Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 182 of 433
Found at i:57241330 original size:46 final size:46
Alignment explanation
Indices: 57241280--57241455 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
57241270 TGGTTGAGCA
57241280 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57241326 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57241371 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57241419 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57241456 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57241436 original size:93 final size:93
Alignment explanation
Indices: 57241277--57241447 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57241267 GGATGGTTGA
* *
57241277 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57241342 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57241370 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57241435 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57241448 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57244417 original size:15 final size:15
Alignment explanation
Indices: 57244397--57244465 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
57244387 GTATCTTGGG
57244397 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
57244412 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
57244427 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
57244442 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
57244457 TTTCTTTAT
1 TTTCTTTAT
57244466 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:57244466 original size:30 final size:30
Alignment explanation
Indices: 57244388--57244475 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
57244378 CATAGTATCG
* * * *
57244388 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
57244418 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
57244448 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
57244476 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:57246902 original size:46 final size:46
Alignment explanation
Indices: 57246852--57247027 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
57246842 TGGTTGAGCA
57246852 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57246898 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57246943 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57246991 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57247028 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57247008 original size:93 final size:93
Alignment explanation
Indices: 57246849--57247019 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57246839 GGATGGTTGA
* *
57246849 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57246914 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57246942 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57247007 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57247020 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57251256 original size:46 final size:45
Alignment explanation
Indices: 57251169--57251381 Score: 130
Period size: 46 Copynumber: 4.6 Consensus size: 45
57251159 GAGACAAGAG
** * *
57251169 CTAGTGTAAGACATGTCTAAGACATGCGTCGGCCTCGAGATGTAAT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGATGT-AT
* * *
57251215 CTAGTGTAAGACATGTCTGGGACATGCATC-TACTACTAGATGTGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGACT-CGAGATGTAT
* * * * **
57251260 C-AGTGTAAGACCATGTTTGGGACATGGCGTCAGCCTCGATTTTGATAGT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCGA-GATG-TA-T
* *
57251309 C-AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATG-AA
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCGA--GATGTAT
* *
57251355 CCAGTGTAAGACCATGTCTAGGACATG
1 CTAGTGTAAGA-CATGTCTGGGACATG
57251382 GCATTGGAAT
Statistics
Matches: 134, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 9 0.07
45 17 0.13
46 42 0.31
47 28 0.21
48 6 0.04
49 32 0.24
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGATGTAT
Found at i:57251373 original size:47 final size:48
Alignment explanation
Indices: 57251217--57251385 Score: 170
Period size: 49 Copynumber: 3.6 Consensus size: 48
57251207 GATGTAATCT
* * *
57251217 AGTGTAAGA-CATGTCTGGGACAT-GCATCTAC-T-ACTAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTAGATGAGTC
* * * * *
57251261 AGTGTAAGACCATGTTTGGGACATGGCGTCAGCCTCGATTTTGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TTAGATGAGTC
* **
57251310 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-TGGATGAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTAGATGAGTC
*
57251357 AGTGTAAGACCATGTCTAGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
57251386 TGGAATTATA
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
44 9 0.09
45 13 0.13
46 8 0.08
47 31 0.30
48 5 0.05
49 32 0.31
50 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTAGATGAGTC
Found at i:57254156 original size:40 final size:40
Alignment explanation
Indices: 57254054--57254203 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 40
57254044 AAATTGAATG
* * * * *
57254054 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
57254094 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
57254134 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
57254174 AAATCCGGGCTAAGACCCGAAGGCATTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGT
57254204 CCAAATCGTG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 88 0.94
41 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:57254220 original size:40 final size:38
Alignment explanation
Indices: 57254050--57254237 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
57254040 TGAGAAATTG
* * *
57254050 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
57254090 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
57254127 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
57254167 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTCCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
57254207 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
57254238 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 4 0.03
40 109 0.91
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:57257789 original size:40 final size:40
Alignment explanation
Indices: 57257730--57257937 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
57257720 CAATTGAATG
* * * *
57257730 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
57257770 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
57257810 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
57257850 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
57257890 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
57257930 ATATCCGG
1 ATATCCGG
57257938 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:57257868 original size:80 final size:80
Alignment explanation
Indices: 57257731--57257937 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
57257721 AATTGAATGA
* * ** * * *
57257731 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
57257796 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
57257809 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
57257874 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
57257891 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
57257938 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:57259790 original size:7 final size:7
Alignment explanation
Indices: 57259780--57259804 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57259770 TGTCATTTCA
57259780 TATTTAG
1 TATTTAG
57259787 TATTTAG
1 TATTTAG
57259794 TATTTAG
1 TATTTAG
57259801 TATT
1 TATT
57259805 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:57260351 original size:30 final size:30
Alignment explanation
Indices: 57260295--57260351 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
57260285 GATGATGGGA
*
57260295 CGGGCCCATCAACAGCACCGAAACAATCAT
1 CGGGCCCATCAACAGCACCCAAACAATCAT
* *
57260325 CGGGCCCATCAACAGCGCCCATACAAT
1 CGGGCCCATCAACAGCACCCAAACAAT
57260352 ACCAGGCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.39, G:0.18, T:0.11
Consensus pattern (30 bp):
CGGGCCCATCAACAGCACCCAAACAATCAT
Found at i:57264308 original size:17 final size:17
Alignment explanation
Indices: 57264286--57264321 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
57264276 ACCTTGGCTT
57264286 CTTGCATAAGTACACAA
1 CTTGCATAAGTACACAA
57264303 CTTGCATAAGTACACAA
1 CTTGCATAAGTACACAA
57264320 CT
1 CT
57264322 CAATCCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (17 bp):
CTTGCATAAGTACACAA
Found at i:57272096 original size:40 final size:40
Alignment explanation
Indices: 57271969--57272098 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
57271959 ATGCTGGAAA
* * *
57271969 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
57272009 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
57272049 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
57272089 TTATATCCGG
1 TTATATCCGG
57272099 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:57281720 original size:40 final size:40
Alignment explanation
Indices: 57281634--57281738 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 40
57281624 TTCGAATGAT
* * *
57281634 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCAATTGCGCGAATTACCAA
* * * *
57281674 ATCCGGGTTAAGTCTCGAAGGCATTTGCGTGAATTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCAATTGCGCGAATTACCA-A
* * *
57281715 A-CCGGGCTATGTCCCGAAGACAAT
1 ATCCGGGTTAAGTCCCGAAGGCAAT
57281739 CGAGCGAGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
