Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 147 of 318
Found at i:45664364 original size:14 final size:16
Alignment explanation
Indices: 45664345--45664382 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
45664335 GTGAAATAAA
45664345 AATTTA-ATTTT-TAT
1 AATTTATATTTTATAT
45664359 AATTTATATTTTATAT
1 AATTTATATTTTATAT
*
45664375 ATTTTATA
1 AATTTATA
45664383 AAATTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 5 0.24
16 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTATATTTTATAT
Found at i:45665313 original size:9 final size:9
Alignment explanation
Indices: 45665278--45665309 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
45665268 ATCATTTAAC
45665278 ATATATCAT
1 ATATATCAT
45665287 ATATATCAT
1 ATATATCAT
45665296 ATATAT-AT
1 ATATATCAT
45665304 ATATAT
1 ATATAT
45665310 TATAATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATATCAT
Found at i:45665916 original size:21 final size:22
Alignment explanation
Indices: 45665861--45665916 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
45665851 TTATGAATTG
*
45665861 TTAAAATATAATTAAAAATGTT
1 TTAAAACATAATTAAAAATGTT
*
45665883 TTAAAACATAATTAATAGA-GTT
1 TTAAAACATAATTAA-AAATGTT
45665905 TTAAAA-ATAATT
1 TTAAAACATAATT
45665917 TATTTCTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 23 0.74
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
TTAAAACATAATTAAAAATGTT
Found at i:45666558 original size:17 final size:19
Alignment explanation
Indices: 45666538--45666574 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45666528 ATTTGAAATC
45666538 TTTAAAA-AT-ATATAAAA
1 TTTAAAACATAATATAAAA
45666555 TTTAAAACATAATATAAAA
1 TTTAAAACATAATATAAAA
45666574 T
1 T
45666575 CAAATATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
19 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAAACATAATATAAAA
Found at i:45672159 original size:17 final size:17
Alignment explanation
Indices: 45672100--45672159 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
45672090 TAATAAATTT
45672100 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
45672119 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
45672133 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
45672151 AAAATATAA
1 AAAATATAA
45672160 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:45672678 original size:18 final size:18
Alignment explanation
Indices: 45672642--45672749 Score: 173
Period size: 18 Copynumber: 5.9 Consensus size: 18
45672632 AATCATATCT
*
45672642 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
45672661 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
45672679 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
45672696 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
45672714 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
45672732 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
45672750 TGAAGATTAT
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
17 16 0.19
18 52 0.62
19 16 0.19
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:45672700 original size:35 final size:36
Alignment explanation
Indices: 45672642--45672749 Score: 175
Period size: 35 Copynumber: 3.0 Consensus size: 36
45672632 AATCATATCT
45672642 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
45672679 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
45672714 TCTAAGATTGCA-ATCATATCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
45672750 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
35 35 0.51
36 18 0.26
37 15 0.22
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:45672756 original size:53 final size:54
Alignment explanation
Indices: 45672645--45672757 Score: 169
Period size: 53 Copynumber: 2.1 Consensus size: 54
45672635 CATATCTTCT
* *
45672645 AAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCG
45672699 AAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTG--TATCATATCG
45672752 AAGATT
1 AAGATT
45672758 ATATTTCCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
53 40 0.73
54 9 0.16
55 6 0.11
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (54 bp):
AAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCG
Found at i:45673361 original size:83 final size:83
Alignment explanation
Indices: 45673133--45673485 Score: 598
Period size: 83 Copynumber: 4.2 Consensus size: 83
45673123 TTCGAGTTGT
* * * *
45673133 AAGGATGTCAAATCATCTTGAGTCTATTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
45673198 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
45673216 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTAAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
45673281 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
45673300 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
45673365 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
45673383 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
45673448 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
45673466 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
45673486 GATCTGCTTC
Statistics
Matches: 256, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 179 0.70
84 77 0.30
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:45673620 original size:119 final size:119
Alignment explanation
Indices: 45673409--45674003 Score: 1002
Period size: 119 Copynumber: 5.0 Consensus size: 119
45673399 CTTGAGTCTG
* * * * * * * *
45673409 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
45673474 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
45673528 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
45673593 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
45673647 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
45673712 CAAATCATCTTGGATCTGCTTCAGT-TAAACATCT-AAGGTTAGATCTG-TATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
45673763 TTTGAGAACG-CTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAA-AATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
45673826 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
45673880 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
45673945 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
45673999 TTTGA
1 TTTGA
45674004 TCTGTTCCCT
Statistics
Matches: 449, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
114 30 0.07
115 55 0.12
116 26 0.06
117 27 0.06
118 56 0.12
119 255 0.57
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:45673883 original size:233 final size:238
Alignment explanation
Indices: 45673409--45674003 Score: 1020
Period size: 233 Copynumber: 2.5 Consensus size: 238
45673399 CTTGAGTCTG
* * * * * *
45673409 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGC
*
45673474 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
* *
45673539 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTT
131 CTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
*
45673604 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
196 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
45673647 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGC
45673712 CAAATCATCTTGGATCTGCTTCAGT-TAAACATCT-AAGGTTAGATCTG-TATATTTGAGAACG-
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
45673773 CTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAA-AATACCAAATCATCTT
131 CTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
*
45673837 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
196 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
45673880 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGC
*
45673945 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATCTTTGA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGA
45674004 TCTGTTCCCT
Statistics
Matches: 337, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
233 144 0.43
234 55 0.16
235 27 0.08
236 21 0.06
237 9 0.03
238 81 0.24
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (238 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
CTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:45674037 original size:44 final size:44
Alignment explanation
Indices: 45673989--45674183 Score: 157
Period size: 44 Copynumber: 4.4 Consensus size: 44
45673979 TGAAGGTTAG
45673989 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
* * *
45674033 ATCTGCTATC-TTCAACTTGTTCCCTATAAACACAGGGATTCC--
1 ATCTGCTATCTTTGATC-TGTTCCCTATAAACACAGGGATGCCAA
** ** * * * * * *
45674075 ATGCTGAAATCTTCAATCTGCTTCGC-AGAGAGCACAGGAATGTCAG
1 AT-CTGCTATCTTTGATCTG-TTCCCTATA-AACACAGGGATGCCAA
* * *
45674121 ATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
*
45674165 ATCTTG-TTTCTTTGATCTG
1 ATC-TGCTATCTTTGATCTG
45674184 CATTGTCCCA
Statistics
Matches: 114, Mismatches: 28, Indels: 18
0.71 0.17 0.11
Matches are distributed among these distances:
42 2 0.02
43 14 0.12
44 80 0.70
45 16 0.14
46 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (44 bp):
ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:45675052 original size:1 final size:1
Alignment explanation
Indices: 45675046--45675129 Score: 60
Period size: 1 Copynumber: 84.0 Consensus size: 1
45675036 GGCCTCTCCA
* * * * * * * * * *
45675046 TTTTTTTTTTTTTCTCTTTCTTTTTTTTTTCTTTTTCTTTTCTTTTTTTCTCTTTTTCTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
45675111 TTTTTTCTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTT
45675130 GAAATAGAAG
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:45675071 original size:22 final size:21
Alignment explanation
Indices: 45675046--45675129 Score: 107
Period size: 22 Copynumber: 3.9 Consensus size: 21
45675036 GGCCTCTCCA
45675046 TTTTTTTTTTTTTCTCTTTCTT
1 TTTTTTTTTTTTTCT-TTTCTT
45675068 TTTTTTTTCTTTTTCTTTTCTT
1 TTTTTTTT-TTTTTCTTTTCTT
* *
45675090 TTTTTCTCTTTTTCTTTTCTT
1 TTTTTTTTTTTTTCTTTTCTT
45675111 TTTTTTCTCTTTTTT-TTTT
1 TTTTTT-T-TTTTTTCTTTT
45675130 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
21 18 0.33
22 25 0.45
23 12 0.22
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTTTTTCTTTTCTT
Found at i:45675108 original size:32 final size:32
Alignment explanation
Indices: 45675064--45675126 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
45675054 TTTTTCTCTT
*
45675064 TCTTTTTTTTTTCTTTTTCTTT-TCTTTTTTTC
1 TCTTTTTCTTTTCTTTTT-TTTCTCTTTTTTTC
45675096 TCTTTTTCTTTTCTTTTTTTTCTCTTTTTTT
1 TCTTTTTCTTTTCTTTTTTTTCTCTTTTTTT
