Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 69 of 143
Found at i:22514963 original size:58 final size:59
Alignment explanation
Indices: 22514879--22515228 Score: 242
Period size: 59 Copynumber: 6.0 Consensus size: 59
22514869 CCCAGTAGGT
* *
22514879 CCCT-AAACTGTCCAAAAA-TCATATTTTAACCCCGAACTTTCCAAAAATTACCA-TTTT-A
1 CCCTCAAACTTTCCAAAAATTC-CATTTT-ACCCCGAACTTTCCAAAAATT-CCATTTTTGA
* *
22514937 CCCTCAAAC-TTCCAAAAATTCCATTTTTACTCTCAAAC-TTCCAAAAATTCCATTTTTGA
1 CCCTCAAACTTTCCAAAAATTCCA-TTTTAC-CCCGAACTTTCCAAAAATTCCATTTTTGA
* * * * ** *
22514996 CCAT-GAACTTTCCAAAAACTACCATTTTACCCCCAAAATTCTAAAAATTCCA-TTTTGA
1 CCCTCAAACTTTCCAAAAA-TTCCATTTTACCCCGAACTTTCCAAAAATTCCATTTTTGA
* * * * *
22515054 CCC-CGAACTTTCTAAAAATTACCATTTTACCCTCGAA-TGTCTAAAAATTCCATTTTTAA
1 CCCTCAAACTTTCCAAAAATT-CCATTTTACCC-CGAACTTTCCAAAAATTCCATTTTTGA
** * * * ** *
22515113 CCC-CAAACTTTCCAAAAATTACCATTTTAGCCTTGGA-TTTTCTAAAATTTTATTTTCGA
1 CCCTCAAACTTTCCAAAAATT-CCATTTTA-CCCCGAACTTTCCAAAAATTCCATTTTTGA
* * * **
22515172 CCCT-GAACTTTCCAAAAATTACATTTTTACCCTGAA-TGCCCAAAAATTCCATTTTTG
1 CCCTCAAACTTTCCAAAAATTCCA-TTTTACCCCGAACTTTCCAAAAATTCCATTTTTG
22515229 CCCCGCGAGT
Statistics
Matches: 234, Mismatches: 42, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
57 4 0.02
58 103 0.44
59 121 0.52
60 6 0.03
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (59 bp):
CCCTCAAACTTTCCAAAAATTCCATTTTACCCCGAACTTTCCAAAAATTCCATTTTTGA
Found at i:22514976 original size:59 final size:59
Alignment explanation
Indices: 22514916--22515232 Score: 281
Period size: 59 Copynumber: 5.4 Consensus size: 59
22514906 AACCCCGAAC
*
22514916 TTTCCAAAAATTACCA-TTTT-ACCCTCAAAC-TTCCAAAAATT-CCATTTTTACTCTCAAA
1 TTTCCAAAAATT-CCATTTTTGACCC-CAAACTTTCCAAAAATTACCA-TTTTACCCTCAAA
* *** * *
22514974 CTTCCAAAAATTCCATTTTTGACCATGAACTTTCCAAAAACTACCATTTTACCCCCAAA
1 TTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCTCAAA
* * * * *
22515033 ATTCTAAAAATTCCA-TTTTGACCCCGAACTTTCTAAAAATTACCATTTTACCCTCGAA
1 TTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCTCAAA
* * * * ***
22515091 TGTCTAAAAATTCCATTTTTAACCCCAAACTTTCCAAAAATTACCATTTTAGCCTTGGA
1 TTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCTCAAA
* * ** * ** *
22515150 TTTTCTAAAATTTTATTTTCGACCCTGAACTTTCCAAAAATTA-CATTTTTACCCT-GAA
1 TTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCA-TTTTACCCTCAAA
**
22515208 TGCCCAAAAATTCCATTTTTG-CCCC
1 TTTCCAAAAATTCCATTTTTGACCCC
22515233 GCGAGTATTC
Statistics
Matches: 210, Mismatches: 43, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
57 6 0.03
58 86 0.41
59 115 0.55
60 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.36
Consensus pattern (59 bp):
TTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCTCAAA
Found at i:22515071 original size:88 final size:89
Alignment explanation
Indices: 22514912--22515140 Score: 245
Period size: 88 Copynumber: 2.6 Consensus size: 89
22514902 TTTTAACCCC
* * * * *
22514912 GAACTTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTACTCTCAAACTT
1 GAACTTTCCAAAAACTACCATTTTACCCCCAAAATTCCAAAAATTCCATTTTGACTCCCAAACTT
22514977 CCAAAAATT-CCATTTTTGACCAT
66 CCAAAAATTACCATTTTTGACCAT
* *
22515000 GAACTTTCCAAAAACTACCATTTTACCCCCAAAATTCTAAAAATTCCATTTTGAC-CCCGAACTT
1 GAACTTTCCAAAAACTACCATTTTACCCCCAAAATTCCAAAAATTCCATTTTGACTCCCAAAC-T
* *
22515064 TCTAAAAATTACCA-TTTT-ACCCT
65 TCCAAAAATTACCATTTTTGACCAT
* * * * *
22515087 CGAA-TGTCTAAAAA-TTCCATTTTTAACCCCAAACTTTCCAAAAATTACCATTTT
1 -GAACTTTCCAAAAACTACCA-TTTTACCCCCAAA-ATTCCAAAAATT-CCATTTT
22515141 AGCCTTGGAT
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
86 4 0.03
87 29 0.24
88 77 0.64
89 10 0.08
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (89 bp):
GAACTTTCCAAAAACTACCATTTTACCCCCAAAATTCCAAAAATTCCATTTTGACTCCCAAACTT
CCAAAAATTACCATTTTTGACCAT
Found at i:22515100 original size:117 final size:119
Alignment explanation
Indices: 22514921--22515228 Score: 337
Period size: 117 Copynumber: 2.6 Consensus size: 119
22514911 CGAACTTTCC
* * *
22514921 AAAAATTACCATTTT-ACCCTCAAAC-TTCCAAAAATT-CCATTTTTACTCTCAAACT-TCCAAA
1 AAAAATT-CCATTTTGACCC-CGAACTTTCCAAAAATTACCATTTTTACCCTCGAA-TGTCCAAA
**
22514982 AATTCCATTTTTGACCATGAACTTTCCAAAAACTACCATTTTA-CCCCCAAAATTCT
63 AATTCCATTTTTGACCACAAACTTTCCAAAAACTACCATTTTAGCCCCCAAAATTCT
* *
22515038 AAAAATTCCATTTTGACCCCGAACTTTCTAAAAATTACCA-TTTTACCCTCGAATGTCTAAAAAT
1 AAAAATTCCATTTTGACCCCGAACTTTCCAAAAATTACCATTTTTACCCTCGAATGTCCAAAAAT
* * * **** **
22515102 TCCATTTTTAACCCCAAACTTTCCAAAAATTACCATTTTAGCCTTGGATTTTCT
66 TCCATTTTTGACCACAAACTTTCCAAAAACTACCATTTTAGCCCCCAAAATTCT
** * *
22515156 -AAAATTTTATTTTCGACCCTGAACTTTCCAAAAATTA-CATTTTTACCCT-GAATGCCCAAAAA
1 AAAAATTCCATTTT-GACCCCGAACTTTCCAAAAATTACCATTTTTACCCTCGAATGTCCAAAAA
22515218 TTCCATTTTTG
65 TTCCATTTTTG
22515229 CCCCGCGAGT
Statistics
Matches: 161, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
116 12 0.07
117 109 0.68
118 40 0.25
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (119 bp):
AAAAATTCCATTTTGACCCCGAACTTTCCAAAAATTACCATTTTTACCCTCGAATGTCCAAAAAT
TCCATTTTTGACCACAAACTTTCCAAAAACTACCATTTTAGCCCCCAAAATTCT
Found at i:22515203 original size:29 final size:29
Alignment explanation
Indices: 22514879--22515227 Score: 203
Period size: 29 Copynumber: 12.0 Consensus size: 29
22514869 CCCAGTAGGT
* * * * *
22514879 CCCTAAACTGTCCAAAAATCATATTTTAA
1 CCCTGAACTTTCCAAAAATTACATTTTTA
*
22514908 CCCCGAACTTTCCAAAAATTACCA-TTTTA
1 CCCTGAACTTTCCAAAAATTA-CATTTTTA
* *
22514937 CCCTCAAAC-TTCCAAAAATTCCATTTTTA
1 CCCT-GAACTTTCCAAAAATTACATTTTTA
* * *
22514966 CTCTCAAAC-TTCCAAAAATTCCATTTTTGA
1 CCCT-GAACTTTCCAAAAATTACATTTTT-A
* *
22514996 CCATGAACTTTCCAAAAACTACCA-TTTTA
1 CCCTGAACTTTCCAAAAATTA-CATTTTTA
** ** * * *
22515025 CCCCCAAAATTCTAAAAATTCCATTTTGA
1 CCCTGAACTTTCCAAAAATTACATTTTTA
* *
22515054 CCCCGAACTTTCTAAAAATTACCA-TTTTA
1 CCCTGAACTTTCCAAAAATTA-CATTTTTA
* * *
22515083 CCCTCGAA-TGTCTAAAAATTCCATTTTTAA
1 CCCT-GAACTTTCCAAAAATTACATTTTT-A
**
22515113 CCCCAAACTTTCCAAAAATTACCA-TTTTA
1 CCCTGAACTTTCCAAAAATTA-CATTTTTA
* * * * ** *
22515142 GCCTTGGA-TTTTCTAAAATTTTATTTTCGA
1 -CCCTGAACTTTCCAAAAATTACATTTT-TA
22515172 CCCTGAACTTTCCAAAAATTACATTTTTA
1 CCCTGAACTTTCCAAAAATTACATTTTTA
** *
22515201 CCCTGAA-TGCCCAAAAATTCCATTTTT
1 CCCTGAACTTTCCAAAAATTACATTTTT
22515228 GCCCCGCGAG
Statistics
Matches: 247, Mismatches: 56, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
28 24 0.10
29 156 0.63
30 63 0.26
31 4 0.02
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
CCCTGAACTTTCCAAAAATTACATTTTTA
Found at i:22520461 original size:15 final size:15
Alignment explanation
Indices: 22520441--22520488 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
22520431 AGAAAGAATA
22520441 AAGAAAAAAAGAAAG
1 AAGAAAAAAAGAAAG
* **
22520456 AGGAAAAAGTGAAAAG
1 AAGAAAAAAAG-AAAG
*
22520472 AAGAAAAAAAAAAAG
1 AAGAAAAAAAGAAAG
22520487 AA
1 AA
22520489 AAAGCGAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAGAAAAAAAGAAAG
Found at i:22520471 original size:28 final size:27
Alignment explanation
Indices: 22520440--22520516 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
22520430 AAGAAAGAAT
* * *
22520440 AAAGAAAAAAAGAAAGAGGAAAAAGTGA
1 AAAGAAAAAAA-AAAAAAGAAAAAGCGA
22520468 AAAGAAGAAAAAAAAAAAGAAAAAGCGA
1 AAAGAA-AAAAAAAAAAAGAAAAAGCGA
* **
22520496 AAA-AAAAGAGGAAAAAGAAAA
1 AAAGAAAAAAAAAAAAAGAAAA
22520517 GGAGAGGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 13 0.31
27 2 0.05
28 22 0.52
29 5 0.12
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.01
Consensus pattern (27 bp):
AAAGAAAAAAAAAAAAAGAAAAAGCGA
Found at i:22520497 original size:20 final size:20
Alignment explanation
Indices: 22520474--22520512 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22520464 GTGAAAAGAA
22520474 GAAAAAAAAAAAGAAAAAGC
1 GAAAAAAAAAAAGAAAAAGC
* *
22520494 GAAAAAAAAGAGGAAAAAG
1 GAAAAAAAAAAAGAAAAAG
22520513 AAAAGGAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (20 bp):
GAAAAAAAAAAAGAAAAAGC
Found at i:22521526 original size:50 final size:50
Alignment explanation
Indices: 22521451--22521922 Score: 531
Period size: 50 Copynumber: 9.5 Consensus size: 50
22521441 AGAAAAACAT
* * * * *
22521451 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACAAACCCAGAACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
* * * * ** *
22521501 GAAGATTTGAAGGGAAACGTTGAGGCCGCAATGGTGAACCTGGTACTTAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
* * * * * *
22521551 GAGGATTTGAAGGGAAAGGTTGATG-CGACAATGGCGAACCCGGTACC-AT
1 GAAGATGTGAAGGGAAAGGTTGAGGCCG-CAACGGCGAACCCAGTACCTAA
* * *
22521600 GAAGAT-TGAAGGGAAAGGTTGAGGCCACCACGGCGAACCCAATACCTAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
* *
22521649 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
* * * * * *
22521699 GAAGATATGATGGGAAAGGTTGAGGCTGCAACGACGAACCCGGTACC-AT
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
* * * *
22521748 GAAGATGTAAAGGGAAAAGTTGAGACCGCAACGGCGAACACAGTACCTAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
* * *
22521798 AAAGATGTAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCAGTACCTAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
* *
22521848 GAAGATGTGAAGGGAAAGGTTAAGGCCGTAACGGCGAACCCAGTACCTAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
* *
22521898 GAAGATGCGATGGG-AAGGATTGAGG
1 GAAGATGTGAAGGGAAAGG-TTGAGG
22521923 TTGCAACGAT
Statistics
Matches: 359, Mismatches: 57, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