40 50 0.96
41 2 0.04
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCAATTGCGCGAATTACCAA
Found at i:57283433 original size:39 final size:39
Alignment explanation
Indices: 57283389--57283539 Score: 257
Period size: 39 Copynumber: 3.9 Consensus size: 39
57283379 ATTATATTAT
* *
57283389 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
57283428 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
57283467 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
57283506 CAGCACGAAGCCTGCGGGACTTTAGCCTGGATAC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATAC
57283540 GTTTTCAGTG
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:57287978 original size:47 final size:47
Alignment explanation
Indices: 57287837--57288128 Score: 386
Period size: 47 Copynumber: 6.1 Consensus size: 47
57287827 TTAGGATTTT
* ** * * *
57287837 ATGTGATGAATGCGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
57287884 ATGTCATGAATGTGAACCTGTATATATATGCGGGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* *
57287935 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
57287982 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
57288029 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
57288076 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
57288123 ATGTGA
1 ATGTGA
57288129 AATGTGTATG
Statistics
Matches: 220, Mismatches: 21, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
47 172 0.78
49 12 0.05
51 36 0.16
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:57288012 original size:25 final size:25
Alignment explanation
Indices: 57287936--57288013 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
57287926 GAATGGCCAA
*
57287936 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCGTATG
* * *
57287961 TGTGAT-AAGGCTG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
57287983 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
57288008 TGTGAT
1 TGTGAT
57288014 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:57288235 original size:46 final size:46
Alignment explanation
Indices: 57288099--57288235 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 46
57288089 GAACATGTAT
* * *
57288099 ATATGTGGTAAGGCCGAATGGCTAATGTGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGG
* * * * *
57288145 ATATGAGATAAACCCGAATGGCTAATG-CAAAAAGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATA-TGTATGAGATGG
* *
57288191 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATG
57288236 TGTATATATA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
45 3 0.04
46 68 0.92
47 3 0.04
ACGTcount: A:0.36, C:0.08, G:0.29, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGG
Found at i:57293191 original size:39 final size:39
Alignment explanation
Indices: 57293137--57293287 Score: 266
Period size: 39 Copynumber: 3.9 Consensus size: 39
57293127 ATTATATTAT
* *
57293137 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
57293176 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
57293215 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
57293254 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATAC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATAC
57293288 GTTTTCAGTG
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:57295690 original size:66 final size:68
Alignment explanation
Indices: 57295614--57295800 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
57295604 TAGTACCACT
*
57295614 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
57295676 CACG
65 CACG
57295680 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
57295745 ATCACG
63 ATCACG
57295751 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
57295801 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:57295725 original size:71 final size:71
Alignment explanation
Indices: 57295637--57295800 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57295627 CGATTTGTCT
57295637 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57295702 CTTTCA
66 CTTTCA
57295708 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57295773 CTTTCA
66 CTTTCA
57295779 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57295801 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57295838 original size:71 final size:70
Alignment explanation
Indices: 57295637--57295834 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
57295627 CGATTTGTCT
* * *
57295637 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57295702 CTTTCA
65 CTTTCA
* * *
57295708 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57295773 CTTTCA
65 CTTTCA
* *
57295779 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
57295835 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57302679 original size:66 final size:68
Alignment explanation
Indices: 57302603--57302789 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
57302593 TAGTACCACT
*
57302603 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
57302665 CACG
65 CACG
57302669 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
57302734 ATCACG
63 ATCACG
57302740 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
57302790 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:57302714 original size:71 final size:71
Alignment explanation
Indices: 57302626--57302789 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57302616 CGATTTGTCT
57302626 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57302691 CTTTCA
66 CTTTCA
57302697 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57302762 CTTTCA
66 CTTTCA
57302768 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57302790 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57302827 original size:71 final size:70
Alignment explanation
Indices: 57302626--57302823 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
57302616 CGATTTGTCT
* * *
57302626 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57302691 CTTTCA
65 CTTTCA
* * *
57302697 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
57302762 CTTTCA
65 CTTTCA
* *
57302768 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
57302824 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57303735 original size:71 final size:70
Alignment explanation
Indices: 57303600--57303731 Score: 171
Period size: 71 Copynumber: 1.9 Consensus size: 70
57303590 CCTAATTCGN
* * * *
57303600 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
57303665 TTTATC
65 TTTATC
* *
57303671 TTTCACGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 TTTCACGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
57303732 TACAGGGTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 22 0.41
69 1 0.02
70 1 0.02
71 30 0.56
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
TTTCACGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACAT
TTATC
Found at i:57314607 original size:43 final size:43
Alignment explanation
Indices: 57314554--57314828 Score: 292
Period size: 43 Copynumber: 6.4 Consensus size: 43
57314544 ACATGATTCG
57314554 TGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACA
* *
57314597 TGTAAGACCATGTCTAGGACATTGGCATCGATATA-TGATT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATA-AGTGATTACA
*
57314639 TGTAAGACCCTGTCTGGGACATTGGCATCGATAAGTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACA
* * * * * * *
57314682 TGTAAGACGATGTCTAGGACATTGGCATAGTTATGTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACA
* * * * *
57314725 TATAAGACCATTTTTGGGACATTGGCATCGATATA-TGAAT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATA-AGTGATTACA
* * * *
57314767 TATAAGACCATAG-C-GGGGCTATTGGCATCGATATGTGATAACA
1 TGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATAAGTGATTACA
*
57314810 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
57314829 TATGACATTG
Statistics
Matches: 190, Mismatches: 32, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
41 5 0.03
42 66 0.35
43 115 0.61
44 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACA
Found at i:57314791 original size:128 final size:128
Alignment explanation
Indices: 57314554--57314820 Score: 349
Period size: 128 Copynumber: 2.1 Consensus size: 128
57314544 ACATGATTCG
* * *
57314554 TGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACATGTAAGACCATGTCTAGGACAT
1 TGTAAGACCATGTCTAGGACATTGGCATAGATAAGTGATTACATATAAGACCATGTCTAGGACAT
* * * *
57314619 TGGCATCGATATATGATTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATAAGTGATTACA
66 TGGCATCGATATATGAATCGTATAAGACCATGTCTGGGACATTGGCATCGATAAGTGATAACA
* * * * * * * *
57314682 TGTAAGACGATGTCTAGGACATTGGCATAGTTATGTGATTTCGTATAAGACCATTTTTGGGACAT
1 TGTAAGACCATGTCTAGGACATTGGCATAGATAAGTGATTACATATAAGACCATGTCTAGGACAT
* *
57314747 TGGCATCGATATATGAATCGTATAAGACCATAG-C-GGGGCTATTGGCATCGATATGTGATAACA
66 TGGCATCGATATATGAATCGTATAAGACCAT-GTCTGGGAC-ATTGGCATCGATAAGTGATAACA
57314810 TGTAAGACCAT
1 TGTAAGACCAT
57314821 ATCTGGGATA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
127 4 0.03
128 114 0.96
129 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (128 bp):
TGTAAGACCATGTCTAGGACATTGGCATAGATAAGTGATTACATATAAGACCATGTCTAGGACAT
TGGCATCGATATATGAATCGTATAAGACCATGTCTGGGACATTGGCATCGATAAGTGATAACA
Found at i:57314816 original size:85 final size:85
Alignment explanation
Indices: 57314547--57314828 Score: 347
Period size: 85 Copynumber: 3.3 Consensus size: 85
57314537 TGGAAATACA
57314547 TGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACATGTAAGACCATGTCT
1 TGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACATGTAAGACCATGTCT
*