45675127 TTTGAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 3 0.10
32 26 0.90
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (32 bp):
TCTTTTTCTTTTCTTTTTTTTCTCTTTTTTTC
Found at i:45675123 original size:21 final size:22
Alignment explanation
Indices: 45675046--45675129 Score: 120
Period size: 21 Copynumber: 3.9 Consensus size: 22
45675036 GGCCTCTCCA
45675046 TTTTTTT-T-TTTTTCTCTTTCT
1 TTTTTTTCTCTTTTTCT-TTTCT
*
45675067 TTTTTTTTTCTTTTTCTTTTC-
1 TTTTTTTCTCTTTTTCTTTTCT
45675088 TTTTTTTCTCTTTTTCTTTTCT
1 TTTTTTTCTCTTTTTCTTTTCT
*
45675110 TTTTTTTCTCTTTTTTTTTT
1 TTTTTTTCTCTTTTTCTTTT
45675130 GAAATAGAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
21 27 0.47
22 24 0.41
23 7 0.12
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTTTCTCTTTTTCTTTTCT
Found at i:45681413 original size:18 final size:18
Alignment explanation
Indices: 45681373--45681489 Score: 184
Period size: 18 Copynumber: 6.6 Consensus size: 18
45681363 AATCATATCT
45681373 TCTAAGATTGTATATCATA
1 TCTAAGATTGTA-ATCATA
*
45681392 TCTAAGATTGTAATCGTA
1 TCTAAGATTGTAATCATA
45681410 TCTAAGATTGT-ATCATA
1 TCTAAGATTGTAATCATA
*
45681427 TCTAAGATTGCAATCATA
1 TCTAAGATTGTAATCATA
*
45681445 TCTAAGATTGCAATCATA
1 TCTAAGATTGTAATCATA
45681463 TCTAAGATTGT-ATCATA
1 TCTAAGATTGTAATCATA
45681480 TCTAAGATTG
1 TCTAAGATTG
45681490 CATATCATTG
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
17 31 0.33
18 50 0.54
19 12 0.13
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGTAATCATA
Found at i:45681431 original size:35 final size:36
Alignment explanation
Indices: 45681373--45681497 Score: 184
Period size: 35 Copynumber: 3.5 Consensus size: 36
45681363 AATCATATCT
*
45681373 TCTAAGATTGTATATCATATCTAAGATTGTAATCGTA
1 TCTAAGATTG-ATATCATATCTAAGATTGTAATCATA
*
45681410 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGTAATCATA
45681445 TCTAAGATTGCA-ATCATATCTAAGATTGT-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGTAATCATA
45681480 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
45681498 TGAAGATTAT
Statistics
Matches: 82, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
35 51 0.62
36 21 0.26
37 10 0.12
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGTAATCATA
Found at i:45681448 original size:53 final size:54
Alignment explanation
Indices: 45681373--45681497 Score: 216
Period size: 53 Copynumber: 2.3 Consensus size: 54
45681363 AATCATATCT
* * *
45681373 TCTAAGATTGTATATCATATCTAAGATTGTAATCGTATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
45681427 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
45681480 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
45681498 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
53 51 0.76
54 16 0.24
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:45689970 original size:5 final size:5
Alignment explanation
Indices: 45689960--45690009 Score: 82
Period size: 5 Copynumber: 9.6 Consensus size: 5
45689950 CTGTGTGTTC
45689960 TTTAT TTTAT TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
45690010 CACAACTACC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 33 0.75
6 11 0.25
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:45690152 original size:5 final size:5
Alignment explanation
Indices: 45690142--45690179 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
45690132 CTGTGTGTTC
45690142 TTTAT TTTAT TTT-T TATTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTT
45690180 CACAACTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 27 0.87
6 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:45692973 original size:30 final size:30
Alignment explanation
Indices: 45692937--45692999 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
45692927 ACTTAACAAT
45692937 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
45692967 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
45692997 CAA
1 CAA
45693000 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:45712382 original size:11 final size:11
Alignment explanation
Indices: 45712368--45712413 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
45712358 GTCCTCTTAC
45712368 AATTCTCTCTA
1 AATTCTCTCTA
* *
45712379 AATTTTCTCCA
1 AATTCTCTCTA
45712390 AATTCTCTC-A
1 AATTCTCTCTA
*
45712400 AATT-TCTCTC
1 AATTCTCTCTA
45712410 AATT
1 AATT
45712414 TTTGTCAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.30
11 17 0.57
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTCTCTCTA
Found at i:45712405 original size:20 final size:22
Alignment explanation
Indices: 45712368--45712409 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
45712358 GTCCTCTTAC
45712368 AATTCTCTCTAAATTTTCTCCA
1 AATTCTCTCTAAATTTTCTCCA
45712390 AATTCTCTC-AAATTTCTCTC
1 AATTCTCTCTAAATTT-TCTC
45712410 AATTTTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTCTCTCTAAATTTTCTCCA
Found at i:45712413 original size:20 final size:21
Alignment explanation
Indices: 45712367--45712413 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
45712357 AGTCCTCTTA
45712367 CAATTCTCTCTAAATTTTCTC
1 CAATTCTCTCTAAATTTTCTC
45712388 CAAATTCTCTC-AAA-TTTCTC
1 C-AATTCTCTCTAAATTTTCTC
45712408 TCAATT
1 -CAATT
45712414 TTTGTCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (21 bp):
CAATTCTCTCTAAATTTTCTC
Found at i:45713610 original size:7 final size:7
Alignment explanation
Indices: 45713595--45713633 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
45713585 AATCGTTTCA
45713595 TATTTAG
1 TATTTAG
*
45713602 TAGTTAG
1 TATTTAG
45713609 TATTTAG
1 TATTTAG
*
45713616 TATTTAT
1 TATTTAG
45713623 TATTTAG
1 TATTTAG
45713630 TATT
1 TATT
45713634 ACGTATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:45714247 original size:18 final size:18
Alignment explanation
Indices: 45714224--45714264 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45714214 TCAGGTGCGC
*
45714224 ATCCTAGCCCTTATATGT
1 ATCCTAACCCTTATATGT
*
45714242 ATCCTAACCCTTTTATGT
1 ATCCTAACCCTTATATGT
*
45714260 TTCCT
1 ATCCT
45714265 TTTCCCAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.44
Consensus pattern (18 bp):
ATCCTAACCCTTATATGT
Found at i:45714546 original size:21 final size:21
Alignment explanation
Indices: 45714520--45714566 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
45714510 AGATCCCCTG
* *
45714520 CCGGAGGAATCACAATCCCCA
1 CCGGAGCAACCACAATCCCCA
* *
45714541 CCGGAGCAACCACAATCGCCG
1 CCGGAGCAACCACAATCCCCA
45714562 CCGGA
1 CCGGA
45714567 AGCTGAACCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.06
Consensus pattern (21 bp):
CCGGAGCAACCACAATCCCCA
Found at i:45714912 original size:130 final size:130
Alignment explanation
Indices: 45714670--45715043 Score: 612
Period size: 129 Copynumber: 2.9 Consensus size: 130
45714660 TTGTAGAAAC
45714670 TTTTTTATATAGTTTC-ATATAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTAC--
1 TTTTTTATATAGTTTCAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
* **
45714732 TTTTTAATTTTATTAAAACAAATGTTCTTTTAAATTAGGTAATATTTTTTTATCATTTTTATATT
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA--TTTTTATCATTTTTATATT
45714797 TAA
128 TAA
45714800 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
45714865 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTAA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATCATTTTTATATTTAA
* * *
45714930 -TTTTTATATATTTTTAATTAATAAAATAAAATTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* *
45714994 TTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATATTTTTAT
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTAT
45715044 TAAAAAAATG
Statistics
Matches: 232, Mismatches: 9, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
129 109 0.47
130 80 0.34
131 2 0.01
132 41 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (130 bp):
TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATCATTTTTATATTTAA
Found at i:45714946 original size:17 final size:17
Alignment explanation
Indices: 45714905--45714949 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
45714895 AAATTAGCCA
45714905 ATATTTTT-ATTATTTT
1 ATATTTTTAATTATTTT
*
45714921 -TATATTTAATT-TTTAT
1 ATATTTTTAATTATTT-T
45714937 ATATTTTTAATTA
1 ATATTTTTAATTA
45714950 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 9 0.39
16 4 0.17
17 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTAATTATTTT
Found at i:45722953 original size:17 final size:17
Alignment explanation
Indices: 45722931--45722965 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45722921 CACGGCCTAG
45722931 GCTCTGTCACACAGCCT
1 GCTCTGTCACACAGCCT
45722948 GCTCTGTCACACAGCCT
1 GCTCTGTCACACAGCCT
45722965 G
1 G
45722966 ACCACATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.40, G:0.20, T:0.23
Consensus pattern (17 bp):
GCTCTGTCACACAGCCT
Found at i:45723416 original size:30 final size:29
Alignment explanation
Indices: 45723382--45723468 Score: 68
Period size: 30 Copynumber: 2.9 Consensus size: 29
45723372 AGAAGTAAAA
*
45723382 CTAAATCGATAGAATATGTAAAGTTGAGGG
1 CTAAAT-GATAGAATATGTAAAGTTGAAGG
* * * * *
45723412 CTAAAGTTATTGAATTTTTTAAAATT-AAGG
1 CTAAA-TGATAGAA-TATGTAAAGTTGAAGG
*
45723442 CTAAATTGATAGAATGTGTAAAGTTGA
1 CTAAA-TGATAGAATATGTAAAGTTGA
45723469 TGATTGAATT
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
29 8 0.19
30 25 0.60
31 9 0.21
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (29 bp):
CTAAATGATAGAATATGTAAAGTTGAAGG
Found at i:45723462 original size:60 final size:60
Alignment explanation
Indices: 45723366--45723516 Score: 176
Period size: 60 Copynumber: 2.5 Consensus size: 60
45723356 TCCTTTTAAG
* * * *
45723366 TTTTTAAGAAGTAAAACTAAATCGATAGAATATGTAAAGTTGAGGGCTAAAGTTATTGAAT
1 TTTTTAA-AATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
** * * * * *
45723427 TTTTTAAAATTAAGGCTAAATTGATAGAATGTGTAAAGTTGATGATTGAATTTATTAAAT
1 TTTTTAAAATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
* *
45723487 TTTTTAGAATTAAAACTAAATTAATAGAAT
1 TTTTTAAAATTAAAACTAAATTGATAGAAT
45723517 TTATAAATAT
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
60 68 0.91
61 7 0.09
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (60 bp):
TTTTTAAAATTAAAACTAAATTGATAGAATATGTAAAGTTGAGGACTAAAGTTATTAAAT
Found at i:45724781 original size:16 final size:16
Alignment explanation
Indices: 45724743--45724774 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45724733 AGCTACTTTT
45724743 AAGTTGAGCTTTACAG
1 AAGTTGAGCTTTACAG