48 32 0.09
49 59 0.16
50 268 0.75
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.15
Consensus pattern (50 bp):
GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAA
Found at i:22521830 original size:149 final size:148
Alignment explanation
Indices: 22521448--22521922 Score: 558
Period size: 149 Copynumber: 3.2 Consensus size: 148
22521438 CTGAGAAAAA
* * * * * *
22521448 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACAAACCCAGAACCTTAGAAGATTTGAAG
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAG
* * * ** * * * *
22521513 GGAAACGTTGAGGCCGCAATGGTGAACCTGGTACTTAAGAGGATTTGAAGGGAAAGGTTGATGCG
66 GGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATATGAAGGGAAAGGTTGAGGCG
*
22521578 ACAATGGCGAACCCGGTAC
131 -CAACGGCGAACCCGGTAC
* * * *
22521597 CATGAAGAT-TGAAGGGAAAGGTTGAGGCCACCACGGCGAACCCAATACCTAAGAAGATGTGATG
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAG
* *
22521661 GGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAAGAAGATATGATGGGAAAGGTTGAGGCT
66 GGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATATGAAGGGAAAGGTTGAGGC-
*
22521726 GCAACGACGAACCCGGTAC
130 GCAACGGCGAACCCGGTAC
* * * * * *
22521745 CATGAAGATGTAAAGGGAAAAGTTGAGACCGCAACGGCGAACACAGTACCTAAAAAGATGTAAAG
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAG
* * *
22521810 GGAAAGGTTGAGGCCACAACGGCGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGGTTAAGGCC
66 GGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATATGAAGGGAAAGGTTGAGG-C
* *
22521875 GTAACGGCGAACCCAGTAC
130 GCAACGGCGAACCCGGTAC
* * *
22521894 CTAAGAAGATGCGATGGG-AAGGATTGAGG
1 C-ATGAAGATGTGAAGGGAAAGG-TTGAGG
22521923 TTGCAACGAT
Statistics
Matches: 275, Mismatches: 46, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
148 124 0.45
149 133 0.48
150 18 0.07
ACGTcount: A:0.36, C:0.18, G:0.31, T:0.15
Consensus pattern (148 bp):
CATGAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATGTGAAG
GGAAAGGTTGAGGCCGCAACGGCGAACCCAGTACCTAAGAAGATATGAAGGGAAAGGTTGAGGCG
CAACGGCGAACCCGGTAC
Found at i:22521847 original size:199 final size:197
Alignment explanation
Indices: 22521451--22521951 Score: 596
Period size: 199 Copynumber: 2.5 Consensus size: 197
22521441 AGAAAAACAT
* * * * * *
22521451 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGACAAACCCAGA-ACCTTAGAAGATTTGAAGGG
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCA-ATACCTAAGAAGATATGATGGG
* * * * * * * * * * *
22521515 AAACGTTGAGGCCGCAATGGTGAACCTGGTACTTAAGAGGATTTGAAGGGAAAGGTTGATGCGAC
65 AAAGGTTGAGGCTGCAACGATGAACCCGGTAC-CATGAAGATGTAAAGGGAAAAGTTGATGCGAC
* * * ** * *
22521580 AATGGCGAACCCGGTACCATGAAGATTGAAGGGAAAGGTTGAGGCCACCACGGCGAACCCAATAC
129 AACGGCGAACACAGTACCAAAAAGATTAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCAATAC
22521645 CTAA
194 CTAA
*
22521649 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAAGAAGATATGATGGGA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAAGAAGATATGATGGGA
*
22521714 AAGGTTGAGGCTGCAACGACGAACCCGGTACCATGAAGATGTAAAGGGAAAAGTTGA-GACCG-C
66 AAGGTTGAGGCTGCAACGATGAACCCGGTACCATGAAGATGTAAAGGGAAAAGTTGATG--CGAC
*
22521777 AACGGCGAACACAGTACCTAAAAAGATGTAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCAGT
129 AACGGCGAACACAGTACC-AAAAAGAT-TAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCAAT
22521842 ACCTAA
192 ACCTAA
* * * **
22521848 GAAGATGTGAAGGGAAAGGTTAAGGCCGTAACGGCGAACCCAGTACCTAAGAAGATGCGATGGG-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAAGAAGATATGATGGGA
* * *
22521912 AAGGATTGAGGTTGCAACGATGAATCCGATACCATGAAGA
66 AAGG-TTGAGGCTGCAACGATGAACCCGGTACCATGAAGA
22521952 CAAAAAGGAA
Statistics
Matches: 260, Mismatches: 37, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
196 1 0.00
197 37 0.14
198 93 0.36
199 129 0.50
ACGTcount: A:0.36, C:0.18, G:0.31, T:0.15
Consensus pattern (197 bp):
GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCAATACCTAAGAAGATATGATGGGA
AAGGTTGAGGCTGCAACGATGAACCCGGTACCATGAAGATGTAAAGGGAAAAGTTGATGCGACAA
CGGCGAACACAGTACCAAAAAGATTAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCT
AA
Found at i:22522361 original size:38 final size:38
Alignment explanation
Indices: 22522297--22522395 Score: 108
Period size: 38 Copynumber: 2.6 Consensus size: 38
22522287 ACCATCAGCT
* * * * *
22522297 AATCTCTTACCCCGAGCTTGGAGCAAATTACAGCCATTC
1 AATCTCTTA-CCCGACCATGGGGCAAATCACAGCCATCC
* * *
22522336 GATCTTTTACCCGACCATGGGGCAAATCATAGCCATCC
1 AATCTCTTACCCGACCATGGGGCAAATCACAGCCATCC
*
22522374 AATCTCTTACCCGATCATGGGG
1 AATCTCTTACCCGACCATGGGG
22522396 TAGATTGCGA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 42 0.86
39 7 0.14
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (38 bp):
AATCTCTTACCCGACCATGGGGCAAATCACAGCCATCC
Found at i:22522871 original size:209 final size:209
Alignment explanation
Indices: 22522474--22522885 Score: 484
Period size: 209 Copynumber: 2.0 Consensus size: 209
22522464 CGATGAAATC
** * * *
22522474 AGGCTCAAAATGAGCAAATCTTTGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAG
1 AGGCTCAAAATGAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGTCAAAG
* * * * * *
22522539 CAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGCGAACCAAATTCGTCTTCCTAATGAGA
66 CAAGAAAACGGTTACCTTCCTGATGAGATACAGAGAAGCAAACCAAATCCGTCTTCCTAATGAGA
* * * ** * * * *
22522604 TATAGAGAAGCATATTGAAACAAGTGATGCGGTCATCTTTCTAATGAGGTATTGAGAAGAAGACC
131 CACAGAGAAGCAGATCAAAACAAGTGATGCGATAATCTTTCTAATGAGATACTGAGAAGAAGACC
22522669 AAATCAATGAAGCT
196 AAATCAATGAAGCT
* ** *
22522683 AGGCTCAAAGTGAGTGAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCAAAG
1 AGGCTCAAAATGAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGTCAAAG
* * * * * *
22522748 CAAGAAAGCGGTTACCTTCCTGATGGGATACAGAGAAGTAAACCAGATCCGTCTTCTTGATGAGA
66 CAAGAAAACGGTTACCTTCCTGATGAGATACAGAGAAGCAAACCAAATCCGTCTTCCTAATGAGA
** * * * *
22522813 CACAGAGAAGTGGATCAAAACAAGTGATGCGATAATC-TTCTTGATGAGATGCTGAGAAGTAGAT
131 CACAGAGAAGCAGATCAAAACAAGTGATGCGATAATCTTTC-TAATGAGATACTGAGAAGAAGAC
22522877 CAAATCAAT
195 CAAATCAAT
22522886 AACACCTAAC
Statistics
Matches: 166, Mismatches: 36, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
208 3 0.02
209 163 0.98
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (209 bp):
AGGCTCAAAATGAGCAAATCTTCAAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGTCAAAG
CAAGAAAACGGTTACCTTCCTGATGAGATACAGAGAAGCAAACCAAATCCGTCTTCCTAATGAGA
CACAGAGAAGCAGATCAAAACAAGTGATGCGATAATCTTTCTAATGAGATACTGAGAAGAAGACC
AAATCAATGAAGCT
Found at i:22523245 original size:17 final size:17
Alignment explanation
Indices: 22523220--22523290 Score: 79
Period size: 17 Copynumber: 4.2 Consensus size: 17
22523210 AATAAGTTTG
*
22523220 AATTTATTTTAAATTCA
1 AATTTATTTTAAATTTA
* * * *
22523237 AATTCATTTTGAGTTTG
1 AATTTATTTTAAATTTA
*
22523254 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
22523271 AATTTATTTTAAATTAA
1 AATTTATTTTAAATTTA
22523288 AAT
1 AAT
22523291 AAAATTAAGT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:22523252 original size:34 final size:34
Alignment explanation
Indices: 22523214--22523280 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
22523204 TTTTTAAATA
*
22523214 AGTTTGAATTTATTTTAAATTCAAATTCATTTTG
1 AGTTTGAATTTACTTTAAATTCAAATTCATTTTG
* *
22523248 AGTTTGAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTGAATTTACTTTAAATTCAAATTCATTTT
22523281 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (34 bp):
AGTTTGAATTTACTTTAAATTCAAATTCATTTTG
Found at i:22523367 original size:26 final size:26
Alignment explanation
Indices: 22523333--22523383 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
22523323 GACCCAATTA
* *
22523333 CAAATAGGCCTAAATAGCCCAAACAC
1 CAAACAGGCCCAAATAGCCCAAACAC
* *
22523359 CAAACAGGCCCAAATGGCCTAAACA
1 CAAACAGGCCCAAATAGCCCAAACA
22523384 TTATACCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.31, G:0.14, T:0.10
Consensus pattern (26 bp):
CAAACAGGCCCAAATAGCCCAAACAC
Found at i:22523964 original size:3 final size:3
Alignment explanation
Indices: 22523956--22524014 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
22523946 TAATAAAGGG
*
22523956 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22524004 TAA TAA TAA TA
1 TAA TAA TAA TA
22524015 TTTTTAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22524393 original size:20 final size:22
Alignment explanation
Indices: 22524368--22524409 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
22524358 ACTTTCTTAA
*
22524368 AAATCTAG-GCTAGATC-GGTT
1 AAATCTAGCCCTAGATCTGGTT
22524388 AAATCTAGCCCTAGATCTGGTT
1 AAATCTAGCCCTAGATCTGGTT
22524410 TTAAAACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (22 bp):
AAATCTAGCCCTAGATCTGGTT
Found at i:22525238 original size:59 final size:58
Alignment explanation
Indices: 22525149--22525353 Score: 204
Period size: 59 Copynumber: 3.5 Consensus size: 58
22525139 GTCCCTAAAT
* * *
22525149 TGTCCAAAAA-T-CATATCTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCTCGAA
1 TGTCCAAAAATTCCAT-TTTTGACCTC-AACTTTCCAAAAATTACCATTTTGCCCTCGAA
***
22525207 TGTCCAAAAATTCCATTTTTGACCTCGAACTTTCCAAAAATTATGTTTTTGCCCTCGAA
1 TGTCCAAAAATTCCATTTTTGACCTC-AACTTTCCAAAAATTACCATTTTGCCCTCGAA
* * * *
22525266 TGTCCAAAAATTCTATTTTTGCCCCTCAAGTGTT-CAAAAATTACCATTTTGCCC-CAAAA
1 TGTCCAAAAATTCCATTTTTG-ACCTCAACT-TTCCAAAAATTACCATTTTGCCCTC-GAA
*
22525325 GTGT-CAAAAATTACCATTTTTGCCCTCAA
1 -TGTCCAAAAATT-CCATTTTTGACCTCAA
