Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 163 of 235
Found at i:55028244 original size:27 final size:26
Alignment explanation
Indices: 55028133--55028246 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 26
55028123 AGCATGGCTG
* * *
55028133 CCAGAACAGATATTGCGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
55028159 CCAAATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
55028186 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
*
55028214 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
55028241 CCAGAA
1 CCAGAA
55028247 GGCTTCCTCC
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
26 4 0.05
27 55 0.71
28 19 0.24
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:55028678 original size:8 final size:8
Alignment explanation
Indices: 55028665--55028695 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
55028655 AATGCAGGCT
*
55028665 TTTCGGCG
1 TTTCGGCA
55028673 TTTCGGCA
1 TTTCGGCA
55028681 TTTCGGCA
1 TTTCGGCA
55028689 TTTCGGC
1 TTTCGGC
55028696 TTTTACCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.06, C:0.26, G:0.29, T:0.39
Consensus pattern (8 bp):
TTTCGGCA
Found at i:55030742 original size:46 final size:46
Alignment explanation
Indices: 55030690--55030958 Score: 266
Period size: 46 Copynumber: 5.8 Consensus size: 46
55030680 TGTTTGGGCA
*
55030690 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
55030736 TTCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
* *
55030781 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
55030829 TTCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--AGG
* * *
55030874 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* *
55030922 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55030959 GCGGGTTACA
Statistics
Matches: 184, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.01
43 14 0.08
44 2 0.01
45 4 0.02
46 89 0.48
47 52 0.28
48 4 0.02
49 2 0.01
50 13 0.07
51 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:55030811 original size:47 final size:47
Alignment explanation
Indices: 55030742--55030904 Score: 210
Period size: 47 Copynumber: 3.5 Consensus size: 47
55030732 AATGTTCGAA
55030742 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
* * * * *
55030789 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAA--ATG--TTCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCGA--GA--GATGTAACTAGGCATCCGAG
55030835 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
55030882 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
55030905 ACTTATGGAT
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 28 0.29
47 51 0.53
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
Found at i:55030845 original size:93 final size:93
Alignment explanation
Indices: 55030686--55030950 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
55030676 AGGATGTTTG
*
55030686 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
55030751 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
55030779 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
55030844 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * ** *
55030872 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
55030937 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55030951 ACTTATGGGC
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:55038894 original size:27 final size:27
Alignment explanation
Indices: 55038860--55038962 Score: 145
Period size: 27 Copynumber: 3.8 Consensus size: 27
55038850 CTGCCAGAAT
* * *
55038860 AGATATTGCGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGATAC
*
55038887 AGATATTGTGGCAGAGCCACCAGAAAC
1 AGATATTGTGGCAGAGCCACCAGATAC
55038914 AGATATTTGTGGCAGAGCCACCAGAT-C
1 AGATA-TTGTGGCAGAGCCACCAGATAC
55038941 AGATATTTGTGGCAGAGCCACC
1 AGATA-TTGTGGCAGAGCCACC
55038963 GAAAGGCTTC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 51 0.73
28 19 0.27
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:55041178 original size:28 final size:28
Alignment explanation
Indices: 55041146--55041239 Score: 116
Period size: 28 Copynumber: 3.4 Consensus size: 28
55041136 CGATATTTTG
* *
55041146 CACACGAAGTGTCATTCTCAATATCTCA
1 CACACTAAGTGCCATTCTCAATATCTCA
* *
55041174 CACACTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTGCCATTCTCAATATCTCA
* * *
55041202 TACACTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTGCCATTCTCAATATCTCA
*
55041230 TACACTAAGT
1 CACACTAAGT
55041240 ACCTTATTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.32
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCA
Found at i:55049161 original size:12 final size:12
Alignment explanation
Indices: 55049144--55049168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55049134 TATGTATGTT
55049144 TGAAAATTTTTA
1 TGAAAATTTTTA
55049156 TGAAAATTTTTA
1 TGAAAATTTTTA
55049168 T
1 T
55049169 TATTTGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:55051242 original size:10 final size:11
Alignment explanation
Indices: 55051227--55051295 Score: 76
Period size: 11 Copynumber: 6.7 Consensus size: 11
55051217 ATTTTGATAT
*
55051227 ACATGATTTG-
1 ACATGATATGC
55051237 ACATGATATGC
1 ACATGATATGC
55051248 ACATGATATG-
1 ACATGATATGC
*
55051258 -TATGATATGC
1 ACATGATATGC
55051268 ACATGATATG-
1 ACATGATATGC
*
55051278 -TATGATATGC
1 ACATGATATGC
55051288 ACATGATA
1 ACATGATA
55051296 AATTCATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
9 16 0.33
10 9 0.18
11 24 0.49
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:55051264 original size:20 final size:20
Alignment explanation
Indices: 55051239--55051295 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
55051229 ATGATTTGAC
55051239 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
55051259 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
55051279 ATGATATGCACATGATA
1 ATGATATGCACATGATA
55051296 AATTCATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:55051377 original size:25 final size:25
Alignment explanation
Indices: 55051343--55051412 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
55051333 GAGGAAGTGC
55051343 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
55051368 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
55051393 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55051413 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:55051424 original size:24 final size:24
Alignment explanation
Indices: 55051343--55051425 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
55051333 GAGGAAGTGC
*
55051343 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
55051368 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTAT-G
* *
55051393 AAAAAGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
55051416 AAAAGAGGCT
1 AAAAG-GGCT
55051426 AGGCCTCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 40 0.77
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:55051672 original size:31 final size:31
Alignment explanation
Indices: 55051634--55051712 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
55051624 CATTTGTAGT
**
55051634 AAAGGCTTCGGCCCAGTGGTATGAATAATGA
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
* *
55051665 AAAGGCTTCGGCCCAGTGACATGGATAATGT
1 AAAGGCTTCGGCCCAGTGACATGAATAATGA
55051696 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
55051713 ATATGCTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGACATGAATAATGA
Found at i:55071051 original size:29 final size:29
Alignment explanation
Indices: 55070904--55071043 Score: 153
Period size: 29 Copynumber: 4.9 Consensus size: 29
55070894 TACATACATG
55070904 CATATGGCCCACTT-GGCCC--ATC-TCATT
1 CATATGGCCCA-TTAGGCCCAAATCAT-ATT
* * * * * *
55070931 CATATGGTCTATCAGGCCGAATTCACATT
1 CATATGGCCCATTAGGCCCAAATCATATT
55070960 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
* *
55070989 CATATGGCCCGTTAGGCCCAATTCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
*
55071018 CATATGACCCATTAGGCCCAAATCAT
1 CATATGGCCCATTAGGCCCAAATCAT
55071044 CTTTATATTC
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 13 0.14
29 78 0.85
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCATATT
Found at i:55079228 original size:29 final size:29
Alignment explanation
Indices: 55079186--55079281 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
55079176 TGGCCCATCT
55079186 CATTCATATAGCCCATCAGGCCCAATTCA
1 CATTCATATAGCCCATCAGGCCCAATTCA
* *
55079215 CATTCATATGGCCCATCAGGCCCAAATCA
1 CATTCATATAGCCCATCAGGCCCAATTCA
*
55079244 TATTCATATAGCCCATTC-GGCCCAATTCA
1 CATTCATATAGCCCA-TCAGGCCCAATTCA
**
55079273 TTTTCATAT
1 CATTCATAT
55079282 TACCAATTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 58 0.97
30 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.29
Consensus pattern (29 bp):
CATTCATATAGCCCATCAGGCCCAATTCA
Found at i:55079266 original size:58 final size:58
Alignment explanation
Indices: 55079187--55079301 Score: 160
Period size: 58 Copynumber: 2.0 Consensus size: 58
55079177 GGCCCATCTC
* *
55079187 ATTCATATAGCCCATCAGGCCCAATTCACATTCATATGGCCCATCAGGCCCAAATCAT
1 ATTCATATAGCCCATCAGGCCCAATTCACATTCATATGACCAATCAGGCCCAAATCAT
** * *
55079245 ATTCATATAGCCCATTC-GGCCCAATTCATTTTCATATTACCAATTAGGCCCAAATCA
1 ATTCATATAGCCCA-TCAGGCCCAATTCACATTCATATGACCAATCAGGCCCAAATCA