45724759 AAGTTGAGCTTTACAG
1 AAGTTGAGCTTTACAG
45724775 GGTTTGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
AAGTTGAGCTTTACAG
Found at i:45737209 original size:50 final size:51
Alignment explanation
Indices: 45737132--45737260 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
45737122 GACCATGGCA
*
45737132 ACAAGTGATAAGTGATAGCTTCGGCTACACTTAACTGATCAAAGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTAACTGATCAAAGACAAATG
* *
45737183 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTAACTGATCAAAGACAAATG
* *
45737233 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
45737261 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTAACTGATCAAAGACAAATG
Found at i:45737274 original size:31 final size:31
Alignment explanation
Indices: 45737236--45737384 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
45737226 ACAAATGACA
45737236 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
45737267 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
45737298 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
45737329 AGTGAAAAATGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
45737360 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
45737385 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:45737507 original size:49 final size:48
Alignment explanation
Indices: 45737437--45737563 Score: 167
Period size: 49 Copynumber: 2.8 Consensus size: 48
45737427 GCATCAGTGA
* *
45737437 GATATGTGATTCGTGTAAGACCATAGCTGAGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGAGCTATGACATCGATATAT
*
45737485 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGAGCTATGACATCGATATAT
*
45737534 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATG
1 GATATGTGATTCGTGTAAGACCATAGCTGAGCTATG
45737564 GCGTCATTAT
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
42 24 0.32
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.16
49 36 0.48
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGAGCTATGACATCGATATAT
Found at i:45737544 original size:42 final size:42
Alignment explanation
Indices: 45737498--45737595 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
45737488 ATGTGATTAC
*
45737498 GTGTAAGACCATAGCTGGGCTATGACATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATATGAAGAT
* * *
45737540 GTGTAAGACCATAGCTGGGCTATGGCGTCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGACATCATTATATGAAGAT
*
45737582 GTGTAAAACCATAG
1 GTGTAAGACCATAG
45737596 TTGAACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGACATCATTATATGAAGAT
Found at i:45747282 original size:19 final size:19
Alignment explanation
Indices: 45747258--45747301 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
45747248 TAATATATAT
*
45747258 TAATATTTTTTTATCAAAA
1 TAATATTTATTTATCAAAA
*
45747277 TAATATTTATTTATTAAAA
1 TAATATTTATTTATCAAAA
*
45747296 TGATAT
1 TAATAT
45747302 GTTTACTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTTATTTATCAAAA
Found at i:45748046 original size:23 final size:23
Alignment explanation
Indices: 45748010--45748067 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
45748000 TTTTTATTAG
** * *
45748010 TGAAAATTAATTGTTTACTTACT
1 TGAAAATTGTTTGTTTAATTAAT
* *
45748033 TGTAATTTGTTTGTTTAATTAAT
1 TGAAAATTGTTTGTTTAATTAAT
45748056 TGAAAATTGTTT
1 TGAAAATTGTTT
45748068 ATTTTATAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (23 bp):
TGAAAATTGTTTGTTTAATTAAT
Found at i:45760063 original size:19 final size:19
Alignment explanation
Indices: 45760039--45760085 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
45760029 TTTTTATAAA
*
45760039 TATTTTGAAGTTTAAAAAT
1 TATTTTGAAATTTAAAAAT
* *
45760058 TATTTTAAAATTTTAAAAT
1 TATTTTGAAATTTAAAAAT
45760077 TCATTTTGA
1 T-ATTTTGA
45760086 TTTATTTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (19 bp):
TATTTTGAAATTTAAAAAT
Found at i:45777705 original size:32 final size:30
Alignment explanation
Indices: 45777628--45777706 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
45777618 CGTCACCATT
* * * **
45777628 CCTTTACATAGTTTGATAGTCGAAGTTATC
1 CCTTTTCATAGTTCGATAGCCGAAGACATC
45777658 CCTTTTCAT-GATTCGATAGCCGAAGACATCC
1 CCTTTTCATAG-TTCGATAGCCGAAGACAT-C
45777689 ACCTTTTCATAGTTCGAT
1 -CCTTTTCATAGTTCGAT
45777707 GGTCATCACC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 1 0.03
30 22 0.55
31 1 0.03
32 15 0.38
33 1 0.03
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (30 bp):
CCTTTTCATAGTTCGATAGCCGAAGACATC
Found at i:45777737 original size:29 final size:29
Alignment explanation
Indices: 45777690--45777760 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
45777680 AAGACATCCA
* *
45777690 CCTTTTCATAGTTCGATGGTCATCACCATC
1 CCTTTTCATA-ATCTATGGTCATCACCATC
* *
45777720 CTTTTTCATAATCTATGGTCGTCACCATC
1 CCTTTTCATAATCTATGGTCATCACCATC
45777749 CCTTTTCATAAT
1 CCTTTTCATAAT
45777761 TGATAGCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 27 0.75
30 9 0.25
ACGTcount: A:0.21, C:0.28, G:0.10, T:0.41
Consensus pattern (29 bp):
CCTTTTCATAATCTATGGTCATCACCATC
Found at i:45777739 original size:121 final size:119
Alignment explanation
Indices: 45777537--45777812 Score: 291
Period size: 121 Copynumber: 2.3 Consensus size: 119
45777527 TCGACACCAC
* * * *
45777537 CCCTTTCCATAATTCGATAGCTGAAGCTATCCCTTTTCATAATTTTAATGGTCATCACCATCTCT
1 CCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAAGTTCAATGGTCATCACCATCTCT
** * * * *
45777602 TTTCATTGTTGATGGTCGTCACCATTCCTTTACATAGTTTGATAG-TCGAAGTTAT
66 TTTCATAATTGATGGTCGTCACCATCCCTTTACATA-ATTGATAGCT-AAAGCTAT
* *
45777657 CCCTTTTCATGATTCGATAGCCGAAGAC-ATCCACCTTTTCAT-AGTTCGATGGTCATCACCATC
1 CCCTTTTCATAATTCGATAGCCGAAG-CTAT-C-CCTTTTCATAAGTTCAATGGTCATCACCATC
*
45777720 -CTTTTTCATAATCT-ATGGTCGTCACCATCCCTTTTCATAATTGATAGCTAAAGCTAT
63 TC-TTTTCATAAT-TGATGGTCGTCACCATCCCTTTACATAATTGATAGCTAAAGCTAT
* *
45777777 CCCTTTTCGT-ATTCAATAG-C-AA-CTATCCCTTTTCAT
1 CCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCAT
45777813 TCGTTGATGA
Statistics
Matches: 134, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
114 9 0.07
115 2 0.01
116 2 0.01
117 2 0.01
118 1 0.01
119 8 0.06
120 48 0.36
121 52 0.39
122 10 0.07
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (119 bp):
CCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATAAGTTCAATGGTCATCACCATCTCT
TTTCATAATTGATGGTCGTCACCATCCCTTTACATAATTGATAGCTAAAGCTAT
Found at i:45777778 original size:29 final size:26
Alignment explanation
Indices: 45777746--45777812 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 26
45777736 GGTCGTCACC
*
45777746 ATCCCTTTTCATAATT-GATAGCTAAAGCT
1 ATCCCTTTTCAT-ATTCAATAGC--AA-CT
*
45777775 ATCCCTTTTCGTATTCAATAGCAACT
1 ATCCCTTTTCATATTCAATAGCAACT
45777801 ATCCCTTTTCAT
1 ATCCCTTTTCAT
45777813 TCGTTGATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 13 0.38
27 2 0.06
28 3 0.09
29 16 0.47
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.40
Consensus pattern (26 bp):
ATCCCTTTTCATATTCAATAGCAACT
Found at i:45779588 original size:18 final size:19
Alignment explanation
Indices: 45779551--45779594 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
45779541 ATATCAAATA
*
45779551 CTAAAAAATAAAACAAAAC
1 CTAAAAAAAAAAACAAAAC
* *
45779570 C-AAAAAAAAAAAGAGAAC
1 CTAAAAAAAAAAACAAAAC
45779588 CTAAAAA
1 CTAAAAA
45779595 CAGATTACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.75, C:0.14, G:0.05, T:0.07
Consensus pattern (19 bp):
CTAAAAAAAAAAACAAAAC
Found at i:45780334 original size:29 final size:26
Alignment explanation
Indices: 45780294--45780346 Score: 70
Period size: 29 Copynumber: 1.9 Consensus size: 26
45780284 GAATTTGAGT
*
45780294 AATTAGGGCTAAATTGTAAAGATAATA
1 AATTAGGGCTAAAATGTAAA-ATAATA
45780321 AATTGAGGGACTAAAATGTAAAATAA
1 AATT-AGGG-CTAAAATGTAAAATAA
45780347 ATGAAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 8 0.35
29 11 0.48
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (26 bp):
AATTAGGGCTAAAATGTAAAATAATA
Found at i:45780914 original size:43 final size:43
Alignment explanation
Indices: 45780853--45781024 Score: 244
Period size: 43 Copynumber: 4.0 Consensus size: 43
45780843 ATAGGATTTC
* *
45780853 CGATATGTG-TTCTCATGTAAGACCAC-ATCTGGGAC-GTTGGCAT
1 CGATATGTGATT-ACATGTAAGACC-CTGTCTGGGACAG-TGGCAT
45780896 CGATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCAT
*
45780939 CGATATGTGATTACATGTAAGACCCTGTCTAGGACAGTGGCAT
1 CGATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCAT
*
45780982 CGATATGTGATTACATGTAAGACCAC-GTCTGGGACATTGGCAT
1 CGATATGTGATTACATGTAAGACC-CTGTCTGGGACAGTGGCAT
45781025 TGTATGATAT
Statistics
Matches: 120, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
42 1 0.01
43 115 0.96
44 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCAT
Found at i:45786410 original size:40 final size:40
Alignment explanation
Indices: 45786262--45786486 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
45786252 TTGAATGATG
* * * *
45786262 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
45786302 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
45786342 TCTGGGCTAA-ACCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
45786381 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45786421 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45786462 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45786487 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.20
40 115 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45786504 original size:80 final size:79
Alignment explanation
Indices: 45786349--45786519 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 79
45786339 AATTCTGGGC
* **
45786349 TAAA-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAATCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
*
45786413 TTACAAAATCCGGGT
66 TGACAAAATCC-GGT
* * *
45786428 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAATCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGA
* *
45786492 G-GAGCTATATCCGGT
65 GTGA-CAAAATCCGGT
*
45786507 TAAATTCCGAAGG
1 TAAATCCCGAAGG
45786520 TACGTGATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 18 0.23
80 58 0.74
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
TAAATCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
TGACAAAATCCGGT
Found at i:45786508 original size:119 final size:119
Alignment explanation
Indices: 45786262--45786519 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
45786252 TTGAATGATG
* * *
