC
* * * * ** *
13307873 GAACTGGAGTAATATTCAAATAAAAC-CGTTCCAATAATTCCAACTCCAAAATTAAGATTTTGTT
66 GAACTAGAGTAATACTCAAATAAAACTC-TTCCAATAATGCCAACTCCAAAATTAAAAACTTGGT
13307937 CAAAAACTAAATTACTAT
130 CAAAAACTAAATTACTAT
13307955 GGTATTATTT
Statistics
Matches: 125, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
173 1 0.01
174 124 0.99
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (174 bp):
ATTCAACTTTTTTTTATAATCACAAATGTCTTTATTCATTTAACACTATGAATTTAATCATGTTC
GAACTAGAGTAATACTCAAATAAAACTCTTCCAATAATGCCAACTCCAAAATTAAAAACTTGGTC
AAAAACTAAATTACTATAGTAAAGTGTTAGGTATCATTTACATT
Found at i:13314812 original size:20 final size:20
Alignment explanation
Indices: 13314761--13314813 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
13314751 TAGTAACAAA
* *
13314761 AATTTATCCGTATCAACAGT
1 AATTCATCCATATCAACAGT
* *
13314781 AA-CCTATACATATCAACAGT
1 AATTC-ATCCATATCAACAGT
13314801 AATTCATCCATAT
1 AATTCATCCATAT
13314814 AATTACATAG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.32
Consensus pattern (20 bp):
AATTCATCCATATCAACAGT
Found at i:13317186 original size:36 final size:36
Alignment explanation
Indices: 13317132--13317240 Score: 164
Period size: 36 Copynumber: 3.0 Consensus size: 36
13317122 GCTAAGCTAC
* *
13317132 CACTTATTACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* *
13317168 CACTTATCATTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* *
13317204 CATTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
13317240 C
1 C
13317241 TAAAACTACC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:13321128 original size:86 final size:86
Alignment explanation
Indices: 13321027--13321188 Score: 236
Period size: 87 Copynumber: 1.9 Consensus size: 86
13321017 TGTGTAAGGA
* *
13321027 TGAGTTTTTACTCTTAATGAATTCATA-GCCATAATTTGGGTGGTCATATTGAAACGGACTTGAT
1 TGAGTTTTTACTCTTAATGAATTCATATCCCAGAATTTGGGTGGTCATATTGAAACGGACTTGAT
13321091 GAATTCACCAACGTGAGAGGT
66 GAATTCACCAACGTGAGAGGT
* * * * * *
13321112 TGAGTTTATTACTCTTAATGAGTTCATATCCCGGAGTTTGGGTGGTCTTATTGAGATGGACTTGA
1 TGAGTTT-TTACTCTTAATGAATTCATATCCCAGAATTTGGGTGGTCATATTGAAACGGACTTGA
13321177 TGAATTCACCAA
65 TGAATTCACCAA
13321189 AATTAAATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
85 7 0.10
86 19 0.28
87 41 0.61
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATATCCCAGAATTTGGGTGGTCATATTGAAACGGACTTGAT
GAATTCACCAACGTGAGAGGT
Found at i:13323446 original size:28 final size:27
Alignment explanation
Indices: 13323405--13323477 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
13323395 ATACAACAAA
*
13323405 TTTTTCTCTACATTTAATGTCTTAATAG
1 TTTTTCTATACATTTAATGTCTTAAT-G
* *
13323433 TTTTTCTATGCATTTAATGTTTTAATG
1 TTTTTCTATACATTTAATGTCTTAATG
13323460 TTTTTTTCT-TACATTTAA
1 --TTTTTCTATACATTTAA
13323478 CTTTTTTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 31 0.79
29 7 0.18
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (27 bp):
TTTTTCTATACATTTAATGTCTTAATG
Found at i:13323484 original size:19 final size:20
Alignment explanation
Indices: 13323460--13323497 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13323450 TGTTTTAATG
13323460 TTTTTTTCTTACATTTAACT
1 TTTTTTTCTTACATTTAACT
*
13323480 TTTTTTTCTTATATTTAA
1 TTTTTTTCTTACATTTAA
13323498 TCCCTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTTCTTACATTTAACT
Found at i:13324135 original size:13 final size:13
Alignment explanation
Indices: 13324117--13324141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13324107 TTAATCTTAA
13324117 CTTTTTCTAAAGG
1 CTTTTTCTAAAGG
13324130 CTTTTTCTAAAG
1 CTTTTTCTAAAG
13324142 TCAATAATGA
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:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CTTTTTCTAAAGG
Found at i:13324768 original size:29 final size:29
Alignment explanation
Indices: 13324735--13324814 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
13324725 AAGTGCAATT
* * *
13324735 CAAAGTGGCGGAC-AGTCTAAAGAGTAAGC
1 CAAAGTGGCGAACAAG-CCAAAAAGTAAGC
*
13324764 TAAAGTGGCGAACAAGCCAAAAAGTAAGC
1 CAAAGTGGCGAACAAGCCAAAAAGTAAGC
**
13324793 CAAAGTGGCGTGCAAGCCAAAA
1 CAAAGTGGCGAACAAGCCAAAA
13324815 GTGGTGTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 41 0.95
30 2 0.05
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (29 bp):
CAAAGTGGCGAACAAGCCAAAAAGTAAGC
Found at i:13324831 original size:17 final size:18
Alignment explanation
Indices: 13324789--13324833 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
13324779 GCCAAAAAGT
13324789 AAGCC-AAAGTGGCGTGC
1 AAGCCAAAAGTGGCGTGC
*
13324806 AAGCCAAAAGTGGTGT-C
1 AAGCCAAAAGTGGCGTGC
13324823 AAGCCAAAAGT
1 AAGCCAAAAGT
13324834 ATAAGCCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.38, C:0.20, G:0.29, T:0.13
Consensus pattern (18 bp):
AAGCCAAAAGTGGCGTGC
Found at i:13326432 original size:50 final size:50
Alignment explanation
Indices: 13326373--13326483 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 50
13326363 ATTGTATATA
* *
13326373 AAAGGTGCAACCATGGATGATTGCAACCC-GAAATTACACAGTAGAATGCC
1 AAAGGTGCAACCATGGATGATTACAACCCAG-AATTACACAATAGAATGCC
* ** * * *
13326423 AAAGGTGCAACCATTGATTCTTACAACCCAGATTTACATAATAGAATGTC
1 AAAGGTGCAACCATGGATGATTACAACCCAGAATTACACAATAGAATGCC
13326473 AAAGGTGCAAC
1 AAAGGTGCAAC
13326484 TATTGTCAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 51 0.98
51 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.22
Consensus pattern (50 bp):
AAAGGTGCAACCATGGATGATTACAACCCAGAATTACACAATAGAATGCC
Found at i:13328666 original size:17 final size:19
Alignment explanation
Indices: 13328644--13328681 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13328634 TAATTTTTAA
13328644 TAATTTTA-T-AAAATTTT
1 TAATTTTATTGAAAATTTT
13328661 TAATTTTATTGAAAATTTT
1 TAATTTTATTGAAAATTTT
13328680 TA
1 TA
13328682 TATAATTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
19 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TAATTTTATTGAAAATTTT
Found at i:13334296 original size:58 final size:58
Alignment explanation
Indices: 13334188--13334334 Score: 136
Period size: 58 Copynumber: 2.5 Consensus size: 58
13334178 CCTAGAGGGA
* * *** * **
13334188 AAAAAAGGAAGTGCTACAGTTATGTTGCACATTCTAGGAGTCTATTTAAGTT-CTCAAGG
1 AAAAAA-GAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTACCTAAGTTACTCAA-G
* * * *
13334247 GAAAAAGAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTGCCTAAGTTATTGAAG
1 AAAAAAGAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTACCTAAGTTACTCAAG
*
13334305 AAAAAAGAATTGCTAC-GCATTTGTTGCATG
1 AAAAAAGAATTGCTACAG-TTTTGTTGCATG
13334335 TTCTTTCTTC
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
57 1 0.01
58 63 0.88
59 8 0.11
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (58 bp):
AAAAAAGAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTACCTAAGTTACTCAAG
Found at i:13336639 original size:105 final size:102
Alignment explanation
Indices: 13336450--13336651 Score: 239
Period size: 105 Copynumber: 2.0 Consensus size: 102
13336440 TATTTGCTTA
* * *
13336450 AAATGAAAATTTCAATGGAAGTGTTAGTCTGCAGTTGCTGTTATGACTTGTGACTGAACAATTAA
1 AAATGAAAATTTCAATGGAAGTGTTAGTCTGCAGTTGCTATTATGACTTGTCACTGAAAAATTAA
* *
13336515 GCAAACAAAATAAATAAATAAAAACACAGAGATTTACTCT
66 CCAAACAAAATAAAGAAAT---AACACAGAGATTTACTCT
*
13336555 AAATGAAAATTTCAATGGAAGTGTTAGTCTGCAG-TGACTATTATGGCTTGTCACTGCGAAAAAT
1 AAATGAAAATTTCAATGGAAGTGTTAGTCTGCAGTTG-CTATTATGACTTGTCACT--GAAAAAT
** * *
13336619 TGTCCAAGC-AAA-ACAGAAATAACACAGAGATTT
63 TAACCAAACAAAATAAAGAAATAACACAGAGATTT
13336652 GTTTCCGTAG
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
102 13 0.15
104 2 0.02
105 55 0.65
106 3 0.04