55079302 CCTTTATATT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 48 0.96
59 2 0.04
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.28
Consensus pattern (58 bp):
ATTCATATAGCCCATCAGGCCCAATTCACATTCATATGACCAATCAGGCCCAAATCAT
Found at i:55079294 original size:29 final size:29
Alignment explanation
Indices: 55079187--55079297 Score: 109
Period size: 29 Copynumber: 3.8 Consensus size: 29
55079177 GGCCCATCTC
* *
55079187 ATTCATA-TAGCCCATCAGGCCCAATTCAC
1 ATTCATATTA-CCCATTAGGCCCAATTCAT
** * *
55079216 ATTCATATGGCCCATCAGGCCCAAATCAT
1 ATTCATATTACCCATTAGGCCCAATTCAT
*
55079245 ATTCATA-TAGCCCATTCGGCCCAATTCAT
1 ATTCATATTA-CCCATTAGGCCCAATTCAT
* *
55079274 TTTCATATTACCAATTAGGCCCAA
1 ATTCATATTACCCATTAGGCCCAA
55079298 ATCACCTTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
29 65 0.97
30 2 0.03
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.28
Consensus pattern (29 bp):
ATTCATATTACCCATTAGGCCCAATTCAT
Found at i:55079356 original size:29 final size:28
Alignment explanation
Indices: 55079324--55079395 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
55079314 TGCTCACACA
55079324 CAAATTTT-CTATCACATAGCATCACTTAT
1 CAAATTTTCCTAT--CATAGCATCACTTAT
*
55079353 CAAATTTTGCCTATTATAGCATCACTTAT
1 CAAATTTT-CCTATCATAGCATCACTTAT
55079382 CAAATTTTGCCTAT
1 CAAATTTT-CCTAT
55079396 TATGGGCCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 36 0.90
31 4 0.10
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (28 bp):
CAAATTTTCCTATCATAGCATCACTTAT
Found at i:55079396 original size:29 final size:29
Alignment explanation
Indices: 55079339--55079398 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
55079329 TTTCTATCAC
55079339 ATAGCATCACTTATCAAATTTTGCCTATT
1 ATAGCATCACTTATCAAATTTTGCCTATT
55079368 ATAGCATCACTTATCAAATTTTGCCTATT
1 ATAGCATCACTTATCAAATTTTGCCTATT
55079397 AT
1 AT
55079399 GGGCCCAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.42
Consensus pattern (29 bp):
ATAGCATCACTTATCAAATTTTGCCTATT
Found at i:55085090 original size:4 final size:4
Alignment explanation
Indices: 55085083--55085111 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
55085073 AATAAATAGA
55085083 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
55085112 TCTTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:55085665 original size:90 final size:90
Alignment explanation
Indices: 55085567--55085971 Score: 554
Period size: 90 Copynumber: 4.5 Consensus size: 90
55085557 CTTGTCTTCA
55085567 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
1 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
55085632 AAAAGTCAAATCTGCTATGTCTTTG
66 AAAAGTCAAATCTGCTATGTCTTTG
* *
55085657 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC-TTCA-GT-ATAAACATCT
1 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
* * * * * *
55085719 GAAGGTTAGATCTACTATGTGTTTG
66 AAAAGTCAAATCTGCTATGTCTTTG
* * ** * * * * ** *
55085744 CCCTCTGTTGAATATGGAGACGCCAG-AT--C-TGTTATCTTGGATCTGCTTTAATGTGAAAAAC
1 --ATTTGTT-CCT-TGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAAC
55085805 ATCTAAAAGTCAAATCTGCTATGTCTTTG
62 ATCTAAAAGTCAAATCTGCTATGTCTTTG
55085834 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
1 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
55085899 AAAAGTCAAATCTGCTATGTCTTTG
66 AAAAGTCAAATCTGCTATGTCTTTG
55085924 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTT
1 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTT
55085972 CAGTATAAAC
Statistics
Matches: 266, Mismatches: 38, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
86 8 0.03
87 45 0.17
88 11 0.04
89 11 0.04
90 183 0.69
91 8 0.03
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (90 bp):
ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
AAAAGTCAAATCTGCTATGTCTTTG
Found at i:55085865 original size:46 final size:46
Alignment explanation
Indices: 55085815--55085956 Score: 125
Period size: 45 Copynumber: 3.1 Consensus size: 46
55085805 ATCTAAAAGT
55085815 CAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGC
1 CAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGC
** * * ** * * *
55085861 CAAATCAT-CT-TGGATCTGCTTTAAT--GTGAAAAACATCTAA-AA-GT
1 CAAATC-TGCTATGTCTTTGATTTGTTCCTTG-TAAACA-C-AAGAATGC
55085905 CAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGC
1 CAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGC
55085951 CAAATC
1 CAAATC
55085957 ATCTTGGATC
Statistics
Matches: 68, Mismatches: 18, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
43 3 0.04
44 16 0.24
45 24 0.35
46 22 0.32
47 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (46 bp):
CAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGC
Found at i:55085985 original size:177 final size:178
Alignment explanation
Indices: 55085567--55085971 Score: 550
Period size: 177 Copynumber: 2.3 Consensus size: 178
55085557 CTTGTCTTCA
55085567 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
1 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
55085632 AAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
66 AAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * * * * *
55085697 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTTTGCC
131 ATCTGCTTAAGTAAAAACATCTAAAAGTCAAATCTACTATGTCTTTG-C
* * ** * * * * ** *
55085746 CTCTGTTGAATATGGAGACGCCAG-AT--C-TGTTATCTTGGATCTGCTTTAATGTGAAAAACAT
1 ATTTGTT-CCT-TGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACAT
55085807 CTAAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTT
64 CTAAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTT
*
55085872 GGATCTGCTTTAATGTGAAAAACATCTAAAAGTCAAATCTGCTATGTCTTTG-
129 GGATCTGC-TTAA-GT-AAAAACATCTAAAAGTCAAATCTACTATGTCTTTGC
55085924 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTT
1 ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTT
55085972 CAGTATAAAC
Statistics
Matches: 187, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
176 8 0.04
177 107 0.57
178 9 0.05
179 8 0.04
180 47 0.25
181 8 0.04
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (178 bp):
ATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAAAAACATCT
AAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTAAGTAAAAACATCTAAAAGTCAAATCTACTATGTCTTTGC
Found at i:55086042 original size:267 final size:267
Alignment explanation
Indices: 55085559--55086110 Score: 1005
Period size: 267 Copynumber: 2.1 Consensus size: 267
55085549 ATCTTCAACT
*
55085559 TGTCTTCAATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAA
1 TGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAA
55085624 AAACATCTAAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAAT
66 AAACATCTAAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAAT
* *
55085689 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTTTGCCCTCTGTTG
131 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCGTTG
* *
55085754 AATATGGAGACGCCAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAAACATCTAAAAGTCAAA
196 AATATGGAGACACCAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAAACATCTAAAAGCCAAA
55085819 TCTGCTA
261 TCTGCTA
*
55085826 TGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAA
1 TGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAA
55085891 AAACATCTAAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAAT
66 AAACATCTAAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAAT
*
55085956 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTACTATGTGTCTGCCCTCCGTTG
131 CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCGTTG
* * *
55086021 AATATGGAGACACCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAAATATCTGAAAGCCAAA
196 AATATGGAGACACCAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAAACATCTAAAAGCCAAA
55086086 TCTGCTA
261 TCTGCTA
*
55086093 TGTCTTCGATTTGCTCCT
1 TGTCTTCGATTTGTTCCT
55086111 CGTCGAAGAT
Statistics
Matches: 273, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
267 273 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (267 bp):
TGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTAATGTGAA
AAACATCTAAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAAT
CATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCCCTCCGTTG
AATATGGAGACACCAGATCTGTTATCTTGGATCTGCTTTAATGTGAAAAACATCTAAAAGCCAAA
TCTGCTA
Found at i:55090063 original size:44 final size:44
Alignment explanation
Indices: 55089920--55090076 Score: 182
Period size: 43 Copynumber: 3.6 Consensus size: 44
55089910 AGCTCATACA
* * *
55089920 ATGCCAACGTCCCAAACGTGGTCTTACATGT-AATC-AAGTGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAAGTAT-G
* * *
55089963 ATGCC-TCTGTCTCAGACATGGTCTTACACG-AAATCAAA-TATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCAAAGTATG
*
55090005 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCA-AAGTATG
55090049 ATGCCAACGTCCCAGACATGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
55090077 CGATAACACA
Statistics
Matches: 96, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
42 27 0.28
43 35 0.36
44 33 0.34
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAAGTATG
Found at i:55090077 original size:86 final size:85
Alignment explanation
Indices: 55089920--55090079 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 85
55089910 AGCTCATACA
* * *
55089920 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAGTGTCGATGCCTCTGTCTCAGACATGGT