45786262 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATTT
* * ** *
45786327 GTGCGAGATACTAATTCTGGGCTAAACCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAACCCGAAGGCATTGGAACGAGTGACTAAA
* * *
45786381 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACAAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAAAATCCGGATTAAGAT-CCGAAGGCAT
* ** * *
45786444 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTA-AACCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
45786501 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
45786520 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAACCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:45793662 original size:39 final size:40
Alignment explanation
Indices: 45793562--45793786 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
45793552 TTGAATGATG
* * * *
45793562 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
45793602 TCCGGATTAAGAT-CCGAAGGCATTTGTCCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45793642 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* ** *
45793681 TCCGGGTTAAGTTTCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45793721 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45793762 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45793787 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.21
40 113 0.73
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45799000 original size:40 final size:40
Alignment explanation
Indices: 45798970--45799179 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
45798960 GGACTAAGAT
* * * *
45798970 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
45799010 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
45799050 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
45799090 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
45799130 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
45799169 CCGAAGGCATT
1 CCGAAGGCATT
45799180 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:45799054 original size:80 final size:80
Alignment explanation
Indices: 45798917--45799179 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
45798907 TTGAATGCTG
* * * * * **
45798917 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
45798980 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
45798997 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
45799062 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
45799077 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
45799141 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
45799156 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
45799180 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:45799131 original size:120 final size:120
Alignment explanation
Indices: 45798917--45799179 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
45798907 TTGAATGCTG
* * *
45798917 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
45798981 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
45799037 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
45799100 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
45799156 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
45799180 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:45799199 original size:79 final size:80
Alignment explanation
Indices: 45798970--45799214 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
45798960 GGACTAAGAT
* * * * * ** * *
45798970 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
45799034 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
45799050 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
45799115 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
45799130 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
45799194 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
45799208 CCGAAGG
1 CCGAAGG
45799215 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:45806087 original size:39 final size:40
Alignment explanation
Indices: 45805883--45806105 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
45805873 TTGAATGCTG
* * * * * *
45805883 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
45805923 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
45805963 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
45806003 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
45806043 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
45806082 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45806106 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:45806125 original size:79 final size:80
Alignment explanation
Indices: 45805958--45806140 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
45805948 GTGCGAGATA
* * *
45805958 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
45806023 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
45806038 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
45806102 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
45806117 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
45806141 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:45813089 original size:25 final size:25
Alignment explanation
Indices: 45813019--45813080 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
45813009 GTAATGAGGG
45813019 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
45813043 GATAAGGGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
45813068 GATAAGGGGAGAA
1 GATAAGGGGAGAA
45813081 AATCAAGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 5 0.14
25 32 0.86
ACGTcount: A:0.39, C:0.03, G:0.40, T:0.18
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:45814172 original size:28 final size:26
Alignment explanation
Indices: 45814141--45814204 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
45814131 AATTACTTGA
* **
45814141 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
45814169 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
45814195 ATACCCCTAG
1 ATACCCCTAG
45814205 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:45814350 original size:27 final size:26
Alignment explanation
Indices: 45814312--45814420 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
45814302 AAGCGTCCTA
*
45814312 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
45814339 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
45814366 GTGGCTCTGCCACGATTATCTATATCTG
1 GTGGCTCTGCCAC-ATTATCT-GATCTG
* * * *
45814394 GTGACTCTGTCACATTTTCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
45814420 G
1 G
45814421 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 46 0.66
28 17 0.24
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:45814415 original size:54 final size:54
Alignment explanation
Indices: 45814312--45814420 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
45814302 AAGCGTCCTA
*
45814312 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
* * * * *
45814366 GTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TTTCTGTTCTG
1 GTGGCTATGCCACAATTATCT-GATCTGGTGACTCTGCCACATATATCTGTTCTG
45814420 G
1 G
45814421 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
Found at i:45821747 original size:39 final size:39
Alignment explanation
Indices: 45821703--45821781 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
45821693 TTAAATTAAA
45821703 TAAAATAAAAATAAAAGTTATTATCATCATTTTCATGTC
1 TAAAATAAAAATAAAAGTTATTATCATCATTTTCATGTC
45821742 TAAAATAAAAATAAAAGTTATTATCATCATTTTCATGTC
1 TAAAATAAAAATAAAAGTTATTATCATCATTTTCATGTC
45821781 T
1 T
45821782 TCCTCATCGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (39 bp):
TAAAATAAAAATAAAAGTTATTATCATCATTTTCATGTC
Found at i:45823012 original size:61 final size:62
Alignment explanation
Indices: 45822912--45823135 Score: 267
Period size: 61 Copynumber: 3.6 Consensus size: 62
45822902 CACACAGCCA
* * * *
45822912 TGTCCCTGGCCATATGGTTTTATACTATGAATAGTGAGTTTCACAGCCTGGCCACATGCCCG
1 TGTCCCTGGCCATATGGTTTTATACAATGAACAGTGAGTTTCACGGCCTGGGCACATGCCCG
* * * * * **
45822974 TGTCCCTGGTCGTGTGG-TTTATACAATGAACAGTGAGTTACATGGCCTGGGCACACT-CTTG
1 TGTCCCTGGCCATATGGTTTTATACAATGAACAGTGAGTTTCACGGCCTGGGCACA-TGCCCG
* *
45823035 TGTCCCTGGCCGTATGG-TTTATACAATGAACAGTGA-TTTACACGGCCTGGGCACACGCCCG
1 TGTCCCTGGCCATATGGTTTTATACAATGAACAGTGAGTTT-CACGGCCTGGGCACATGCCCG
* *
45823096 TGTCCCTGGCCATGTGGTTTTATATAATGAACAGTGAGTT
1 TGTCCCTGGCCATATGGTTTTATACAATGAACAGTGAGTT
45823136 ACATGGTCGT
Statistics
Matches: 136, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
60 2 0.01
61 99 0.73
62 33 0.24
63 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (62 bp):
TGTCCCTGGCCATATGGTTTTATACAATGAACAGTGAGTTTCACGGCCTGGGCACATGCCCG
Found at i:45823112 original size:122 final size:124
Alignment explanation
Indices: 45822912--45823141 Score: 349
Period size: 122 Copynumber: 1.9 Consensus size: 124
45822902 CACACAGCCA
* * *
45822912 TGTCCCTGGCCATATGGTTTTATACTATGAATAGTGAGTTTCACAGCCTGGCCACATGCCCGTGT
1 TGTCCCTGGCCATATGGTTTTATACAATGAACAGTGAGTTTCACAGCCTGGCCACACGCCCGTGT
* *
45822977 CCCTGGTCGTGTGG-TTTATACAATGAACAGTGAGTTACATGGCCTGGGCACACTCTTG
66 CCCTGGCCATGTGGTTTTATACAATGAACAGTGAGTTACATGGCCTGGGCACACTCTTG
* * *
45823035 TGTCCCTGGCCGTATGG-TTTATACAATGAACAGTGA-TTTACACGGCCTGGGCACACGCCCGTG
1 TGTCCCTGGCCATATGGTTTTATACAATGAACAGTGAGTTT-CACAGCCTGGCCACACGCCCGTG
*
45823098 TCCCTGGCCATGTGGTTTTATATAATGAACAGTGAGTTACATGG
65 TCCCTGGCCATGTGGTTTTATACAATGAACAGTGAGTTACATGG
45823142 TCGTTCATAG
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
121 3 0.03
122 50 0.52
123 43 0.45
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (124 bp):
TGTCCCTGGCCATATGGTTTTATACAATGAACAGTGAGTTTCACAGCCTGGCCACACGCCCGTGT
CCCTGGCCATGTGGTTTTATACAATGAACAGTGAGTTACATGGCCTGGGCACACTCTTG
Found at i:45828613 original size:18 final size:18
Alignment explanation
Indices: 45828590--45828625 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45828580 TTTAGCAATA
45828590 TTTTTTATCTCAAAAGTG
1 TTTTTTATCTCAAAAGTG
* *
45828608 TTTTTTGTCTCAGAAGTG
1 TTTTTTATCTCAAAAGTG
45828626 CTTCTAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (18 bp):
TTTTTTATCTCAAAAGTG
Found at i:45832518 original size:20 final size:20
Alignment explanation
Indices: 45832474--45832521 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
45832464 GGAAAAATCC
*
45832474 ATATTTTTATACTTTCTAATA
1 ATATTTTTATAATTTCTAA-A
*