107 11 0.13
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (102 bp):
AAATGAAAATTTCAATGGAAGTGTTAGTCTGCAGTTGCTATTATGACTTGTCACTGAAAAATTAA
CCAAACAAAATAAAGAAATAACACAGAGATTTACTCT
Found at i:13338092 original size:21 final size:21
Alignment explanation
Indices: 13338067--13338108 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13338057 ATATTTTGCA
* *
13338067 GCCTTATTTGATTGCTGAATC
1 GCCTTATTTGAGTGCGGAATC
13338088 GCCTTATTTGAGTGCGGAATC
1 GCCTTATTTGAGTGCGGAATC
13338109 ATTAGAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (21 bp):
GCCTTATTTGAGTGCGGAATC
Found at i:13338119 original size:2 final size:2
Alignment explanation
Indices: 13338112--13338159 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
13338102 CGGAATCATT
13338112 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13338154 AG AG AG
1 AG AG AG
13338160 GGTCACTGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13338437 original size:3 final size:3
Alignment explanation
Indices: 13338429--13338472 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
13338419 GGGTTAATAT
13338429 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13338473 GGGTGTAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13339081 original size:15 final size:15
Alignment explanation
Indices: 13339061--13339110 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
13339051 ATTTATAGCA
13339061 ACTAACAGACTAACT
1 ACTAACAGACTAACT
*
13339076 ACTAACAGCCTAACTGCT
1 ACTAACAGACTAA---CT
13339094 AACTAACAGACTAACT
1 -ACTAACAGACTAACT
13339110 A
1 A
13339111 TCATCATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 13 0.45
16 2 0.07
18 2 0.07
19 12 0.41
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (15 bp):
ACTAACAGACTAACT
Found at i:13345171 original size:2 final size:2
Alignment explanation
Indices: 13345164--13345211 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
13345154 NNNNNNTAAA
13345164 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13345206 AG AG AG
1 AG AG AG
13345212 GGTCACTGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13345489 original size:3 final size:3
Alignment explanation
Indices: 13345481--13346010 Score: 1053
Period size: 3 Copynumber: 177.0 Consensus size: 3
13345471 GGGTTAATAT
13345481 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345529 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345577 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345625 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345673 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345721 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345769 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345817 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345865 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345913 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13345961 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13346008 AGA
1 AGA
13346011 GGGTGTAAGG
Statistics
Matches: 526, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
2 2 0.00
3 524 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13346619 original size:15 final size:15
Alignment explanation
Indices: 13346599--13346648 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
13346589 ATTTATAGCA
13346599 ACTAACAGACTAACT
1 ACTAACAGACTAACT
*
13346614 ACTAACAGCCTAACTGCT
1 ACTAACAGACTAA---CT
13346632 AACTAACAGACTAACT
1 -ACTAACAGACTAACT
13346648 A
1 A
13346649 TCATCATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 13 0.45
16 2 0.07
18 2 0.07
19 12 0.41
ACGTcount: A:0.44, C:0.28, G:0.08, T:0.20
Consensus pattern (15 bp):
ACTAACAGACTAACT
Found at i:13362806 original size:2 final size:2
Alignment explanation
Indices: 13362799--13362832 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13362789 TTGCGTAAAC
13362799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13362833 TAACCAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13365791 original size:42 final size:41
Alignment explanation
Indices: 13365622--13365815 Score: 137
Period size: 42 Copynumber: 4.7 Consensus size: 41
13365612 TTTGGAGGGC
* * ** *
13365622 TTTAGTGGCGTTTTTGAATTAGCGCCGCTAATGGTTGGGGGT
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAT-GTTAGGGGT
* * * *
13365664 TTTAGTGGCG-TTTTTAATCAA-CTGCTGCTAATGTTA-AGGT
1 TTTAGCGGCGTTTTTTAA-GAAGC-GCCGCTAATGTTAGGGGT
* * * * **
13365704 ATTTAGCGGCGTTTTTAAATAAGCGCTGCTGAA-GTTAAGATT
1 -TTTAGCGGCGTTTTTTAAGAAGCGCCGCT-AATGTTAGGGGT
*
13365746 TTTAGCGGCGTTTTTTTGAGAAGCGCCGCTAATGTTAGGGGT
1 TTTAGCGGCG-TTTTTTAAGAAGCGCCGCTAATGTTAGGGGT
*
13365788 TTTAGCGGCGTTTTTGT-GGAAGCGCCGC
1 TTTAGCGGCGTTTTT-TAAGAAGCGCCGC
13365816 AAAAAATATT
Statistics
Matches: 122, Mismatches: 20, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
40 3 0.02
41 58 0.48
42 61 0.50
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGTTAGGGGT
Found at i:13365814 original size:41 final size:41
Alignment explanation
Indices: 13365642--13365815 Score: 140
Period size: 41 Copynumber: 4.2 Consensus size: 41
13365632 TTTTTGAATT
* * *
13365642 AGCGCCGCTAATGGTTGGGGGTTTTAGTGGCGTTTTTAAT-CA
1 AGCGCCGCTAAT-GTTAGGGGTTTTAGCGGCGTTTTT-ATGGA
* * ***
13365684 A-CTGCTGCTAATGTTA-AGGTATTTAGCGGCGTTTTTAAATA
1 AGC-GCCGCTAATGTTAGGGGT-TTTAGCGGCGTTTTTATGGA
* * ** *
13365725 AGCGCTGCTGAA-GTTAAGATTTTTAGCGGCGTTTTTTTGAGA
1 AGCGCCGCT-AATGTTAGGGGTTTTAGCGGCGTTTTTATG-GA
*
13365767 AGCGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTGTGGA
1 AGCGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTATGGA
13365808 AGCGCCGC
1 AGCGCCGC
13365816 AAAAAATATT
Statistics
Matches: 106, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
40 4 0.04
41 57 0.54
42 45 0.42
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (41 bp):
AGCGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTATGGA
Found at i:13366422 original size:13 final size:14
Alignment explanation
Indices: 13366404--13366532 Score: 54
Period size: 14 Copynumber: 9.1 Consensus size: 14
13366394 TAAAGGGTAT
13366404 GGATTAGGGTTT-G
1 GGATTAGGGTTTAG
**
13366417 GGATTAATGTTTAG
1 GGATTAGGGTTTAG
*
13366431 GGGTTAGGG-TTAG
1 GGATTAGGGTTTAG
** *
13366444 TAATTTAGGGGTTAG
1 GGA-TTAGGGTTTAG
* *
13366459 GGGTTAGTGATTTA-
1 GGATTAG-GGTTTAG
13366473 --ATTAAGGG-TTAG
1 GGATT-AGGGTTTAG
*
13366485 GGTTTAAGGGGATTTAG
1 GGATT-A-GGG-TTTAG
*
13366502 GGATTAGGGGTTAG
1 GGATTAGGGTTTAG
*
13366516 GGATTTAGGGGTTAG
1 GGA-TTAGGGTTTAG
13366531 GG
1 GG
13366533 TGTCAAGGGT
Statistics
Matches: 86, Mismatches: 18, Indels: 22
0.68 0.14 0.17
Matches are distributed among these distances:
11 3 0.03
12 3 0.03
13 16 0.19
14 28 0.33
15 27 0.31
16 1 0.01
17 8 0.09
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (14 bp):
GGATTAGGGTTTAG
Found at i:13366450 original size:21 final size:22
Alignment explanation
Indices: 13366426--13366472 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
13366416 GGGATTAATG
13366426 TTTAGGGGTTA-GGGTTAGTAA
1 TTTAGGGGTTAGGGGTTAGTAA
*
13366447 TTTAGGGGTTAGGGGTTAGTGA
1 TTTAGGGGTTAGGGGTTAGTAA
13366469 TTTA
1 TTTA
13366473 ATTAAGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (22 bp):
TTTAGGGGTTAGGGGTTAGTAA
Found at i:13366525 original size:15 final size:15
Alignment explanation
Indices: 13366478--13366532 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 15
13366468 ATTTAATTAA
13366478 GGGTTAGGG-TTTAAG
1 GGGTTAGGGATTT-AG
13366493 GGGATTTAGGGA-TTAG
1 GGG--TTAGGGATTTAG
13366509 GGGTTAGGGATTTAG
1 GGGTTAGGGATTTAG
13366524 GGGTTAGGG
1 GGGTTAGGG
13366533 TGTCAAGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.19