22525354 ACATCTAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
58 11 0.09
59 94 0.75
60 20 0.16
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (58 bp):
TGTCCAAAAATTCCATTTTTGACCTCAACTTTCCAAAAATTACCATTTTGCCCTCGAA
Found at i:22525316 original size:30 final size:30
Alignment explanation
Indices: 22525182--22525351 Score: 158
Period size: 29 Copynumber: 5.8 Consensus size: 30
22525172 CCAAACTTTC
* *
22525182 CAAAAATTACCA-TTTTACCCTCGAATGTC
1 CAAAAATTACCATTTTTGCCCTCGAATGTT
*
22525211 CAAAAATT-CCATTTTTGACCTCGAACT-TT
1 CAAAAATTACCATTTTTGCCCTCGAA-TGTT
** *
22525240 CCAAAAATTA-TGTTTTTGCCCTCGAATGTC
1 -CAAAAATTACCATTTTTGCCCTCGAATGTT
*
22525270 CAAAAATT-CTATTTTTGCCCCTC-AAGTGTT
1 CAAAAATTACCATTTTTG-CCCTCGAA-TGTT
* *
22525300 CAAAAATTACCA-TTTTGCCC-CAAAAGTGT
1 CAAAAATTACCATTTTTGCCCTCGAATGT-T
22525329 CAAAAATTACCATTTTTGCCCTC
1 CAAAAATTACCATTTTTGCCCTC
22525352 AAACATCTAA
Statistics
Matches: 117, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.05
29 56 0.48
30 52 0.44
31 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (30 bp):
CAAAAATTACCATTTTTGCCCTCGAATGTT
Found at i:22525366 original size:30 final size:30
Alignment explanation
Indices: 22525180--22525354 Score: 166
Period size: 30 Copynumber: 5.9 Consensus size: 30
22525170 CCCCAAACTT
* *
22525180 TCCAAAAATTACCA-TTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTTGCCCTCAAATG
* * *
22525209 TCCAAAAATT-CCATTTTTGACCTCGAACTT
1 TCCAAAAATTACCATTTTTGCCCTC-AAATG
** *
22525239 TCCAAAAATTA-TGTTTTTGCCCTCGAATG
1 TCCAAAAATTACCATTTTTGCCCTCAAATG
* *
22525268 TCCAAAAATT-CTATTTTTGCCCCTCAAGTG
1 TCCAAAAATTACCATTTTTG-CCCTCAAATG
*
22525298 TTCAAAAATTACCA-TTTTGCCC-CAAAAGTG
1 TCCAAAAATTACCATTTTTGCCCTC-AAA-TG
22525328 T-CAAAAATTACCATTTTTGCCCTCAAA
1 TCCAAAAATTACCATTTTTGCCCTCAAA
22525355 CATCTAAAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
28 4 0.03
29 54 0.45
30 58 0.49
31 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (30 bp):
TCCAAAAATTACCATTTTTGCCCTCAAATG
Found at i:22527972 original size:16 final size:17
Alignment explanation
Indices: 22527948--22527981 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22527938 TAGAACACAT
22527948 TAAAAAAATAATA-TAC
1 TAAAAAAATAATACTAC
*
22527964 TAAATAAATAATACTAC
1 TAAAAAAATAATACTAC
22527981 T
1 T
22527982 CTAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAAATAATACTAC
Found at i:22529107 original size:14 final size:14
Alignment explanation
Indices: 22529090--22529119 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22529080 TTTAAACTCT
22529090 AAAAGATAAATATA
1 AAAAGATAAATATA
22529104 AAAAGATAAATATA
1 AAAAGATAAATATA
22529118 AA
1 AA
22529120 TTAAATACAA
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:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:22530075 original size:103 final size:102
Alignment explanation
Indices: 22529886--22530075 Score: 231
Period size: 103 Copynumber: 1.8 Consensus size: 102
22529876 TATATTAGAT
* * * * * **
22529886 CTTTTGATGCGAAATTAAATGACACCCAAGCACTCCATCCCTGTTACTCAGCTCAACATGCTCCC
1 CTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGGTTACTCAGCTCAACACACTCCC
* *
22529951 AATCATTTTTTTTCTTTTTTTTTTAGAATGTGTTAGCC
66 AAT-ATTTTTTTTATTATTTTTTTAGAATGTGTTAGCC
*
22529989 CTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGGTTACTCAGC-CTAACACACTCT
1 CTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGGTTACTCAGCTC-AACACACTCC
*
22530053 GAAT-TTATTTGTTTATTATTTTT
65 CAATATT-TTT-TTTATTATTTTT
22530076 ATTATTTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
101 2 0.03
102 4 0.05
103 67 0.92
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.36
Consensus pattern (102 bp):
CTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCCGGTTACTCAGCTCAACACACTCCC
AATATTTTTTTTATTATTTTTTTAGAATGTGTTAGCC
Found at i:22531223 original size:49 final size:49
Alignment explanation
Indices: 22531108--22531877 Score: 451
Period size: 49 Copynumber: 15.6 Consensus size: 49
22531098 ACCAAGGAAA
* * * * * * *
22531108 CATGAAGATGTGAAGGAAAAGGTTAAGGTCGCAACGAC-AAACCCGATAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCAG-TAC
* *
22531157 CTTAGAAGATATGATGGG-AAGGATTGAGGCCGCAACGGCGAATCCAGTAC
1 CAT-GAAGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCAGTAC
* * ** *
22531207 CATGAAAATGTGATGGGAAAGGTTAAGGCCGCAACGATGAA-CCTGGTAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAATCC-AGTAC
* * * * * * *
22531256 CTTAGAAGATTTGAAGGGAAAGGTTAAGGTCGTAACGGCGAACTCGA-TAC
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAA-TCCAGTAC
* *
22531306 CTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAACGGCGAATCC-GACAC
1 CAT-GAAGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCAG-TAC
* * * *
22531356 CATTAAAATGTAATGGGAAAGGTTGAGGCTGCAACGGCGAA-CCTAGTAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAATCC-AGTAC
* * * * * * *
22531405 CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAAGT-CGGTAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAA-TCCAGTAC
* *
22531454 CTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAACGGCGAATCC-GACAC
1 CAT-GAAGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCAG-TAC
* * * ** * *
22531504 CATGAAAATGTAATGGGAAAGGTGGAGGTTGCAACAGCGAA-CCCGATAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCAG-TAC
* * * * * * *
22531553 CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAACTCGA-TAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAA-TCCAGTAC
* * * *
22531602 CTTAGAAGATGTGATGGG-AAGGATTAAGGCCGCAACGGCGAATTC-GACAC
1 CAT-GAAGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCAG-TAC
* * * * * *
22531652 CATGAAAATGTAATGGGAAAGGTTGAGGTCGCAACGACGAACCCGGTAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGTAC
* * *
22531701 CATGAAGATTTGATGGGAAAGGTTGAGGCCGCAACGGTGAA-CCCGATAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCAG-TAC
** ** * ** * * * ***
22531750 TTTAGAAGATGTGATAAG-AAGGACTGAGGTTGTAATGGTGAATTTGGTAC
1 CAT-GAAGATGTGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCAGTAC
* * * * *
22531800 CATGAA-ATGTGATGGGAAAAGTTGAGGCTGCAACGG-TAAACCCGATAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCAG-TAC
* * *
22531848 CATGAAAATATGAAGGGAAAGGTTGAGGCC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCC
22531878 ACGATGGAAA
Statistics
Matches: 550, Mismatches: 134, Indels: 74
0.73 0.18 0.10
Matches are distributed among these distances:
47 3 0.01
48 37 0.07
49 289 0.53
50 213 0.39
51 7 0.01
52 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (49 bp):
CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCAGTAC
Found at i:22531293 original size:99 final size:99
Alignment explanation
Indices: 22531108--22531875 Score: 568
Period size: 99 Copynumber: 7.8 Consensus size: 99
22531098 ACCAAGGAAA
* * * * * *
22531108 CATGAAGATGTGAAGGAAAAGGTTAAGGTCGCAACGACAAACCCGATACCTTAGAAGATATGATG
1 CATGAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGAAG
*
22531173 GG-AAGGATTGAGGCCGCAACGGCGAATCCAGTAC
66 GGAAAGG-TTGAGGTCGCAACGGCGAATCCAGTAC
* * * * *
22531207 CATGAAAATGTGATGGGAAAGGTTAAGGCCGCAACGATGAACCTGGTACCTTAGAAGATTTGAAG
1 CATGAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGAAG
* * *
22531272 GGAAAGGTTAAGGTCGTAACGGCGAACTCGA-TAC
66 GGAAAGGTTGAGGTCGCAACGGCGAA-TCCAGTAC
* * * * *
22531306 CTTAGAAGATGTGATGGG-AAGGATTGAGGCCGCAACGGCGAATCCGACACCATTA-AA-ATGT-
1 CAT-GAAGATGTGATGGGAAAGG-TTAAGGCCGCAACGACGAACCCGATACC-TTAGAAGATGTG
22531367 AATGGGAAAGGTTGAGG-CTGCAACGGCGAA-CCTAGTAC
63 AA-GGGAAAGGTTGAGGTC-GCAACGGCGAATCC-AGTAC
* * * * ** * *
22531405 CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAAGTCGGTACCTTAGAAGATGTGATG
1 CATGAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGAAG
* *
22531470 GG-AAGGATTGAGGCCGCAACGGCGAATCC-GACAC
66 GGAAAGG-TTGAGGTCGCAACGGCGAATCCAG-TAC
* * ** ** * *
22531504 CATGAAAATGTAATGGGAAAGGTGGAGGTTGCAAC-AGCGAACCCGATACCAT-GAAGATTTGAA
1 CATGAAGATGTGATGGGAAAGGTTAAGGCCGCAACGA-CGAACCCGATACCTTAGAAGATGTGAA
* * * *
22531567 GGGAAAAGTTAAGGTCGCAACGACGAACTCGA-TAC
65 GGGAAAGGTTGAGGTCGCAACGGCGAA-TCCAGTAC
* * ** * * *
22531602 CTTAGAAGATGTGATGGG-AAGGATTAAGGCCGCAACGGCGAATTCGACACCAT-GAAAATGT-A
1 CAT-GAAGATGTGATGGGAAAGG-TTAAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGA
* * *
22531664 ATGGGAAAGGTTGAGGTCGCAACGACGAACCCGGTAC
64 A-GGGAAAGGTTGAGGTCGCAACGGCGAATCCAGTAC
* * ** *
22531701 CATGAAGATTTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACTTTAGAAGATGTGATA
1 CATGAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGA-A
* * * * * * ***
22531766 -AG-AAGGACTGAGGTTGTAATGGTGAATTTGGTAC
65 GGGAAAGG-TTGAGGTCGCAACGGCGAATCCAGTAC
* * * *** * * *
22531800 CATGAA-ATGTGATGGGAAAAGTTGAGGCTGCAACGGTAAACCCGATACCAT-GAAAATATGAAG
1 CATGAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGAAG
22531863 GGAAAGGTTGAGG
66 GGAAAGGTTGAGG
22531876 CCACGATGGA
Statistics
Matches: 528, Mismatches: 108, Indels: 68
0.75 0.15 0.10
Matches are distributed among these distances:
96 1 0.00
97 18 0.03
98 167 0.32
99 290 0.55
100 48 0.09
101 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.19
Consensus pattern (99 bp):
CATGAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGAAG
GGAAAGGTTGAGGTCGCAACGGCGAATCCAGTAC
Found at i:22531498 original size:148 final size:147
Alignment explanation
Indices: 22531108--22531867 Score: 952
Period size: 148 Copynumber: 5.1 Consensus size: 147
22531098 ACCAAGGAAA
* * * *