45832495 AT-TTTTCATAATTT-TAAA
1 ATATTTTTATAATTTCTAAA
45832513 ATATTTTTA
1 ATATTTTTA
45832522 CAGTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
19 8 0.35
20 10 0.43
21 2 0.09
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTTTTATAATTTCTAAA
Found at i:45835589 original size:10 final size:10
Alignment explanation
Indices: 45835574--45835623 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
45835564 GATTTTTAGA
45835574 ATTTATTTTT
1 ATTTATTTTT
*
45835584 ATTTATCTTT
1 ATTTATTTTT
*
45835594 ATTTATATTT
1 ATTTATTTTT
* *
45835604 AATTATTTGT
1 ATTTATTTTT
45835614 ATTTATTTTT
1 ATTTATTTTT
45835624 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:45837317 original size:15 final size:15
Alignment explanation
Indices: 45837297--45837331 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45837287 ATAAAATTTT
*
45837297 AAATTAATAATAATA
1 AAATTAAAAATAATA
45837312 AAATTAAAAATAATA
1 AAATTAAAAATAATA
*
45837327 TAATT
1 AAATT
45837332 TTAATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTAAAAATAATA
Found at i:45837322 original size:22 final size:20
Alignment explanation
Indices: 45837287--45837330 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
45837277 TTTATAATTT
* *
45837287 ATAAAATTTTAAATTAATAATA
1 ATAAAA-TTAAAAATAAT-ATA
45837309 ATAAAATTAAAAATAATATA
1 ATAAAATTAAAAATAATATA
45837329 AT
1 AT
45837331 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAATTAAAAATAATATA
Found at i:45837736 original size:26 final size:25
Alignment explanation
Indices: 45837679--45837732 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
45837669 ATCTTTCTAG
45837679 TTATATTATTATAAAAATATAATTTT
1 TTATATTATTATAAAAATAT-ATTTT
*
45837705 TTATATTTTTATATAAAATAT-TTTT
1 TTATATTATTATA-AAAATATATTTT
45837730 TTA
1 TTA
45837733 ATATATAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 12 0.46
27 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATATTATTATAAAAATATATTTT
Found at i:45837737 original size:28 final size:27
Alignment explanation
Indices: 45837658--45837738 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 27
45837648 TCTATAAAAA
* *
45837658 ATTA-ATAAAATATCTTTCTAGTTATATT
1 ATTATATAAAATATATTTTTA--TATATT
45837686 ATTATA-AAAATATAATTTTT-TATATT
1 ATTATATAAAATAT-ATTTTTATATATT
* *
45837712 TTTATATAAAATATTTTTTTAATATAT
1 ATTATATAAAATATATTTTT-ATATAT
45837739 AAAGTAAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
26 16 0.36
27 7 0.16
28 16 0.36
29 5 0.11
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (27 bp):
ATTATATAAAATATATTTTTATATATT
Found at i:45844261 original size:11 final size:11
Alignment explanation
Indices: 45844245--45844279 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
45844235 TCCTTCCCCC
45844245 CTCCCTTCTCT
1 CTCCCTTCTCT
45844256 CTCCCTTCTCT
1 CTCCCTTCTCT
45844267 CTTCCC-TCTCT
1 C-TCCCTTCTCT
45844278 CT
1 CT
45844280 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:45844770 original size:3 final size:3
Alignment explanation
Indices: 45844746--45844813 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
45844736 AATATCCTTG
* * * *
45844746 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
45844794 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
45844814 GTATGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:45844824 original size:23 final size:23
Alignment explanation
Indices: 45844753--45844817 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
45844743 TTGTTATTTT
*
45844753 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTATTAGTA
45844775 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTATTAGTA
*
45844800 TATATTTTTATTATGTAT
1 TATATTATTATTATGTAT
45844818 GTGTATACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.45
24 13 0.34
25 8 0.21
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.58
Consensus pattern (23 bp):
TATATTATTATTATGTATTAGTA
Found at i:45844880 original size:13 final size:13
Alignment explanation
Indices: 45844832--45844881 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
45844822 ATACATATAT
45844832 ATATTTTCATATCTA
1 ATATTTT-AT-TCTA
*
45844847 ATATTTTTATT-TC
1 ATA-TTTTATTCTA
45844860 AT-TTTTATTCTA
1 ATATTTTATTCTA
45844872 ATATTTTATT
1 ATATTTTATT
45844882 AATCTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 7 0.23
12 3 0.10
13 10 0.33
14 1 0.03
15 5 0.17
16 4 0.13
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATTTTATTCTA
Found at i:45844927 original size:3 final size:3
Alignment explanation
Indices: 45844914--45844952 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
45844904 TATTCCAATG
* * *
45844914 TTA TCA TTA TTA TTA TTA TTA TTA TTT TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45844953 GTTTATGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:45845256 original size:19 final size:20
Alignment explanation
Indices: 45845219--45845280 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
45845209 ATTATCATTG
*
45845219 TATATATTTTATTATTATTA
1 TATATATTTTATCATTATTA
45845239 GT-TATATTTTA-CATTATTA
1 -TATATATTTTATCATTATTA
*
45845258 TATATATTTT-TCTAATATTA
1 TATATATTTTATC-ATTATTA
45845278 TAT
1 TAT
45845281 TGTATATACT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.03
19 16 0.44
20 18 0.50
21 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATTTTATCATTATTA
Found at i:45845693 original size:18 final size:19
Alignment explanation
Indices: 45845634--45845699 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
45845624 ATATACGTAC
*
45845634 TTATACATACTTAAATATAT
1 TTAT-CATACTTACATATAT
* * *
45845654 TTTTCATA-TTTCATAATTT
1 TTATCATACTTACAT-ATAT
45845673 TTAT-ATACTTACATATAT
1 TTATCATACTTACATATAT
45845691 TTATGCATA
1 TTAT-CATA
45845700 TTTTACATCA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
18 14 0.40
19 15 0.43
20 6 0.17
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATCATACTTACATATAT
Found at i:45858217 original size:35 final size:36
Alignment explanation
Indices: 45858107--45858283 Score: 129
Period size: 35 Copynumber: 4.8 Consensus size: 36
45858097 ATAGTAATCC
* *
45858107 TATCTCCTGAGATTACAATGGAG-CGGATTAAAGGATCT
1 TATCTCCTGAGATTACAGTGGAGAC-GATT-CA-GATCT
*
45858145 TATCTCTCTGA-AGTTACAGTAGAGA-GATCTCAG-TCT
1 TATCTC-CTGAGA-TTACAGTGGAGACGAT-TCAGATCT
45858181 TATCTCCTGAGATTACAGTGGAGACG-TTCAGATCT
1 TATCTCCTGAGATTACAGTGGAGACGATTCAGATCT
*
45858216 TATCTCCCTGAG-TTACAGTAGAG-CAGATTGAAGCAGAATC-
1 TATCT-CCTGAGATTACAGTGGAGAC-GATT----CAG-ATCT
45858256 TATCTCCCTGAGATTACAGTGGAG-CGAT
1 TATCT-CCTGAGATTACAGTGGAGACGAT
45858284 AAAATAGTCT
Statistics
Matches: 117, Mismatches: 6, Indels: 30
0.76 0.04 0.20
Matches are distributed among these distances:
34 5 0.04
35 35 0.30
36 19 0.16
37 1 0.01
38 11 0.09
39 14 0.12
40 18 0.15
41 14 0.12
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (36 bp):
TATCTCCTGAGATTACAGTGGAGACGATTCAGATCT
Found at i:45858274 original size:76 final size:76
Alignment explanation
Indices: 45858055--45858281 Score: 231
Period size: 74 Copynumber: 3.0 Consensus size: 76
45858045 ACCAAAGAAT
** *
45858055 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TGAAGATAGTAATCCTATCTCCTGAGA
1 TTCAGATCTTATCTCCCTGAG-TTACAGTAGAGCAGATTGAAG-CAG-AAT-CTATCTCCTGAGA
*
45858119 TTACAATGGAGCGGA
62 TTACAGTGGAGCGGA
* *
45858134 TTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG-AGATCT----CAG--TCTTATCTCCTGAG
1 TT-CA-GATCTTATCTCCCTG-AGTTACAGTAGAGCAGAT-TGAAGCAGAATC-TATCTCCTGAG
45858192 ATTACAGTGGAGAC-G-
61 ATTACAGTGGAG-CGGA
45858207 TTCAGATCTTATCTCCCTGAGTTACAGTAGAGCAGATTGAAGCAGAATCTATCTCCCTGAGATTA
1 TTCAGATCTTATCTCCCTGAGTTACAGTAGAGCAGATTGAAGCAGAATCTATCT-CCTGAGATTA
45858272 CAGTGGAGCG
65 CAGTGGAGCG
45858282 ATAAAATAGT
Statistics
Matches: 124, Mismatches: 8, Indels: 35
0.74 0.05 0.21
Matches are distributed among these distances:
70 14 0.11
71 18 0.15
72 1 0.01
73 3 0.02
74 27 0.22
75 7 0.06
76 20 0.16
77 2 0.02
79 2 0.02
80 4 0.03
81 23 0.19
82 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (76 bp):
TTCAGATCTTATCTCCCTGAGTTACAGTAGAGCAGATTGAAGCAGAATCTATCTCCTGAGATTAC
AGTGGAGCGGA
Found at i:45858302 original size:76 final size:76
Alignment explanation
Indices: 45858064--45858311 Score: 205
Period size: 74 Copynumber: 3.3 Consensus size: 76
45858054 TTTCAGATCT
** * *
45858064 TATCTCCCTG-AGATTACAGCGGAGCAGA-TGAAGATAGTAATCCTATCTCCTGAGATTACAATG
1 TATCTCCCTGAAG-TTACAGTAGAGCAGATTGAAG-CAG-AAT-CTATCTCCTGAGATTACAGTG
* *
45858127 GAGCGGATTAAAGGATC
62 GAGC-GATAAAATG-TC
*
45858144 TTATCTCTCTGAAGTTACAGTAGAG-AGATCT----CAG--TCTTATCTCCTGAGATTACAGTGG
1 -TATCTCCCTGAAGTTACAGTAGAGCAGAT-TGAAGCAGAATC-TATCTCCTGAGATTACAGTGG
* * * *
45858202 AGACGTTCAGATCT-
63 AG-CGATAAAATGTC
45858216 TATCTCCCTG-AGTTACAGTAGAGCAGATTGAAGCAGAATCTATCTCCCTGAGATTACAGTGGAG
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGCAGAATCTATCT-CCTGAGATTACAGTGGAG
45858280 CGATAAAATAGTC
65 CGATAAAAT-GTC
45858293 TATCT-CCTGAAGTTACAGT
1 TATCTCCCTGAAGTTACAGT
45858312 GGAGATCATA
Statistics
Matches: 136, Mismatches: 15, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
70 14 0.10
71 13 0.10
73 2 0.01
74 30 0.22
75 12 0.09
76 25 0.18
77 16 0.12
80 3 0.02
81 18 0.13
82 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (76 bp):
TATCTCCCTGAAGTTACAGTAGAGCAGATTGAAGCAGAATCTATCTCCTGAGATTACAGTGGAGC
GATAAAATGTC
Found at i:45858380 original size:113 final size:117
Alignment explanation
Indices: 45858176--45858435 Score: 279
Period size: 113 Copynumber: 2.2 Consensus size: 117
45858166 GAGAGATCTC
* *
45858176 AGTCTTATCTCCTG-AGATTACAGTGGAGACGTTCAGATCTTATCTCCCTGAGTTACAGTAGAGC
1 AGTC-TATCTCCTGAAG-TTACAGTGGAGACGATCAGATCTTATCTCCCTGAGTTACAGCAGAGC
** *
45858240 AGATTGAAGCAGAATCTATCTCCCTGAGATTACAGTGGAGC-GA-T-AA-A-AT
64 AGACCGAAGCAGAATCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGACAT
* * *
45858289 AGTCTATCTCCTGAAGTTACAGTGGAGATC-AT-AGGTCTTAT-TCCCTGAGTTACAGCGGAGTA
1 AGTCTATCTCCTGAAGTTACAGTGGAGA-CGATCAGATCTTATCTCCCTGAGTTACAGCAGAGCA
*
45858351 GACCGAAAATGCAG-ATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACAT
65 GACCG--AA-GCAGAATC-TATCTCCCTGAGATTACAGCGGAGCAGATTAAAGACAT
*
45858407 AATCCTATCTCCCTGAAGTTACAGTGGAG
1 AGT-CTATCT-CCTGAAGTTACAGTGGAG
45858436 CGGATTAAAA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
110 21 0.17
111 8 0.06
112 27 0.22
113 34 0.27
114 2 0.02
115 1 0.01
116 2 0.02
117 1 0.01
118 4 0.03
119 6 0.05
120 18 0.15
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (117 bp):