15 16 0.44
16 5 0.14
17 8 0.22
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.31
Consensus pattern (15 bp):
GGGTTAGGGATTTAG
Found at i:13369393 original size:43 final size:43
Alignment explanation
Indices: 13369332--13369672 Score: 551
Period size: 43 Copynumber: 8.0 Consensus size: 43
13369322 TTTTTCTAAA
* *
13369332 GGGAAAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGTGTTTGT
1 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
13369375 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
1 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
*
13369418 GGGGAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
1 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
*
13369461 GGGAAAAGCGCCGCTAAAAGGTCTTGGTCTTTAGCGGTGTTTGT
1 GGGAAAAGCGCCGCT-AAAGGTCTTGGTCTTTAGCGGCGTTTGT
* * *
13369505 GGG-AAAGCGCCACTAAAAGTCTTGGTCTTTAGTGGCGTTTGT
1 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
*
13369547 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGTGTTTGT
1 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
* *
13369590 GGG-AAAGTGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGC
1 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
* *
13369632 GGGGAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCAGCGTTT
1 GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
13369673 TTTTCCATAA
Statistics
Matches: 277, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
42 67 0.24
43 180 0.65
44 30 0.11
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (43 bp):
GGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
Found at i:13369885 original size:28 final size:28
Alignment explanation
Indices: 13369844--13369899 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
13369834 AACCAATATG
* *
13369844 AATCACATGTGATAAAATTCTAAGAATT
1 AATCACATGCGATAAAATGCTAAGAATT
13369872 AATCACATGCGATAAAATGCTAAGAATT
1 AATCACATGCGATAAAATGCTAAGAATT
13369900 TCGTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (28 bp):
AATCACATGCGATAAAATGCTAAGAATT
Found at i:13372054 original size:8 final size:8
Alignment explanation
Indices: 13372043--13372096 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
13372033 TTTAAATTTT
13372043 ATATTAAA
1 ATATTAAA
13372051 ATATTTAAA
1 ATA-TTAAA
*
13372060 ATATT-AT
1 ATATTAAA
13372067 AT-TTAAA
1 ATATTAAA
*
13372074 GAT-TTAAT
1 -ATATTAAA
13372082 ATATTAAA
1 ATATTAAA
13372090 ATATTAA
1 ATATTAA
13372097 TAATTCAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 2 0.05
7 6 0.16
8 22 0.58
9 8 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (8 bp):
ATATTAAA
Found at i:13372066 original size:22 final size:22
Alignment explanation
Indices: 13372036--13372087 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
13372026 TATATTTTTT
* *
13372036 AAATTTTATATTAAAATATTTA
1 AAATATTATATTAAAAGATTTA
*
13372058 AAATATTATATTTAAAGATTTA
1 AAATATTATATTAAAAGATTTA
*
13372080 ATATATTA
1 AAATATTA
13372088 AAATATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATATTATATTAAAAGATTTA
Found at i:13372121 original size:39 final size:39
Alignment explanation
Indices: 13372042--13372121 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
13372032 TTTTAAATTT
* *
13372042 TATATTAAAATATTTAAAATATTATATTTAAAGATTTAA
1 TATATTAAAATATTTAAAATATCATATTTAAAAATTTAA
13372081 TATATTAAAATA-TTAATAAT-TCA-ATTCTAAAAATTATAA
1 TATATTAAAATATTTAA-AATATCATATT-TAAAAATT-TAA
13372120 TA
1 TA
13372122 GATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
37 3 0.08
38 13 0.36
39 20 0.56
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (39 bp):
TATATTAAAATATTTAAAATATCATATTTAAAAATTTAA
Found at i:13378526 original size:20 final size:20
Alignment explanation
Indices: 13378476--13378527 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
13378466 GATCTAATAT
13378476 TTTTTTAAATTATAATATTTA
1 TTTTTTAAATT-TAATATTTA
*
13378497 TTTTTT-AATTTTATATTTA
1 TTTTTTAAATTTAATATTTA
13378516 TTTTTTAAATTT
1 TTTTTTAAATTT
13378528 CCAAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 14 0.48
20 9 0.31
21 6 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTTAAATTTAATATTTA
Found at i:13379756 original size:130 final size:131
Alignment explanation
Indices: 13379598--13379860 Score: 519
Period size: 130 Copynumber: 2.0 Consensus size: 131
13379588 AAACAAATAA
13379598 ATATATTTTAATTTTTATGATAAATTTTATAAATGTTGAGGATCAAATTTATTAATTTTTTTAGA
1 ATATATTTTAATTTTTATGATAAATTTTATAAATGTTGAGGATCAAATTTATTAATTTTTTTAGA
13379663 ATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCTAAATTTGTTGAA-TTTTATATTTAG
66 ATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCTAAATTTGTTGAATTTTTATATTTAG
13379727 G
131 G
13379728 ATATATTTTAATTTTTATGATAAATTTTATAAATGTTGAGGATCAAATTTATTAATTTTTTTAGA
1 ATATATTTTAATTTTTATGATAAATTTTATAAATGTTGAGGATCAAATTTATTAATTTTTTTAGA
13379793 ATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCTAAATTTGTTGAATTTTTATATTTAG
66 ATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCTAAATTTGTTGAATTTTTATATTTAG
13379858 G
131 G
13379859 AT
1 AT
13379861 CAAATTGATA
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
130 117 0.89
131 15 0.11
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (131 bp):
ATATATTTTAATTTTTATGATAAATTTTATAAATGTTGAGGATCAAATTTATTAATTTTTTTAGA
ATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCTAAATTTGTTGAATTTTTATATTTAG
G
Found at i:13379849 original size:61 final size:62
Alignment explanation
Indices: 13379642--13379849 Score: 181
Period size: 61 Copynumber: 3.3 Consensus size: 62
13379632 GTTGAGGATC
*
13379642 AAATTTATT-AATTTTTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCT
1 AAATTTGTTGAATTTTTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCT
** * *** * * ***
13379703 AAATTTGTTGAATTTTATATTTAGGATATATTTTAATTTTTATGATAAATTTTATAA--ATGTTG
1 AAATTTGTTGAA-TTT-T-TTTA-G--A-ATTAGAACTAAAATGAAAAATTTTGTAAGCAT-CAA
*
13379766 AGGAT
58 AGGCT
*
13379771 CAAATTTATT-AATTTTTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCT
1 -AAATTTGTTGAATTTTTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCT
13379833 AAATTTGTTGAATTTTT
1 AAATTTGTTGAATTTTT
13379850 ATATTTAGGA
Statistics
Matches: 107, Mismatches: 27, Indels: 25
0.67 0.17 0.16
Matches are distributed among these distances:
61 36 0.34
62 14 0.13
63 5 0.05
64 2 0.02
65 8 0.07
66 2 0.02
67 5 0.05
68 7 0.07
69 28 0.26
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (62 bp):
AAATTTGTTGAATTTTTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAGCATCAAAGGCT
Found at i:13380780 original size:19 final size:19
Alignment explanation
Indices: 13380735--13380812 Score: 77
Period size: 19 Copynumber: 4.0 Consensus size: 19
13380725 TGTGATTTTA
*
13380735 TAATAAATTTTAAATACTTT
1 TAAT-AATTTTTAATACTTT
* *
13380755 GACTAATTTTTAATACTTT
1 TAATAATTTTTAATACTTT
*
13380774 TAATAATTTCTT-ATAACTAT
1 TAATAATTT-TTAAT-ACTTT
*
13380794 TAATAATTTTTCATACTTT
1 TAATAATTTTTAATACTTT
13380813 CTCTTAAGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
19 29 0.60
20 19 0.40
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (19 bp):
TAATAATTTTTAATACTTT
Found at i:13385571 original size:35 final size:35
Alignment explanation
Indices: 13385532--13385608 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
13385522 AACAGTGCTT
*
13385532 GCAGAACTTGGAAGTAATCCTGTTATTCATAACCC
1 GCAGAACTTGGAAGTAATCCTGTTATCCATAACCC
*
13385567 GCAGAACTTGTAAGTAATCCTGTTATCCATAACCC
1 GCAGAACTTGGAAGTAATCCTGTTATCCATAACCC
13385602 GCAGAAC
1 GCAGAAC
13385609 CTATAATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (35 bp):