57314612 AGGACATTGGCATCGATATA
66 AGGACATTGGCATCGATATG
* *
57314632 TGATTCGTGTAAGACCCTGTCTGGGACATTGGCATCGATAAGTGATTACATGTAAGACGATGTCT
1 TGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACATGTAAGACCATGTCT
* *
57314697 AGGACATTGGCATAGTTATG
66 AGGACATTGGCATCGATATG
* * * * * *
57314717 TGATTTCGTATAAGACCATTTTTGGGACATTGGCATCGATATA-TGAAT-CGTATAAGACCATAG
1 TGA-TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA-AGTGATTACATGTAAGACCAT-G
* *
57314780 -C-GGGGCTATTGGCATCGATATG
63 TCTAGGAC-ATTGGCATCGATATG
* * *
57314802 TGATAACATGTAAGACCATATCTGGGA
1 TGAT-TCGTGTAAGACCATGTCTGGGA
57314829 TATGACATTG
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
84 4 0.02
85 127 0.75
86 38 0.22
87 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (85 bp):
TGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAAGTGATTACATGTAAGACCATGTCT
AGGACATTGGCATCGATATG
Found at i:57319544 original size:19 final size:20
Alignment explanation
Indices: 57319501--57319545 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
57319491 CAGGAGGAGA
57319501 CATGGCCGTGTGATAAGCCGC
1 CATGGCCGTGTGATAAG-CGC
57319522 CATGGCCGTGTGATAAG-GC
1 CATGGCCGTGTGATAAGCGC
57319541 CATGG
1 CATGG
57319546 GCAAAACTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.29
21 17 0.71
ACGTcount: A:0.20, C:0.24, G:0.36, T:0.20
Consensus pattern (20 bp):
CATGGCCGTGTGATAAGCGC
Found at i:57320834 original size:27 final size:26
Alignment explanation
Indices: 57320786--57320836 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
57320776 TGTTTAAAAA
*
57320786 ACTTTTTATTTATTATTTTTATTTTC
1 ACTTTTTATTTATTATTCTTATTTTC
57320812 ACTTTTATATTTATT-TATCTTATTT
1 ACTTTT-TATTTATTAT-TCTTATTT
57320837 AAGTACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (26 bp):
ACTTTTTATTTATTATTCTTATTTTC
Found at i:57327420 original size:27 final size:27
Alignment explanation
Indices: 57327360--57327570 Score: 135
Period size: 27 Copynumber: 7.9 Consensus size: 27
57327350 AAACATACAT
* * * * *
57327360 CACATAGGGGCAAAACAGTCATCTGAG
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
57327387 CATATAAAGGCAATATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
57327414 CACATAAGGGCAAACT-GCCATTCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
57327440 CACATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * *
57327467 TACGTAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
** * **
57327494 CATGTAGGGGC-ATTTCAGTCATTTTATC
1 CACATAAGGGCAAAAT-AGTCATTTTA-C
* *
57327522 TAC-T-AGGGCAAAATAGTAATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
57327547 CACAT-ATGGCAAAACAGTCTATTT
1 CACATAAGGGCAAAATAGTC-ATTT
57327571 ACTATATAGG
Statistics
Matches: 138, Mismatches: 40, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
25 3 0.02
26 48 0.35
27 85 0.62
28 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:57327582 original size:79 final size:80
Alignment explanation
Indices: 57327446--57327608 Score: 222
Period size: 79 Copynumber: 2.0 Consensus size: 80
57327436 CTACCACATA
* * * *
57327446 AGGGAAAAATAGTCATTTTACTACGTAAGGGCAAAACAATCATTTTACCATGTAGGGGCATTTCA
1 AGGGAAAAATAGTAATTTTACCACATAAGGGCAAAACAATCATTTTACCATATAGGGGCATTTCA
*
57327511 GTCATTTTATCTACT
66 GTCATTTTATCCACT
* * * *
57327526 AGGGCAAAATAGTAATTTTACCACAT-ATGGCAAAACAGTC-TATTTACTATATAGGGGCATTTC
1 AGGGAAAAATAGTAATTTTACCACATAAGGGCAAAACAATCAT-TTTACCATATAGGGGCATTTC
57327589 AGTCATTTTATCCACT
65 AGTCATTTTATCCACT
57327605 AGGG
1 AGGG
57327609 GGTCTATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
78 1 0.01
79 50 0.68
80 22 0.30
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Consensus pattern (80 bp):
AGGGAAAAATAGTAATTTTACCACATAAGGGCAAAACAATCATTTTACCATATAGGGGCATTTCA
GTCATTTTATCCACT
Found at i:57331662 original size:40 final size:40
Alignment explanation
Indices: 57331470--57331655 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
57331460 TCGAATGATG
* * *
57331470 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
57331510 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57331550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57331590 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57331631 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57331656 AACGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 123 0.92
41 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57331662 original size:80 final size:80
Alignment explanation
Indices: 57331470--57331688 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
57331460 TCGAATGATG
* * **
57331470 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
57331534 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* *
57331550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
57331614 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* **
57331631 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
57331689 TACGTGATTC
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
79 16 0.13
80 97 0.80
81 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:57339881 original size:40 final size:40
Alignment explanation
Indices: 57339689--57339874 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
57339679 TCGAATGATG
* * *
57339689 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
57339729 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57339769 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57339809 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57339850 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57339875 AACGAGTAGC
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 123 0.92
41 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57339881 original size:80 final size:80
Alignment explanation
Indices: 57339689--57339907 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
57339679 TCGAATGATG
* * **
57339689 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
57339753 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* *
57339769 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
57339833 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* **
57339850 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
57339908 TACGTGATTC
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
79 16 0.13
80 97 0.80
81 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:57343286 original size:14 final size:14
Alignment explanation
Indices: 57343267--57343296 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
57343257 AACCAAGCGT
57343267 AAACCACTTATCGA
1 AAACCACTTATCGA
57343281 AAACCACTTATCGA
1 AAACCACTTATCGA
57343295 AA
1 AA
57343297 CATAAAACTG
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:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (14 bp):
AAACCACTTATCGA
Found at i:57344954 original size:47 final size:48
Alignment explanation
Indices: 57344851--57344985 Score: 200
Period size: 47 Copynumber: 2.8 Consensus size: 48
57344841 TATCTCGGAT
** * * *
57344851 ATGGTCTTACATGGGATCACATATCGGTGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCGTAGATCGATGCCAATGCCATGTCCAAGAC
* *
57344899 ACGGTCTTACATGGGATTGTAGATCGATGCCAA-GCCATGTCCAAGAC
1 ATGGTCTTACATGGGATCGTAGATCGATGCCAATGCCATGTCCAAGAC
57344946 ATGGTCTTACATGGGATCGTAGATCGATGCCAATGCCATG
1 ATGGTCTTACATGGGATCGTAGATCGATGCCAATGCCATG
57344986 GTCTTATATG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 44 0.57
48 33 0.43
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCGTAGATCGATGCCAATGCCATGTCCAAGAC
Found at i:57345012 original size:37 final size:37
Alignment explanation
Indices: 57344945--57345016 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
57344935 ATGTCCAAGA
**
57344945 CATGGTCTTACATGGGATCGTAGATCGATGCCAATGC
1 CATGGTCTTACATGGGATCACAGATCGATGCCAATGC
* * *
57344982 CATGGTCTTATATGGGATCACATATTGATGCCAAT
1 CATGGTCTTACATGGGATCACAGATCGATGCCAAT
57345017 AGCCCACCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (37 bp):
CATGGTCTTACATGGGATCACAGATCGATGCCAATGC
Found at i:57346451 original size:34 final size:36
Alignment explanation
Indices: 57346408--57346479 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 36
57346398 ATAAAAACTA
*
57346408 AACCCTAATTTAATTAATTT-TAACCCTA-AACCCT
1 AACCCTAATTTAATTAATTTAAAACCCTAGAACCCT
*
57346442 AACCCTAATTTAATTTATTTAAAACCCTAGAACCCT
1 AACCCTAATTTAATTAATTTAAAACCCTAGAACCCT
57346478 AA
1 AA
57346480 TTTACTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 19 0.56
35 7 0.21
36 8 0.24
ACGTcount: A:0.40, C:0.25, G:0.01, T:0.33
Consensus pattern (36 bp):
AACCCTAATTTAATTAATTTAAAACCCTAGAACCCT
Found at i:57346476 original size:30 final size:29
Alignment explanation
Indices: 57346442--57346672 Score: 107
Period size: 30 Copynumber: 7.7 Consensus size: 29
57346432 CCTAAACCCT
*
57346442 AACCCTAATTTAATTTATTTAAAACCCTA
1 AACCCTAATTTAATTTATTTAAAACCTTA
* *
57346471 GAACCCTAATTTACTTAATCTATTTAAAAACCATA
1 -AACCCTAA--T--TTAATTTATTT-AAAACCTTA
* * ** ** **
57346506 AGCCCTAATTTGATAAATACAAATATTTTA
1 AACCCTAATTTAATTTATTTAAA-ACCTTA
*
57346536 AACCCTAACTTAATTTATTTAAAACCTTA
1 AACCCTAATTTAATTTATTTAAAACCTTA
* **
57346565 GAACCCTAATTTAATTAATTTTAACCAAAAATTATA
1 -AACCCTAATTTAATTTA-TTT----AAAACCT-TA
*
57346601 AACCCTAATTTCATTTA-TT---A---TA
1 AACCCTAATTTAATTTATTTAAAACCTTA
* *
57346623 AACCCTAACTTAATTTATTTAAAACCATA
1 AACCCTAATTTAATTTATTTAAAACCTTA
*
57346652 GAACCCTAATTTAATTAATTT
1 -AACCCTAATTTAATTTATTT
57346673 TAACGGAAAA
Statistics
Matches: 150, Mismatches: 30, Indels: 42
0.68 0.14 0.19
Matches are distributed among these distances:
22 17 0.11
23 2 0.01
26 2 0.01
29 9 0.06
30 66 0.44
31 3 0.02
32 2 0.01