1 ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAGTGTCGATGCCACTGTCCCAGACATGGT
55089985 CTTACACGAAATCAAATATG
66 CTTACACGAAATCAAATATG
* *
55090005 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAAGT-T-GATGCCAAC-GTCCCAGACA
1 ATGCCAACGTCCCAAACATGGTCTTACATGT-AATC--AAGTGTCGATGCC-ACTGTCCCAGACA
55090067 TGGTCTTACACGA
62 TGGTCTTACACGA
55090080 TAACACATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
85 28 0.42
86 32 0.48
87 2 0.03
88 4 0.06
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (85 bp):
ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAGTGTCGATGCCACTGTCCCAGACATGGT
CTTACACGAAATCAAATATG
Found at i:55094947 original size:94 final size:94
Alignment explanation
Indices: 55094841--55095058 Score: 260
Period size: 94 Copynumber: 2.3 Consensus size: 94
55094831 CGAGGTCGAT
* * * * * *
55094841 GCATGTCTCAGACATGTCTTACACTGGCACTCGTCTCTG-TGCCGGTGCCATGTCCCAAACATGG
1 GCATGTCCCAGACATGTCTTACACTAGCACTCGTCT-AGATGCCGATACCATGCCCCAAACATGG
* * *
55094905 TCTTACATTGGCTATCATAGTATGGCTGATA
65 TCTTACACTGGCTATCATAATATGGCCGA-A
* ** *
55094936 -CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTAGATGTTGATACCATGCCCCAGACATGGT
1 GCATGTCCCAGACATGTCTTACACTAGCACTCGTCTAGATGCCGATACCATGCCCCAAACATGGT
* *
55095000 CTTACACTGGCTCTCATAATGTGGCCGAA
66 CTTACACTGGCTATCATAATATGGCCGAA
*
55095029 GCATGTCCCAGACACGTCTTACACTAGCAC
1 GCATGTCCCAGACATGTCTTACACTAGCAC
55095059 ACAAATCACC
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 2 0.02
94 102 0.98
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GCATGTCCCAGACATGTCTTACACTAGCACTCGTCTAGATGCCGATACCATGCCCCAAACATGGT
CTTACACTGGCTATCATAATATGGCCGAA
Found at i:55095039 original size:47 final size:47
Alignment explanation
Indices: 55094694--55095053 Score: 151
Period size: 47 Copynumber: 7.7 Consensus size: 47
55094684 GGGATATATT
* * *
55094694 GCCGAT-GCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTATACGCG
1 GCCGATAG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATA-ATGTG
* * ** * * * *
55094743 TGCTGAT-GCATGTCCTAGACATGTCTTACACAAG-T-ACA-ACTCTTA
1 -GCCGATAGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GTG
* * * * *
55094788 GCCGATA-CGTTTCCCAGACACGTCTTACACTGGCTATCTC-T-GTCGAG
1 GCCGATAGCATGTCCCAGACATGTCTTACACTGGC--TCTCATAAT-GTG
* * * * * *
55094835 GTCGAT-GCATGTCTCAGACATGTCTTACACTGGCACTCGT-CTCTG
1 GCCGATAGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTG
* * * * * *
55094880 TGCCGGT-GCCATGTCCCAAACATGGTCTTACATTGGCTATCATAGTATG
1 -GCCGATAG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTG
* *
55094929 GCTGATA-CATGTCCCAGACATGTCTTACACTAGCCCTCGTC-TAGATGT-
1 GCCGATAGCATGTCCCAGACATGTCTTACACT-G-GCTC-TCATA-ATGTG
* * *
55094977 --TGATACCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATAGCATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTG
*
55095023 GCCGA-AGCATGTCCCAGACACGTCTTACACT
1 GCCGATAGCATGTCCCAGACATGTCTTACACT
55095054 AGCACACAAA
Statistics
Matches: 230, Mismatches: 56, Indels: 52
0.68 0.17 0.15
Matches are distributed among these distances:
44 25 0.11
45 11 0.05
46 37 0.16
47 85 0.37
48 46 0.20
49 20 0.09
50 6 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCGATAGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTG
Found at i:55096710 original size:21 final size:21
Alignment explanation
Indices: 55096686--55096727 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
55096676 CCTAGCTGAA
*
55096686 TTGTATAT-AGCATGGAATGAT
1 TTGT-TATGAGCATGAAATGAT
55096707 TTGTTATGAGCATGAAATGAT
1 TTGTTATGAGCATGAAATGAT
55096728 CAAGTTACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (21 bp):
TTGTTATGAGCATGAAATGAT
Found at i:55096854 original size:43 final size:43
Alignment explanation
Indices: 55096806--55096972 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 43
55096796 GATTCCGATA
*
55096806 TGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCAATT
1 TGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATCAATT
* * * *
55096849 TGTGATTTACATGTAAGACCATGTCTGAGACATCGGCATCGTATT
1 TGTGATTT-CATGTAAGACCACGTCTGGGACATTGGCATC-AATT
* * * * *
55096894 TGAG-TTT-GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATA
1 TGTGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATCAATT
* *
55096935 TGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
55096973 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 5 0.05
42 26 0.26
43 32 0.32
44 31 0.31
45 6 0.06
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTGATTTCATGTAAGACCACGTCTGGGACATTGGCATCAATT
Found at i:55096929 original size:42 final size:43
Alignment explanation
Indices: 55096809--55096932 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 43
55096799 TCCGATATGT
* *
55096809 GATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATC-AATTTGT
1 GATTTAGTGTAAGACC-CTGTCTGGGACA-TGGCATCGAATTTGA
* * * *
55096852 GATTTACATGTAAGACCATGTCTGAGACATCGGCATCGTATTTGA
1 GATTTA-GTGTAAGACCCTGTCTGGGACAT-GGCATCGAATTTGA
55096897 G-TTT-GTGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 GATTTAGTGTAAGACCCTGTCTGGGACA-TGGCATCGA
55096933 TATGTGATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
42 26 0.39
43 7 0.11
44 27 0.41
45 6 0.09
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTTAGTGTAAGACCCTGTCTGGGACATGGCATCGAATTTGA
Found at i:55103301 original size:53 final size:49
Alignment explanation
Indices: 55103216--55103361 Score: 175
Period size: 49 Copynumber: 2.9 Consensus size: 49
55103206 ATAGTTGACT
* * * * *
55103216 AAAGGATATCATGTAAGACCATGTCAAAACATGGCATTTGTGAGTTCATA
1 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-ATA
*
55103266 AGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTTA
1 A---AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTATA
* * *
55103318 AAAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG
55103362 GTACCCGTGT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
49 40 0.48
50 1 0.01
52 3 0.04
53 40 0.48
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (49 bp):
AAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTATA
Found at i:55103575 original size:16 final size:16
Alignment explanation
Indices: 55103554--55103584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55103544 ATAAATTTGA
55103554 TTAATTAAGTAAGTAT
1 TTAATTAAGTAAGTAT
*
55103570 TTAATTAAGTGAGTA
1 TTAATTAAGTAAGTA
55103585 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:0.16, T:0.42
Consensus pattern (16 bp):
TTAATTAAGTAAGTAT
Found at i:55103576 original size:20 final size:20
Alignment explanation
Indices: 55103548--55103587 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55103538 GTATTAATAA
* *
55103548 ATTTGATTAATTAAGTAAGT
1 ATTTAATTAAGTAAGTAAGT
*
55103568 ATTTAATTAAGTGAGTAAGT
1 ATTTAATTAAGTAAGTAAGT
55103588 GAAGAAGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (20 bp):
ATTTAATTAAGTAAGTAAGT
Found at i:55107362 original size:20 final size:20
Alignment explanation
Indices: 55107337--55107375 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55107327 CCAAGTTTTT
**
55107337 CCTTTTCTTTTTTTCTTTCC
1 CCTTTTCTTCCTTTCTTTCC
55107357 CCTTTTCTTCCTTTCTTTC
1 CCTTTTCTTCCTTTCTTTC
55107376 TTGTTTGCTA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (20 bp):
CCTTTTCTTCCTTTCTTTCC
Found at i:55108182 original size:17 final size:18
Alignment explanation
Indices: 55108160--55108193 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55108150 CACATTGAAG
55108160 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
55108177 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
55108194 CTTCCTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:55109381 original size:29 final size:29
Alignment explanation
Indices: 55109314--55109405 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
55109304 AAGTCTACAT
* * *
55109314 ACATGCATATGGCCCACTACGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
55109342 TCATTCATATGGCCCTTTAGTCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
55109371 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
55109400 ACATTC
1 ACATTC
55109406 CTAGTCATGC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 18 0.34
29 35 0.66
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:55113829 original size:42 final size:42
Alignment explanation
Indices: 55113740--55113874 Score: 168
Period size: 42 Copynumber: 3.2 Consensus size: 42
55113730 CCTTGTGATG
* * *
55113740 GTGTATTAAATCGGTCTTTATTGCCTAGCAGGCTTTATGAC-
1 GTGTATTATATCGGGCTTTATTGCCTAGCAGGCTTTATGCCA
55113781 GATGTATTATATCGGGCTTTATTGCCTAGCAGGCTTTATGCCA
1 G-TGTATTATATCGGGCTTTATTGCCTAGCAGGCTTTATGCCA
* ** *
55113824 GTGTATTATGTTAGGC-CTATTGCCTAGCAGG-TTCTATGCCA
1 GTGTATTATATCGGGCTTTATTGCCTAGCAGGCTT-TATGCCA
55113865 GTGTATTATA
1 GTGTATTATA
55113875 CTAGGCTTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 2 0.02
41 31 0.37
42 49 0.59
43 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (42 bp):
GTGTATTATATCGGGCTTTATTGCCTAGCAGGCTTTATGCCA
Found at i:55113892 original size:41 final size:42
Alignment explanation
Indices: 55113755--55113893 Score: 162
Period size: 41 Copynumber: 3.4 Consensus size: 42
55113745 TTAAATCGGT
* *
55113755 CTTTATTGCCTAGCAGGCTTTATGAC-GATGTATTATA-TCGGG
1 CTTTATTGCCTAGCAGGCTTTATGCCAG-TGTATTATACT-AGG