GCAGAACTTGGAAGTAATCCTGTTATCCATAACCC
Found at i:13386485 original size:24 final size:24
Alignment explanation
Indices: 13386432--13386487 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
13386422 TTCTTCTTTT
*
13386432 TCTTCTTT-TTCTCTTTTGTCTCG
1 TCTTCTTTCTTCTCTTTTGTCTCA
*
13386455 TCATCTTTCTTCTCTTTGTGT-TCA
1 TCTTCTTTCTTCTCTTT-TGTCTCA
13386479 TCTTCTTTC
1 TCTTCTTTC
13386488 GGCTCTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 18 0.64
25 3 0.11
ACGTcount: A:0.04, C:0.27, G:0.07, T:0.62
Consensus pattern (24 bp):
TCTTCTTTCTTCTCTTTTGTCTCA
Found at i:13386526 original size:6 final size:6
Alignment explanation
Indices: 13386515--13386549 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
13386505 CTTCTCTTGC
13386515 TTCTTT TTCTTT TTCTCTT TTC-TT TTCTTT TTCTT
1 TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TTCTT
13386550 ATCTGAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTCTTT
Found at i:13386596 original size:24 final size:24
Alignment explanation
Indices: 13386569--13386636 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
13386559 TGAATCAGAA
* *
13386569 GACGACGAAGAAGATGAAGATGAT
1 GACGACGAAGAAGAAGAAGACGAT
* *
13386593 GACGAGGAAGAAGAAGATGACGAT
1 GACGACGAAGAAGAAGAAGACGAT
* *
13386617 GACGACGATGAGGAAGAAGA
1 GACGACGAAGAAGAAGAAGA
13386637 ACCTTTATCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.09, G:0.37, T:0.09
Consensus pattern (24 bp):
GACGACGAAGAAGAAGAAGACGAT
Found at i:13386602 original size:21 final size:21
Alignment explanation
Indices: 13386572--13386612 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13386562 ATCAGAAGAC
*
13386572 GACGAAGAAGATGAAGATGAT
1 GACGAAGAAGAAGAAGATGAT
*
13386593 GACGAGGAAGAAGAAGATGA
1 GACGAAGAAGAAGAAGATGA
13386613 CGATGACGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.37, T:0.10
Consensus pattern (21 bp):
GACGAAGAAGAAGAAGATGAT
Found at i:13386617 original size:27 final size:27
Alignment explanation
Indices: 13386575--13386636 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
13386565 AGAAGACGAC
*
13386575 GAAGAAGATGAAGATGATGACGAGGAA
1 GAAGAAGATGAAGATGACGACGAGGAA
* * *
13386602 GAAGAAGATGACGATGACGACGATGAG
1 GAAGAAGATGAAGATGACGACGAGGAA
13386629 GAAGAAGA
1 GAAGAAGA
13386637 ACCTTTATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.06, G:0.37, T:0.10
Consensus pattern (27 bp):
GAAGAAGATGAAGATGACGACGAGGAA
Found at i:13386730 original size:6 final size:6
Alignment explanation
Indices: 13386719--13386800 Score: 51
Period size: 6 Copynumber: 13.8 Consensus size: 6
13386709 ATCCTTTTTC
* * ** * * *
13386719 TTCTTT TTCTTT TTCTCT TTCTCT TTC-CC ATCTTT GTCTTT CTTCTTC
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT -TTCTTT
* * *
13386767 TTCTTT TTC-TT TTCTTT CTCTTT CTCTTT CTCTT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTT
13386801 CGTCTCCCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
5 8 0.13
6 51 0.81
7 4 0.06
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (6 bp):
TTCTTT
Found at i:13386842 original size:12 final size:12
Alignment explanation
Indices: 13386816--13386902 Score: 63
Period size: 12 Copynumber: 7.2 Consensus size: 12
13386806 CCCTTAACCT
*
13386816 CTTTATCCTTATC
1 CTTT-TCCTTCTC
13386829 CTTTTCCTTCTC
1 CTTTTCCTTCTC
*
13386841 CTTCT-CTTCT-
1 CTTTTCCTTCTC
**
13386851 -TTTTCCTTAAC
1 CTTTTCCTTCTC
13386862 CTCTGTATCCTTCTC
1 CT-T-T-TCCTTCTC
*
13386877 CTTCTCCTTCTC
1 CTTTTCCTTCTC
*
13386889 CTTCTCCTTCTC
1 CTTTTCCTTCTC
13386901 CT
1 CT
13386903 CTTCTTTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
9 3 0.05
10 3 0.05
11 5 0.08
12 34 0.57
13 5 0.08
14 2 0.03
15 8 0.13
ACGTcount: A:0.06, C:0.40, G:0.01, T:0.53
Consensus pattern (12 bp):
CTTTTCCTTCTC
Found at i:13386846 original size:54 final size:49
Alignment explanation
Indices: 13386775--13386900 Score: 146
Period size: 48 Copynumber: 2.5 Consensus size: 49
13386765 TCTTCTTTTT
* * *
13386775 CTTTTCTTTCTCTTTCTCTTTCTCTTCGTCTCCCTTAACCTCTTTATCCTTATC
1 CTTTTCCTTCTCCTTCTC-TTCTCTT--T-T-CCTTAACCTCTGTATCCTTATC
*
13386829 CTTTTCCTTCTCCTTCTCTTCT-TTTTCCTTAACCTCTGTATCCTTCTC
1 CTTTTCCTTCTCCTTCTCTTCTCTTTTCCTTAACCTCTGTATCCTTATC
*
13386877 CTTCTCCTTCTCCTTCTCCTTCTC
1 CTTTTCCTTCTCCTTCT-CTTCTC
13386901 CTCTTCTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
48 36 0.55
49 6 0.09
50 1 0.02
52 2 0.03
53 4 0.06
54 16 0.25
ACGTcount: A:0.06, C:0.39, G:0.02, T:0.54
Consensus pattern (49 bp):
CTTTTCCTTCTCCTTCTCTTCTCTTTTCCTTAACCTCTGTATCCTTATC
Found at i:13386847 original size:48 final size:48
Alignment explanation
Indices: 13386782--13386894 Score: 154
Period size: 48 Copynumber: 2.4 Consensus size: 48
13386772 TTTCTTTTCT
* * *
13386782 TTCTCTTTCTCTTTCTCTTCGTCTCCCTTAACCTCTTTATCCTTATCC
1 TTCTCCTTCTCCTTCTCTTCGTCTCCCTTAACCTCTGTATCCTTATCC
* * * * *
13386830 TTTTCCTTCTCCTTCTCTTCTTTTTCCTTAACCTCTGTATCCTTCTCC
1 TTCTCCTTCTCCTTCTCTTCGTCTCCCTTAACCTCTGTATCCTTATCC
13386878 TTCTCCTTCTCCTTCTC
1 TTCTCCTTCTCCTTCTC
13386895 CTTCTCCTCT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.06, C:0.39, G:0.02, T:0.53
Consensus pattern (48 bp):
TTCTCCTTCTCCTTCTCTTCGTCTCCCTTAACCTCTGTATCCTTATCC
Found at i:13386880 original size:6 final size:6
Alignment explanation
Indices: 13386869--13386902 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
13386859 AACCTCTGTA
13386869 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCT
1 TCCTTC TCCTTC TCCTTC TCCTTC TCCTTC TCCT
13386903 CTTCTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTTC
Found at i:13386914 original size:24 final size:24
Alignment explanation
Indices: 13386869--13386936 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
13386859 AACCTCTGTA
*
13386869 TCCTTCTCCT-TCTCCTTCTCCTTC-
1 TCCTTCTCCTCT-TCTTTCTCC-TCG
*
13386893 TCCTTCTCCTCTTCTTTTTCCTCG
1 TCCTTCTCCTCTTCTTTCTCCTCG
* * *
13386917 ACCTTCTTCTCTTCTGTCTC
1 TCCTTCTCCTCTTCTTTCTC
13386937 TACCGATTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 2 0.06
24 33 0.92
25 1 0.03
ACGTcount: A:0.01, C:0.44, G:0.03, T:0.51
Consensus pattern (24 bp):
TCCTTCTCCTCTTCTTTCTCCTCG
Found at i:13400471 original size:87 final size:89
Alignment explanation
Indices: 13400343--13400589 Score: 214
Period size: 87 Copynumber: 2.8 Consensus size: 89
13400333 CCGCTATAAT
* ** * * * *
13400343 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAA
1 CTCAGGGAGATAAGAT-ACTGTATGCGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTGAA
** *
13400408 ATTCTTCGGTCTACTCCACTGTAAC
65 ATTCTTCAATCCACTCCACTGTAAC
* * * * * ****
13400433 CTCAGGGAGGTAAGA-CCTG-ATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCCTCA
1 CTCAGGGAGATAAGATACTGTATGCGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTGAAA
*
13400496 TT-TT-AATCCGCTCCACTGTAAC
66 TTCTTCAATCCACTCCACTGTAAC
* * * * * * *
13400518 TTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAA
1 CTCAGGGAGATAAGATACTGTATGCGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTGAAA
13400583 TTCTTCA
66 TTCTTCA
13400590 CTGATCTGTT
Statistics
Matches: 120, Mismatches: 33, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
85 26 0.22
86 4 0.03
87 70 0.58
88 5 0.04
89 1 0.01
90 14 0.12
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (89 bp):
CTCAGGGAGATAAGATACTGTATGCGATCTACTCCGCTGTAACCTCAGGGAGATAAGATCTGAAA
TTCTTCAATCCACTCCACTGTAAC
Found at i:13401809 original size:15 final size:15
Alignment explanation
Indices: 13401781--13401816 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
13401771 CTCTCCAAAG
13401781 TTTTTT-TTTATTTA
1 TTTTTTATTTATTTA
*
13401795 TTTTTTATTTTTTTA
1 TTTTTTATTTATTTA
13401810 TTTTTTA