33 2 0.01
34 17 0.11
35 28 0.19
36 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (29 bp):
AACCCTAATTTAATTTATTTAAAACCTTA
Found at i:57346489 original size:34 final size:34
Alignment explanation
Indices: 57346451--57346516 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
57346441 TAACCCTAAT
* *
57346451 TTAATTTATTT-AAAACCCTAGAACCCTAATTTAC
1 TTAATCTATTTAAAAACCATA-AACCCTAATTTAC
*
57346485 TTAATCTATTTAAAAACCATAAGCCCTAATTT
1 TTAATCTATTTAAAAACCATAAACCCTAATTT
57346517 GATAAATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 20 0.71
35 8 0.29
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (34 bp):
TTAATCTATTTAAAAACCATAAACCCTAATTTAC
Found at i:57346632 original size:87 final size:87
Alignment explanation
Indices: 57346529--57346698 Score: 288
Period size: 87 Copynumber: 2.0 Consensus size: 87
57346519 TAAATACAAA
* *
57346529 TATTTTAAACCCTAACTTAATTTATTTAAAACCTTAGAACCCTAATTTAATTAATTTTAAC-CAA
1 TATTATAAACCCTAACTTAATTTATTTAAAACCATAGAACCCTAATTTAATTAATTTTAACGCAA
57346593 AAATTATAAACCCTAATTTCATT
66 AAA-TATAAACCCTAATTTCATT
*
57346616 TATTATAAACCCTAACTTAATTTATTTAAAACCATAGAACCCTAATTTAATTAATTTTAACGGAA
1 TATTATAAACCCTAACTTAATTTATTTAAAACCATAGAACCCTAATTTAATTAATTTTAACGCAA
*
57346681 AAATATAAATCCTAATTT
66 AAATATAAACCCTAATTT
57346699 AATAAACCCC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 73 0.94
88 5 0.06
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (87 bp):
TATTATAAACCCTAACTTAATTTATTTAAAACCATAGAACCCTAATTTAATTAATTTTAACGCAA
AAATATAAACCCTAATTTCATT
Found at i:57346648 original size:22 final size:22
Alignment explanation
Indices: 57346595--57346645 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
57346585 TTAACCAAAA
* *
57346595 ATTATAAACCCTAATTTCATTT
1 ATTATAAACCCTAACTTAATTT
57346617 ATTATAAACCCTAACTTAATTT
1 ATTATAAACCCTAACTTAATTT
57346639 ATT-TAAA
1 ATTATAAA
57346646 ACCATAGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTATAAACCCTAACTTAATTT
Found at i:57346723 original size:87 final size:87
Alignment explanation
Indices: 57346535--57346735 Score: 269
Period size: 87 Copynumber: 2.3 Consensus size: 87
57346525 CAAATATTTT
*
57346535 AAACCCTAACTTAATTTATTTAAAACCTTAGAACCCTAATTTAATTAATTTTAACCAAAAATTAT
1 AAACCCTAACTTAATTTATTTAAAACCATAGAACCCTAATTTAATTAATTTTAACCAAAAATTAT
* ** ** *
57346600 AAACCCTAATTTCATTTATTAT
66 AAACCCTAATTTAATAAACCAC
*
57346622 AAACCCTAACTTAATTTATTTAAAACCATAGAACCCTAATTTAATTAATTTTAACGGAAAAA-TA
1 AAACCCTAACTTAATTTATTTAAAACCATAGAACCCTAATTTAATTAATTTTAAC-CAAAAATTA
* *
57346686 TAAATCCTAATTTAATAAACCCC
65 TAAACCCTAATTTAATAAACCAC
* * *
57346709 AAACACTAATTTAATTTATTTTAAACC
1 AAACCCTAACTTAATTTATTTAAAACC
57346736 CTAACTTATT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 95 0.95
88 5 0.05
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.36
Consensus pattern (87 bp):
AAACCCTAACTTAATTTATTTAAAACCATAGAACCCTAATTTAATTAATTTTAACCAAAAATTAT
AAACCCTAATTTAATAAACCAC
Found at i:57346774 original size:22 final size:22
Alignment explanation
Indices: 57346709--57346777 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
57346699 AATAAACCCC
* *
57346709 AAACACTAATTTAATTTATTTT
1 AAACCCTAATTTAATTTATTTA
* * *
57346731 AAACCCTAACTTATTTTTTTTA
1 AAACCCTAATTTAATTTATTTA
* *
57346753 AAACCCTAATTTACTCTATTTA
1 AAACCCTAATTTAATTTATTTA
57346775 AAA
1 AAA
57346778 AACATAAACC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (22 bp):
AAACCCTAATTTAATTTATTTA
Found at i:57346785 original size:96 final size:96
Alignment explanation
Indices: 57346679--57346856 Score: 266
Period size: 96 Copynumber: 1.9 Consensus size: 96
57346669 ATTTTAACGG
* * * * *
57346679 AAAAATATAAATCCTAATTTAATAAACCCCAAACACTAATTTAATTTATTTTAAACCCTAACTTA
1 AAAAACATAAACCCGAATTTAATAAACCACAAACACTAATTTAATTTATTTTAAACACTAACTTA
* *
57346744 TTTTTTTTAAAACCCTAATTTACTCTATTTA
66 ATTTATTTAAAACCCTAATTTACTCTATTTA
* *
57346775 AAAAACATAAACCCGAATTTAATAAACCATAAACCCTAATTTAATTTATTTTAAACACTAACTTA
1 AAAAACATAAACCCGAATTTAATAAACCACAAACACTAATTTAATTTATTTTAAACACTAACTTA
*
57346840 ATTTATTTAAAATCCTA
66 ATTTATTTAAAACCCTA
57346857 GAACCCTAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (96 bp):
AAAAACATAAACCCGAATTTAATAAACCACAAACACTAATTTAATTTATTTTAAACACTAACTTA
ATTTATTTAAAACCCTAATTTACTCTATTTA
Found at i:57346808 original size:22 final size:22
Alignment explanation
Indices: 57346770--57346819 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
57346760 AATTTACTCT
57346770 ATTTAA-AAAACATAAACCCGA
1 ATTTAATAAAACATAAACCCGA
* *
57346791 ATTTAATAAACCATAAACCCTA
1 ATTTAATAAAACATAAACCCGA
57346813 ATTTAAT
1 ATTTAAT
57346820 TTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.28
Consensus pattern (22 bp):
ATTTAATAAAACATAAACCCGA
Found at i:57346829 original size:22 final size:22
Alignment explanation
Indices: 57346804--57346856 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
57346794 TAATAAACCA
*
57346804 TAAACCCTAATTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
*
57346826 TAAACACTAACTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
* *
57346848 AAAATCCTA
1 TAAACCCTA
57346857 GAACCCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAACCCTAACTTAATTTATTT
Found at i:57346922 original size:24 final size:24
Alignment explanation
Indices: 57346890--57346956 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 24
57346880 TTAAAACCAT
*
57346890 AAACACTAAGCCCTAATTTATTT-A
1 AAACCCTAA-CCCTAATTTATTTGA
*
57346914 AAACCCTAA-CTTAATTTATTTGA
1 AAACCCTAACCCTAATTTATTTGA
*
57346937 AAACCATTAACCCTAATTTA
1 AAACC-CTAACCCTAATTTA
57346957 AATAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 11 0.31
23 6 0.17
24 11 0.31
25 8 0.22
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (24 bp):
AAACCCTAACCCTAATTTATTTGA
Found at i:57347054 original size:35 final size:36
Alignment explanation
Indices: 57347004--57347073 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
57346994 TTTTAAAAAC
57347004 TACTAAAACCCTAACTTATTTTAACAAAAACCTAAA
1 TACTAAAACCCTAACTTATTTTAACAAAAACCTAAA
* * *
57347040 TACT-AAACCTTAACTTATTTTACCAAAACCCTAA
1 TACTAAAACCCTAACTTATTTTAACAAAAACCTAA
57347074 CCCTAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (36 bp):
TACTAAAACCCTAACTTATTTTAACAAAAACCTAAA
Found at i:57347448 original size:16 final size:15
Alignment explanation
Indices: 57347427--57347456 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57347417 CGTATAAACT
57347427 TATAAAAAATATATAG
1 TATAAAAAAT-TATAG
57347443 TATAAAAAATTATA
1 TATAAAAAATTATA
57347457 AGCATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TATAAAAAATTATAG
Found at i:57347484 original size:21 final size:21
Alignment explanation
Indices: 57347443--57347484 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57347433 AAATATATAG
**
57347443 TATAAAAAATTATAAGCATAT
1 TATAAAAAATTATAAAAATAT
*
57347464 TATAAAAATTTATAAAAATAT
1 TATAAAAAATTATAAAAATAT
57347485 ATTTTTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TATAAAAAATTATAAAAATAT
Found at i:57357435 original size:29 final size:28
Alignment explanation
Indices: 57357386--57357467 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
57357376 GTCTTGTTTT
* *
57357386 AATATATGTTTTACATGTGTCTTAGCTTA
1 AATACATGTTTTA-ATGTGTCCTAGCTTA
*
57357415 AATACATGTTATTAATATGTCCTAGCTTA
1 AATACATGTT-TTAATGTGTCCTAGCTTA
57357444 AA-ACATGCTTTTAATGTGTCCTAG
1 AATACATG-TTTTAATGTGTCCTAG
57357468 ATGCTGCCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 18 0.38
29 26 0.55
30 3 0.06
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (28 bp):
AATACATGTTTTAATGTGTCCTAGCTTA
Found at i:57363167 original size:29 final size:28
Alignment explanation
Indices: 57363133--57363235 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
57363123 TACTCAATCA
*
57363133 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
57363162 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
57363191 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
57363220 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
57363236 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:57372453 original size:24 final size:24
Alignment explanation
Indices: 57372257--57372451 Score: 336
Period size: 24 Copynumber: 8.1 Consensus size: 24
57372247 GCAAAGACCA
57372257 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57372281 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
57372305 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57372329 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
57372353 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
57372377 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57372401 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
57372425 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
57372449 TAT
1 TAT
57372452 AGTCACATTC
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 165 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57380675 original size:68 final size:66
Alignment explanation
Indices: 57380603--57380774 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
57380593 CATCATGTGT
* * * *
57380603 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
57380666 TGTAG
62 TGTAG
** * *
57380671 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
57380736 AG
65 AG
* * * *
57380738 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
57380775 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:57380708 original size:64 final size:64
Alignment explanation
Indices: 57380627--57380798 Score: 195
Period size: 67 Copynumber: 2.7 Consensus size: 64
57380617 AGACATTATG
* * *