22531108 CATGAAGATGTGAA-GGAAAAGGTTAAGGTCGCAACGACAAACCCGATACCTTAGAAGATATGAT
1 CATGAAGATTTGAAGGGAAAA-GTTAAGGTCGCAACGACGAACTCGATACCTTAGAAGATGTGAT
* * *
22531172 GGGAAGGATTGAGGCCGCAACGGCGAATCC-AGTACCATGAAAATGTGATGGGAAAGGTTAAGGC
65 GGGAAGGATTGAGGCCGCAACGGCGAATCCGA-CACCATGAAAATGTAATGGGAAAGGTTGAGGC
* ** *
22531236 CGCAACGATGAACCTGGTAC
129 TGCAACGGCGAACC-CGTAC
* * * *
22531256 CTTAGAAGATTTGAAGGGAAAGGTTAAGGTCGTAACGGCGAACTCGATACCTTAGAAGATGTGAT
1 CAT-GAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAACTCGATACCTTAGAAGATGTGAT
*
22531321 GGGAAGGATTGAGGCCGCAACGGCGAATCCGACACCATTAAAATGTAATGGGAAAGGTTGAGGCT
65 GGGAAGGATTGAGGCCGCAACGGCGAATCCGACACCATGAAAATGTAATGGGAAAGGTTGAGGCT
*
22531386 GCAACGGCGAACCTAGTAC
130 GCAACGGCGAACC-CGTAC
* *
22531405 CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAAGTCGGTACCTTAGAAGATGTGATG
1 CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAACTCGATACCTTAGAAGATGTGATG
* *
22531470 GGAAGGATTGAGGCCGCAACGGCGAATCCGACACCATGAAAATGTAATGGGAAAGGTGGAGGTTG
66 GGAAGGATTGAGGCCGCAACGGCGAATCCGACACCATGAAAATGTAATGGGAAAGGTTGAGGCTG
*
22531535 CAACAGCGAACCCGATAC
131 CAACGGCGAACCCG-TAC
22531553 CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAACTCGATACCTTAGAAGATGTGATG
1 CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAACTCGATACCTTAGAAGATGTGATG
* *
22531618 GGAAGGATTAAGGCCGCAACGGCGAATTCGACACCATGAAAATGTAATGGGAAAGGTTGAGG-TC
66 GGAAGGATTGAGGCCGCAACGGCGAATCCGACACCATGAAAATGTAATGGGAAAGGTTGAGGCT-
*
22531682 GCAACGACGAACCCGGTAC
130 GCAACGGCGAACCC-GTAC
* * * * ** * * *
22531701 CATGAAGATTTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACTTTAGAAGATGTGATA
1 CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAACTCGATACCTTAGAAGATGTGATG
* * ** * * * ** ** * *
22531766 AGAAGGACTGAGGTTGTAATGGTGAATTTGGTACCATG-AAATGTGATGGGAAAAGTTGAGGCTG
66 GGAAGGATTGAGGCCGCAACGGCGAATCCGACACCATGAAAATGTAATGGGAAAGGTTGAGGCTG
**
22531830 CAACGGTAAACCCGATAC
131 CAACGGCGAACCCG-TAC
* *
22531848 CATGAAAATATGAAGGGAAA
1 CATGAAGATTTGAAGGGAAA
22531868 GGTTGAGGCC
Statistics
Matches: 542, Mismatches: 62, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
146 1 0.00
147 54 0.10
148 356 0.66
149 125 0.23
150 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.19
Consensus pattern (147 bp):
CATGAAGATTTGAAGGGAAAAGTTAAGGTCGCAACGACGAACTCGATACCTTAGAAGATGTGATG
GGAAGGATTGAGGCCGCAACGGCGAATCCGACACCATGAAAATGTAATGGGAAAGGTTGAGGCTG
CAACGGCGAACCCGTAC
Found at i:22532297 original size:40 final size:40
Alignment explanation
Indices: 22532241--22532464 Score: 158
Period size: 39 Copynumber: 5.7 Consensus size: 40
22532231 TCACCATCCA
* * *
22532241 ATCTCTTA-CCCTGATCATGGGGCAAATTGAAAATCATCTG
1 ATCTCTTATCCC-GATCATGGGGCAGATTAAAAACCATCTG
* * * **
22532281 ATCTCTTATCCCGATCATGGGGTAGA-TCACAACCATCCA
1 ATCTCTTATCCCGATCATGGGGCAGATTAAAAACCATCTG
* * *
22532320 ATCTTTTACCCCGATCATGGAGCAGATTAAAAACCAT-TCG
1 ATCTCTTATCCCGATCATGGGGCAGATTAAAAACCATCT-G
* *** *
22532360 ATCTCTTATCCCGATCATGGAGCAGA-TCGCAACCATC-C
1 ATCTCTTATCCCGATCATGGGGCAGATTAAAAACCATCTG
* * **
22532398 AGTCTCTTA-CCCTAATCATGGGGCAGATTAAAAA-TA-CCA
1 A-TCTCTTATCCC-GATCATGGGGCAGATTAAAAACCATCTG
* *
22532437 AACTCTTACCCCGATCATGGGGCAGATT
1 ATCTCTTATCCCGATCATGGGGCAGATT
22532465 GAAGAATCCA
Statistics
Matches: 145, Mismatches: 30, Indels: 20
0.74 0.15 0.10
Matches are distributed among these distances:
38 26 0.18
39 61 0.42
40 55 0.38
41 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (40 bp):
ATCTCTTATCCCGATCATGGGGCAGATTAAAAACCATCTG
Found at i:22532364 original size:79 final size:79
Alignment explanation
Indices: 22532233--22532995 Score: 314
Period size: 78 Copynumber: 9.8 Consensus size: 79
22532223 AAGTTACATC
* * *
22532233 ACCATCCAATCTCTTACCCTGATCATGGGGCAAATTGAAAATCATCTGATCTCTTATCCCGATCA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTAAAAACCATCTGATCTCTTATCCCGATCA
* *
22532298 TGGGGTAGATCACA
66 TGGAGCAGATCACA
* * *
22532312 ACCATCCAATCTTTTACCCCGATCATGGAGCAGATTAAAAACCAT-TCGATCTCTTATCCCGATC
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTAAAAACCATCT-GATCTCTTATCCCGATC
*
22532376 ATGGAGCAGATCGCA
65 ATGGAGCAGATCACA
* * * ** * *
22532391 ACCATCCAGTCTCTTACCCTAATCATGGGGCAGATTAAAAA-TA-CCAAACTCTTACCCCGATCA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTAAAAACCATCTGATCTCTTATCCCGATCA
* **
22532454 TGGGGCAGAT-TGA
66 TGGAGCAGATCACA
** * * * * * * ** *
22532467 AGAATCCAATCTCTTACCTTAAT-AAGAAGGCAGATTGAAGACGCA-CCAATCTCTTA-CCTCAA
1 ACCATCCAATCTCTTACCCTGATCATG-GGGCAGATTAAAAAC-CATCTGATCTCTTATCC-CGA
* **
22532529 CCAT-GAGGCAGAT-TGA
63 TCATGGA-GCAGATCACA
* * * * * * * * *
22532545 AGCATCTAATCTGTTACCTTAATCA-GAAGGCAGATTAAAGACACA-CTAATCTCTTA-CCTCAA
1 ACCATCCAATCTCTTACCCTGATCATG-GGGCAGATTAAAAAC-CATCTGATCTCTTATCC-CGA
**
22532607 TCAT-GAGGCAGAT-TGA
63 TCATGGA-GCAGATCACA
* * ** * * * *
22532623 AGCATCCAATCTCTTACCCTAATCAAAGGGCAGATTGAAGA-CATGCAG-TCTTTTA-CCTCGAT
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTAAAAACCAT-CTGATCTCTTATCC-CGAT
* **
22532685 CAT-AAGGCAGAT-TGA
64 CATGGA-GCAGATCACA
* * * * * ** *
22532700 AGCATCCAATCT-TTACCCTAATCGA-AGGGCAGATTGAAGA-CA-CCAATCTTTTA-CCCGATC
1 ACCATCCAATCTCTTACCCTGATC-ATGGGGCAGATTAAAAACCATCTGATCTCTTATCCCGATC
* **
22532760 ATAGG-GTAGATTGCA
65 AT-GGAGCAGATCACA
* ** * ** *
22532775 ACTATCCAATCTCTTACCCTGATCATGCAGCAGATTGAAAACCATCCAATCTCTTAACCCGATCA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTAAAAACCATCTGATCTCTTATCCCGATCA
* *
22532840 TGGGGCAGATTGA-A
66 TGGAGCAGA-TCACA
* * * * *
22532854 AACA-CCAATCTCTTACCCCGATCATGGGGTAGATTGAAAAAACCA----ATATCTTACCCCGAT
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATT--AAAAACCATCTGATCTCTTATCCCGAT
* * *
22532914 CATAGG-GTAGATTGAAA
64 CAT-GGAGCAGA-TCACA
* * * ** *
22532931 ACCATCCAATCTCTTA-CCTCGATCATAGGGTAGATTGAAAACCATCCAATCTCTTACCCCGATC
1 ACCATCCAATCTCTTACCCT-GATCATGGGGCAGATTAAAAACCATCTGATCTCTTATCCCGATC
22532995 A
65 A
22532996 AGGGGCGAAT
Statistics
Matches: 566, Mismatches: 85, Indels: 65
0.79 0.12 0.09
Matches are distributed among these distances:
74 13 0.02
75 23 0.04
76 113 0.20
77 76 0.13
78 196 0.35
79 121 0.21
80 24 0.04
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (79 bp):
ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTAAAAACCATCTGATCTCTTATCCCGATCA
TGGAGCAGATCACA
Found at i:22532454 original size:38 final size:38
Alignment explanation
Indices: 22532236--22533010 Score: 469
Period size: 40 Copynumber: 20.0 Consensus size: 38
22532226 TTACATCACC
* *
22532236 ATCCAATCTCTTACCCTGATCATGGGGCAAATTGAAAA
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
** * * * *
22532274 TCATCTGATCTCTTATCCCGATCATGGGGTAGA-TCACAACC
1 --ATCCAATCTCTTACCCCGATCATGGGGCAGATTGA-AA-A
* * *
22532315 ATCCAATCTTTTACCCCGATCATGGAGCAGATTAAAAA
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * * * * **
22532353 CCATTCGATCTCTTATCCCGATCATGGAGCAGATCGCAACC
1 --ATCCAATCTCTTACCCCGATCATGGGGCAGATTG-AAAA
* **
22532394 ATCCAGTCTCTTACCCTAATCATGGGGCAGATT-AAAA
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* *
22532431 ATACCAAACTCTTACCCCGATCATGGGGCAGATTGAAGA
1 AT-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
*** * * *
22532470 ATCCAATCTCTTACCTTAAT-AAGAAGGCAGATTGAAGACGC
1 ATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAA-A--A
* * * * **
22532511 A-CCAATCTCTTACCTCAACCATGAGGCAGATTGAAGC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * *** *
22532548 ATCTAATCTGTTACCTTAATCA-GAAGGCAGATT-AAAGA
1 ATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAA-A
* * * **
22532586 CA-CACTAATCTCTTACCTCAATCATGAGGCAGATTGAAGC
1 -ATC-C-AATCTCTTACCCCGATCATGGGGCAGATTGAAAA
** ** *
22532626 ATCCAATCTCTTACCCTAATCAAAGGGCAGATTGAAGAC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA-AA
* * * * ** **
22532665 ATGCAGTCTTTTACCTCGATCATAAGGCAGATTGAAGC
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
** * *
22532703 ATCCAATCT-TTACCCTAATCGA-AGGGCAGATTGAAGAC
1 ATCCAATCTCTTACCCCGATC-ATGGGGCAGATTGAA-AA
* * * **
22532741 A-CCAATCTTTTA-CCCGATCATAGGGTAGATTGCAACT
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTG-AAAA
* **
22532778 ATCCAATCTCTTACCCTGATCATGCAGCAGATTGAAAA
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
*
22532816 CCATCCAATCTCTTAACCCGATCATGGGGCAGATTGAAAA
1 --ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
*
22532856 CA-CCAATCTCTTACCCCGATCATGGGGTAGATTGAAAA
1 -ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * * *
22532894 AACCAATATCTTACCCCGATCATAGGGTAGATTGAAAA
1 ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
* * *
22532932 CCATCCAATCTCTTACCTCGATCATAGGGTAGATTGAAAA
1 --ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
*
22532972 CCATCCAATCTCTTACCCCGATCAAGGGGC-GAATTGAAA
1 --ATCCAATCTCTTACCCCGATCATGGGGCAG-ATTGAAA
22533011 CCATCATCCA
Statistics
Matches: 587, Mismatches: 112, Indels: 72
0.76 0.15 0.09
Matches are distributed among these distances:
36 1 0.00
37 55 0.09
38 201 0.34
39 109 0.19
40 213 0.36
41 8 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (38 bp):
ATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAAA
Found at i:22532543 original size:78 final size:77
Alignment explanation
Indices: 22532360--22532995 Score: 455
Period size: 78 Copynumber: 8.2 Consensus size: 77
22532350 AAACCATTCG
* * * * *
22532360 ATCTCTTATCC-CGATCATG-GAGCAGATCGCAACCATCCAGTCTCTTACCCTAATCATG-GGGC
1 ATCTCTTA-CCTCGATCATGAG-GCAGATTG-AAGCATCCAATCTCTTACCCTAAT-AAGAAGGC
* **