1 TTTTTTA
13401817 GGAAGCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTATTTATTTA
Found at i:13416581 original size:41 final size:41
Alignment explanation
Indices: 13416536--13416656 Score: 242
Period size: 41 Copynumber: 3.0 Consensus size: 41
13416526 TTTGGGTTAA
13416536 TTTTAGTTTGGGTTTGGGTTGTAATTGGGCCTGGGCAAAGT
1 TTTTAGTTTGGGTTTGGGTTGTAATTGGGCCTGGGCAAAGT
13416577 TTTTAGTTTGGGTTTGGGTTGTAATTGGGCCTGGGCAAAGT
1 TTTTAGTTTGGGTTTGGGTTGTAATTGGGCCTGGGCAAAGT
13416618 TTTTAGTTTGGGTTTGGGTTGTAATTGGGCCTGGGCAAA
1 TTTTAGTTTGGGTTTGGGTTGTAATTGGGCCTGGGCAAA
13416657 ATGGCCTACA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.15, C:0.07, G:0.36, T:0.41
Consensus pattern (41 bp):
TTTTAGTTTGGGTTTGGGTTGTAATTGGGCCTGGGCAAAGT
Found at i:13422049 original size:10 final size:10
Alignment explanation
Indices: 13422029--13422087 Score: 68
Period size: 10 Copynumber: 6.1 Consensus size: 10
13422019 ATAATTTCTT
13422029 AAATTATAAA
1 AAATTATAAA
13422039 AAA-TATAAA
1 AAATTATAAA
* *
13422048 AAA-AATTAA
1 AAATTATAAA
*
13422057 AAATTGTAAA
1 AAATTATAAA
*
13422067 ACATTATAAA
1 AAATTATAAA
13422077 AAATTATAAA
1 AAATTATAAA
13422087 A
1 A
13422088 GAAAAACAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 16 0.40
10 24 0.60
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
AAATTATAAA
Found at i:13422066 original size:28 final size:28
Alignment explanation
Indices: 13422029--13422087 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
13422019 ATAATTTCTT
13422029 AAATTATAAAAAATATAAAAAAAATTA-A
1 AAATTATAAAAAAT-TAAAAAAAATTATA
* * *
13422057 AAATTGTAAAACATTATAAAAAATTATA
1 AAATTATAAAAAATTAAAAAAAATTATA
13422085 AAA
1 AAA
13422088 GAAAAACAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (28 bp):
AAATTATAAAAAATTAAAAAAAATTATA
Found at i:13425404 original size:26 final size:26
Alignment explanation
Indices: 13425357--13425406 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13425347 TATATATATA
* **
13425357 TATATATGTACATCATTTATTTTATT
1 TATATATATACATCATCCATTTTATT
*
13425383 TATATATATATATCATCCATTTTA
1 TATATATATACATCATCCATTTTA
13425407 AAATTGTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (26 bp):
TATATATATACATCATCCATTTTATT
Found at i:13426283 original size:21 final size:21
Alignment explanation
Indices: 13426259--13426324 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
13426249 AGTTTTCTTG
*
13426259 TTTGTTTTGATTTCATTTTTT
1 TTTGTTTTGATTTCATTTTTA
*
13426280 TTTGCTTTT--TTTC----TTG
1 TTTG-TTTTGATTTCATTTTTA
13426296 TTTGTTTTGATTTCATTTTTA
1 TTTGTTTTGATTTCATTTTTA
13426317 TTTGTTTT
1 TTTGTTTT
13426325 TTAAACTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
15 4 0.11
16 6 0.17
17 4 0.11
20 4 0.11
21 14 0.39
22 4 0.11
ACGTcount: A:0.08, C:0.06, G:0.11, T:0.76
Consensus pattern (21 bp):
TTTGTTTTGATTTCATTTTTA
Found at i:13426301 original size:37 final size:36
Alignment explanation
Indices: 13426251--13426326 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 36
13426241 TTATTATTAG
*
13426251 TTTTCTTGTTTGTTTTGATTTCATTTTTTTTTGCTTT
1 TTTTCTTGTTTGTTTTGATTTCATTTTTATTTG-TTT
13426288 TTTTCTTGTTTGTTTTGATTTCATTTTTATTTGTTT
1 TTTTCTTGTTTGTTTTGATTTCATTTTTATTTGTTT
13426324 TTT
1 TTT
13426327 AAACTGTGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 6 0.16
37 32 0.84
ACGTcount: A:0.07, C:0.07, G:0.11, T:0.76
Consensus pattern (36 bp):
TTTTCTTGTTTGTTTTGATTTCATTTTTATTTGTTT
Found at i:13426801 original size:26 final size:26
Alignment explanation
Indices: 13426754--13426803 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13426744 TATATATATA
* **
13426754 TATATATGTACATCATTTATTTTATT
1 TATATATATACATCATCCATTTTATT
*
13426780 TATATATATATATCATCCATTTTA
1 TATATATATACATCATCCATTTTA
13426804 AAATTGTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (26 bp):
TATATATATACATCATCCATTTTATT
Found at i:13427930 original size:97 final size:95
Alignment explanation
Indices: 13427814--13427992 Score: 259
Period size: 97 Copynumber: 1.9 Consensus size: 95
13427804 TATTGTTTAT
* * * *
13427814 GTAATATAAAAATAGCAAATCTATAGTATGAAAATGGGTGGAATTTTTTATTGTTCACAGTGTAG
1 GTAATATAAAAATAGCAAATCTATAATATGAAAATCGATGGAATTTTTTACTGTTCACAGTGTAG
13427879 TGTATTTTTAAATGTTAGCTTATTTGTTAC
66 TGTATTTTTAAATGTTAGCTTATTTGTTAC
* * *
13427909 GTAATATATTAAAATTGCAAATTTATAATATGAAAATCGATGGAATTTTTTACTGTTCACTGTGT
1 GTAATATA--AAAATAGCAAATCTATAATATGAAAATCGATGGAATTTTTTACTGTTCACAGTGT
* *
13427974 ATTGTATTTTTTAATGTTA
64 AGTGTATTTTTAAATGTTA
13427993 TTCAGCATTA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 8 0.11
97 65 0.89
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (95 bp):
GTAATATAAAAATAGCAAATCTATAATATGAAAATCGATGGAATTTTTTACTGTTCACAGTGTAG
TGTATTTTTAAATGTTAGCTTATTTGTTAC
Found at i:13431731 original size:20 final size:18
Alignment explanation
Indices: 13431709--13431761 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
13431699 AAAGAATTTA
13431709 AAAAAAT-TAAAAATTATT
1 AAAAAATATAAAAATTA-T
* *
13431727 AAAAATTACTAAAAGTTAT
1 AAAAAATA-TAAAAATTAT
13431746 AAAAAATATAAAAATT
1 AAAAAATATAAAAATT
13431762 TGAAAATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 13 0.45
19 8 0.28
20 8 0.28
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAAATATAAAAATTAT
Found at i:13431755 original size:9 final size:9
Alignment explanation
Indices: 13431716--13431761 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
13431706 TTAAAAAAAT
13431716 TAAAAATTA
1 TAAAAATTA
13431725 TTAAAAATTA
1 -TAAAAATTA
*
13431735 CTAAAAGTTA
1 -TAAAAATTA
*
13431745 TAAAAAATA
1 TAAAAATTA
13431754 TAAAAATT
1 TAAAAATT
13431762 TGAAAATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13435325 original size:13 final size:13
Alignment explanation
Indices: 13435307--13435332 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13435297 CGTATCCGTC
13435307 GCCGAATTAGGGT
1 GCCGAATTAGGGT
13435320 GCCGAATTAGGGT
1 GCCGAATTAGGGT
13435333 TACGAGGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.23
Consensus pattern (13 bp):
GCCGAATTAGGGT
Found at i:13443496 original size:15 final size:15
Alignment explanation
Indices: 13443476--13443532 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
13443466 GAAACAATAA
13443476 TAATAATAATAACAT
1 TAATAATAATAACAT
* *
13443491 TAATAATAATAGCAA
1 TAATAATAATAACAT
* *
13443506 TAAAAACAATGAAC-T
1 TAATAATAAT-AACAT
*
13443521 AAATAATAATAA
1 TAATAATAATAA
13443533 TAAAAAAGGG
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (15 bp):
TAATAATAATAACAT
Found at i:13463018 original size:46 final size:46
Alignment explanation
Indices: 13462948--13463037 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
13462938 GGGGATCAGT
* * *
13462948 CACCGGCGCGGTGGCCGACTGCCGGACCTAAGGCCGAAAATCGGGC
1 CACCGGCGCGGGGGCCGACGGCCGGACCTAAGGCCAAAAATCGGGC
* * *
13462994 CACCGGCGGGGGGGTCGACGGCCGGACCTAAGGTCAAAAATCGG
1 CACCGGCGCGGGGGCCGACGGCCGGACCTAAGGCCAAAAATCGG
13463038 ATTGCCCAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.21, C:0.31, G:0.39, T:0.09
Consensus pattern (46 bp):
CACCGGCGCGGGGGCCGACGGCCGGACCTAAGGCCAAAAATCGGGC
Found at i:13481779 original size:50 final size:50
Alignment explanation
Indices: 13481700--13481833 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
13481690 GTTTGTAATT
* * *
13481700 AAGAAGATTGAAGCTACAACAGTGGATCTTACTTTCCTAGCGTTGCAGTGG
1 AAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAAT-G
* * *
13481751 AA-CAGATTGAAGCTACAACAGCGGATCTTACTTTCCTGGCATTGCAATT
1 AAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAATG
*
13481800 AAGAAGATTGAAGCTACAACAGCAGATCTTACTT
1 AAGAAGATTGAAGCTACAACAGCGGATCTTACTT
13481834 CCCTNNNNNN