57380627 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
57380691 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57380756 AA
63 AA
* * *
57380758 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
57380799 GTACAGAGAG
Statistics
Matches: 88, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
63 9 0.10
64 25 0.28
66 21 0.24
67 33 0.38
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:57385331 original size:46 final size:46
Alignment explanation
Indices: 57385281--57385456 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
57385271 TATTTGGGCA
57385281 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
57385327 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
57385374 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
57385420 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57385457 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:57385436 original size:93 final size:93
Alignment explanation
Indices: 57385277--57385448 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57385267 TGGATATTTG
* *
57385277 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
57385342 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
57385370 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
57385435 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
57385449 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:57387067 original size:30 final size:30
Alignment explanation
Indices: 57387033--57387089 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57387023 TTCCCGAGCC
57387033 TAGGGGCAAAAGTGTAA-ATATGCAAAATTT
1 TAGGGGCAAAAGTGTAATAT-TGCAAAATTT
*
57387063 TAGGGGCAAAATTGTAATATTGCAAAA
1 TAGGGGCAAAAGTGTAATATTGCAAAA
57387090 GTTTGAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATATTGCAAAATTT
Found at i:57387890 original size:63 final size:64
Alignment explanation
Indices: 57387816--57387998 Score: 194
Period size: 63 Copynumber: 2.8 Consensus size: 64
57387806 AGACATTATG
* * *
57387816 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAA-AGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
57387879 ATGTAGCTAGGTCGCATGAGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57387944 AA
63 AA
* * *
57387946 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
57387999 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 43 0.44
64 1 0.01
65 2 0.02
66 35 0.36
67 16 0.16
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:57398378 original size:15 final size:15
Alignment explanation
Indices: 57398358--57398386 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57398348 AATACATTGT
57398358 GGATCTTTTCTAACC
1 GGATCTTTTCTAACC
57398373 GGATCTTTTCTAAC
1 GGATCTTTTCTAAC
57398387 TCAGGTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (15 bp):
GGATCTTTTCTAACC
Found at i:57407501 original size:20 final size:20
Alignment explanation
Indices: 57407476--57407516 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
57407466 GGATTCCATG
57407476 TATGAAAACCAAGTATGGAC
1 TATGAAAACCAAGTATGGAC
57407496 TATGAAAACCAAGTATGGAC
1 TATGAAAACCAAGTATGGAC
57407516 T
1 T
57407517 TTGATTGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (20 bp):
TATGAAAACCAAGTATGGAC
Found at i:57420693 original size:29 final size:28
Alignment explanation
Indices: 57420656--57420711 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
57420646 ATGTATATGG
*
57420656 CCCACTAGGCCCAATTCAGATTCATATTA
1 CCCACTAGGCCCAAATCAGATT-ATATTA
* *
57420685 CCCATTAGGCCCAAATCATATTATATT
1 CCCACTAGGCCCAAATCAGATTATATT
57420712 CGTGCTCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (28 bp):
CCCACTAGGCCCAAATCAGATTATATTA
Found at i:57425114 original size:29 final size:29
Alignment explanation
Indices: 57425018--57425117 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 29
57425008 ACCCCTACAT
* *
57425018 ACATGCATATGGCCCACTAGGCCCAA-TC
1 ACATTCATATGGCCTACTAGGCCCAATTC
** * *
57425046 TTATTCAAATGGCCTATCT-GGCCCAGTTC
1 ACATTCATATGGCCTA-CTAGGCCCAATTC
* * *
57425075 ATAATCTTATGGCCTACTAGGCCCAATTC
1 ACATTCATATGGCCTACTAGGCCCAATTC
57425104 ACATTCATATGGCC
1 ACATTCATATGGCC
57425118 CGTTGGGCCT
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
28 19 0.35
29 36 0.65
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCTACTAGGCCCAATTC
Found at i:57425374 original size:16 final size:16
Alignment explanation
Indices: 57425353--57425387 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57425343 GTAGCCCAAC
* *
57425353 TTTTGGCGTTTCGGCT
1 TTTTGGCATTTCAGCT
57425369 TTTTGGCATTTCAGCT
1 TTTTGGCATTTCAGCT
57425385 TTT
1 TTT
57425388 GCAGATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.17, G:0.23, T:0.54
Consensus pattern (16 bp):
TTTTGGCATTTCAGCT
Found at i:57429524 original size:29 final size:29
Alignment explanation
Indices: 57429453--57429561 Score: 89
Period size: 29 Copynumber: 3.8 Consensus size: 29
57429443 ACCTCTACAT
* *
57429453 ACATGCATATGGCCCA-CTAGGCCTAA-TC
1 ACATTCATATGGCCCATCT-GGCCCAATTC
** * *
57429481 TTATTCAAATGGCCCATCTGGCCCAGTTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
* *
57429510 ATATTCTTATGGCCCA-CTAGGCCCAATTC
1 ACATTCATATGGCCCATCT-GGCCCAATTC
* *
57429539 ACATTCATATGGCGCATTTGGCC
1 ACATTCATATGGCCCATCTGGCC
57429562 TAAATCATAT
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
28 19 0.30
29 43 0.68
30 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTGGCCCAATTC
Found at i:57429570 original size:58 final size:57
Alignment explanation
Indices: 57429460--57429572 Score: 136
Period size: 58 Copynumber: 2.0 Consensus size: 57
57429450 CATACATGCA
* ** **
57429460 TATGGCCCACTAGGCCTAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCT
* * * *
57429517 TATGGCCCACTAGGCCCAATTCACATTCATATGGCGCATTTGGCCTAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCAAATGGCCCATCTGGCCCAAATCATATT
57429573 ATAGTCATTC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 18 0.39
58 28 0.61
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:57429809 original size:16 final size:15
Alignment explanation
Indices: 57429786--57429839 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
57429776 CCGTAGCCCA
57429786 ACTTTTGGCTTTTCG
1 ACTTTTGGCTTTTCG
*
57429801 ACATTTTGGCTTTTTG
1 AC-TTTTGGCTTTTCG
* *
57429817 GCTTTTTGGCATTTCG
1 AC-TTTTGGCTTTTCG
57429833 ACTTTTG
1 ACTTTTG
57429840 CAGATTCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 7 0.22
16 25 0.78
ACGTcount: A:0.09, C:0.17, G:0.20, T:0.54
Consensus pattern (15 bp):
ACTTTTGGCTTTTCG
Found at i:57429817 original size:8 final size:8
Alignment explanation
Indices: 57429788--57429826 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
57429778 GTAGCCCAAC
57429788 TTTTGGCT
1 TTTTGGCT
* * *
57429796 TTTCGACA
1 TTTTGGCT
57429804 TTTTGGCT
1 TTTTGGCT
57429812 TTTTGGCT
1 TTTTGGCT
57429820 TTTTGGC
1 TTTTGGC
57429827 ATTTCGACTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.05, C:0.15, G:0.23, T:0.56
Consensus pattern (8 bp):
TTTTGGCT
Found at i:57429837 original size:24 final size:24
Alignment explanation
Indices: 57429788--57429838 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
57429778 GTAGCCCAAC
* *
57429788 TTTTGGCTTTTCGACATTTTGGCT
1 TTTTGGCTTTTCGACATTTCGACT
* *
57429812 TTTTGGCTTTTTGGCATTTCGACT
1 TTTTGGCTTTTCGACATTTCGACT
57429836 TTT
1 TTT
57429839 GCAGATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.16, G:0.20, T:0.57
Consensus pattern (24 bp):
TTTTGGCTTTTCGACATTTCGACT
Found at i:57431084 original size:16 final size:16
Alignment explanation
Indices: 57431059--57431090 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57431049 AAAATTCAAA
57431059 ATTTCAGGATTTTTGG
1 ATTTCAGGATTTTTGG
*
57431075 ATTTCGGGATTTTTGG
1 ATTTCAGGATTTTTGG
57431091 GGCGTTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
ATTTCAGGATTTTTGG
Found at i:57433109 original size:40 final size:39
Alignment explanation
Indices: 57433023--57433206 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
57433013 AAATTGAATG
* * * * *
57433023 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
57433063 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
57433103 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
57433143 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
57433182 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
57433207 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:57441222 original size:40 final size:39
Alignment explanation
Indices: 57441178--57441318 Score: 142
Period size: 40 Copynumber: 3.6 Consensus size: 39
57441168 TGAAAATTAC
*
57441178 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAG-TAT
* * *
57441218 ATCCGGG-CAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAA
1 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCAAGTAG-TAT
* * * *
57441257 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAGT-AT
* *
57441297 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGTTAAGACCCGAAGGC
57441319 CTTGGTGCGG
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.04
39 31 0.37
40 48 0.57
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTAGTAT
Found at i:57441237 original size:39 final size:39
Alignment explanation
Indices: 57441178--57441288 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
57441168 TGAAAATTAC
* * *
57441178 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGG-CAAGACCCGAAGGCAATTGTGCAAGTAGCTAA
* *
57441218 ATCCGGGCAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAA
1 ATCCGGGCAAGACCCGAAGGCAATT-GTGCAAGTAGCTAA
*
57441257 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGC-AAGACCCGAAGGCAATTGTGCAA