22532422 AGATT-AAAAATACCA
62 AGATTGAAGACCACCA
* * * * *
22532437 AACTCTTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTCTTACCTTAATAAGAAGGCAGAT
1 ATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAATAAGAAGGCAGAT
22532502 TGAAGACGCACCA
66 TGAAGAC-CACCA
* * * * * *
22532515 ATCTCTTACCTCAACCATGAGGCAGATTGAAGCATCTAATCTGTTACCTTAATCAGAAGGCAGAT
1 ATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAATAAGAAGGCAGAT
* *
22532580 TAAAGACACACTA
66 TGAAGAC-CACCA
* *
22532593 ATCTCTTACCTCAATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAATCAA-AGGGCAGA
1 ATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAAT-AAGAAGGCAGA
*
22532657 TTGAAGA-CATGCA
65 TTGAAGACCA-CCA
* * * *
22532670 GTCTTTTACCTCGATCATAAGGCAGATTGAAGCATCCAATCT-TTACCCTAAT-CGAAGGGCAGA
1 ATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAATAAGAA-GGCAGA
22532733 TTGAAGA-CACCA
65 TTGAAGACCACCA
* * * * *
22532745 ATCTTTTACC-CGATCAT-AGGGTAGATTGCAA-CTATCCAATCTCTTACCCTGATCATGCA-GC
1 ATCTCTTACCTCGATCATGA-GGCAGATTG-AAGC-ATCCAATCTCTTACCCTAAT-AAGAAGGC
*
22532806 AGATTGAAAACCATCCA
62 AGATTGAAGACCA-CCA
* * ** * * *
22532823 ATCTCTTAACC-CGATCATGGGGCAGATTGAAAACA-CCAATCTCTTACCCCGATCATG-GGGTA
1 ATCTCTT-ACCTCGATCATGAGGCAGATTG-AAGCATCCAATCTCTTACCCTAAT-AAGAAGGCA
**
22532885 GATTGAA-AAAACCA
63 GATTGAAGACCACCA
* * * * * * * * *
22532899 ATATCTTACCCCGATCAT-AGGGTAGATTGAAAACCATCCAATCTCTTA-CCTCGATCATAGGGT
1 ATCTCTTACCTCGATCATGA-GGCAGATTG--AAGCATCCAATCTCTTACCCT-AATAAGAAGGC
*
22532962 AGATTGAAAACCATCCA
62 AGATTGAAGACCA-CCA
*
22532979 ATCTCTTACCCCGATCA
1 ATCTCTTACCTCGATCA
22532996 AGGGGCGAAT
Statistics
Matches: 465, Mismatches: 65, Indels: 55
0.79 0.11 0.09
Matches are distributed among these distances:
73 1 0.00
74 16 0.03
75 28 0.06
76 101 0.22
77 75 0.16
78 200 0.43
79 24 0.05
80 20 0.04
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (77 bp):
ATCTCTTACCTCGATCATGAGGCAGATTGAAGCATCCAATCTCTTACCCTAATAAGAAGGCAGAT
TGAAGACCACCA
Found at i:22532562 original size:116 final size:115
Alignment explanation
Indices: 22532235--22532989 Score: 464
Period size: 116 Copynumber: 6.5 Consensus size: 115
22532225 GTTACATCAC
* * * * ** *
22532235 CATCCAATCTCTTACC-CTGATCATGGGGCAAATTGAAAATCATCTGATCTCTTATCCCGATCAT
1 CATCCAATCTCTTACCTC-AATCATGAGGCAGATTG-AAAGCA-CCAATCTCTTA-CCCAATCAT
* ** * * * *
22532299 G-GGGTAGATCACAACCATCCAATCTTTTACCCCGATCATG-GAGCAGATTAAAAA
62 GAGGGCAGAT-TGAAGCATCCAATCTCTTACCCCGATCATGAG-GCAGATTGAAGA
* * * * * * *
22532353 CCATTCGATCTCTTATCC-CGATCATG-GAGCAGATCGCAACCATCCAGTCTCTTACCCTAATCA
1 -CATCCAATCTCTTA-CCTCAATCATGAG-GCAGATTGAAAGCA-CCAATCTCTTACCC-AATCA
** * *
22532416 TG-GGGCAGATT-AAAAATACCAAACTCTTACCCCGATCATGGGGCAGATTGAAGA
61 TGAGGGCAGATTGAAGCAT-CCAATCTCTTACCCCGATCATGAGGCAGATTGAAGA
* * *
22532470 -ATCCAATCTCTTACCTTAAT-AAGAAGGCAGATTGAAGACGCACCAATCTCTTACCTCAACCAT
1 CATCCAATCTCTTACCTCAATCATG-AGGCAGATTGAA-A-GCACCAATCTCTTACC-CAATCAT
* * *** *
22532533 GA-GGCAGATTGAAGCATCTAATCTGTTACCTTAATCA-GAAGGCAGATTAAAGA
62 GAGGGCAGATTGAAGCATCCAATCTCTTACCCCGATCATG-AGGCAGATTGAAGA
22532586 CA-CACTAATCTCTTACCTCAATCATGAGGCAGATTG-AAGCATCCAATCTCTTACCCTAATCA-
1 CATC-C-AATCTCTTACCTCAATCATGAGGCAGATTGAAAGCA-CCAATCTCTTACCC-AATCAT
* * * * * *
22532648 AAGGGCAGATTGAAGACATGCAGTCTTTTACCTCGATCATAAGGCAGATTGAAG-
62 GAGGGCAGATTGAAG-CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGA
* * *
22532702 CATCCAATCT-TTACC-CTAATCGAAG-GGCAGATTG-AAGACACCAATCTTTTACCCGATCAT-
1 CATCCAATCTCTTACCTC-AATC-ATGAGGCAGATTGAAAG-CACCAATCTCTTACCCAATCATG
* * *
22532762 AGGGTAGATTGCAA-CTATCCAATCTCTTACCCTGATCATGCA-GCAGATTGAAAA
63 AGGGCAGATTG-AAGC-ATCCAATCTCTTACCCCGATCATG-AGGCAGATTGAAGA
* * * *
22532816 CCATCCAATCTCTTAACC-CGATCATGGGGCAGATTGAAAACACCAATCTCTTACCCCGATCATG
1 -CATCCAATCTCTT-ACCTCAATCATGAGGCAGATTGAAAGCACCAATCTCTTA-CCCAATCATG
* ** * * * *
22532880 -GGGTAGATTGAAAAAACCAATATCTTACCCCGATCAT-AGGGTAGATTGAAAA
63 AGGGCAGATTGAAGCATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAGA
* * *
22532932 CCATCCAATCTCTTACCTCGATCAT-AGGGTAGATTGAAAACCATCCAATCTCTTACCC
1 -CATCCAATCTCTTACCTCAATCATGA-GGCAGATTG-AAAGCA-CCAATCTCTTACCC
22532990 CGATCAAGGG
Statistics
Matches: 517, Mismatches: 73, Indels: 94
0.76 0.11 0.14
Matches are distributed among these distances:
112 1 0.00
113 43 0.08
114 42 0.08
115 51 0.10
116 180 0.35
117 106 0.21
118 64 0.12
119 27 0.05
120 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (115 bp):
CATCCAATCTCTTACCTCAATCATGAGGCAGATTGAAAGCACCAATCTCTTACCCAATCATGAGG
GCAGATTGAAGCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGA
Found at i:22532824 original size:40 final size:40
Alignment explanation
Indices: 22532233--22533032 Score: 540
Period size: 38 Copynumber: 20.5 Consensus size: 40
22532223 AAGTTACATC
*
22532233 ACCATCCAATCTCTTACCCTGATCATGGGGCAAATTGAAA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
* ** * * *
22532273 ATCATCTGATCTCTTATCCC-GATCATGGGGTAGA-TCACA
1 ACCATCCAATCTCTTA-CCCTGATCATGGGGCAGATTGAAA
* * * *
22532312 ACCATCCAATCTTTTACCCCGATCATGGAGCAGATTAAAA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
* * * * *
22532352 ACCATTCGATCTCTTATCCC-GATCATGGAGCAGATCG-CA
1 ACCATCCAATCTCTTA-CCCTGATCATGGGGCAGATTGAAA
* *
22532391 ACCATCCAGTCTCTTACCCTAATCATGGGGCAGATT-AAA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
* * *
22532430 A--ATACCAAACTCTTACCCCGATCATGGGGCAGATTGAAG
1 ACCAT-CCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
* * * * *
22532469 A--ATCCAATCTCTTACCTTAAT-AAGAAGGCAGATTGAAG
1 ACCATCCAATCTCTTACCCTGATCATG-GGGCAGATTGAAA
* * *
22532507 ACGCA-CCAATCTCTTA-CCTCAACCATGAGGCAGATTG--A
1 AC-CATCCAATCTCTTACCCT-GATCATGGGGCAGATTGAAA
* * * * * *
22532545 AGCATCTAATCTGTTACCTTAATCA-GAAGGCAGATT-AAA
1 ACCATCCAATCTCTTACCCTGATCATG-GGGCAGATTGAAA
* * *
22532584 GACACA-CTAATCTCTTA-CCTCAATCATGAGGCAGATTG--A
1 -AC-CATCCAATCTCTTACCCT-GATCATGGGGCAGATTGAAA
* * ** *
22532623 AGCATCCAATCTCTTACCCTAATCAAAGGGCAGATTGAAG
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
* * * **
22532663 A-CATGCAGTCTTTTA-CCTCGATCATAAGGCAGATTG--A
1 ACCATCCAATCTCTTACCCT-GATCATGGGGCAGATTGAAA
* * * *
22532700 AGCATCCAATCT-TTACCCTAATCGA-AGGGCAGATTGAAG
1 ACCATCCAATCTCTTACCCTGATC-ATGGGGCAGATTGAAA
* * * *
22532739 A-CA-CCAATCTTTTACCC-GATCATAGGGTAGATTG-CA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
* **
22532775 ACTATCCAATCTCTTACCCTGATCATGCAGCAGATTGAAA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
22532815 ACCATCCAATCTCTTAACCC-GATCATGGGGCAGATTGAAA
1 ACCATCCAATCTCTT-ACCCTGATCATGGGGCAGATTGAAA
* *
22532855 A-CA-CCAATCTCTTACCCCGATCATGGGGTAGATTGAAA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
* * * * *
22532893 A--AACCAATATCTTACCCCGATCATAGGGTAGATTGAAA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
* *
22532931 ACCATCCAATCTCTTA-CCTCGATCATAGGGTAGATTGAAA
1 ACCATCCAATCTCTTACCCT-GATCATGGGGCAGATTGAAA
* *
22532971 ACCATCCAATCTCTTACCCCGATCAAGGGGC-GAATTGAAA
1 ACCATCCAATCTCTTACCCTGATCATGGGGCAG-ATTGAAA
* *
22533011 CCATCATCCAATCTTTTACCCT
1 --ACCATCCAATCTCTTACCCT
22533033 TAAACCAAGA
Statistics
Matches: 614, Mismatches: 96, Indels: 98
0.76 0.12 0.12
Matches are distributed among these distances:
36 2 0.00
37 52 0.08
38 208 0.34
39 116 0.19
40 201 0.33
41 18 0.03
42 17 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
ACCATCCAATCTCTTACCCTGATCATGGGGCAGATTGAAA
Found at i:22533219 original size:51 final size:52
Alignment explanation
Indices: 22533074--22533228 Score: 140
Period size: 51 Copynumber: 3.0 Consensus size: 52
22533064 TCACAGAAGT
* * * * * *
22533074 AAATCTCAATCTCCCTAAAGTTGTAGTGGAATGGAGTGAAGCTTCAACACCA
1 AAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAACTACAATAGCA
* * * * * *
22533126 AAAT-TC-TTATCCCTGAAG-TGTCAATGGATTGAACT-AAGACTACAATAGC-
1 AAATCTCAATCTCCCTGAAGTTG-CAGTGGAATGGAGTGAA-ACTACAATAGCA
*
22533175 GAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAACTACAATAGCA
1 AAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAACTACAATAGCA
22533227 AA
1 AA
22533229 TTTTGTCATT
Statistics
Matches: 76, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
49 7 0.09
50 27 0.36
51 33 0.43
52 9 0.12
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (52 bp):
AAATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAACTACAATAGCA
Found at i:22538188 original size:24 final size:23
Alignment explanation
Indices: 22538161--22538206 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22538151 AAAAACGTCG
22538161 GAATCAGGAGAAAATAAA-AAAATA
1 GAATCA-GAG-AAATAAAGAAAATA
*
22538185 GAATTAGAGAAATAAAGAAAAT
1 GAATCAGAGAAATAAAGAAAAT
22538207 TTCATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.65, C:0.02, G:0.17, T:0.15
Consensus pattern (23 bp):
GAATCAGAGAAATAAAGAAAATA
Found at i:22538983 original size:11 final size:11
Alignment explanation
Indices: 22538967--22538999 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
22538957 GCTCTAAAGA
22538967 TAAATATAAAT
1 TAAATATAAAT
*
22538978 TAAATACAAAT
1 TAAATATAAAT
22538989 TAAATATAAAT
1 TAAATATAAAT
22539000 AATATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATATAAAT
Found at i:22540425 original size:32 final size:31
Alignment explanation
Indices: 22540389--22540448 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22540379 TTTAAGGATT
* *
22540389 AATATGTAGTTTGTCTTTTAAATTTTTTTAAA
1 AATATGTAGTTGGT-ATTTAAATTTTTTTAAA
*
22540421 AATATTTAGTTGGTATTTAAATTTTTTT
1 AATATGTAGTTGGTATTTAAATTTTTTT