AGTCTATCTCCTGAAGTTACAGTGGAGACGATCAGATCTTATCTCCCTGAGTTACAGCAGAGCAG
ACCGAAGCAGAATCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGACAT
Found at i:45859795 original size:3 final size:3
Alignment explanation
Indices: 45859789--45859861 Score: 67
Period size: 3 Copynumber: 24.0 Consensus size: 3
45859779 TTTTGTTTAT
* * *
45859789 TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA CTA TTA TTG
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * *
45859835 TTA GTA TTA TTA CTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
45859862 CTATCATGTA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.02
3 52 0.91
4 4 0.07
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:45859863 original size:12 final size:12
Alignment explanation
Indices: 45859789--45859865 Score: 82
Period size: 12 Copynumber: 6.1 Consensus size: 12
45859779 TTTTGTTTAT
*
45859789 TTATTATTATTA
1 TTATTATTACTA
45859801 TTATTATTTACTA
1 TTATTA-TTACTA
45859814 TTATTATCTTTACTA
1 TTATTA---TTACTA
* *
45859829 TTATTGTTAGTA
1 TTATTATTACTA
*
45859841 TTATTACTACTA
1 TTATTATTACTA
45859853 TTATTATTACTA
1 TTATTATTACTA
45859865 T
1 T
45859866 CATGTATTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
12 32 0.58
13 11 0.20
15 12 0.22
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:45863626 original size:21 final size:22
Alignment explanation
Indices: 45863578--45863628 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
45863568 ATTAATTTGT
45863578 AAAAAAAA-TAAAACAATAGTA
1 AAAAAAAATTAAAACAATAGTA
* * *
45863599 TATAAAAATTAAAA-AATATTA
1 AAAAAAAATTAAAACAATAGTA
45863620 AAAAAAAAT
1 AAAAAAAAT
45863629 GCTCATTCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAAAAATTAAAACAATAGTA
Found at i:45875605 original size:75 final size:71
Alignment explanation
Indices: 45875500--45876958 Score: 860
Period size: 72 Copynumber: 19.6 Consensus size: 71
45875490 TCTTTCAAAA
*
45875500 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
45875565 TATGTTTGTC
64 TAT-TTT-TC
*
45875575 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
45875640 TTTTTC
66 TTTTTC
* * * * *
45875646 AAAAACCAACTCATACTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTATTTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
* **
45875710 CTGCTC
66 TTTTTC
* ** * * * * * * * * * **
45875716 --ACAT-TGC-GAGA--G-GTGAGTTGAGCCTCAG---GA-CACACTG-AG-GTAATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACAC-GCTGAGGTATTTTCAATT
* *
45875768 TCTGTTGTTAAAA
64 TAT-TT-TT---C
** * * *
45875781 AAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
45875846 TGTTTTC
66 T-TTTTC
* ** * *
45875853 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA--TT
*
45875918 TGTTTTTC
64 TATTTTTC
* * *
45875926 AAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTT
1 -------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
*
45875991 CAATTTCTGTTTTC
59 CAATTTAT-TTTTC
* * * *
45876005 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
45876070 TGTGTTTC
66 T-T-TTTC
** * * * * * * ** * * ** * *
45876078 AATCTATTTTTCAAAAAATCA-ACT-CATATTACGAGAAATGAG-TTGAGCCTCAGGAC--ACGC
1 AA---A--AATC---AACTCATATTGC-GA-GAGGTGAGTTGAGCCTCAG-GACACG-CTGA-GG
* * *
45876138 TGAGGTAATTTCAATTTCTGTTTGTC
53 T-A--T-TTTC-AATTTAT-TTT-TC
* *
45876164 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTT
*
45876228 CTGCTTTTC
65 AT--TTTTC
* ** * * * * * * *
45876237 AATTTATATTTTTCAA-AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGC
1 AA---A-A---ATCAACTCATATT--GC-GAGA--G-GTGAGTT-----GAGCCTCAGGACACGC
* *
45876301 TGAGGTAATTTTCAATTTCTGTTGTTAAA
48 TGAGGT-ATTTTCAATTTAT-TT-TT--C
** * *
45876330 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
45876395 TGTTTTC
66 T-TTTTC
* * * ** * *
45876402 AAAATTCAACTCATATTGTGTGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA--TT
*
45876467 TGTTTTTC
64 TATTTTTC
* * *
45876475 AAAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTC
1 -----AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
*
45876540 AATTTCTATTTTC
60 AATTTAT-TTTTC
* * *
45876553 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
45876617 TGTTTTC
66 T-TTTTC
* * * * *
45876624 AAAATTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
45876689 TGTTTTC
66 T-TTTTC
* *
45876696 AAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTATTTTCAATTT
*
45876760 CTGTTTTC
65 AT-TTTTC
* ** * * *
45876768 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
45876833 TGTTTTC
66 T-TTTTC
* *
45876840 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCA
*
45876904 ATTTCTGTCTTTC
61 ATTTAT-T-TTTC
*
45876917 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
45876959 ATCACACACT
Statistics
Matches: 1107, Mismatches: 176, Indels: 199
0.75 0.12 0.13
Matches are distributed among these distances:
59 12 0.01
60 5 0.00
61 3 0.00
62 1 0.00
63 8 0.01
64 4 0.00
66 2 0.00
67 4 0.00
68 3 0.00
69 2 0.00
70 3 0.00
71 130 0.12
72 387 0.35
73 51 0.05
74 51 0.05
75 63 0.06
76 64 0.06
77 48 0.04
78 34 0.03
79 62 0.06
80 68 0.06
81 25 0.02
82 4 0.00
83 1 0.00
84 4 0.00
85 9 0.01
86 16 0.01
87 4 0.00
89 3 0.00
90 20 0.02
91 14 0.01
93 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
TTTTTC
Found at i:45875697 original size:71 final size:73
Alignment explanation
Indices: 45875500--45875709 Score: 325
Period size: 71 Copynumber: 2.9 Consensus size: 73
45875490 TCTTTCAAAA
*
45875500 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
45875565 TATGTTTGTC
64 TATGTTTGTC
*
45875575 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
45875640 T-TTT-TC
66 TGTTTGTC
* * * * *
45875646 AAAAACCAACTCATACTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
45875710 CTGCTCACAT
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
71 60 0.47
72 3 0.02
73 23 0.18
75 41 0.32
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
TGTTTGTC
Found at i:45875839 original size:129 final size:125
Alignment explanation
Indices: 45875584--45875833 Score: 293
Period size: 135 Copynumber: 1.9 Consensus size: 125
45875574 CAAAAATCAA
* * * *
45875584 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTATTTTTCAAA
1 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTATTTTTAAAA
** * *
45875649 AACCAACTCATACTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
66 AACCAACTCATACTGCGAGAAATAAGTTAAGCCTCAAGACACGCTGAGG----TTCAATTTCTG
*
45875713 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTGTTGTTA
1 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGT-ATTTTCAATTTAT-TT-TT-
* * * *
45875778 AAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAGGACACGCTGAGGT
62 --AAAAAACCAACTCATACTGCGAGAAATAAGTTAAGCCTCAAGACACGCTGAGGT
45875834 AATTTCAATT
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
129 41 0.40
130 12 0.12
131 3 0.03
132 2 0.02
135 44 0.43
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (125 bp):
CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTATTTTTAAAA
AACCAACTCATACTGCGAGAAATAAGTTAAGCCTCAAGACACGCTGAGGTTCAATTTCTG
Found at i:45875888 original size:72 final size:72
Alignment explanation
Indices: 45875713--45876958 Score: 1187
Period size: 72 Copynumber: 16.4 Consensus size: 72
45875703 TCAATTTCTG
* *
45875713 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTGTTGTTA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-TTTCAATTTCTGTT-TT-
*
45875778 AAAAAAAATCAA
63 --CAAAAATCAA
** *
45875790 CTCATATTGCGAGAAATAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
45875855 AATTCAA
66 AAATCAA
** * * * *
45875862 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-
45875927 AAAAAAAAAAATCAA
64 ------AAAAATCAA
* *
45875942 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
45876007 AAATCAA
66 AAATCAA
* * *
45876014 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTGTCAATTTTTGTGTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTTCTGT-TTTC
**
45876078 AATCTATTTTTCAAAAA
64 AA---A--AATC---AA
* * ** *
45876095 ATCAACTCATAT--TACGA-GAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 CTC-A-T-AT-TGCGA-GAGGTGA-G-TT-GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
45876157 GTTTGTCAAAAATCAA
58 GTTT-TCAAAAATCAA
*
45876173 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTTCTGCTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC
*
45876237 AATTTATATTTTTCAA
64 AA---A-A---ATCAA
** * * * * * * *
45876253 -AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTTCAAT
1 CTCATATT--GC-GAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTGAGGTAA-TTTCAAT
*
45876317 TTCTGTTGTTAAAAAAAATCAA
54 TTCTGTT-TT--CAAAAATCAA
**
45876339 CTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
45876404 AATTCAA
66 AAATCAA
* * ** * * * *
45876411 CTCATATTGTGTGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-
45876476 AAAAAAAAATTCAA
64 ----AAAAA-TCAA
* * *
45876490 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTTCTATTTTC-A
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
45876554 AAATCAA
66 AAATCAA
*
45876561 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
45876626 AATTCAA
66 AAATCAA
* *
45876633 CTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
*
45876698 AAATAAA
66 AAATCAA
45876705 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAGGTAATTTCAATTTCTGTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTTCTGTTTTCA
*
45876769 AAATTCAA
65 AAAATCAA
** * * *
45876777 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTC--
45876842 AAAAATCAA
64 AAAAATCAA
* * *
45876851 CTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTGT-TT
45876915 TCAAAAAAATCAA
62 TC--AAAAATCAA
*
45876928 CTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG
45876959 ATCACACACT
Statistics
Matches: 988, Mismatches: 107, Indels: 147
0.80 0.09 0.12
Matches are distributed among these distances:
71 69 0.07
72 386 0.39
73 52 0.05
74 44 0.04
75 21 0.02
76 65 0.07
77 85 0.09
78 16 0.02
79 60 0.06
80 64 0.06
81 14 0.01
82 3 0.00
83 5 0.01
84 8 0.01
85 13 0.01
86 38 0.04
87 7 0.01
89 3 0.00
90 19 0.02
91 14 0.01
93 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (72 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAA
AAATCAA
Found at i:45876620 original size:222 final size:217
Alignment explanation
Indices: 45875713--45876953 Score: 1395
Period size: 222 Copynumber: 5.5 Consensus size: 217
45875703 TCAATTTCTG
* * ** *