**
55113797 CTTTATTGCCTAGCAGGCTTTATGCCAGTGTATTATGTTAGG
1 CTTTATTGCCTAGCAGGCTTTATGCCAGTGTATTATACTAGG
*
55113839 C-CTATTGCCTAGCAGG-TTCTATGCCAGTGTATTATACTAGG
1 CTTTATTGCCTAGCAGGCTT-TATGCCAGTGTATTATACTAGG
*
55113880 CTTTA-TGACTAGCA
1 CTTTATTGCCTAGCA
55113894 AATTTTATGT
Statistics
Matches: 85, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
40 2 0.02
41 43 0.51
42 38 0.45
43 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (42 bp):
CTTTATTGCCTAGCAGGCTTTATGCCAGTGTATTATACTAGG
Found at i:55124856 original size:252 final size:251
Alignment explanation
Indices: 55124411--55124913 Score: 997
Period size: 252 Copynumber: 2.0 Consensus size: 251
55124401 CATGATCTAA
55124411 TCGAATCATAATCTAAGATCCATTACTCAAAAACTTACCTCGGATGTTGTTGAACGATTTCGGAA
1 TCGAATCATAATCTAAGATCCATTACTCAAAAACTTACCTCGGATGTTGTTGAACGATTTCGGAA
55124476 GCTATTCGATCACTTTTTCCTTTCCCTTATCCAACTTTGGTCCTCTAAGCTCTTGAGCTAATTCA
66 GCTATTCGATCACTTTTTCCTTTCCCTTATCCAACTTTGGTCCTCTAAGCTCTTGAGCTAATTCA
55124541 AACAAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCCGAATATGACAAGGAGTTTGAT
131 AACAAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCCGAATATGACAAGGAGTTTGAT
55124606 AGGTCATATGGCCACCTTTAGCTCAAATACAAAATGATCATACGCATTTTTAATCAC
196 AGGTCATATGGCCACCTTTAGCTCAAATACAAAATGATCATACGCA-TTTTAATCAC
55124663 TCGAATCATAATCTAAGATCCATTACTCAAAAACTTACCTCGGATGTTGTTGAACGATTTCGGAA
1 TCGAATCATAATCTAAGATCCATTACTCAAAAACTTACCTCGGATGTTGTTGAACGATTTCGGAA
55124728 GCTATTCGATCACTTTTTCCTTTCCCTTATCCAACTTTGGTCCTCTAAGCTCTTGAGCTAATTCA
66 GCTATTCGATCACTTTTTCCTTTCCCTTATCCAACTTTGGTCCTCTAAGCTCTTGAGCTAATTCA
55124793 AACAAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCCGAATATGACAAGGAGTTTGAT
131 AACAAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCCGAATATGACAAGGAGTTTGAT
55124858 AGGTCATATGGCCACCTTTAGCTCAAATACAAAATGATCATACGCATTTTAATCAC
196 AGGTCATATGGCCACCTTTAGCTCAAATACAAAATGATCATACGCATTTTAATCAC
55124914 ATTGAGCAAT
Statistics
Matches: 251, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
251 10 0.04
252 241 0.96
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (251 bp):
TCGAATCATAATCTAAGATCCATTACTCAAAAACTTACCTCGGATGTTGTTGAACGATTTCGGAA
GCTATTCGATCACTTTTTCCTTTCCCTTATCCAACTTTGGTCCTCTAAGCTCTTGAGCTAATTCA
AACAAATTTAACTTATTAAAGTCTCATTATGCTAGCTTATGGCCGAATATGACAAGGAGTTTGAT
AGGTCATATGGCCACCTTTAGCTCAAATACAAAATGATCATACGCATTTTAATCAC
Found at i:55131882 original size:18 final size:18
Alignment explanation
Indices: 55131861--55131899 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
55131851 GATTGAGAGT
* *
55131861 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
55131879 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
55131897 GAA
1 GAA
55131900 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:55134583 original size:22 final size:20
Alignment explanation
Indices: 55134553--55134597 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
55134543 CATTTATGAG
*
55134553 AATGAATGCTTTATGTTTGATA
1 AATGAATGCTATAT-TTTG-TA
*
55134575 AATGTATGCTATATTTTGTA
1 AATGAATGCTATATTTTGTA
55134595 AAT
1 AAT
55134598 TGATCGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (20 bp):
AATGAATGCTATATTTTGTA
Found at i:55134964 original size:12 final size:11
Alignment explanation
Indices: 55134931--55134963 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
55134921 ACCCCTAATA
*
55134931 AAAATTATTTT
1 AAAATTCTTTT
55134942 AAAATTCTTTT
1 AAAATTCTTTT
55134953 AAAATTCTTTT
1 AAAATTCTTTT
55134964 TCGACCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (11 bp):
AAAATTCTTTT
Found at i:55135898 original size:16 final size:16
Alignment explanation
Indices: 55135877--55135909 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
55135867 TTGTAACACC
55135877 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
55135893 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
55135909 C
1 C
55135910 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:55137429 original size:29 final size:29
Alignment explanation
Indices: 55137390--55137501 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
55137380 ATGAGTATAA
*
55137390 ATGATTTGGGCCTAATGGGCCATATGAAT
1 ATGAATTGGGCCTAATGGGCCATATGAAT
* *
55137419 GTGAATTGGGCCTAATGGGCCATAAGAAT
1 ATGAATTGGGCCTAATGGGCCATATGAAT
*
55137448 ATGAACTGGGCC-AGATGGGCCATATGAAT
1 ATGAATTGGGCCTA-ATGGGCCATATGAAT
* * * *
55137477 AAG-ATTGGGCCCAGTGGACCATATG
1 ATGAATTGGGCCTAATGGGCCATATG
55137502 CATGTATGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
28 18 0.25
29 53 0.75
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
ATGAATTGGGCCTAATGGGCCATATGAAT
Found at i:55139665 original size:14 final size:14
Alignment explanation
Indices: 55139646--55139673 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55139636 ATACTTAAGA
55139646 CTCTTATGATCAGT
1 CTCTTATGATCAGT
55139660 CTCTTATGATCAGT
1 CTCTTATGATCAGT
55139674 GTATATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
CTCTTATGATCAGT
Found at i:55142263 original size:14 final size:14
Alignment explanation
Indices: 55142244--55142273 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
55142234 ATGGCATATT
55142244 GGTTAGTTGAATTA
1 GGTTAGTTGAATTA
55142258 GGTTAGTTGAATTA
1 GGTTAGTTGAATTA
55142272 GG
1 GG
55142274 GTATTGGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (14 bp):
GGTTAGTTGAATTA
Found at i:55144794 original size:19 final size:20
Alignment explanation
Indices: 55144751--55144796 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
55144741 ATTGGGCATT
55144751 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
55144771 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
55144790 GCCCATA
1 GCCCATA
55144797 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:55150509 original size:24 final size:24
Alignment explanation
Indices: 55150482--55150529 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55150472 TAGTGAATAT
55150482 ATATATGAG-GTTATAATATGGTTA
1 ATATATGAGTGTT-TAATATGGTTA
* *
55150506 ATATATGTGTGTTTGATATGGTTA
1 ATATATGAGTGTTTAATATGGTTA
55150530 TATTGAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (24 bp):
ATATATGAGTGTTTAATATGGTTA
Found at i:55153263 original size:53 final size:53
Alignment explanation
Indices: 55153081--55153287 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 53
55153071 ATTAGGGTTT
* * * *
55153081 AAGGATACCA-AGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATA-TAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * ** * * * *
55153135 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
55153190 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
55153243 AAGGATACCACATAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTT
55153288 TAAAAATGAA
Statistics
Matches: 120, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 39 0.32
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:55157035 original size:27 final size:27
Alignment explanation
Indices: 55157005--55157182 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55156995 ATATTGAGTC
* * * *
55157005 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55157032 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55157059 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55157087 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55157114 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55157141 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55157168 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55157183 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55157144 original size:82 final size:81
Alignment explanation
Indices: 55157026--55157181 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55157016 TGCTATATAA
* *
55157026 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55157091 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55157108 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55157172 CACTTAGTGC
65 CACTTAGTGC
55157182 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55165117 original size:27 final size:27
Alignment explanation
Indices: 55165087--55165264 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
55165077 ATATTGAGCC
* *
55165087 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
55165114 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55165141 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
55165169 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55165196 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
55165223 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAATCAACT
55165250 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55165265 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55165226 original size:82 final size:81
Alignment explanation
Indices: 55165108--55165263 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
55165098 TGCTATATAA
* *
55165108 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55165173 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
55165190 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTTAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55165254 CACTTAGTGC
65 CACTTAGTGC
55165264 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55165253 original size:54 final size:54
Alignment explanation