57441289 ATCGTGATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
38 3 0.05
39 31 0.50
40 26 0.42
41 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGGCAAGACCCGAAGGCAATTGTGCAAGTAGCTAA
Found at i:57444043 original size:35 final size:35
Alignment explanation
Indices: 57443933--57444052 Score: 141
Period size: 35 Copynumber: 3.4 Consensus size: 35
57443923 TTCTGATTTG
* * **
57443933 CATGTTAAACTTGCTATTATTCTGATTCCGATTCA
1 CATGTTAAGCATGCTATTATTCTGATTTTGATTCA
57443968 CATGTTAAGCATGCTATTATTCTGATTTTTGATTCA
1 CATGTTAAGCATGCTATTATTCTGA-TTTTGATTCA
** * *
57444004 CATGTTAAGCATGCTGCTATACTGATTTTGATTCG
1 CATGTTAAGCATGCTATTATTCTGATTTTGATTCA
* *
57444039 CATGTAAAGTATGC
1 CATGTTAAGCATGC
57444053 CTACTGAATA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
35 44 0.59
36 30 0.41
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (35 bp):
CATGTTAAGCATGCTATTATTCTGATTTTGATTCA
Found at i:57444434 original size:17 final size:19
Alignment explanation
Indices: 57444397--57444434 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
57444387 GACTAGGAAA
*
57444397 TGTTTTCTGAAATATGCAT
1 TGTTTTCTGAAATAAGCAT
57444416 TGTTTT-TGAAA-AAGCAT
1 TGTTTTCTGAAATAAGCAT
57444433 TG
1 TG
57444435 CATCGATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 5 0.28
19 6 0.33
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (19 bp):
TGTTTTCTGAAATAAGCAT
Found at i:57444957 original size:58 final size:58
Alignment explanation
Indices: 57444878--57444993 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
57444868 CAAATATAAA
*
57444878 ACTTTGTTTCTGGAAACTCAACATTATTTTCTCATTAAATTGGTATTTGACAAGACAT
1 ACTTTGTTTCTGGAAAATCAACATTATTTTCTCATTAAATTGGTATTTGACAAGACAT
* *
57444936 ACTTTGTTTCTGGAAAATCAACATTTTTTTCTTATTAAATTGGTATTTGACAAGACAT
1 ACTTTGTTTCTGGAAAATCAACATTATTTTCTCATTAAATTGGTATTTGACAAGACAT
57444994 GTCCAAATTC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (58 bp):
ACTTTGTTTCTGGAAAATCAACATTATTTTCTCATTAAATTGGTATTTGACAAGACAT
Found at i:57446821 original size:44 final size:42
Alignment explanation
Indices: 57446750--57446898 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
57446740 TATGTGCTAT
* **
57446750 CGTGTAAGACCACATCTGGGATGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCATATCTGGGACATTGGCATCGA-TT-TGATTTA
* * *
57446794 CGTGTAAGACCATGTCTAGGACATTGGCTTCGTATTTGATTT-
1 CGTGTAAGACCATATCTGGGACATTGGCATCG-ATTTGATTTA
* *
57446836 CGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATATCTGGGACATTGGCATCG--ATTTGATTTA
** *
57446879 CAAGTAAGACCATGTCTGGG
1 CGTGTAAGACCATATCTGGG
57446899 TTGTTGGCAT
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 29 0.33
43 29 0.33
44 28 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGACATTGGCATCGATTTGATTTA
Found at i:57446907 original size:43 final size:43
Alignment explanation
Indices: 57446750--57446908 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
57446740 TATGTGCTAT
* *
57446750 CGTGTAAGACCACATCTGGGATGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCATATCTGGGATGTTGGCATCGA-TATTTGA-TTA
* * ** * *
57446794 CGTGTAAGACCATGTCTAGGACATTGGCTTCG-TATTTGATTT
1 CGTGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTA
* *
57446836 CGTGTAAGACCCTATCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCATATCTGGGA-TGTTGGCATCGATATTTGATTA
** * *
57446879 CAAGTAAGACCATGTCTGGGTTGTTGGCAT
1 CGTGTAAGACCATATCTGGGATGTTGGCAT
57446909 TGTATGAGCC
Statistics
Matches: 90, Mismatches: 21, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 29 0.32
43 35 0.39
44 26 0.29
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTA
Found at i:57450076 original size:34 final size:34
Alignment explanation
Indices: 57450004--57450077 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
57449994 GGTCCAGTCT
* * *
57450004 CAGTTAGGGCCTTAGCCCATTACAGTATCAGTAT
1 CAGTTTGGGCCTGAGCCCATTACAGTATCAGTAA
57450038 CAGTTTGGGCCTGAGCCCATCT-CAGTGA-CAGTAA
1 CAGTTTGGGCCTGAGCCCAT-TACAGT-ATCAGTAA
57450072 CAGTTT
1 CAGTTT
57450078 ATATATGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (34 bp):
CAGTTTGGGCCTGAGCCCATTACAGTATCAGTAA
Found at i:57450536 original size:17 final size:18
Alignment explanation
Indices: 57450506--57450540 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
57450496 ATATTTTGAG
57450506 CCCATGTGGGCCCACACA
1 CCCATGTGGGCCCACACA
57450524 CCCATGT-GGCCCACACA
1 CCCATGTGGGCCCACACA
57450541 GCCCGTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.23, C:0.46, G:0.20, T:0.11
Consensus pattern (18 bp):
CCCATGTGGGCCCACACA
Found at i:57452651 original size:50 final size:50
Alignment explanation
Indices: 57452524--57452773 Score: 227
Period size: 50 Copynumber: 5.0 Consensus size: 50
57452514 GTAACCGAAG
* * * * *
57452524 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
57452573 CAATCT-AGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 CTATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
57452623 CCATCTGATACATGTAGTAGCCTACACTTAGTACTACACACATGA-TTGAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA
* * * * * * * * *
57452673 GTTGTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCA
1 -CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
57452724 CTATTTGGTACACGTAATAGCCTGCTCTTAGTACTACACACGTGACCTAA
1 CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
57452774 AACCATCTTA
Statistics
Matches: 159, Mismatches: 36, Indels: 11
0.77 0.17 0.05
Matches are distributed among these distances:
49 40 0.25
50 83 0.52
51 35 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
CTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:57452815 original size:151 final size:148
Alignment explanation
Indices: 57452530--57452817 Score: 391
Period size: 151 Copynumber: 1.9 Consensus size: 148
57452520 GAAGCTATCT
*
57452530 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTAGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTAGTACACGTAATAGCC
* * *
57452595 TACACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTACACTTAGTACTAC
66 TACACTTAGTACTACACACGTGACCTAACCATCTAATACA-GTAATAGCCTACACATAGTACTA-
57452660 ACACATGATTGAAGTTGTCA
129 ACACATGATTGAAGTTGTCA
* * * *
57452680 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCACTATTTGGTACACGTAATAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTAGTACACGTAATAGC
* * * *
57452745 CTGCTCTTAGTACTACACACGTGACCTAAAACCATCTTAAATACA-TAATAGCTTGCACATAGTA
65 CTACACTTAGTACTACACACGTGACCT--AACCATC-T-AATACAGTAATAGCCTACACATAGTA
57452809 CT-ACACATG
126 CTAACACATG
57452818 TGTTCTTACA
Statistics
Matches: 121, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
150 41 0.34
151 50 0.41
153 24 0.20
154 1 0.01
155 5 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (148 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTAGTACACGTAATAGCC
TACACTTAGTACTACACACGTGACCTAACCATCTAATACAGTAATAGCCTACACATAGTACTAAC
ACATGATTGAAGTTGTCA
Found at i:57452962 original size:20 final size:20
Alignment explanation
Indices: 57452924--57452964 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
57452914 TTTTGATTCG
* *
57452924 TAATTTACATCAGATGATCA
1 TAATTTACATCAAAGGATCA
57452944 TAATTTACATCAAAGGATCA
1 TAATTTACATCAAAGGATCA
57452964 T
1 T
57452965 TCTCTAGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (20 bp):
TAATTTACATCAAAGGATCA
Found at i:57455523 original size:21 final size:21
Alignment explanation
Indices: 57455497--57455538 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
57455487 TCAATTGAAG
57455497 GCATCAACTTCAATTAACTTA
1 GCATCAACTTCAATTAACTTA
*
57455518 GCATCAACTTCGATTAACTTA
1 GCATCAACTTCAATTAACTTA
57455539 CTTGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (21 bp):
GCATCAACTTCAATTAACTTA
Found at i:57459236 original size:16 final size:15
Alignment explanation
Indices: 57459212--57459241 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57459202 AACTGTTTTA
57459212 TTACAAATTTCACTC
1 TTACAAATTTCACTC
57459227 TTACATAATTTCACT
1 TTACA-AATTTCACT
57459242 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:57459509 original size:49 final size:50
Alignment explanation
Indices: 57459456--57459687 Score: 240
Period size: 50 Copynumber: 4.7 Consensus size: 50
57459446 GTACGCATAT
* *
57459456 TAGCCTGCACTTAGTACTACACATGTGACC-AACAATCTGGTACATGAAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACGAAG
* * ** *
57459505 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGAAACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACGAAG
* * * *
57459555 T-GCCTGCACTTAGTACTACACACGTGA-TTAA-AGTTGTCAGGTACGC-ATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACA---ATCTGGTACACGA-AG
* * * *
57459605 TAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACGAAG
* *
57459655 TAGCTTGCTCTTAGTACTACACACGTGACCTAA
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA
57459688 ATCCGTCTTA
Statistics
Matches: 146, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
48 3 0.02
49 55 0.38
50 61 0.42
51 24 0.16
52 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACGAAG
Found at i:57466720 original size:2 final size:2
Alignment explanation
Indices: 57466713--57466738 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57466703 TGAACTTTGA
57466713 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
57466739 TTGTATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57470598 original size:42 final size:42
Alignment explanation
Indices: 57470530--57470631 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
57470520 GATTTACGTA
* *
57470530 TAAGACCATGTCTGGGACATCGCATCG-TATCTG-ATTTCATG