45875713 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTTCAATTTCTGTTGTTA
1 CTCATATTGTGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGT-ATTTTCAATTTCTGTT-TTT
* ** *
45875778 AAAAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAA
63 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACGCTGAGGTAATTTCAA
* *
45875842 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
127 TTTCTGTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
* * *
45875907 TTTTCAATTTTTGTTTTTCAAAAAAAAAAAATCAA
191 ATTTCAATTTCTG-TTTTC-------AAAATTCAA
* *
45875942 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTAATTTCAATTTCTG-TTTTC-
1 CTCATATTGTGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTATTTTCAATTTCTGTTTTTCA
* *
45876005 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGT-ATTGTCAATT
65 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATT-TCAA--
* *
45876068 TTTGTGTTTCAATCTATTTTTCAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGA
127 -------TT---TCT-GTTTTC--AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
*
45876133 CACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAA
179 CACGCTGAGGTAATTTCAATTTCTGTTT-TCAAAATTCAA
* * * *
45876173 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTTCTGCTTTTC
1 CTCATATTGTGAGAGGTGAGTTGAGCCTC--GGACATGCTGAGGTATTTTCAATTTCTG------
45876237 AATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-ATGACACGC
58 --------TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACGC
*
45876301 TGAGGTAATTTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
113 TGAGGTAA-TTTCAATTTCTGTT-TT---CAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
45876366 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAA
173 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAA
* ** * *
45876411 CTCATATTGTGTGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTTTTCA
1 CTCATATTGTGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTATTTTCAATTTCTGTTTTTC-
* *
45876476 AAAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCA
64 --AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCA
* ** *
45876541 ATTTCTATTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
126 ATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
45876606 ATTTCAATTTCTGTTTTCAAAATTCAA
191 ATTTCAATTTCTGTTTTCAAAATTCAA
* *
45876633 CTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-
1 CTCATATTGTGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTATTTTCAATTTCTGTTTTTCA
*
45876696 -AAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTT
65 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTT
* * *
45876760 CTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
130 CTGTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
45876825 TCAATTTCTGTTTTCAAAAAAATCAA
194 TCAATTTCTGTTTTC--AAAATTCAA
* * *
45876851 CTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTT
1 CTCATATTGTGAGAGGTGAGTTGAGCCTCGG---ACATGCTGAGGTATTTTCAATTTCTGTTTTT
45876916 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
45876954 TTCAGATCAC
Statistics
Matches: 886, Mismatches: 68, Indels: 122
0.82 0.06 0.11
Matches are distributed among these distances:
215 67 0.08
216 66 0.07
217 2 0.00
218 35 0.04
220 24 0.03
221 9 0.01
222 127 0.14
223 37 0.04
224 57 0.06
225 2 0.00
226 15 0.02
227 56 0.06
228 13 0.01
229 40 0.05
231 61 0.07
232 2 0.00
233 2 0.00
236 3 0.00
237 12 0.01
238 120 0.14
239 72 0.08
241 2 0.00
246 5 0.01
248 5 0.01
249 45 0.05
250 5 0.01
251 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (217 bp):
CTCATATTGTGAGAGGTGAGTTGAGCCTCGGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAA
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCTGTTTTCAAAATTCAA
Found at i:45878868 original size:15 final size:17
Alignment explanation
Indices: 45878840--45878871 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
45878830 TTGTATATAT
45878840 TATATTTATATTATGTA
1 TATATTTATATTATGTA
45878857 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
45878872 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:45879495 original size:18 final size:18
Alignment explanation
Indices: 45879474--45879518 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
45879464 AAAATTCAGG
45879474 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
45879492 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
45879509 TTT-AAAAATT
1 TTTCAAAAATT
45879519 CTCATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:45882646 original size:29 final size:30
Alignment explanation
Indices: 45882601--45882658 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
45882591 TAAAATTATA
45882601 ATATTAAATAATTTATTAAAATATTAAATT
1 ATATTAAATAATTTATTAAAATATTAAATT
* *
45882631 ATATT-AATAATTTATTATATTATTAAAT
1 ATATTAAATAATTTATTAAAATATTAAAT
45882659 ATGAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
ATATTAAATAATTTATTAAAATATTAAATT
Found at i:45882667 original size:29 final size:29
Alignment explanation
Indices: 45882582--45882667 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 29
45882572 GTTAAACTTG
45882582 TTATTAAAATA--AAATTATAATATTAAATAAT
1 TTATTAAAATATTAAATTAT-A-A-T-AATAAT
*
45882613 TTATTAAAATATTAAATTATATTAATAAT
1 TTATTAAAATATTAAATTATAATAATAAT
* *
45882642 TTATTATATTATTAAA-TATGAATAAT
1 TTATTAAAATATTAAATTAT-AATAAT
45882668 TAAATATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
28 3 0.06
29 25 0.52
30 1 0.02
31 11 0.23
32 1 0.02
33 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TTATTAAAATATTAAATTATAATAATAAT
Found at i:45886350 original size:13 final size:13
Alignment explanation
Indices: 45886332--45886366 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
45886322 CTACCCCAAT
*
45886332 AAAAGAAGGAAAG
1 AAAAGAAGGAAAA
45886345 AAAAGAA-GAAAA
1 AAAAGAAGGAAAA
45886357 AAAAGAAGGA
1 AAAAGAAGGA
45886367 GAATTTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAAGAAGGAAAA
Found at i:45905971 original size:16 final size:17
Alignment explanation
Indices: 45905938--45905971 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
45905928 GGGGATGACG
*
45905938 TTTGTTTGATTTTTATT
1 TTTGTTTGATTATTATT
45905955 TTTGTTT-ATTATTATT
1 TTTGTTTGATTATTATT
45905971 T
1 T
45905972 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATTATTATT
Found at i:45908964 original size:22 final size:22
Alignment explanation
Indices: 45908936--45908978 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
45908926 TAGGGGTTGT
45908936 TTATTAAACTAATT-AACTAAAC
1 TTATT-AACTAATTAAACTAAAC
45908958 TTATTAACTAATTAAACTAAA
1 TTATTAACTAATTAAACTAAA
45908979 GTGAAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTATTAACTAATTAAACTAAAC
Found at i:45917217 original size:13 final size:13
Alignment explanation
Indices: 45917199--45917229 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
45917189 GGGGTTGTTT
45917199 ATTAAACTAATTA
1 ATTAAACTAATTA
45917212 ATTAAACTAATTA
1 ATTAAACTAATTA
45917225 ATTAA
1 ATTAA
45917230 TTAAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTAAACTAATTA
Found at i:45917228 original size:17 final size:17
Alignment explanation
Indices: 45917206--45917238 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45917196 TTTATTAAAC
45917206 TAATTAATTAAACTAAT
1 TAATTAATTAAACTAAT
45917223 TAATTAATTAAACTAA
1 TAATTAATTAAACTAA
45917239 AGTGAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATTAATTAAACTAAT
Found at i:45926241 original size:46 final size:44
Alignment explanation
Indices: 45926075--45926326 Score: 172
Period size: 46 Copynumber: 5.5 Consensus size: 44
45926065 ATATGTGTGC
** * * *
45926075 CAGTGTAAGACATGTCTGGGACATGCATCAACCT-CGGGACGTAAGC
1 CAGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGA--TATGT
* * *
45926121 CAGTGTAAAACATGTCTAGGACATGCATCGGCTACGAGATGTGT
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGT
*
45926165 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATATGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GAGATATGT
* * * * *
45926211 GCTAGTGTAAGACTTGTCTGGGACATGCATCAGCCACATCGTGA-AAG-
1 -C-AGTGTAAGACATGTCTGGGACATGCATC-GGC-TA-CGAGATATGT
* * * *
45926258 CTAGTGTAAGACCATGCCTGGGACATGGCATCGGCT-TGATATGTGT
1 C-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATATGT
*
45926304 CAGTGTAAGACCTGTCTGGGACA
1 CAGTGTAAGACATGTCTGGGACA
45926327 CAACATCAAC
Statistics
Matches: 164, Mismatches: 28, Indels: 30
0.74 0.13 0.14
Matches are distributed among these distances:
44 24 0.15
45 27 0.16
46 63 0.38
47 30 0.18
48 16 0.10
49 3 0.02
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (44 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGT
Found at i:45926320 original size:138 final size:136
Alignment explanation
Indices: 45926064--45926326 Score: 343
Period size: 138 Copynumber: 1.9 Consensus size: 136
45926054 CAGTGCAAGT
* *
45926064 GATATGTGTGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGGGACGTAAGCCAGTGTAA
1 GATATATGTGCCAGTGTAAGACATGTCTGGGACATGCATCAACATCGGGAC--AAGCCAGTGTAA
*
45926129 AACATGTCTAGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCA
64 AACATGCCTAGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCA
45926194 TCGGCACG
129 TCGGCACG
* * * *
45926202 GATATATGTGCTAGTGTAAGACTTGTCTGGGACATGCATCAGCCACATCGTGA-AAGCTAGTGTA
1 GATATATGTGCCAGTGTAAGACATGTCTGGGACATGCATCA---ACATCGGGACAAGCCAGTGTA
* * * *
45926266 AGACCATGCCTGGGACATGGCATCGGCT-TGATATGTGTCAGTGTAAGACC-TGTCTGGGACA
63 A-AACATGCCTAGGACAT-GCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACA
45926327 CAACATCAAC
Statistics
Matches: 109, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
138 60 0.55
139 33 0.30
140 9 0.08
141 7 0.06
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (136 bp):
GATATATGTGCCAGTGTAAGACATGTCTGGGACATGCATCAACATCGGGACAAGCCAGTGTAAAA
CATGCCTAGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATC
GGCACG
Found at i:45926354 original size:94 final size:94
Alignment explanation
Indices: 45926166--45926336 Score: 240
Period size: 94 Copynumber: 1.8 Consensus size: 94
45926156 GAGATGTGTC
* *
45926166 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATATGTGCTAGTGTAAGACTTGTCTG
1 AGTGTAAGACCATGCCTGGGACATGGCATCGGCACGGATATATGTGCTAGTGTAAGACCTGTCTG
** *
45926231 GGACATGCATCAGCCACATCGTGAAAGCT
66 GGACAAACATCAACCACATCGTGAAAGCT
** *
45926260 AGTGTAAGACCATGCCTGGGACATGGCATCGGC-TTGATATGTGT-C-AGTGTAAGACCTGTCTG