Indices: 55165087--55165263 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
55165077 ATATTGAGCC
* * * *
55165087 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
55165141 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
55165196 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
55165250 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55165264 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:55174093 original size:51 final size:49
Alignment explanation
Indices: 55173970--55174115 Score: 166
Period size: 51 Copynumber: 2.9 Consensus size: 49
55173960 TAGCCAAAGC
* * *
55173970 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * *
55174019 TATCCGGTACACGTAGTAGCCTGCACTTAGTGCTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAT
* * * *
55174070 TTTCGGGTACGCATAGTAGCCTGCACTTAGTATTACACATGCGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
55174116 TCACAATAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 38 0.48
50 2 0.03
51 39 0.49
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:55184109 original size:27 final size:26
Alignment explanation
Indices: 55184079--55184255 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
55184069 AAATTGTACA
* *
55184079 GCACTAAGTGTGCGATTCGACTTTGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
55184106 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
55184133 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
55184160 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
55184188 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
55184215 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
55184242 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55184256 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:55184202 original size:82 final size:81
Alignment explanation
Indices: 55184079--55184234 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
55184069 AAATTGTACA
* * * *
55184079 GCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
55184143 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55184160 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
55184225 TGCGAGTTGA
65 TGCGAATTGA
55184235 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55184246 original size:82 final size:81
Alignment explanation
Indices: 55184075--55184255 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
55184065 GATTAAATTG
* * * *
55184075 TACAGCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55184140 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55184156 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55184220 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55184238 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55184256 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55192143 original size:27 final size:26
Alignment explanation
Indices: 55192113--55192289 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
55192103 AAATTGTACA
* *
55192113 GCACTAAGTGTGCGATTCGACTTTGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
55192140 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
55192167 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
55192194 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
55192222 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
55192249 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
55192276 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55192290 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:55192236 original size:82 final size:81
Alignment explanation
Indices: 55192113--55192268 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
55192103 AAATTGTACA
* * * *
55192113 GCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
55192177 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55192194 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
55192259 TGCGAGTTGA
65 TGCGAATTGA
55192269 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55192280 original size:82 final size:81
Alignment explanation
Indices: 55192109--55192289 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
55192099 GATTAAATTG
* * * *
55192109 TACAGCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55192174 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55192190 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55192254 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55192272 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55192290 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55197003 original size:40 final size:40
Alignment explanation
Indices: 55196948--55197134 Score: 338
Period size: 40 Copynumber: 4.7 Consensus size: 40
55196938 AGCATTGGAT
55196948 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
55196988 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
55197028 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
55197068 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
55197108 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
55197135 ATGTGTTTGC
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:55211265 original size:12 final size:12
Alignment explanation
Indices: 55211248--55211274 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
55211238 ATTCCGAAGT
55211248 ATATATATATAC
1 ATATATATATAC
55211260 ATATATATATAC
1 ATATATATATAC
55211272 ATA
1 ATA
55211275 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:55211805 original size:27 final size:27
Alignment explanation
Indices: 55211721--55211869 Score: 162
Period size: 27 Copynumber: 5.5 Consensus size: 27
55211711 CATGAGATTG
* * * *
55211721 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAG-TT-GATTATATA
55211750 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAG-TTGATTATATA
55211778 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTATATA
* *
55211805 GCACTGAGTGTGCGGACTT-A--ATATA
1 GCACTAAGTGTGC-GAGTTGATTATATA
*
55211830 -TACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTATATA
*
55211856 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
55211870 GACTTAATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.04
24 11 0.11
25 5 0.05
26 5 0.05
27 35 0.34
28 26 0.25
29 18 0.17
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTATATA
Found at i:55211844 original size:51 final size:51
Alignment explanation
Indices: 55211780--55211884 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
55211770 ATTATATAGC
55211780 ACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATAT
1 ACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATAT
55211831 ACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATAT
1 ACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATAT
55211882 ACT
1 ACT
55211885 TTTGAATCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (51 bp):
ACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATATAT
Found at i:55215007 original size:20 final size:20
Alignment explanation
Indices: 55214978--55215022 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
55214968 AGCACATGTA
* *
55214978 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
55214998 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
55215018 TTCAT
1 TTCAT
55215023 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:55216714 original size:8 final size:8
Alignment explanation
Indices: 55216703--55216760 Score: 62
Period size: 8 Copynumber: 6.5 Consensus size: 8
55216693 TATTAAATTC
55216703 TTTTTTAT
1 TTTTTTAT
55216711 TTTTTTACT
1 TTTTTTA-T
55216720 TTATACTTTAT
1 TT-T--TTTAT
55216731 ATTTTTATAT
1 -TTTTT-TAT
55216741 TTTTTTAT
1 TTTTTTAT
55216749 TTTTTTAT
1 TTTTTTAT
55216757 TTTT
1 TTTT
55216761 GTTGAGGTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
8 22 0.50
9 10 0.23
10 4 0.09
11 2 0.05
12 6 0.14
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTAT
Found at i:55218610 original size:15 final size:17
Alignment explanation
Indices: 55218579--55218611 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
55218569 GTCTTCCAAC
55218579 TATGATTCTTGAAAAAA
1 TATGATTCTTGAAAAAA
55218596 TATG-TTCTT-AAAAAA
1 TATGATTCTTGAAAAAA
55218611 T
1 T
55218612 TGAATATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TATGATTCTTGAAAAAA
Found at i:55223481 original size:49 final size:49
Alignment explanation
Indices: 55223412--55223566 Score: 278
Period size: 49 Copynumber: 3.2 Consensus size: 49
55223402 GAAATGATAG
55223412 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55223461 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55223508 TAAGGCCTAATGGCCGATGTGATGAATGTGTAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55223557 TAAGGCCTAA
1 TAAGGCCTAA
55223567 GTGTATATAT
Statistics
Matches: 101, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
47 45 0.45
49 56 0.55
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:55223570 original size:26 final size:26
Alignment explanation
Indices: 55223538--55223590 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
55223528 GATGAATGTG
55223538 TAAGTGTATATATATGTGATAAGGCC
1 TAAGTGTATATATATGTGATAAGGCC
55223564 TAAGTGTATATATATGTGATAAGGCC
1 TAAGTGTATATATATGTGATAAGGCC
55223590 T
1 T
55223591 CATGGCCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TAAGTGTATATATATGTGATAAGGCC