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 2 0.03
50 70 0.95
51 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAATG
Found at i:13482049 original size:50 final size:51
Alignment explanation
Indices: 13481959--13483561 Score: 945
Period size: 50 Copynumber: 32.2 Consensus size: 51
13481949 NNNNNNNNNN
* * * *
13481959 AGCGGATCTTACTTCCCCGGACA-TGCAA-TTAAGAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* ** **
13482009 AGCAGATCTTACTTTCCAAG-CGGTGAAGTGGAACAA-ATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAGT-GAACAAGATTGAAGCTACAAC
* *
13482059 AGCGGATCTTAC-TTCCCTGACATTGCAA-TTAAGAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* ** **
13482109 AGCAGATCTTACTTTCCAAG-CGGTGAAGTGGAACAA-ATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAGT-GAACAAGATTGAAGCTACAAC
* *
13482159 AGCGGATCTTAC-TTCCCTGACATTGCAA-TTAAGAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * * ** *
13482209 AACAGATCTTACTTT-CCAGGCGGTGCAGTGGAAC-AGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAGT-GAACAAGATTGAAGCTACAAC
* * *
13482259 AGTGGATCTTAC-TTCCCTGACATTGCAA-TTAAGAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * ** *
13482309 AGAGAATCTTACTTT-CCT-AGCGCTGCAGTGGAAC-AGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGA-CATTGAAGT-GAACAAGATTGAAGCTACAAC
* *
13482359 AGCGGATCTTAC-TTCCCTGACATTGCAA-TTAAGAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * ** *
13482409 AGCAGATCTTACTTT-CCAGGCGGTGCAGTGGAAC-AGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAGT-GAACAAGATTGAAGCTACAAC
* * *
13482459 AGCGGATCTTAC-TTCCCTGACATTGCAA-TTAAGAAGATTGAAGATACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * * *
13482509 AGCGGATCTTACTTT-CCT-AGCGTTGCAGTGGAGC-AGATTGAAG-TCATAAT
1 AGCGGATCTTACTTTCCCTGA-CATTGAAGT-GAACAAGATTGAAGCT-ACAAC
* * * * * * *
13482559 GGCGAATCTTGC-TTCCCCGACATTGCAA-TTAAAAAGATTGAAGCTACAAT
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* ** ** * * *
13482609 GGCAAATCTTACTTTCCAAG-CAGTGCAGCAGAAC-AGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAG-TGAACAAGATTGAAGCTACAAC
* * * * * *
13482659 GGCGGATCTCA-TTTCCCTGACATTGCAA-TCAA-AAGATTGAGGCCACAAT
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * * ** * *
13482708 GGCGAATCTTA-TTT-CCAGGCGGTGCAGTGGAAC-AGATTGAAGCTACAAT
1 AGCGGATCTTACTTTCCCTGACATTGAAGT-GAACAAGATTGAAGCTACAAC
* *
13482757 AGCGGATCTTAC-TTCCCTGACATTGCAA-TTAAGAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * *
13482807 AGCGGATCTTACTCT-CCT-AGCGTTGCAGTGGAAC-AGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGA-CATTGAAGT-GAACAAGATTGAAGCTACAAC
* * * * *
13482857 AGCGGATCTCAC-TTCCCTGACATTGCAA-TCAA-AAGATTGAGGCCACAAT
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * * ** * *
13482906 GGCGAATCTTA-TTT-CCAGGCGGTGTAGTGGAAC-ATATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAGT-GAACAAGATTGAAGCTACAAC
* *
13482955 AGCGGATCTTACTTT-CCTGACATTGCAA-TTAAGAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * * *
13483005 AGCAGATTTTACTCT-CCT-AGCGTTGCAGTGGAAC-A-ATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGA-CATTGAAGT-GAACAAGATTGAAGCTACAAC
* * * * * *
13483054 AGCGAATCTCAC-TTCCCTGACATTGCAA-TCAA-AAGATTGAGGCCACAAT
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * * ** *
13483103 GGCGAATCTTA-TTT-CCAGGCGGTGCAGTGGAAC-AGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAGT-GAACAAGATTGAAGCTACAAC
* * * *
13483152 AGTGGGTCTTAC-TTCCCTGACATTGCAA-TTAAGAAGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * * **
13483202 AGCGGATCTTAC--TCTCTTAGCTTTGCAGTGGAAC-AGAAAGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGA-CATTGAAGT-GAACAAGATTGAAGCTACAAC
* * * * *
13483252 AGCGGATCTCAC-TTCCCTGACATTGCAA-TCAA-AACATTGAGGCCACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * ** ** *
13483301 GGCGAATCTTA-TTTCCAAG-CGGTGTAGTGGAACAA-ATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAGT-GAACAAGATTGAAGCTACAAC
* * *
13483350 AGCGGATCTTAC-TTCCCTGACATTGCAA-TTAAGAAGATTAAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
* * * *
13483400 AGCGGATCTTAC-TTCCCTGACATTGCAGTTAAGAAGATTAAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTGAAGTGAACAAGATTGAAGCTACAAC
* *
13483450 AGCGGATCTTACTTT-CCT-AGCGTTGCAGTGGAAC-AGATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGA-CATTGAAGT-GAACAAGATTGAAGCTACAAC
* * *
13483500 AGCGGATCTTACTTT-CCTGACATTGCAA-TTAAAAATATTGAAGCTACAAC
1 AGCGGATCTTACTTTCCCTGACATTG-AAGTGAACAAGATTGAAGCTACAAC
13483550 AGCAGG-TCTTAC
1 AGC-GGATCTTAC
13483562 CCCCTGACGT
Statistics
Matches: 1180, Mismatches: 265, Indels: 216
0.71 0.16 0.13
Matches are distributed among these distances:
47 4 0.00
48 29 0.02
49 309 0.26
50 764 0.65
51 74 0.06
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (51 bp):
AGCGGATCTTACTTTCCCTGACATTGAAGTGAACAAGATTGAAGCTACAAC
Found at i:13482132 original size:100 final size:100
Alignment explanation
Indices: 13481959--13483516 Score: 1995
Period size: 100 Copynumber: 15.7 Consensus size: 100
13481949 NNNNNNNNNN
*
13481959 AGCGGATCTTACTTCCCCGGACA-TGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTT
1 AGCGGATCTTACTT-CCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTT
* *
13482023 TCCAAGCGGTGAAGTGGAACAAATTGAAGCTACAAC
65 TCCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
13482059 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* *
13482124 CCAAGCGGTGAAGTGGAACAAATTGAAGCTACAAC
66 CCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
*
13482159 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAACAGATCTTACTTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
*
13482224 CCAGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
66 CCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
*
13482259 AGTGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAG-AGAATCTTACTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAG-ATCTTACTT
* *
13482323 TCCTAGCGCTGCAGTGGAACAGATTGAAGCTACAAC
65 TCCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
13482359 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
*
13482424 CCAGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
66 CCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* *
13482459 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGATACAACAGCGGATCTTACTTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* * * * *
13482524 CCTAGCGTTGCAGTGGAGCAGATTGAAG-TCATAAT
66 CCAAGCGGTGCAGTGGAACAGATTGAAGCT-ACAAC
* * * * * ** *
13482559 GGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCAAATCTTACTTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* **
13482624 CCAAGCAGTGCAGCAGAACAGATTGAAGCTACAAC
66 CCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* * * * * * **
13482659 GGCGGATCTCATTTCCCTGACATTGCAATCAA-AAGATTGAGGCCACAATGGC-GAATCTTA-TT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAG-ATCTTACTT
* *
13482721 TCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAAT
65 TCCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* *
13482757 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTCT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* *
13482822 CCTAGCGTTGCAGTGGAACAGATTGAAGCTACAAC
66 CCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* * * * **
13482857 AGCGGATCTCACTTCCCTGACATTGCAATCAA-AAGATTGAGGCCACAATGGC-GAATCTTA-TT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAG-ATCTTACTT
* * *
13482919 TCCAGGCGGTGTAGTGGAACATATTGAAGCTACAAC
65 TCCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* * *
13482955 AGCGGATCTTACTTTCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATTTTACTCT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* *