1 TAAGACCATGTCTGGGACAACGCATCGATAT-TGAATTACATG
*
57470571 TAAGATCC-TGTCTGGGACAGAGGCATCGATATTGAATTACATG
1 TAAGA-CCATGTCTGGGACA-ACGCATCGATATTGAATTACATG
**
57470614 TAAGACCACATCTGGGAC
1 TAAGACCATGTCTGGGAC
57470632 GTCGGCATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
41 16 0.31
42 12 0.24
43 23 0.45
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACAACGCATCGATATTGAATTACATG
Found at i:57475197 original size:40 final size:40
Alignment explanation
Indices: 57475123--57475320 Score: 260
Period size: 40 Copynumber: 5.0 Consensus size: 40
57475113 TCGAATGATG
* *
57475123 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
57475163 TCCAGACTAAGATCCGAAGGCAATTGTGCGAGTTACAAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
57475203 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTAACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
57475243 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57475283 TCCGGGA-TAAG-TCCCGAAGGCATTTGTACGAGGTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
57475321 TAACCGGGCT
Statistics
Matches: 142, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 131 0.92
41 10 0.07
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57475328 original size:40 final size:40
Alignment explanation
Indices: 57475123--57475367 Score: 184
Period size: 40 Copynumber: 6.1 Consensus size: 40
57475113 TCGAATGATG
* * * *
57475123 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTAC-GAGTAACTAAA
* * * * *
57475163 TCC-AGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACAAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTACGAGTAACTAAA
*
57475203 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTAACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTACGAGTAACTAAA
* *
57475243 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTACGAGTAACTAAA
57475283 TCCGGGATAAGTCCCGAAGGCATTTGTACGAGGT-ACTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTACGA-GTAACTA-AA
* * * * * *
57475324 -CCGGGCTATGTCCTGAAGGTATTTGAACGAGTAACTATA
1 TCCGGGATAAGTCCCGAAGGCATTTGTACGAGTAACTAAA
57475363 TCCGG
1 TCCGG
57475368 TTAAACTCCG
Statistics
Matches: 179, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
39 5 0.03
40 160 0.89
41 14 0.08
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTACGAGTAACTAAA
Found at i:57475342 original size:120 final size:120
Alignment explanation
Indices: 57475123--57475367 Score: 277
Period size: 120 Copynumber: 2.0 Consensus size: 120
57475113 TCGAATGATG
*
57475123 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCAATT
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCAATT
* * **
57475188 GTGCGAGTTACAAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTAACTAAA
66 GTACGAGGTACAAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAACTAAA
* *
57475243 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGC
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAATCC-AGACTAAGAT-CCGAAGGC
* * * * * *
57475304 ATTTGTACGAGGTACTATAA-CCGGGCTATG-TCCTGAAGGTATTTGAACGAGTAACTATA
62 AATTGTACGAGGTAC-AAAATCCGGACTAAGATCC-GAAGGCATTTGAACGAGTAACTAAA
57475363 TCCGG
1 TCCGG
57475368 TTAAACTCCG
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
119 4 0.04
120 89 0.84
121 13 0.12
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (120 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCAATT
GTACGAGGTACAAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAACTAAA
Found at i:57475355 original size:80 final size:81
Alignment explanation
Indices: 57475123--57475367 Score: 229
Period size: 80 Copynumber: 3.1 Consensus size: 81
57475113 TCGAATGATG
* * * *
57475123 TCCGGG-CTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAATCCAGACTAAGATCCGAAGGCA
1 TCCGGGACTAAGAT-CCGAAGGCATTTGTAC-GAGTAACTAAATCCGGACTAAGATCCGAAGGCA
* ** *
57475185 ATTGTGCGAGTTACAAAA
64 TTTGAACGAGTTACTAAA
*
57475203 TCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTAACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGACTAAGATCCGAAGGCATTTGTACGAGTAACTAAATCCGGACTAAGATCCGAAGGCATT
**
57475267 TGTGCGAGTTACTAAA
66 TGAACGAGTTACTAAA
* *
57475283 TCCGGGA-TAAG-TCCCGAAGGCATTTGTACGAGGT-ACTATAA-CCGGGCTATG-TCCTGAAGG
1 TCCGGGACTAAGAT-CCGAAGGCATTTGTACGA-GTAACTA-AATCCGGACTAAGATCC-GAAGG
* * *
57475343 TATTTGAACGAGTAACTATA
62 CATTTGAACGAGTTACTAAA
57475363 TCCGG
1 TCCGG
57475368 TTAAACTCCG
Statistics
Matches: 144, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
79 6 0.04
80 123 0.85
81 15 0.10
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (81 bp):
TCCGGGACTAAGATCCGAAGGCATTTGTACGAGTAACTAAATCCGGACTAAGATCCGAAGGCATT
TGAACGAGTTACTAAA
Found at i:57479727 original size:28 final size:28
Alignment explanation
Indices: 57479670--57479733 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
57479660 TGGGAAGTAG
*
57479670 TTGGGCCTGATAGGCCATACGAATATGA
1 TTGGGCCTGATAGGCCATACGAAGATGA
* **
57479698 TTGGGCCTGATGGGCCATGTGAACGA-GA
1 TTGGGCCTGATAGGCCATACGAA-GATGA
57479726 TTGGGCCT
1 TTGGGCCT
57479734 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATACGAAGATGA
Found at i:57480088 original size:27 final size:27
Alignment explanation
Indices: 57480050--57480469 Score: 420
Period size: 27 Copynumber: 15.7 Consensus size: 27
57480040 TAATAAAGAG
* * *
57480050 AAATTACTGAAATATCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
57480077 AAATTACCGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
57480104 AAATTATCGAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* **
57480130 AAATTTCTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
57480157 AAATTACCAAAATATCCTC-AATTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
*
57480183 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* ** *
57480210 AAGTTACTTAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
57480236 AAATTACTAAAATACTCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
57480263 AAATTACCGAAATACCCTCGATCTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** *
57480290 AAATTACAAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
57480317 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
57480344 AAATTATCGAAATACTCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
*
57480371 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
57480398 AAATTGCC-AAA-ACACCTCCGATTTGTA
1 AAATTACCGAAATAC-CCT-CGATTTGTA
* * *
57480425 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
**
57480452 AAATTACTAAAATACCCT
1 AAATTACCGAAATACCCT
57480470 TGTAGTGTAA
Statistics
Matches: 329, Mismatches: 56, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 70 0.21
27 249 0.76
28 6 0.02
29 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:57480470 original size:27 final size:27
Alignment explanation
Indices: 57480421--57480514 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
57480411 ACCTCCGATT
57480421 TGTAAAATTA-TCGAAATACCCTTGTAG
1 TGTAAAATTACT-GAAATACCCTTGTAG
*
57480448 TGTAAAATTACTAAAATACCCTTGTAG
1 TGTAAAATTACTGAAATACCCTTGTAG
* * *
57480475 TGTAAAATGACTGACATACCCCTGTAG
1 TGTAAAATTACTGAAATACCCTTGTAG
* *
57480502 GGTAAAATGACTG
1 TGTAAAATTACTG
57480515 TTTTTCCCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCCTTGTAG
Found at i:57480574 original size:21 final size:22
Alignment explanation
Indices: 57480534--57480575 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
57480524 TGAGGGTAAA
*
57480534 TGACTGACTTAGATTTTGAATT
1 TGACTGACTTAGATTATGAATT
*
57480556 TGACTGA-TTTGATTATGAAT
1 TGACTGACTTAGATTATGAAT
57480576 GTATGATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (22 bp):
TGACTGACTTAGATTATGAATT
Found at i:57483361 original size:27 final size:27
Alignment explanation
Indices: 57483331--57483748 Score: 403
Period size: 27 Copynumber: 15.7 Consensus size: 27
57483321 TAATAAAGAG
*
57483331 AAATTA-CTGAAATACCCTCAATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
57483358 AAATTA-CTAAAATACCCTTGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
*
57483384 AAATTA-CTGAAATACCCTCGATTCGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
57483411 AAATTATCGAAATACTCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
57483437 AAATTA-CTGAAATACCC-CTAATTTGTA
1 AAATTATC-GAAATACCCTC-GATTTGTA
* * *
57483464 AAATT-GCTG-AATACCCTC-AATTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
*
57483489 AAATTA-CTAAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
57483516 AAATTACCGAAATACCC-CGATTTTTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
57483542 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
57483569 AAATTATTGAAACACCCTAGATTTTTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
57483596 AAATTATCGAAACACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
57483623 AAATTATCGAAATACCTTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
57483650 AAATTGTCAAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
57483677 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
57483704 AAATTATCGAAATACCCT-TATGGTGTA
1 AAATTATCGAAATACCCTCGAT-TTGTA
57483731 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
57483749 TGTAGTGTAA
Statistics
Matches: 332, Mismatches: 46, Indels: 26
0.82 0.11 0.06
Matches are distributed among these distances:
25 14 0.04
26 81 0.24
27 235 0.71
28 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:57483788 original size:54 final size:54
Alignment explanation
Indices: 57483565--57483774 Score: 151
Period size: 54 Copynumber: 3.9 Consensus size: 54
57483555 ACCCTCGATT
* * * * * * * * *
57483565 TGTAAAATTATTGAAACACCCTAGATTTTTAAAATTATCGAAACACCCTCAAT-T