Found at i:55223579 original size:122 final size:121
Alignment explanation
Indices: 55223443--55223688 Score: 404
Period size: 122 Copynumber: 2.0 Consensus size: 121
55223433 ATGAATGTGA
55223443 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-ATGTC
1 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTC
** *
55223507 ATAAGGCCTAATGGCCGATGTGATGAATGTGTAAGTGTATATATATGTGATAAGGCCT
66 ATAAGGCCTAATGGCCGATGTGATGAATGTCAAAGAG--TATATATGTGATAAGGCCT
*
55223565 AAGTGTATATATATGTGATAAGGCCTCATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGT
1 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-ATGT
* *
55223630 GATAGGGCCTAATGGCCGATGTGATGAATGTCAAAGAGTATATATGTGATAAGGCCT
65 CATAAGGCCTAATGGCCGATGTGATGAATGTCAAAGAGTATATATGTGATAAGGCCT
55223687 AA
1 AA
55223689 TGGCCGATGT
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
122 79 0.68
124 37 0.32
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (121 bp):
AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTC
ATAAGGCCTAATGGCCGATGTGATGAATGTCAAAGAGTATATATGTGATAAGGCCT
Found at i:55223586 original size:75 final size:75
Alignment explanation
Indices: 55223497--55223641 Score: 245
Period size: 75 Copynumber: 1.9 Consensus size: 75
55223487 TGTGAAAGTG
* *
55223497 TATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGTAAGTGTATATATATGTGATAAGG
1 TATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAAGG
55223562 CCTAAGTGTA
66 CCTAAGTGTA
* * *
55223572 TATATATGTGATAAGGCCTCATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAGGG
1 TATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAAGG
55223637 CCTAA
66 CCTAA
55223642 TGGCCGATGT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (75 bp):
TATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAAGG
CCTAAGTGTA
Found at i:55223679 original size:96 final size:95
Alignment explanation
Indices: 55223572--55223872 Score: 451
Period size: 96 Copynumber: 3.2 Consensus size: 95
55223562 CCTAAGTGTA
*
55223572 TATATATGTGATAAGGCCTCATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-ATGTGATAGGG
* *
55223637 CCTAATGGCCGATGTGATGAATGTCAAAGAG
65 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
55223668 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGCAAGTGTATAT-ATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTGATAGGGC
55223732 CTAATGGCCGATGTGATGAATGTGAAAGTG
66 CTAATGGCCGATGTGATGAATGTGAAAGTG
* *
55223762 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-ATGTGATAGGG
* * * * *
55223827 CCGAGTGGCCAACGTGATGGATGTGAAAGTG
65 CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
55223858 TATAAATGTGATAAG
1 TATATATGTGATAAG
55223873 TCCCGAAGGG
Statistics
Matches: 187, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
94 89 0.48
96 98 0.52
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (95 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTGATAGGGC
CTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:55223695 original size:47 final size:47
Alignment explanation
Indices: 55223572--55223872 Score: 431
Period size: 47 Copynumber: 6.3 Consensus size: 47
55223562 CCTAAGTGTA
*
55223572 TATATATGTGATAAGGCCTCATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
55223619 TATATAGATGTGATAGGGCCTAATGGCCGATGTGATGAATGTCAAAGAG
1 TATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
55223668 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGCAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
55223715 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
55223762 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
55223809 TATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
55223858 TATAAATGTGATAAG
1 TATATATGTGATAAG
55223873 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 145 0.64
49 82 0.36
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:55223697 original size:171 final size:169
Alignment explanation
Indices: 55223412--55223735 Score: 558
Period size: 171 Copynumber: 1.9 Consensus size: 169
55223402 GAAATGATAG
*
55223412 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAAGGCCTAATGGCCG
* * * *
55223477 ATGTGATGAATGTGAAAGTGTATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGTAAG
66 ATGTGATGAATGTCAAAGAGTATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGCGCAAG
55223542 TGTATATATATGTGATAAGGCCTAAGTGTATATATATGTGA
131 TG--TATATATGTGATAAGGCCTAAGTGTATATATATGTGA
* *
55223583 TAAGGCCTCATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAAGGCCTAATGGCCG
*
55223648 ATGTGATGAATGTCAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGCAAG
66 ATGTGATGAATGTCAAAGAGTATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGCGCAAG
55223713 TGTATATATGTGATAAGGCCTAA
131 TGTATATATGTGATAAGGCCTAA
55223736 TGGCCGATGT
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
169 21 0.14
171 124 0.86
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (169 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTCAAAGAGTATATATGTCATAAGGCCTAATGGCCGATGTGATGAATGCGCAAG
TGTATATATGTGATAAGGCCTAAGTGTATATATATGTGA
Found at i:55223701 original size:22 final size:22
Alignment explanation
Indices: 55223673--55223748 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
55223663 AAGAGTATAT
55223673 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* ****
55223695 ATGTGATGAATGCGC-AAGTGTATAT
1 ATGTGAT-AAGGC-CTAA-TG-GCCG
55223720 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
55223742 ATGTGAT
1 ATGTGAT
55223749 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.36
23 9 0.23
24 9 0.23
25 7 0.18
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:55228056 original size:25 final size:26
Alignment explanation
Indices: 55228026--55228077 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
55228016 ATTCTACCAA
55228026 TTCGGGTGAACTTCAGTGGA-TTACC
1 TTCGGGTGAACTTCAGTGGACTTACC
55228051 TTCGGGTGAACTTCAGTGGACTTACC
1 TTCGGGTGAACTTCAGTGGACTTACC
55228077 T
1 T
55228078 CCTCTACTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (26 bp):
TTCGGGTGAACTTCAGTGGACTTACC
Found at i:55228106 original size:16 final size:16
Alignment explanation
Indices: 55228085--55228116 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55228075 CCTCCTCTAC
55228085 TACCTTTTTACCTGCG
1 TACCTTTTTACCTGCG
55228101 TACCTTTTTACCTGCG
1 TACCTTTTTACCTGCG
55228117 GCCCTTTGAA
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:0.12, C:0.31, G:0.12, T:0.44
Consensus pattern (16 bp):
TACCTTTTTACCTGCG
Found at i:55228122 original size:16 final size:16
Alignment explanation
Indices: 55228086--55228123 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
55228076 CTCCTCTACT
*
55228086 ACCTTTTTACCTGCGT
1 ACCTTTTTACCTGCGG
55228102 ACCTTTTTACCTGCGG
1 ACCTTTTTACCTGCGG
*
55228118 CCCTTT
1 ACCTTT
55228124 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.34, G:0.13, T:0.42
Consensus pattern (16 bp):
ACCTTTTTACCTGCGG
Found at i:55230629 original size:17 final size:18
Alignment explanation
Indices: 55230588--55230630 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
55230578 TGTATTTACT
55230588 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
55230606 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
55230623 TATTATAT
1 TATTATAT
55230631 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:55234219 original size:17 final size:18
Alignment explanation
Indices: 55234193--55234231 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
55234183 AATTGTGTGG
55234193 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
55234209 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
55234227 AAAAT
1 AAAAT
55234232 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:55234409 original size:15 final size:15
Alignment explanation
Indices: 55234389--55234419 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
55234379 AAAACAATAT
55234389 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
55234404 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
55234419 A
1 A
55234420 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:55237791 original size:15 final size:15
Alignment explanation
Indices: 55237781--55237810 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55237771 TCCCTTCTTG
55237781 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
55237796 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
55237811 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:55238578 original size:17 final size:18
Alignment explanation
Indices: 55238552--55238590 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
55238542 CAAATTGTGG
55238552 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
55238568 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
55238586 AAAAT
1 AAAAT
55238591 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:55238768 original size:15 final size:15
Alignment explanation
Indices: 55238748--55238778 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
55238738 AAAACAATAT
55238748 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
55238763 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
55238778 A
1 A
55238779 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:55239631 original size:24 final size:24
Alignment explanation