13483020 CCTAGCGTTGCAGTGGAACA-ATTGAAGCTACAAC
66 CCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* * * * * **
13483054 AGCGAATCTCACTTCCCTGACATTGCAATCAA-AAGATTGAGGCCACAATGGC-GAATCTTA-TT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAG-ATCTTACTT
*
13483116 TCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
65 TCCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* * * *
13483152 AGTGGGTCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTCT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
** ** **
13483217 CTTAGCTTTGCAGTGGAACAGAAAGAAGCTACAAC
66 CCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* * * * * *
13483252 AGCGGATCTCACTTCCCTGACATTGCAATCAA-AACATTGAGGCCACAACGGC-GAATCTTA-TT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAG-ATCTTACTT
* *
13483314 TCCAAGCGGTGTAGTGGAACAAATTGAAGCTACAAC
65 TCCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* *
13483350 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTAAAGCTACAACAGCGGATCTTAC-TT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
** ** * * *
13483414 CCCTGACATTGCAGT-TAAGAAGATTAAAGCTACAAC
66 CCAAG-CGGTGCAGTGGAA-CAGATTGAAGCTACAAC
* * * * * *
13483450 AGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAA-CAGATTGAAGCTACAACAGCGGATCTTACT
1 AGCGGATCTTACTTCCCTGA-CATTGCAAT-TAAGAAGATTGAAGCTACAACAGCAGATCTTACT
13483513 TTCC
64 TTCC
13483517 TGACATTGCA
Statistics
Matches: 1270, Mismatches: 161, Indels: 53
0.86 0.11 0.04
Matches are distributed among these distances:
97 20 0.02
98 245 0.19
99 214 0.17
100 782 0.62
101 9 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (100 bp):
AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
CCAAGCGGTGCAGTGGAACAGATTGAAGCTACAAC
Found at i:13482302 original size:200 final size:197
Alignment explanation
Indices: 13481959--13483516 Score: 2048
Period size: 198 Copynumber: 7.8 Consensus size: 197
13481949 NNNNNNNNNN
*
13481959 AGCGGATCTTACTTCCCCGGACA-TGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTT
1 AGCGGATCTTACTT-CCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTT
* * *
13482023 TCCAAGCGGTGAAGTGGAACAAATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT
65 TCC-AGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAAT
* * * *
13482088 TAAGAAGATTGAAGCTACAACAGC-AGATCTTACTTTCCAAGCGGTGAAGTGGAACAAATTGAAG
129 CAA-AAGATTGAAGCCACAACAGCGA-ATCTTA-TTTCCAAGCGGTGCAGTGGAACAGATTGAAG
13482152 CTACAAC
191 CTACAAC
*
13482159 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAACAGATCTTACTTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* * *
13482224 CCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGTGGATCTTACTTCCCTGACATTGCAATT
66 CCA-GCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATC
* * * *
13482289 AAGAAGATTGAAGCTACAACAGAGAATCTTACTTTCCTAGCGCTGCAGTGGAACAGATTGAAGCT
130 AA-AAGATTGAAGCCACAACAGCGAATCTTA-TTTCCAAGCGGTGCAGTGGAACAGATTGAAGCT
13482354 ACAAC
193 ACAAC
13482359 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* *
13482424 CCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATT
66 CCA-GCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATC
** * * * *
13482489 AAGAAGATTGAAGATACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAGCAGATTGAAG-T
130 AA-AAGATTGAAGCCACAACAGCGAATCTTA-TTTCCAAGCGGTGCAGTGGAACAGATTGAAGCT
* *
13482553 CATAAT
193 -ACAAC
* * * * * ** *
13482559 GGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCAAATCTTACTTT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* ** * *
13482624 CCAAGCAGTGCAGCAGAACAGATTGAAGCTACAACGGCGGATCTCATTTCCCTGACATTGCAATC
66 CC-AGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATC
* ** *
13482689 AAAAGATTGAGGCCACAATGGCGAATCTTATTTCCAGGCGGTGCAGTGGAACAGATTGAAGCTAC
130 AAAAGATTGAAGCCACAACAGCGAATCTTATTTCCAAGCGGTGCAGTGGAACAGATTGAAGCTAC
*
13482754 AAT
195 AAC
* *
13482757 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTCT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
*
13482822 CCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATC
66 CC-AGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATC
* ** * * *
13482887 AAAAGATTGAGGCCACAATGGCGAATCTTATTTCCAGGCGGTGTAGTGGAACATATTGAAGCTAC
130 AAAAGATTGAAGCCACAACAGCGAATCTTATTTCCAAGCGGTGCAGTGGAACAGATTGAAGCTAC
13482952 AAC
195 AAC
* * *
13482955 AGCGGATCTTACTTTCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATTTTACTCT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* *
13483020 CCTAGCGTTGCAGTGGAACA-ATTGAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATC
66 CC-AGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATC
* ** *
13483084 AAAAGATTGAGGCCACAATGGCGAATCTTATTTCCAGGCGGTGCAGTGGAACAGATTGAAGCTAC
130 AAAAGATTGAAGCCACAACAGCGAATCTTATTTCCAAGCGGTGCAGTGGAACAGATTGAAGCTAC
13483149 AAC
195 AAC
* * * *
13483152 AGTGGGTCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTCT
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* ** **
13483217 CTTAGCTTTGCAGTGGAACAGAAAGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATC
66 C-CAGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATC
* * * * *
13483282 AAAACATTGAGGCCACAACGGCGAATCTTATTTCCAAGCGGTGTAGTGGAACAAATTGAAGCTAC
130 AAAAGATTGAAGCCACAACAGCGAATCTTATTTCCAAGCGGTGCAGTGGAACAGATTGAAGCTAC
13483347 AAC
195 AAC
* * *
13483350 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTAAAGCTACAACAGCGGATCTTACTTC
1 AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
* ** * * * * * * *
13483415 CCTGACATTGCAGT-TAAGAAGATTAAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAG
66 CCAG-CGGTGCAGTGGAA-CAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGA-CATTGCAA
* * * *
13483478 TGGAACAGATTGAAGCTACAACAGCGGATCTTACTTTCC
128 T-CAAAAGATTGAAGCCACAACAGCGAATCTTA-TTTCC
13483517 TGACATTGCA
Statistics
Matches: 1235, Mismatches: 110, Indels: 26
0.90 0.08 0.02
Matches are distributed among these distances:
197 190 0.15
198 500 0.40
199 56 0.05
200 487 0.39
201 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (197 bp):
AGCGGATCTTACTTCCCTGACATTGCAATTAAGAAGATTGAAGCTACAACAGCAGATCTTACTTT
CCAGCGGTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTCACTTCCCTGACATTGCAATCA
AAAGATTGAAGCCACAACAGCGAATCTTATTTCCAAGCGGTGCAGTGGAACAGATTGAAGCTACA
AC
Found at i:13489738 original size:15 final size:14
Alignment explanation
Indices: 13489705--13489738 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13489695 AATTATGTCT
13489705 ATTAAGGTTTAGAG
1 ATTAAGGTTTAGAG
*
13489719 TTTAAGGTTTAAGAG
1 ATTAAGGTTT-AGAG
13489734 ATTAA
1 ATTAA
13489739 TCACTCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (14 bp):
ATTAAGGTTTAGAG
Found at i:13499933 original size:17 final size:17
Alignment explanation
Indices: 13499911--13500108 Score: 132
Period size: 17 Copynumber: 10.6 Consensus size: 17
13499901 NNNNNNNNNN
13499911 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
13499928 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA--T-GT
*
13499948 CAAATTTTAGTAAGTAATTT
1 ---ATTTTAGTAAGTAATGT
13499968 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
13499985 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA--T-GT
*
13500005 CAAATTTTAGTAAGTAATTT
1 ---ATTTTAGTAAGTAATGT
13500025 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
13500042 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA--T-GT
*
13500062 CAAATTTTAGTAAGTAATTT
1 ---ATTTTAGTAAGTAATGT
13500082 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
13500099 ATTTTAGTAA
1 ATTTTAGTAA
13500109 TAAATTTAAC
Statistics