1 TGTAAAATTATCGAAACACCCTTGATGTGTAAAATGACCGAAATACCCT-TATGG
* * * * * * *
57483619 TGTAAAATTATCGAAATA-CCTTCAATTTGTAAAATTG-TCAAAATACCCTCGAT-T
1 TGTAAAATTATCGAAACACCCTT-GATGTGTAAAA-TGACCGAAATACCCT-TATGG
* * *
57483673 TGTAAAATTATCGAAACACCCTTGATTTGTAAAATTATCGAAATACCCTTATGG
1 TGTAAAATTATCGAAACACCCTTGATGTGTAAAATGACCGAAATACCCTTATGG
* *
57483727 TGTAAAATTATCGAAATACCCTTG-TAGTGTAAAATGACCGACATACCC
1 TGTAAAATTATCGAAACACCCTTGAT-GTGTAAAATGACCGAAATACCC
57483775 CTGTAGGGTA
Statistics
Matches: 130, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
53 7 0.05
54 118 0.91
55 5 0.04
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (54 bp):
TGTAAAATTATCGAAACACCCTTGATGTGTAAAATGACCGAAATACCCTTATGG
Found at i:57483789 original size:27 final size:27
Alignment explanation
Indices: 57483701--57483790 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
57483691 CCCTTGATTT
* *
57483701 GTAAAATTATCGAAATA-CCCT-TATGG
1 GTAAAATGACCGAAATACCCCTGTA-GG
* * * *
57483727 TGTAAAATTATCGAAATACCCTTGTAGT
1 -GTAAAATGACCGAAATACCCCTGTAGG
*
57483755 GTAAAATGACCGACATACCCCTGTAGG
1 GTAAAATGACCGAAATACCCCTGTAGG
57483782 GTAAAATGA
1 GTAAAATGA
57483791 TTGTTTTGCC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 48 0.89
28 4 0.07
29 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCCTGTAGG
Found at i:57498620 original size:20 final size:20
Alignment explanation
Indices: 57498597--57498634 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57498587 CACATCCAAA
*
57498597 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
57498617 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
57498635 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:57504932 original size:20 final size:20
Alignment explanation
Indices: 57504909--57504946 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57504899 CACATCCAAA
*
57504909 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
57504929 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
57504947 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:57507750 original size:13 final size:13
Alignment explanation
Indices: 57507732--57507763 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
57507722 AACAAGTTTC
57507732 ACAAGTTTCACAT
1 ACAAGTTTCACAT
57507745 ACAAGTTTCACAT
1 ACAAGTTTCACAT
57507758 ATCAAG
1 A-CAAG
57507764 CCTAGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (13 bp):
ACAAGTTTCACAT
Found at i:57510289 original size:20 final size:18
Alignment explanation
Indices: 57510252--57510302 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
57510242 CTATAGAAAC
57510252 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
57510269 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
57510289 TTACAACTTTACAA
1 TCACAA-TTTACAA
57510303 AATAGACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:57520262 original size:39 final size:39
Alignment explanation
Indices: 57520195--57520373 Score: 261
Period size: 39 Copynumber: 4.5 Consensus size: 39
57520185 ACAAAGCATG
* * * *
57520195 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
57520235 CGAGACTTTAGCCCGCATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
57520275 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
57520314 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
57520353 CGAGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
57520374 TTCTCCATTA
Statistics
Matches: 130, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 111 0.85
40 19 0.15
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:57521397 original size:2 final size:2
Alignment explanation
Indices: 57521390--57521419 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57521380 TCAATATAAT
57521390 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
57521420 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:57522917 original size:46 final size:45
Alignment explanation
Indices: 57522850--57523021 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
57522840 AACCCGCCCC
* *
57522850 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
* * * * *
57522896 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA
** * * **
57522942 TTTGACGAACTCGGACTCAACTCAACGAGATCGAACATTCGCATCCA
1 TAAG-TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
*
57522989 TAAATGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
57523022 ATGCTCAACC
Statistics
Matches: 97, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 1 0.01
46 63 0.65
47 31 0.32
48 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCA
Found at i:57522963 original size:93 final size:93
Alignment explanation
Indices: 57522855--57523025 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
57522845 GCCCCTAAGT
* * ** * *
57522855 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGAACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
57522920 CGAGTTCGGATGCCTAGTTACATTTGAC
66 CGAGTTCGGATGCCTAGTTACATTTGAC
*
57522948 GAACTCGGACTCAACTCAACGAGATCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGAACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
57523013 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57523026 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGATCGAACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTGAC
Found at i:57523476 original size:30 final size:30
Alignment explanation
Indices: 57523442--57523501 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
57523432 ATTTAATACG
*
57523442 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACAATTTTGCCCCTA
* * *
57523472 AACTTTTGCATAATTACAATTTTGCCCCTA
1 AACTTTAGAAAAATTACAATTTTGCCCCTA
57523502 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACAATTTTGCCCCTA
Found at i:57525967 original size:40 final size:40
Alignment explanation
Indices: 57525923--57526110 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
57525913 GCTACTAGCT
57525923 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57525963 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57526003 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** *
57526043 CAAATGCCTTCGGG-CTTAGCCCAG-AATTAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
57526082 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
57526111 CAATCCGAAT
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
40 101 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57533926 original size:40 final size:40
Alignment explanation
Indices: 57533882--57534108 Score: 336
Period size: 40 Copynumber: 5.7 Consensus size: 40
57533872 GCTACTAGCT
57533882 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
*
57533922 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* *
57533961 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
57534001 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
* ** *
57534041 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
*
57534080 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGATTAT
57534109 CAATCCGAAT
Statistics
Matches: 173, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
39 74 0.43
40 98 0.57
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
Found at i:57533980 original size:79 final size:79
Alignment explanation
Indices: 57533882--57534108 Score: 350
Period size: 79 Copynumber: 2.9 Consensus size: 79
57533872 GCTACTAGCT
57533882 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
57533947 TTATAGTAACTCG-A
65 TTATAGTAACTCGCA
*
57533961 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
57534026 ATATAGTAACTCGCA
65 TTATAGTAACTCGCA
* * ** *
57534041 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
57534105 TTAT
65 TTAT
57534109 CAATCCGAAT
Statistics
Matches: 136, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
79 122 0.90
80 14 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGT
TATAGTAACTCGCA
Found at i:57534083 original size:119 final size:119
Alignment explanation
Indices: 57533882--57534108 Score: 361
Period size: 119 Copynumber: 1.9 Consensus size: 119
57533872 GCTACTAGCT
57533882 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
57533947 TTATAGTAACTCGACAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
66 ATATAGCAACTAGACAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
57534001 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
57534064 GA-ATTAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
65 GATA-TAGCAACTAG-ACAAATGCCTTCAGGACTTAGCCCGGTTAT
57534109 CAATCCGAAT
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
117 1 0.01
118 17 0.17
119 80 0.80
120 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGCAACTAGACAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57540229 original size:39 final size:39
Alignment explanation
Indices: 57540162--57540418 Score: 363
Period size: 39 Copynumber: 6.5 Consensus size: 39
57540152 ACAAAGCATG
* * * *
57540162 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
57540202 CGGGACTTTAGCCCGTATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
57540242 CGGGGCTTAGCCCGGATATAACTCCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
57540281 CGGGACTTAGCCCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
57540320 CGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
57540359 CGGGAGTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
**
57540398 CAAGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
57540419 TTCTCCATTA
Statistics
Matches: 197, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 177 0.90
40 20 0.10
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Done.