22540449 GGACGTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (31 bp):
AATATGTAGTTGGTATTTAAATTTTTTTAAA
Found at i:22541102 original size:9 final size:9
Alignment explanation
Indices: 22540995--22541138 Score: 50
Period size: 9 Copynumber: 17.3 Consensus size: 9
22540985 TTTGAAGAAA
22540995 TTTATATAT
1 TTTATATAT
22541004 TTT-TATAT
1 TTTATATAT
*
22541012 ATTTAT-TAA
1 -TTTATATAT
22541021 TTTATATA-
1 TTTATATAT
22541029 -TTATATAT
1 TTTATATAT
*
22541037 TATGA-AT-T
1 T-TTATATAT
*
22541045 TTTGTATAT
1 TTTATATAT
*
22541054 TTT-TAAAAT
1 TTTAT-ATAT
* *
22541063 ATTAGACT-T
1 TTTATA-TAT
22541072 TTTATATAT
1 TTTATATAT
22541081 TTTA-A-AT
1 TTTATATAT
*
22541088 TGTATATA-
1 TTTATATAT
22541096 TTT-TATAT
1 TTTATATAT
*
22541104 TTTCTA-AT
1 TTTATATAT
*
22541112 TTTCTA-A-
1 TTTATATAT
*
22541119 ATT-TATAT
1 TTTATATAT
22541127 TTTATATAT
1 TTTATATAT
22541136 TTT
1 TTT
22541139 TAAAATAATA
Statistics
Matches: 102, Mismatches: 14, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
6 2 0.02
7 20 0.20
8 34 0.33
9 43 0.42
10 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTATATAT
Found at i:22541123 original size:23 final size:23
Alignment explanation
Indices: 22541097--22541142 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
22541087 TTGTATATAT
*
22541097 TTTATATTTTCTA-ATTTTCTAAA
1 TTTATATTTTATATATTTT-TAAA
22541120 TTTATATTTTATATATTTTTAAA
1 TTTATATTTTATATATTTTTAAA
22541143 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTATATTTTATATATTTTTAAA
Found at i:22543231 original size:23 final size:24
Alignment explanation
Indices: 22543185--22543231 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22543175 TTTTTTTGAA
* * *
22543185 TTTCAAGTTCGAATCAAGTTGAAT
1 TTTCAAATTCGAATCAACTCGAAT
22543209 TTTCAAATTCGAA-CAACTCGAAT
1 TTTCAAATTCGAATCAACTCGAAT
22543232 AAATCAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (24 bp):
TTTCAAATTCGAATCAACTCGAAT
Found at i:22544355 original size:18 final size:20
Alignment explanation
Indices: 22544319--22544356 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
22544309 CAACACTGGA
22544319 CTCATAGAGTTGAAACATAT
1 CTCATAGAGTTGAAACATAT
*
22544339 CTCATA-AG-TGAATCATAT
1 CTCATAGAGTTGAAACATAT
22544357 AGCTAACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (20 bp):
CTCATAGAGTTGAAACATAT
Found at i:22544685 original size:38 final size:36
Alignment explanation
Indices: 22544608--22544686 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 36
22544598 ATATAATCAG
* *
22544608 TCACATGACATGAAGGACATACCCACATATTTTCTT
1 TCACATGACATGAAGAACATACCCACATATTTACTT
*
22544644 TCACATGGCATGAAGAACATACCCACATATATTCACTT
1 TCACATGACATGAAGAACATACCCACATAT-TT-ACTT
22544682 TCACA
1 TCACA
22544687 ACAGTCATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 28 0.74
37 2 0.05
38 8 0.21
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (36 bp):
TCACATGACATGAAGAACATACCCACATATTTACTT
Found at i:22544791 original size:23 final size:23
Alignment explanation
Indices: 22544756--22544894 Score: 197
Period size: 23 Copynumber: 6.0 Consensus size: 23
22544746 ATCTTAATTC
22544756 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
22544779 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
22544802 TTTAAGCATAAATCACATTAGTA
1 TTTAAGCACAAATCACATTAATA
* *
22544825 TTTAAGCATAAATCACTTTAATA
1 TTTAAGCACAAATCACATTAATA
* *
22544848 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
22544871 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
22544894 T
1 T
22544895 GACACATTAA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 102 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:22544817 original size:46 final size:46
Alignment explanation
Indices: 22544756--22545005 Score: 270
Period size: 46 Copynumber: 5.7 Consensus size: 46
22544746 ATCTTAATTC
* *
22544756 TTTAAGCACAAATCACATTAATATTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * *
22544802 TTTAAGCATAAATCACATTAGTATTTAAGCATAAATCACT-TTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCA-TATTAATA
* * *
22544848 TTTGAGCACAAATCATATTAATATTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
22544894 --T--G-----A-CACATTAATATTTAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * *
22544930 TTTAAGCACAAATCACCTTATTACTTAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
* * * **
22544976 TTTAATCATAAAACATTTTAATATTTAAGC
1 TTTAAGCACAAATCACATTAATATTTAAGC
22545006 GGATATAAGA
Statistics
Matches: 171, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
36 31 0.18
37 1 0.01
38 1 0.01
40 1 0.01
42 1 0.01
44 1 0.01
45 1 0.01
46 133 0.78
47 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (46 bp):
TTTAAGCACAAATCACATTAATATTTAAGCACAAATCATATTAATA
Found at i:22544911 original size:82 final size:82
Alignment explanation
Indices: 22544815--22544976 Score: 236
Period size: 82 Copynumber: 2.0 Consensus size: 82
22544805 AAGCATAAAT
* * * * *
22544815 CACATTAGTATTTAAGCATAAATCACT-TTAATATTTGAGCACAAATCATATTAATATTTAAGCA
1 CACATTAATATTTAAGCACAAATCA-TATTAATATTTAAGCACAAATCACATTAATACTTAAGCA
22544879 CAAATCACATTAATATGA
65 CAAATCACATTAATATGA
* *
22544897 CACATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACCTTATTACTTAAGCAC
1 CACATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACATTAATACTTAAGCAC
*
22544962 AAATCATATTAATAT
66 AAATCACATTAATAT
22544977 TTAATCATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 1 0.01
82 70 0.99
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (82 bp):
CACATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACATTAATACTTAAGCAC
AAATCACATTAATATGA
Found at i:22544926 original size:23 final size:23
Alignment explanation
Indices: 22544900--22545005 Score: 140
Period size: 23 Copynumber: 4.6 Consensus size: 23
22544890 AATATGACAC
22544900 ATTAATATTTAAGCACAAATCAT
1 ATTAATATTTAAGCACAAATCAT
*
22544923 ATTAATATTTAAGCACAAATCAC
1 ATTAATATTTAAGCACAAATCAT
* * *
22544946 CTTATTACTTAAGCACAAATCAT
1 ATTAATATTTAAGCACAAATCAT
* * *
22544969 ATTAATATTTAATCATAAAACAT
1 ATTAATATTTAAGCACAAATCAT
*
22544992 TTTAATATTTAAGC
1 ATTAATATTTAAGC
22545006 GGATATAAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (23 bp):
ATTAATATTTAAGCACAAATCAT
Found at i:22544997 original size:105 final size:105
Alignment explanation
Indices: 22544795--22544999 Score: 293
Period size: 105 Copynumber: 2.0 Consensus size: 105
22544785 CATAAATCAT
* * * * * *
22544795 ATTAATATTTAAGCATAAATCACATTAGTATTTAAGCATAAATCACTTTAATATTTGAGCACAAA
1 ATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACCTTAATACTTAAGCACAAA
*
22544860 TCATATTAATATTTAAGCACAAATCACATTAATATGACAC
66 TCATATTAATATTTAAGCACAAAACACATTAATATGACAC
* *
22544900 ATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACCTTATTACTTAAGCACAAA
1 ATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACCTTAATACTTAAGCACAAA
* * **
22544965 TCATATTAATATTTAATCATAAAACATTTTAATAT
66 TCATATTAATATTTAAGCACAAAACACATTAATAT
22545000 TTAAGCGGAT
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (105 bp):
ATTAATATTTAAGCACAAATCACATTAATATTTAAGCACAAATCACCTTAATACTTAAGCACAAA
TCATATTAATATTTAAGCACAAAACACATTAATATGACAC
Found at i:22544997 original size:128 final size:128
Alignment explanation
Indices: 22544769--22545005 Score: 350
Period size: 128 Copynumber: 1.9 Consensus size: 128
22544759 AAGCACAAAT
* * * * *
22544769 CACATTAATATTTAATCATAAATCATATTAATATTTAAGCATAAATCACATTAGTATTTAAGCAT
1 CACATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACATTAGTACTTAAGCAC
* *
22544834 AAATCACTTTAATATTTGAGCACAAATCATATTAATATTTAAGCACAAATCACATTAATATGA
66 AAATCACTTTAATATTTAAGCACAAAACATATTAATATTTAAGCACAAATCACATTAATATGA
* *
22544897 CACATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACCTTATTACTTAAGCAC
1 CACATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACATTAGTACTTAAGCAC
* * *
22544962 AAATCA-TATTAATATTTAATCATAAAACATTTTAATATTTAAGC
66 AAATCACT-TTAATATTTAAGCACAAAACATATTAATATTTAAGC
22545006 GGATATAAGA
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
127 1 0.01
128 95 0.99
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (128 bp):
CACATTAATATTTAAGCACAAATCATATTAATATTTAAGCACAAATCACATTAGTACTTAAGCAC
AAATCACTTTAATATTTAAGCACAAAACATATTAATATTTAAGCACAAATCACATTAATATGA
Found at i:22549214 original size:23 final size:23
Alignment explanation
Indices: 22549179--22549438 Score: 326
Period size: 23 Copynumber: 11.4 Consensus size: 23
22549169 ATCTTAATTC
22549179 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
** * *
22549202 TTTAATTATAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
*
22549225 TTTAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
22549248 TTTAAGCACAAATCACATTACTA
1 TTTAAGCACAAATCACATTAATA
** * * *
22549271 TTTGTGTAGAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
22549294 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
22549317 TTTAAACACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
22549340 --TAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
22549361 TTTAAGCACAAATCACATTACTA
1 TTTAAGCACAAATCACATTAATA
* * *
22549384 CTTAATCACTAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
22549407 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
22549430 TTTAAGCAC
1 TTTAAGCAC
22549439 GAATATAAAA
Statistics
Matches: 199, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
21 19 0.10
23 180 0.90
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.35