1 AGTGTAAGACCATGCCTGGGACATGGCATCGGCACGGATATATGTGCTAGTGTAAGACCTGTCTG
45926322 GGACACAACATCAAC
66 GGACA-AACATCAAC
45926337 ACAGATGGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 21 0.31
92 7 0.10
93 8 0.12
94 32 0.47
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATGCCTGGGACATGGCATCGGCACGGATATATGTGCTAGTGTAAGACCTGTCTG
GGACAAACATCAACCACATCGTGAAAGCT
Found at i:45932008 original size:21 final size:22
Alignment explanation
Indices: 45931962--45932012 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
45931952 TACAGGGCTC
45931962 ACACGCCCGTGTGGTCCGAGGG
1 ACACGCCCGTGTGGTCCGAGGG
45931984 ACACGCCCGTGTGGTCCGA-GG
1 ACACGCCCGTGTGGTCCGAGGG
45932005 ACACGCCC
1 ACACGCCC
45932013 ATGCTGTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCGAGGG
Found at i:45934617 original size:18 final size:18
Alignment explanation
Indices: 45934594--45934628 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45934584 ATAATATTCA
*
45934594 TTTATTCAGTATCAGTCG
1 TTTATTCAGTAACAGTCG
*
45934612 TTTATTCTGTAACAGTC
1 TTTATTCAGTAACAGTC
45934629 AATTATTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (18 bp):
TTTATTCAGTAACAGTCG
Found at i:45934781 original size:6 final size:6
Alignment explanation
Indices: 45934772--45934810 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
45934762 CACTGTAAGG
*
45934772 GTAACA GTAACA GTAACA GTAACA GTAACA GTAGCA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
45934811 CATAAAGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:45937143 original size:55 final size:53
Alignment explanation
Indices: 45937016--45937210 Score: 169
Period size: 55 Copynumber: 3.6 Consensus size: 53
45937006 TTACCATTGT
* * * *
45937016 CATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGATCTCACCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATGAACTCACCAATGC
* * * *
45937069 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGACTTATAGTAACTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCC-TTGACTTAT-G-AACTCACCAATGC
* *** * *
45937124 CATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATG-AA-CTCACCAA-TGC
* * *
45937179 CATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGGATCCTT
45937211 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 8 0.07
55 68 0.60
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGACTTATGAACTCACCAATGC
Found at i:45937359 original size:40 final size:40
Alignment explanation
Indices: 45937314--45937409 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
45937304 TTTTTTGAAT
45937314 AATTTCATAAAATAAATATACACATGCTGGAAATTAACAA
1 AATTTCATAAAATAAATATACACATGCTGGAAATTAACAA
*
45937354 AATTTCATAAAATAAATATACACATGCTGGCAATTAACAA
1 AATTTCATAAAATAAATATACACATGCTGGAAATTAACAA
*
45937394 AATTAACATAAAATAA
1 AATT-TCATAAAATAA
45937410 TAGAATATTG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
40 43 0.81
41 10 0.19
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.27
Consensus pattern (40 bp):
AATTTCATAAAATAAATATACACATGCTGGAAATTAACAA
Found at i:45938667 original size:17 final size:19
Alignment explanation
Indices: 45938633--45938670 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
45938623 AAACCTTTAA
45938633 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
45938652 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
45938669 TT
1 TT
45938671 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:45945994 original size:55 final size:55
Alignment explanation
Indices: 45945907--45946161 Score: 257
Period size: 55 Copynumber: 4.8 Consensus size: 55
45945897 ATTAGGGTTT
* *
45945907 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCATAAGGC
* * * * *
45945962 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-ATAAGGC
* * *
45946017 AAATG-TCCCATGTAAGACCATGCCAA-AGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGA-CATGGCAATTGGTAAGTTTCATAAGGC
*
45946070 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGGC
* * *
45946119 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
45946162 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 22, Indels: 22
0.79 0.10 0.10
Matches are distributed among these distances:
49 40 0.24
52 5 0.03
53 42 0.25
54 15 0.09
55 65 0.38
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGGC
Found at i:45946113 original size:108 final size:109
Alignment explanation
Indices: 45945917--45946122 Score: 310
Period size: 108 Copynumber: 1.9 Consensus size: 109
45945907 AAGGATACCG
* *
45945917 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAAGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
45945982 TGTCAAGACATGGCATTGATAAGTTACAATAAGGCAAATGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACAA-AAGGCAAATGTCCCA
* *
45946027 TGTAAGACCATGCCAAAGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAAGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
* *
45946089 ATGTCAAGACATGGCAATGGTAAGTTTCAAAAGG
65 ATGTCAAGACATGGCAATGATAAGTTACAAAAGG
45946123 ATACCACGTA
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
107 7 0.08
108 51 0.58
109 7 0.08
110 23 0.26
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (109 bp):
TGTAAGACCATGCCAAAGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACAAAAGGCAAATGTCCCA
Found at i:45946379 original size:16 final size:16
Alignment explanation
Indices: 45946358--45946388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45946348 ATAAATTTGA
45946358 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
45946374 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
45946389 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:45960278 original size:19 final size:21
Alignment explanation
Indices: 45960233--45960281 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
45960223 CCGAGTCACA
*
45960233 ATAAAAGAAAAAATAAAAAGAT
1 ATAAAA-ATAAAATAAAAAGAT
45960255 ATAAAAATAAAA-AAAAA-AT
1 ATAAAAATAAAATAAAAAGAT
*
45960274 TTAAAAAT
1 ATAAAAAT
45960282 TTAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 5 0.20
21 5 0.20
22 6 0.24
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (21 bp):
ATAAAAATAAAATAAAAAGAT
Found at i:45965770 original size:42 final size:42
Alignment explanation
Indices: 45965711--45965794 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
45965701 AAAAAAGATA
45965711 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
1 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
45965753 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
1 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
45965795 GAGAGACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (42 bp):
AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
Found at i:45966290 original size:20 final size:20
Alignment explanation
Indices: 45966252--45966290 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45966242 GATGTGATAC
* *
45966252 ATTAACTAGCCATATTGGAT
1 ATTAACTAGCCACAGTGGAT
45966272 ATTAACTAGCCACAGTGGA
1 ATTAACTAGCCACAGTGGA
45966291 AACCCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
ATTAACTAGCCACAGTGGAT
Found at i:45968670 original size:49 final size:49
Alignment explanation
Indices: 45968547--45968728 Score: 164
Period size: 47 Copynumber: 3.8 Consensus size: 49
45968537 TATGAGATGT
*
45968547 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAAATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCG-AATGTGAGA
* * * * *
45968597 GTTAGTGTAAGACCATGT-TTGGACATGGCGTCGGC-CTCG-ATTTCGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGAATGT-GAGA
* * *
45968645 GTCAGTGTAGGACCATGTCTGGGACATGGCATC--AACTTG-ATG-GATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGAATGTGA-GA
*
45968692 G-CTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
45968729 TTATACCCTA
Statistics
Matches: 107, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
46 3 0.03
47 33 0.31
48 25 0.23
49 29 0.27
50 17 0.16
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAATGTGAGA
Found at i:45986960 original size:28 final size:28
Alignment explanation
Indices: 45986920--45987073 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
45986910 TAAATTGTAC
45986920 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
45986948 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
45986976 AGCACTAGGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
45987004 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
45987032 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
45987059 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45987074 GACTTAATAT
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 23 0.19
28 97 0.81
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:45986988 original size:56 final size:56
Alignment explanation
Indices: 45986895--45987073 Score: 261
Period size: 56 Copynumber: 3.2 Consensus size: 56
45986885 GAGATTGGCG
* * * *
45986895 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* *
45986952 CTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* *
45987008 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
45987063 CTGAGTGTGCG
1 CTAAGTGTGCG
45987074 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
55 23 0.21
56 73 0.66
57 15 0.14
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:45990870 original size:61 final size:62
Alignment explanation
Indices: 45990745--45990871 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 62
45990735 TTCTTCATCT
* * * ** * * * *
45990745 TTTTTTAAATACTTAATATTCAATTTCGAATCTTGTATGATAAGTAATATATTAGTTTAGTA
1 TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAATTGAGTA
*
45990807 TTTTTTAAGGACTTAATACTCAATTT-GAATCTTCTACAATAAGTAAGATAATAATCTGA-TA
1 TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAAT-TGAGTA
45990868 TTTT
1 TTTT
45990872 GAATTTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
61 29 0.54
62 25 0.46
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (62 bp):
TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAATTGAGTA
Found at i:45991070 original size:18 final size:18
Alignment explanation
Indices: 45991025--45991079 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
45991015 CACAATAAAG
*
45991025 AAAA-ATAAAAAGATATA
1 AAAATATAAAAAAATATA
* *
45991042 AAAATAAAAAAAAATTTA
1 AAAATATAAAAAAATATA
* *
45991060 AAAATTTAAAAAATTATA
1 AAAATATAAAAAAATATA
45991078 AA
1 AA
45991080 CAATTGAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATATAAAAAAATATA
Done.