Indices: 55239604--55239655 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
55239594 TTTCTAGAAG
* *
55239604 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
55239628 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
55239652 ATTT
1 ATTT
55239656 GACCTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:55241629 original size:24 final size:24
Alignment explanation
Indices: 55241583--55241634 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
55241573 TTTTTAGAAG
* * *
55241583 ATTTAGGATTTATTAATATAATTT
1 ATTTAGCATTTATTAACAAAATTT
*
55241607 ATTTAGCATTTATTAGCAAAATTT
1 ATTTAGCATTTATTAACAAAATTT
55241631 ATTT
1 ATTT
55241635 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAACAAAATTT
Found at i:55246912 original size:24 final size:26
Alignment explanation
Indices: 55246854--55246920 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 26
55246844 TTATTAATAG
*
55246854 TAAATTTTTGTT-TTATTCTTAATATT
1 TAAATTTTT-TTATTAATCTTAATATT
*
55246880 TATATTTTTTTTATTAAT-TTAA-ATT
1 TA-AATTTTTTTATTAATCTTAATATT
*
55246905 TAAATTTTTTAATTAA
1 TAAATTTTTTTATTAA
55246921 ATTTGACTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 12 0.34
25 5 0.14
26 8 0.23
27 10 0.29
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (26 bp):
TAAATTTTTTTATTAATCTTAATATT
Found at i:55246914 original size:26 final size:25
Alignment explanation
Indices: 55246854--55246914 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
55246844 TTATTAATAG
55246854 TAAATTTTTGTTTTATTCTTAATATT
1 TAAATTTTT-TTTTATTCTTAATATT
* *
55246880 TATA-TTTTTTTTATTAATTTAA-ATT
1 TAAATTTTTTTTTATT--CTTAATATT
55246905 TAAATTTTTT
1 TAAATTTTTT
55246915 AATTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 7 0.24
25 10 0.34
26 12 0.41
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TAAATTTTTTTTTATTCTTAATATT
Found at i:55248673 original size:19 final size:20
Alignment explanation
Indices: 55248649--55248697 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
55248639 TTATTTTTTC
* *
55248649 AATTTTTTATTAAA-TTCTT
1 AATTTTTTTTTAAAGTACTT
55248668 -ATTTTTATTTTAAAGTACTT
1 AATTTTT-TTTTAAAGTACTT
55248688 AATTTTTTTT
1 AATTTTTTTT
55248698 ATTTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 6 0.24
19 6 0.24
20 7 0.28
21 6 0.24
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
AATTTTTTTTTAAAGTACTT
Found at i:55248698 original size:19 final size:18
Alignment explanation
Indices: 55248649--55248698 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
55248639 TTATTTTTTC
*
55248649 AATTTTTTATTAAATTCTT
1 AATTTTTT-TTAAATACTT
*
55248668 ATTTTTATTTTAAAGTACTT
1 AATTTT-TTTTAAA-TACTT
55248688 AATTTTTTTTA
1 AATTTTTTTTA
55248699 TTTTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (18 bp):
AATTTTTTTTAAATACTT
Found at i:55249290 original size:2 final size:2
Alignment explanation
Indices: 55249283--55249307 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55249273 AGGTTTAGTA
55249283 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55249308 ATGGTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55250585 original size:40 final size:40
Alignment explanation
Indices: 55250540--55250616 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
55250530 ATACACTATG
* *
55250540 TGGGGATAGAATCGACCCACCCAACCTTACACACCAAGTT
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTT
** *
55250580 TGGGGATTTAATCAACCTACCCAACCCTACACACCAA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAA
55250617 CTGGTACCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTT
Found at i:55261507 original size:23 final size:23
Alignment explanation
Indices: 55261481--55261530 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
55261471 GTTCAATTCA
* *
55261481 TTTAGCGTTCGTGAACATGTTCG
1 TTTAACGTTCATGAACATGTTCG
* *
55261504 TTTAACGTTCATGAACTTGTTTG
1 TTTAACGTTCATGAACATGTTCG
55261527 TTTA
1 TTTA
55261531 TATATATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (23 bp):
TTTAACGTTCATGAACATGTTCG
Found at i:55261907 original size:22 final size:21
Alignment explanation
Indices: 55261869--55261910 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
55261859 CTCTTAAAAC
55261869 AGGGGCACACACCCGTGTGGA
1 AGGGGCACACACCCGTGTGGA
* *
55261890 AGGGGCGACACGCTCGTGTGG
1 AGGGGC-ACACACCCGTGTGG
55261911 CCTTCTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.19, C:0.26, G:0.43, T:0.12
Consensus pattern (21 bp):
AGGGGCACACACCCGTGTGGA
Found at i:55262388 original size:30 final size:30
Alignment explanation
Indices: 55262354--55262415 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
55262344 AGCATGGGAT
55262354 ACACGACCAGACAACACGCCCATTGGGTTG
1 ACACGACCAGACAACACGCCCATTGGGTTG
55262384 ACACGACCAGACAACACGCCCATTGGGTTG
1 ACACGACCAGACAACACGCCCATTGGGTTG
55262414 AC
1 AC
55262416 CGTGTGTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.34, G:0.23, T:0.13
Consensus pattern (30 bp):
ACACGACCAGACAACACGCCCATTGGGTTG
Found at i:55266524 original size:17 final size:17
Alignment explanation
Indices: 55266502--55266539 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
55266492 ATTCTATTAT
55266502 TTTAA-TAAGATTTAATA
1 TTTAATTAA-ATTTAATA
*
55266519 TTTAATTTAATTTAATA
1 TTTAATTAAATTTAATA
55266536 TTTA
1 TTTA
55266540 TCTTGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTAATTAAATTTAATA
Found at i:55271885 original size:117 final size:117
Alignment explanation
Indices: 55271679--55271889 Score: 314
Period size: 117 Copynumber: 1.8 Consensus size: 117
55271669 GGTAATAGAA
* * * * * * * * *
55271679 ATCAACATCATCGGGACCACTGTCGCATCACAAATTGACAAAACAGACCTTACATTATGGTACTG
1 ATCAACAACATCGAGACCACTATCGCATCACAAATTAACAAAACAAACCCTACACTATGGCACTA
55271744 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGTTTT
66 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGTTTT
* *
55271796 ATCAACAACATCGAGACCACTATTGCATTACAAATTAACAAAACAAACCCTACACTATGGCACTA
1 ATCAACAACATCGAGACCACTATCGCATCACAAATTAACAAAACAAACCCTACACTATGGCACTA
*
55271861 AAATTGCAATAATGAATCACAAATAACCA
66 AAATTGCAATAATAAATCACAAATAACCA
55271890 ACAAATCAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 82 1.00
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.24
Consensus pattern (117 bp):
ATCAACAACATCGAGACCACTATCGCATCACAAATTAACAAAACAAACCCTACACTATGGCACTA
AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGTTTT
Found at i:55272102 original size:16 final size:16
Alignment explanation
Indices: 55272077--55272112 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
55272067 AATGCTAACA
* *
55272077 ATTTAGGGATTTTAAG
1 ATTTAAGGATTTGAAG
55272093 ATTTAAGGATTTGAAG
1 ATTTAAGGATTTGAAG
55272109 ATTT
1 ATTT
55272113 TAGGGATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
ATTTAAGGATTTGAAG
Found at i:55274299 original size:63 final size:63
Alignment explanation
Indices: 55274194--55274427 Score: 202
Period size: 63 Copynumber: 3.7 Consensus size: 63
55274184 TGCCAACTTN
* * * * * * *
55274194 TGTAGGGAATGATTGCACGTGCTATGGTGCTTATGTAAAATAAACTAGTGATGAATGTGTCAA
1 TGTAAGGAATGATTACACATGTTGTGGTGCTTGTGAAAAATAAACTAGTGATGAATGTGTCAA
* *** * * * **
55274257 TGTAATGAATGATTGTGCATGTTGTGGTGCTTGTGGAAAATAAACTAGTGTTGTATGTGTTGA
1 TGTAAGGAATGATTACACATGTTGTGGTGCTTGTGAAAAATAAACTAGTGATGAATGTGTCAA
* * * * *
55274320 TGTAGGGAATGATTACACATGTTGAGGTGCTTGTGAAAAATAAAAT-GTTGTTGTATGTGTTC-A
1 TGTAAGGAATGATTACACATGTTGTGGTGCTTGTGAAAAATAAACTAG-TGATGAATGTG-TCAA
* * * * *
55274383 TGCAGGGAATGATTACACGTGCTGAGGTGCTTGTGAAAAATAAAC
1 TGTAAGGAATGATTACACATGTTGTGGTGCTTGTGAAAAATAAAC
55274428 CAGAGTTGAA
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
62 1 0.01
63 141 0.99
64 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (63 bp):
TGTAAGGAATGATTACACATGTTGTGGTGCTTGTGAAAAATAAACTAGTGATGAATGTGTCAA
Found at i:55274455 original size:63 final size:61
Alignment explanation
Indices: 55274282--55274459 Score: 205
Period size: 63 Copynumber: 2.8 Consensus size: 61
55274272 TGCATGTTGT
* *
55274282 GGTGCTTGTGGAAAATAAACTAGTGTTGTATGTGTTGATGTAGGGAATGATTACACATGTTGA
1 GGTGCTTGTGAAAAATAAAC-AGTGTTGTATGTGTTGATGT-GGGAATGATTACACATGCTGA
* * *
55274345 GGTGCTTGTGAAAAATAAA-ATGTTGTTGTATGTGTTCATGCAGGGAATGATTACACGTGCTGA
1 GGTGCTTGTGAAAAATAAACA-G-TGTTGTATGTGTTGATG-TGGGAATGATTACACATGCTGA
* * * *
55274408 GGTGCTTGTGAAAAATAAACCAGAGTTGAAAGTGTAGATGTGTGGAATGATT
1 GGTGCTTGTGAAAAATAAA-CAGTGTTGTATGTGTTGATGTG-GGAATGATT
55274460 GTGTATGTTG
Statistics
Matches: 98, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
61 1 0.01
62 2 0.02
63 93 0.95
64 1 0.01
65 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (61 bp):
GGTGCTTGTGAAAAATAAACAGTGTTGTATGTGTTGATGTGGGAATGATTACACATGCTGA
Found at i:55276114 original size:50 final size:52
Alignment explanation
Indices: 55276051--55276151 Score: 154
Period size: 50 Copynumber: 2.0 Consensus size: 52
55276041 AATAATCTAA
*
55276051 ACATCATAATAATTAACT-ATTTAAATTTAAATAATTTAATAA-ATTTTCTTC
1 ACATCATAATAATTAACTGA-TTAAAATTAAATAATTTAATAATATTTTCTTC
*
55276102 ACATCA-AATAATTAAGTGATTAAAATTAAATAATTTAATAATATTTTCTT
1 ACATCATAATAATTAACTGATTAAAATTAAATAATTTAATAATATTTTCTT
55276152 ACTATTTGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 31 0.67
51 15 0.33
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (52 bp):
ACATCATAATAATTAACTGATTAAAATTAAATAATTTAATAATATTTTCTTC