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:22549261 original size:69 final size:69
Alignment explanation
Indices: 22549179--22549438 Score: 364
Period size: 69 Copynumber: 3.8 Consensus size: 69
22549169 ATCTTAATTC
* * *
22549179 TTTAAGCACAAATCACATTAATATTTAATTATAAATCAAATTAATATTTAAGCACAAATCATATT
1 TTTAAGCACAAATCACATTAATATTTAATCATAAATCATATTAATATTTAAGCACAAATCACATT
22549244 AATA
66 AATA
* * * *
22549248 TTTAAGCACAAATCACATTACTATTT-GTGTAGAAATCATATTAATATTTAAGCACAAATCACAT
1 TTTAAGCACAAATCACATTAATATTTAAT-CATAAATCATATTAATATTTAAGCACAAATCACAT
22549312 TAATA
65 TAATA
* * *
22549317 TTTAAACACAAATCACATTAATA--TAAGCACAAATCATATTAATATTTAAGCACAAATCACATT
1 TTTAAGCACAAATCACATTAATATTTAATCATAAATCATATTAATATTTAAGCACAAATCACATT
*
22549380 ACTA
66 AATA
* * *
22549384 CTTAATCACTAATCACATTAATATTTAATCATAAATCATATTAATATTTAAGCAC
1 TTTAAGCACAAATCACATTAATATTTAATCATAAATCATATTAATATTTAAGCAC
22549439 GAATATAAAA
Statistics
Matches: 170, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
67 58 0.34
68 1 0.01
69 111 0.65
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.35
Consensus pattern (69 bp):
TTTAAGCACAAATCACATTAATATTTAATCATAAATCATATTAATATTTAAGCACAAATCACATT
AATA
Found at i:22551132 original size:18 final size:19
Alignment explanation
Indices: 22551089--22551133 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
22551079 GGTATCAATT
*
22551089 TCACATTTTATCTTTAAAA
1 TCACATTTTATCTATAAAA
*
22551108 T-AAATTTTAT-TATAAAA
1 TCACATTTTATCTATAAAA
22551125 TCACATTTT
1 TCACATTTT
22551134 TACATTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.32
18 14 0.64
19 1 0.05
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (19 bp):
TCACATTTTATCTATAAAA
Found at i:22551612 original size:22 final size:23
Alignment explanation
Indices: 22551587--22551630 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22551577 TTTTTTGATA
22551587 AATTG-ATAAAAACATAATAATC
1 AATTGAATAAAAACATAATAATC
**
22551609 AATTGAATTGAAACATAATAAT
1 AATTGAATAAAAACATAATAAT
22551631 TCAAGTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (23 bp):
AATTGAATAAAAACATAATAATC
Found at i:22553418 original size:18 final size:18
Alignment explanation
Indices: 22553395--22553437 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22553385 GAATAGATTT
22553395 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
22553413 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
22553431 TTAATTA
1 TTAATTA
22553438 CATCTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:22559575 original size:6 final size:6
Alignment explanation
Indices: 22559564--22559602 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
22559554 CCAACACATG
* *
22559564 CATATA CATATA CATACA CGTATA CATATA CATATA CAT
1 CATATA CATATA CATATA CATATA CATATA CATATA CAT
22559603 GAATAGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (6 bp):
CATATA
Found at i:22561669 original size:22 final size:22
Alignment explanation
Indices: 22561621--22561690 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 22
22561611 AATTATTTTT
* *
22561621 TAAAGATAAATATTTAAAATTTA
1 TAAA-ATAATTATTTAAAAATTA
22561644 -AAAATAATTATTTAAAAATTA
1 TAAAATAATTATTTAAAAATTA
* *
22561665 TAAAAAAATTA--TAAAAAATA
1 TAAAATAATTATTTAAAAATTA
22561685 TAAAAT
1 TAAAAT
22561691 TATTCAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.32
21 16 0.39
22 12 0.29
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (22 bp):
TAAAATAATTATTTAAAAATTA
Found at i:22562334 original size:16 final size:16
Alignment explanation
Indices: 22562315--22562352 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22562305 TGAATAGAGA
22562315 TGTAATAGAATAAAAC
1 TGTAATAGAATAAAAC
* *
22562331 TGTAATGGAATAAAGC
1 TGTAATAGAATAAAAC
22562347 TGTAAT
1 TGTAAT
22562353 TAGTAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAAAAC
Found at i:22571657 original size:34 final size:36
Alignment explanation
Indices: 22571601--22571676 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 36
22571591 AGGATTATTG
* *
22571601 TTAAATATAATTTAATGAAATTA-TAATAAATA-AT
1 TTAATTATAATTTAATAAAATTATTAATAAATATAT
* * *
22571635 TTAATTATATTTTAATATAATTATTATTAAATATTAT
1 TTAATTATAATTTAATAAAATTATTAATAAATA-TAT
22571672 TTAAT
1 TTAAT
22571677 AAAAAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
34 19 0.56
35 8 0.24
37 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (36 bp):
TTAATTATAATTTAATAAAATTATTAATAAATATAT
Found at i:22571665 original size:60 final size:57
Alignment explanation
Indices: 22571594--22571716 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 57
22571584 ATATAATAGG
* *
22571594 ATTATTGTTAAATATAATTTAATGAAATTATAATAAATAATTTAATTATATT-TTAATATA
1 ATTATTATTAAATATAATTTAAT-AAA--A-AATAAATAATTTAATAATATTCTTAATATA
* * *
22571654 ATTATTATTAAATATTATTTAATAAAAAATATATAATTTAATAATCTTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAAATAAATAATTTAATAATATTCTTAATATA
22571711 ATTATT
1 ATTATT
22571717 TTTATATTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
56 18 0.32
57 15 0.26
59 3 0.05
60 21 0.37
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (57 bp):
ATTATTATTAAATATAATTTAATAAAAAATAAATAATTTAATAATATTCTTAATATA
Found at i:22571741 original size:32 final size:31
Alignment explanation
Indices: 22571705--22571781 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 31
22571695 TAATCTTCTT
*
22571705 AATATAATTATTTTTATATTAACTTATATTAA
1 AATATATTTATTTTTATATTAA-TTATATTAA
* *
22571737 AATATTTTTTAGTTTTATATTAATTATATTAA
1 AATA-TATTTATTTTTATATTAATTATATTAA
22571769 AATA-ATTTATTTT
1 AATATATTTATTTT
22571782 AAATTATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
30 7 0.18
32 17 0.44
33 15 0.38
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (31 bp):
AATATATTTATTTTTATATTAATTATATTAA
Found at i:22579892 original size:21 final size:21
Alignment explanation
Indices: 22579861--22579904 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
22579851 ATAAAATTTC
22579861 AAAAAATTGAA-TATATAAAAAT
1 AAAAAATTGAAGT-TA-AAAAAT
22579883 AAAAAA-TGAAGTTAAAAAAT
1 AAAAAATTGAAGTTAAAAAAT
22579903 AA
1 AA
22579905 CATTTAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAAAATTGAAGTTAAAAAAT
Found at i:22579923 original size:17 final size:17
Alignment explanation
Indices: 22579901--22579933 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22579891 AAGTTAAAAA
22579901 ATAACATTTAAAAGCCT
1 ATAACATTTAAAAGCCT
22579918 ATAACATTTAAAAGCC
1 ATAACATTTAAAAGCC
22579934 AATTCTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (17 bp):
ATAACATTTAAAAGCCT
Found at i:22581949 original size:45 final size:45
Alignment explanation
Indices: 22581847--22581953 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
22581837 AGTTCCACGT
* * *
22581847 ATAAAATCTGCCACTAGGCTATGGATACATAGCAAAAATTAGCAT
1 ATAAAATCTGCCACTGGGCGATGGATACATAGCAAAAATTAGCAA
* * * *
22581892 ATGAAACCTGCCACTGGGCGATGGGTACATAGC-AAAATATCGCAA
1 ATAAAATCTGCCACTGGGCGATGGATACATAGCAAAAAT-TAGCAA
*
22581937 ATAAAATTTGCCACTGG
1 ATAAAATCTGCCACTGG
22581954 CTGTAGATGC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 5 0.10
45 46 0.90
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (45 bp):
ATAAAATCTGCCACTGGGCGATGGATACATAGCAAAAATTAGCAA
Found at i:22582170 original size:43 final size:43
Alignment explanation
Indices: 22582035--22582155 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
22582025 AAAGTTAAAG
* * * * *
22582035 GATAAACA-CTATCACTATGCTGTAGGTGTAGAACAAATTTA-CA
1 GATAAA-ATCTATCACTAGGTTGTAGATGCACAACAAA-TTAGCA
* * *
22582078 GATAAAATCTGTTACTAGGTTGTAGATGCATAACAAATTAGCA
1 GATAAAATCTATCACTAGGTTGTAGATGCACAACAAATTAGCA
22582121 GATAAAATCTATCACTAGGTTGTAGATGCACAACA
1 GATAAAATCTATCACTAGGTTGTAGATGCACAACA
22582156 TATTTTCATG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 4 0.06
43 62 0.94
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (43 bp):
GATAAAATCTATCACTAGGTTGTAGATGCACAACAAATTAGCA
Found at i:22582284 original size:179 final size:183
Alignment explanation
Indices: 22581955--22582291 Score: 394
Period size: 179 Copynumber: 1.8 Consensus size: 183
22581945 TGCCACTGGC
** *
22581955 TGTAGATGCACAACATATTTGCAGGTAAAAGTTGTCGATGGATTGTGGATGTACAACAAATTTGC
1 TGTAGATGCACAACATATTTGCAGGTAAAAGTTACCGATGGATTATGGATGTACAAC-AA-TT-C
* * * * *
22582020 AGTTAAAAGTTAAAGGATAAACACTATCACTATGCTGTAGGTGTAGAACAAATTTACAGATAAAA
63 AGTTAAAAGTTAAAGGATAAACACTACCACTAGGCTGTAGGTGCACAACAAATTTACAAATAAAA
*** * *
22582085 TCTGTTACTAGGTTGTAGATGCATAACAAATTAGCAGATAAAATCTATCACTAGGT
128 TCTACAACTAGGCTGTAGATGCACAACAAATTAGCAGATAAAATCTATCACTAGGT
* * * *
22582141 TGTAGATGCACAACATATTTTCATGTAAAAGTTACCGATGGGTTATGGATGTACAAC-A-T-ATT
1 TGTAGATGCACAACATATTTGCAGGTAAAAGTTACCGATGGATTATGGATGTACAACAATTCAGT
* * * * * *
22582203 TACAA-TTAAATGATAAACATTACCACTGGGCTGTAGGTGCACAGCAAATTTGCAAATAAAATCT
66 TAAAAGTTAAAGGATAAACACTACCACTAGGCTGTAGGTGCACAACAAATTTACAAATAAAATCT
* *
22582267 ACAATTGGGCTGTAGATGCACAACA
131 ACAACTAGGCTGTAGATGCACAACA
22582292 TATTTGCAAG
Statistics
Matches: 126, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
179 67 0.53
180 6 0.05
182 1 0.01
184 1 0.01
186 51 0.40
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (183 bp):
TGTAGATGCACAACATATTTGCAGGTAAAAGTTACCGATGGATTATGGATGTACAACAATTCAGT
TAAAAGTTAAAGGATAAACACTACCACTAGGCTGTAGGTGCACAACAAATTTACAAATAAAATCT
ACAACTAGGCTGTAGATGCACAACAAATTAGCAGATAAAATCTATCACTAGGT
Found at i:22584577 original size:12 final size:12