Matches: 148, Mismatches: 9, Indels: 48
0.72 0.04 0.23
Matches are distributed among these distances:
16 3 0.02
17 94 0.64
19 3 0.02
20 6 0.04
21 3 0.02
23 36 0.24
24 3 0.02
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:13499999 original size:57 final size:57
Alignment explanation
Indices: 13499911--13500117 Score: 414
Period size: 57 Copynumber: 3.6 Consensus size: 57
13499901 NNNNNNNNNN
13499911 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
13499968 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
13500025 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
13500082 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
13500118 CATTCAATCG
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 150 1.00
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (57 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
Found at i:13502366 original size:84 final size:84
Alignment explanation
Indices: 13502251--13502687 Score: 705
Period size: 84 Copynumber: 5.1 Consensus size: 84
13502241 CCACATTTCC
13502251 GGCGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGG
1 GGCGTTTTCCT-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGG
*
13502316 TCTGGAATTGTATTATTTGT
65 TCTGGAATTGCATTATTTGT
* * *
13502336 GGCGTTTTTCC-AAAAATGCCACTAAATATTACAGCTGTGAATAGAAACGACACCGTTTTTGTGG
1 GGCG-TTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGG
13502400 TCTGGAATTGCATTATTTGT
65 TCTGGAATTGCATTATTTGT
13502420 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT-CGTGG
13502485 TCTGGAATAATTGCATTATTTGT
65 TCTGG---AATTGCATTATTTGT
13502508 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGT
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGT
*
13502573 CTGGAATTGTATTATTTGT
66 CTGGAATTGCATTATTTGT
* *
13502592 GGCGTTTTCCTAAAAACGCCACTAGATATTACAGCTGTGAACAGAAACGACACCGTTTTGCATGG
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT-CGTGG
*
13502657 TCTGGAATAATTGCATTATTTCT
65 TCTGG---AATTGCATTATTTGT
13502680 GGCGTTTT
1 GGCGTTTT
13502688 AAGCACAAAT
Statistics
Matches: 330, Mismatches: 12, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
83 6 0.02
84 191 0.58
85 22 0.07
86 6 0.02
87 10 0.03
88 95 0.29
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (84 bp):
GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTCGTGGT
CTGGAATTGCATTATTTGT
Found at i:13502556 original size:172 final size:171
Alignment explanation
Indices: 13502251--13502687 Score: 747
Period size: 172 Copynumber: 2.6 Consensus size: 171
13502241 CCACATTTCC
13502251 GGCGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT-CGTG
1 GGCGTTTTCCT-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTG
* *
13502315 GTCTGG---AATTGTATTATTTGTGGCGTTTTTCCAAAAATGCCACTAAATATTACAGCTGTGAA
65 GTCTGGAATAATTGCATTATTTGTGGCG-TTTTCCAAAAACGCCACTAAATATTACAGCTGTGAA
* *
13502377 TAGAAACGACACCGTTTTTGTGGTCTGGAATTGCATTATTTGT
129 CAGAAACGACACCGTTTTCGTGGTCTGGAATTGCATTATTTGT
13502420 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
13502485 TCTGGAATAATTGCATTATTTGTGGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAAC
66 TCTGGAATAATTGCATTATTTGTGGCGTTTTCC-AAAAACGCCACTAAATATTACAGCTGTGAAC
*
13502550 AGAAACGACACCGTTTTCGTGGTCTGGAATTGTATTATTTGT
130 AGAAACGACACCGTTTTCGTGGTCTGGAATTGCATTATTTGT
* *
13502592 GGCGTTTTCCTAAAAACGCCACTAGATATTACAGCTGTGAACAGAAACGACACCGTTTTGCATGG
1 GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
*
13502657 TCTGGAATAATTGCATTATTTCTGGCGTTTT
66 TCTGGAATAATTGCATTATTTGTGGCGTTTT
13502688 AAGCACAAAT
Statistics
Matches: 255, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
168 48 0.19
169 21 0.08
171 6 0.02
172 180 0.71
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (171 bp):
GGCGTTTTCCTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTTGCGTGG
TCTGGAATAATTGCATTATTTGTGGCGTTTTCCAAAAACGCCACTAAATATTACAGCTGTGAACA
GAAACGACACCGTTTTCGTGGTCTGGAATTGCATTATTTGT
Found at i:13505197 original size:82 final size:82
Alignment explanation
Indices: 13505057--13505217 Score: 268
Period size: 82 Copynumber: 2.0 Consensus size: 82
13505047 CCCGAAAGGA
*
13505057 CACAAAACGGCACCGTCTAGGTGTATTATTTGCGGCATTTTTTATAAACGCCGTTAATGCTCACT
1 CACAAAACGGCACCGTCTAGGTGTATTATTTGCGGCATTTTTTATAAACGCCGCTAATGCTCACT
13505122 CTTTAGCGGCGCTTAGC
66 CTTTAGCGGCGCTTAGC
* * * * *
13505139 CACAAAACGGCACTGTCTGGGTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACT
1 CACAAAACGGCACCGTCTAGGTGTATTATTTGCGGCATTTTTTATAAACGCCGCTAATGCTCACT
13505204 CTTTAGCGGCGCTT
66 CTTTAGCGGCGCTT
13505218 TTCCTTAAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (82 bp):
CACAAAACGGCACCGTCTAGGTGTATTATTTGCGGCATTTTTTATAAACGCCGCTAATGCTCACT
CTTTAGCGGCGCTTAGC
Found at i:13505214 original size:39 final size:38
Alignment explanation
Indices: 13505170--13505259 Score: 117
Period size: 40 Copynumber: 2.3 Consensus size: 38
13505160 TGTATTATTT
* *
13505170 GCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCTTTA
1 GCGGCGTTTTTT-TAAACGCCGCTAATGCTCACTCTTTA
*
13505209 GCGGCGCTTTTCCTTAAACGCCGCTAATGCTCACTCTTTA
1 GCGGCG-TTTT-TTTAAACGCCGCTAATGCTCACTCTTTA
*
13505249 GCAGCGTTTTT
1 GCGGCGTTTTT
13505260 GCTCCAAACG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
39 10 0.23
40 33 0.75
41 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.38
Consensus pattern (38 bp):
GCGGCGTTTTTTTAAACGCCGCTAATGCTCACTCTTTA
Found at i:13505228 original size:40 final size:40
Alignment explanation
Indices: 13505183--13505276 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
13505173 GCGTTTTTTA
* * *
13505183 TAAACGCTGCTAATGTTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCAGCGCTTTTCCT
* *
13505223 TAAACGCCGCTAATGCTCACTCTTTAGCAGCGTTTTTGCT
1 TAAACGCCGCTAATGCTCACTCTTTAGCAGCGCTTTTCCT
*
13505263 CCAAACGCCGCTAA
1 -TAAACGCCGCTAA
13505277 AAGTGCCGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 35 0.74
41 12 0.26
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (40 bp):
TAAACGCCGCTAATGCTCACTCTTTAGCAGCGCTTTTCCT
Found at i:13525884 original size:53 final size:53
Alignment explanation
Indices: 13525821--13525927 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
13525811 CCATTGGGTT
13525821 TTCCTGATAAAGTTTTTAATGAGGCAGTATGTTATGCATATTATAGATATGTG
1 TTCCTGATAAAGTTTTTAATGAGGCAGTATGTTATGCATATTATAGATATGTG
13525874 TTCCTGATAAAGTTTTTAATGAGGCAGTATGTTATGCATATTATAGATATGTG
1 TTCCTGATAAAGTTTTTAATGAGGCAGTATGTTATGCATATTATAGATATGTG
13525927 T
1 T
13525928 ACTCTTTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (53 bp):
TTCCTGATAAAGTTTTTAATGAGGCAGTATGTTATGCATATTATAGATATGTG
Found at i:13526683 original size:22 final size:22
Alignment explanation
Indices: 13526647--13526699 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
13526637 AAATAAATCC
*
13526647 TTTCTCT-AATTTCCTCTC-AA
1 TTTCTCTCAATCTCCTCTCAAA
*
13526667 TTTGCTCTCAATCTCCTTTCAAA
1 TTT-CTCTCAATCTCCTCTCAAA
13526690 TTTCTCTCAA
1 TTTCTCTCAA
13526700 ATCCATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 4 0.14
22 16 0.57
23 5 0.18
ACGTcount: A:0.21, C:0.30, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTCTCTCAATCTCCTCTCAAA
Found at i:13526701 original size:11 final size:11
Alignment explanation
Indices: 13526649--13526699 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
13526639 ATAAATCCTT
13526649 TCTCTAATTTCC
1 TCTC-AATTTCC
*
13526661 TCTCAATTTGC
1 TCTCAATTTCC
*
13526672 TCTCAATCTCC
1 TCTCAATTTCC
*
13526683 TTTCAAATTT-C
1 TCTC-AATTTCC
13526694 TCTCAA
1 TCTCAA
13526700 ATCCATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
10 2 0.06
11 22 0.69
12 8 0.25
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Done.