Found at i:55279206 original size:39 final size:39
Alignment explanation
Indices: 55279154--55279229 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
55279144 TCAACATGTA
*
55279154 TTTTGAAATTAAAAAATATATTAAATATAAAAATGTGATT
1 TTTTGAAATTAAAAAATATATTAAAGAT-AAAATGTGATT
* ** *
55279194 TTTTTAAA-TAAAATTTATTTTAAAGATAAAATGTGA
1 TTTTGAAATTAAAAAATATATTAAAGATAAAATGTGA
55279230 AATTGATACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 9 0.29
39 15 0.48
40 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (39 bp):
TTTTGAAATTAAAAAATATATTAAAGATAAAATGTGATT
Found at i:55286191 original size:26 final size:26
Alignment explanation
Indices: 55286080--55286230 Score: 153
Period size: 27 Copynumber: 5.7 Consensus size: 26
55286070 TTTAGAGTGT
**
55286080 GCCACAAAGGCATTCCCTTCATAGATC
1 GCCACAAAGGC-TTCTTTTCATAGATC
*
55286107 -CCTACAAAGGCTTCTGTTTCATAGATT
1 GCC-ACAAAGGCTTCT-TTTCATAGATC
*
55286134 GCCACAAAGGCTTTCTTTTCATAAATC
1 GCCACAAAGGC-TTCTTTTCATAGATC
* *
55286161 GCCACAAAGACTTCTTTTTATAGATC
1 GCCACAAAGGCTTCTTTTCATAGATC
* * *
55286187 ACCACAAAGTCTTCCTTTTCGTAGATC
1 GCCACAAAGGCTT-CTTTTCATAGATC
*
55286214 GCCA-AAATGCTTCTTTT
1 GCCACAAAGGCTTCTTTT
55286231 TCTGGTGTGT
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
25 5 0.05
26 35 0.34
27 58 0.56
28 6 0.06
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (26 bp):
GCCACAAAGGCTTCTTTTCATAGATC
Found at i:55286205 original size:53 final size:52
Alignment explanation
Indices: 55286081--55286231 Score: 155
Period size: 53 Copynumber: 2.8 Consensus size: 52
55286071 TTAGAGTGTG
* * **
55286081 CCACAAAGGCATTCC-CTTCATAGATC-CCTACAAAGGCTTCTGTTTCATAGATTG
1 CCACAAAGGC-TTCCTTTTCATAGATCGCC-ACAAA-GCTTCT-TTTTATAGATCA
* *
55286135 CCACAAAGGCTTTCTTTTCATAAATCGCCACAAAGACTTCTTTTTATAGATCA
1 CCACAAAGGCTTCCTTTTCATAGATCGCCACAAAG-CTTCTTTTTATAGATCA
* *
55286188 CCACAAAGTCTTCCTTTTCGTAGATCGCCA-AAATGCTTCTTTTT
1 CCACAAAGGCTTCCTTTTCATAGATCGCCACAAA-GCTTCTTTTT
55286232 CTGGTGTGTT
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
52 12 0.14
53 40 0.48
54 29 0.35
55 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (52 bp):
CCACAAAGGCTTCCTTTTCATAGATCGCCACAAAGCTTCTTTTTATAGATCA
Found at i:55286946 original size:32 final size:32
Alignment explanation
Indices: 55286910--55286974 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
55286900 CCTTACTTCC
55286910 TCATCTTACTATTTACACACATAAAATAAACT
1 TCATCTTACTATTTACACACATAAAATAAACT
55286942 TCATCTTACTATTTACACACATAAAATAAACT
1 TCATCTTACTATTTACACACATAAAATAAACT
55286974 T
1 T
55286975 ACTCTTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (32 bp):
TCATCTTACTATTTACACACATAAAATAAACT
Found at i:55292361 original size:27 final size:28
Alignment explanation
Indices: 55292327--55292414 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
55292317 TTAAAGTGCA
* *
55292327 CCACAAAGGCATTCC-CTTCATAGATCG
1 CCACAAAGGCATTCCTTTTCATAGATAG
*
55292354 CCAGAAA-G-ATTTCCTTTTCATAGATAG
1 CCACAAAGGCA-TTCCTTTTCATAGATAG
**
55292381 CCACAAAGGC-TTCCTTTTCATAGATTT
1 CCACAAAGGCATTCCTTTTCATAGATAG
55292408 CCACAAA
1 CCACAAA
55292415 AAGCTTTCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 1 0.02
26 5 0.10
27 44 0.86
28 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CCACAAAGGCATTCCTTTTCATAGATAG
Found at i:55294841 original size:20 final size:20
Alignment explanation
Indices: 55294818--55294865 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
55294808 TGAATCAACC
*
55294818 AAGTTAAAATAGTTTCAAT-T
1 AAGTTAAAAT-GTTTCAATCA
* *
55294838 AAGTTAGAATTTTTCAATCA
1 AAGTTAAAATGTTTCAATCA
55294858 AAGTTAAA
1 AAGTTAAA
55294866 CTATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (20 bp):
AAGTTAAAATGTTTCAATCA
Found at i:55307181 original size:27 final size:27
Alignment explanation
Indices: 55307150--55307327 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55307140 TAAATTGTAC
55307150 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55307177 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55307203 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55307231 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55307259 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55307286 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55307313 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55307328 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55307264 original size:82 final size:81
Alignment explanation
Indices: 55307151--55307306 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55307141 AAATTGTACA
* *
55307151 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55307215 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55307232 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55307297 TGCGAGTTGA
65 TGCGAATTGA
55307307 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55307318 original size:82 final size:81
Alignment explanation
Indices: 55307147--55307327 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
55307137 GATTAAATTG
* *
55307147 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55307212 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55307228 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55307292 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55307310 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55307328 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55308808 original size:22 final size:24
Alignment explanation
Indices: 55308763--55308810 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
55308753 TTTGATAATA
55308763 TGTTTTGATATAACAAATTAAAAT
1 TGTTTTGATATAACAAATTAAAAT
*
55308787 TGTTTTGA-ATAA-AAGTTAAAAT
1 TGTTTTGATATAACAAATTAAAAT
55308809 TG
1 TG
55308811 AACAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.48
23 4 0.17
24 8 0.35
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (24 bp):
TGTTTTGATATAACAAATTAAAAT
Found at i:55312014 original size:10 final size:10
Alignment explanation
Indices: 55311982--55312040 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
55311972 TTAAATTCTA
55311982 AAAGATAAAT
1 AAAGATAAAT
*
55311992 ACAA-TTAAAT
1 A-AAGATAAAT
*
55312002 AAAGATAATT
1 AAAGATAAAT
55312012 AAAGATAAAT
1 AAAGATAAAT
*
55312022 AAGGATAAAT
1 AAAGATAAAT
55312032 AAAGATAAA
1 AAAGATAAA
55312041 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:55312693 original size:16 final size:16
Alignment explanation
Indices: 55312672--55312702 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55312662 AATACATCAC
*
55312672 TTTTTTTCTTTTTCTA
1 TTTTTTTCTTCTTCTA
55312688 TTTTTTTCTTCTTCT
1 TTTTTTTCTTCTTCT
55312703 TATTATTACT
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:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTCTTCTTCTA
Found at i:55318022 original size:43 final size:43
Alignment explanation
Indices: 55317959--55318044 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
55317949 TTGCTGATAA
55317959 TTCACTGTAATTTAACGTGTACAATGACCCGTTGAATCACTCG
1 TTCACTGTAATTTAACGTGTACAATGACCCGTTGAATCACTCG
*
55318002 TTCACTGTAATTTAATGTGTACAATGACCCGTTGAATCACTCG
1 TTCACTGTAATTTAACGTGTACAATGACCCGTTGAATCACTCG
55318045 GAATACTAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (43 bp):
TTCACTGTAATTTAACGTGTACAATGACCCGTTGAATCACTCG
Found at i:55323577 original size:10 final size:10
Alignment explanation
Indices: 55323545--55323603 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
55323535 TTAAATTCTA
*
55323545 AAAGATAAAC
1 AAAGATAAAT
55323555 AAA-ATTAAAT
1 AAAGA-TAAAT
*
55323565 AAAGATAATT
1 AAAGATAAAT
55323575 AAAGATAAAT
1 AAAGATAAAT
*
55323585 AAGGATAAAT
1 AAAGATAAAT
55323595 AAAGATAAA
1 AAAGATAAA
55323604 AGTAAAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
9 1 0.02
10 40 0.95
11 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:55335899 original size:46 final size:46
Alignment explanation
Indices: 55335849--55336021 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
55335839 TGGTTGAGCA
*
55335849 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
55335895 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
55335942 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
55335988 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55336022 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55336005 original size:93 final size:93
Alignment explanation
Indices: 55335846--55336016 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55335836 GGATGGTTGA
* *
55335846 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55335911 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
55335939 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55336004 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55336017 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55343493 original size:46 final size:46
Alignment explanation
Indices: 55343443--55343615 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
55343433 TGGTTGAGCA
55343443 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
55343489 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55343534 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
55343582 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55343616 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Done.