Alignment explanation
Indices: 22584560--22584592 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
22584550 CAAATCTTAC
22584560 TTTTATTTTCTA
1 TTTTATTTTCTA
22584572 TTTTATTTTCTA
1 TTTTATTTTCTA
*
22584584 CTTTATTTT
1 TTTTATTTT
22584593 ATGCTTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATTTTCTA
Found at i:22591236 original size:21 final size:21
Alignment explanation
Indices: 22591212--22591265 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
22591202 GTTTTCAAAC
22591212 TATTGTTGA-ATCCCATAACAA
1 TATTGTTGAGA-CCCATAACAA
* *
22591233 TATTATTGGAGACCCATTACAA
1 TATTGTT-GAGACCCATAACAA
22591255 TATATGTTGAG
1 TAT-TGTTGAG
22591266 CCTATTCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.22
22 17 0.63
23 4 0.15
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
TATTGTTGAGACCCATAACAA
Found at i:22592899 original size:10 final size:11
Alignment explanation
Indices: 22592872--22592902 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
22592862 GAATAATACT
22592872 AAAGCAAAATG
1 AAAGCAAAATG
22592883 AAAGCAAAATG
1 AAAGCAAAATG
22592894 -AAGCAAAAT
1 AAAGCAAAAT
22592903 AAATAGTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.65, C:0.10, G:0.16, T:0.10
Consensus pattern (11 bp):
AAAGCAAAATG
Found at i:22593059 original size:16 final size:15
Alignment explanation
Indices: 22593023--22593116 Score: 76
Period size: 16 Copynumber: 6.5 Consensus size: 15
22593013 GTAAAGGACA
*
22593023 ATAACAATAAATAAT
1 ATAAAAATAAATAAT
*
22593038 AAAAAAATAAATGAAT
1 ATAAAAATAAAT-AAT
*
22593054 ATAAAAATAATAAAAT
1 ATAAAAATAA-ATAAT
22593070 ATAAAAGA-AAA-AA-
1 ATAAAA-ATAAATAAT
22593083 ATAAAAAT-AA-AA-
1 ATAAAAATAAATAAT
22593095 ATAAAAATAAA-AAT
1 ATAAAAATAAATAAT
*
22593109 AAAAAAAT
1 ATAAAAAT
22593117 GGCCAAAAGT
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.19
13 10 0.15
14 9 0.13
15 11 0.16
16 23 0.34
17 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.19
Consensus pattern (15 bp):
ATAAAAATAAATAAT
Found at i:22593073 original size:10 final size:9
Alignment explanation
Indices: 22593031--22593116 Score: 72
Period size: 9 Copynumber: 9.4 Consensus size: 9
22593021 CAATAACAAT
22593031 AAATAATAA
1 AAATAATAA
22593040 AAA-AATAA
1 AAATAATAA
22593048 ATGAAT-ATAA
1 A--AATAATAA
22593058 AAATAATAA
1 AAATAATAA
*
22593067 AATATAAAAGA
1 AA-ATAATA-A
*
22593078 AAAAAATAA
1 AAATAATAA
22593087 AAATAA-AA
1 AAATAATAA
*
22593095 ATAAAAATAA
1 A-AATAATAA
22593105 AAATAA-AA
1 AAATAATAA
22593113 AAAT
1 AAAT
22593117 GGCCAAAAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
8 18 0.29
9 23 0.37
10 19 0.30
11 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (9 bp):
AAATAATAA
Found at i:22593081 original size:6 final size:6
Alignment explanation
Indices: 22593022--22593113 Score: 84
Period size: 6 Copynumber: 15.3 Consensus size: 6
22593012 CGTAAAGGAC
* * *
22593022 AATAAC AATAAA TAATAAA AA-AATA AATGAA TATAAA AAT--- AATAAA
1 AATAAA AATAAA -AATAAA AATAA-A AATAAA AATAAA AATAAA AATAAA
*
22593068 ATATAAA AGAAAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
1 A-ATAAA A-ATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
22593114 AATGGCCAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
3 3 0.04
5 2 0.03
6 48 0.68
7 18 0.25
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:22593113 original size:31 final size:30
Alignment explanation
Indices: 22593022--22593114 Score: 89
Period size: 34 Copynumber: 2.9 Consensus size: 30
22593012 CGTAAAGGAC
* *
22593022 AATAACAATAAATAATAAAAAAATAAATGAATA
1 AATAAAAATAAA-AATAAAAAAAAAAAT-AA-A
22593055 TAA-AAATAATAAAATATAAAAGAAAAAAATAAA
1 -AATAAA-AATAAAA-ATAAAA-AAAAAAATAAA
22593088 AATAAAAATAAAAATAAAAATAAAAAA
1 AATAAAAATAAAAATAAAAA-AAAAAA
22593115 ATGGCCAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
30 1 0.02
31 12 0.23
32 9 0.17
33 7 0.13
34 16 0.31
35 7 0.13
ACGTcount: A:0.78, C:0.01, G:0.02, T:0.18
Consensus pattern (30 bp):
AATAAAAATAAAAATAAAAAAAAAAATAAA
Found at i:22593114 original size:26 final size:26
Alignment explanation
Indices: 22593031--22593116 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
22593021 CAATAACAAT
* *
22593031 AAATAATAA-AAAAATAAATGAATATAA
1 AAATAAAAATAAAAATAAA--AAAATAA
*
22593058 AAATAATAAAATATAAAAGAAAAAAATAA
1 AAAT-A-AAAATA-AAAATAAAAAAATAA
22593087 AAATAAAAATAAAAATAAAAATAA-AA
1 AAATAAAAATAAAAATAAAAA-AATAA
22593113 AAAT
1 AAAT
22593117 GGCCAAAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 15 0.30
27 12 0.24
28 2 0.04
29 13 0.26
30 1 0.02
31 7 0.14
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (26 bp):
AAATAAAAATAAAAATAAAAAAATAA
Found at i:22598514 original size:20 final size:21
Alignment explanation
Indices: 22598489--22598527 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22598479 GCAAGGAATT
*
22598489 TGAAAC-AATACAAGTAAAAG
1 TGAAACAAATAAAAGTAAAAG
22598509 TGAAACAAATAAAAGTAAA
1 TGAAACAAATAAAAGTAAA
22598528 TAGAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.64, C:0.08, G:0.13, T:0.15
Consensus pattern (21 bp):
TGAAACAAATAAAAGTAAAAG
Found at i:22605752 original size:13 final size:14
Alignment explanation
Indices: 22605734--22605763 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22605724 GTCAACACAA
22605734 TCAGAG-TTAAATG
1 TCAGAGATTAAATG
22605747 TCAGAGATTAAATG
1 TCAGAGATTAAATG
22605761 TCA
1 TCA
22605764 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (14 bp):
TCAGAGATTAAATG
Found at i:22607802 original size:27 final size:27
Alignment explanation
Indices: 22607772--22607826 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
22607762 CCATACAGTT
22607772 GCCCCTCTTTGCTCTTTGTCATGTAAC
1 GCCCCTCTTTGCTCTTTGTCATGTAAC
*
22607799 GCCCCTCTTTGCTCTTTGTCGTGTAAC
1 GCCCCTCTTTGCTCTTTGTCATGTAAC
22607826 G
1 G
22607827 AGAAAGAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.09, C:0.33, G:0.18, T:0.40
Consensus pattern (27 bp):
GCCCCTCTTTGCTCTTTGTCATGTAAC
Found at i:22608399 original size:100 final size:100
Alignment explanation
Indices: 22608166--22608399 Score: 231
Period size: 100 Copynumber: 2.3 Consensus size: 100
22608156 AATCCACCGT
* * * * * *
22608166 AACTTCAAGGATATAGGATTTGACGTT-ATAACTTCACCTTGCTCTACTGTAACTTTAGGGAGAT
1 AACTTCAGGGATATAGGATTTGATGTTGAT--CTTCACCTTGATCTACTGCAACTTCAGAGAGAT
** * *
22608230 AAGATTTGCTATCTGTAGCCTCAATCCGACCCACTGC
64 AAGATTTGCTATCTCAAGCCTCAATCCAACCCACTAC
* * * *
22608267 AACTTTAGGG-TATAGGATTTGGTGTGGTATCTTCATCTTGATCTACTGCAACTTCAGAGAGATA
1 AACTTCAGGGATATAGGATTTGATGTTG-ATCTTCACCTTGATCTACTGCAACTTCAGAGAGATA
*** * *
22608331 AGATTTGCTA-CTACAATTTTCAATGCAATCCACTAC
65 AGATTTGCTATCT-CAAGCCTCAATCCAACCCACTAC
*
22608367 CACTTCAGGGATATAGGATTTGATGTTGATCTT
1 AACTTCAGGGATATAGGATTTGATGTTGATCTT
22608400 ACTCCAATGT
Statistics
Matches: 106, Mismatches: 23, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
99 2 0.02
100 79 0.75
101 23 0.22
102 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (100 bp):
AACTTCAGGGATATAGGATTTGATGTTGATCTTCACCTTGATCTACTGCAACTTCAGAGAGATAA
GATTTGCTATCTCAAGCCTCAATCCAACCCACTAC
Found at i:22626403 original size:16 final size:16
Alignment explanation
Indices: 22626382--22626428 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
22626372 AAGGGATCCA
22626382 AAGAATGAATGAATTT
1 AAGAATGAATGAATTT
*
22626398 AAGAATG-ATTAATTT
1 AAGAATGAATGAATTT
* *
22626413 TAGTATGAGATGAATT
1 AAGAATGA-ATGAATT
22626429 AAAAGAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 12 0.48
16 7 0.28
17 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (16 bp):
AAGAATGAATGAATTT
Found at i:22629178 original size:6 final size:6
Alignment explanation
Indices: 22629151--22629257 Score: 75
Period size: 6 Copynumber: 19.0 Consensus size: 6
22629141 CCCATTTTTA
* * *
22629151 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * ** *
22629196 AAACTT -ATTTT GAGTTT GGATTT -AATTT AAATTT AAATTT -ATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
22629241 AAA-TT AAATTT AAATTT
1 AAATTT AAATTT AAATTT
22629258 TAAAAGTCCA
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
4 4 0.05
5 20 0.25
6 56 0.70
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:22629192 original size:17 final size:17
Alignment explanation
Indices: 22629154--22629252 Score: 103
Period size: 17 Copynumber: 5.9 Consensus size: 17
22629144 ATTTTTAAAA
*
22629154 TTTAAATCTAAATTTA-
1 TTTAAATTTAAATTTAT
* *
22629170 TTTAAATTTGAATTTAC
1 TTTAAATTTAAATTTAT
*
22629187 TTTAAATTTAAACTTAT
1 TTTAAATTTAAATTTAT
* * ** *
22629204 TTTGAGTTTGGATTTAA
1 TTTAAATTTAAATTTAT
22629221 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
22629238 TTTAAA-TTAAATTTA
1 TTTAAATTTAAATTTA
22629253 AATTTTAAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
16 23 0.35
17 43 0.65
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:22629225 original size:34 final size:34
Alignment explanation
Indices: 22629152--22629253 Score: 127
Period size: 34 Copynumber: 3.1 Consensus size: 34
22629142 CCATTTTTAA
*
22629152 AATTTAAATCTAAATTTA-TTTAAATTTGAATTT
1 AATTTAAATTTAAATTTATTTTAAATTTGAATTT
* * * * *
22629185 ACTTTAAATTTAAACTTATTTTGAGTTTGGATTT
1 AATTTAAATTTAAATTTATTTTAAATTTGAATTT
*
22629219 AATTTAAATTTAAATTTATTTTAAA-TTAAATTT
1 AATTTAAATTTAAATTTATTTTAAATTTGAATTT
22629252 AA
1 AA
22629254 ATTTTAAAAG
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 23 0.41
34 33 0.59
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (34 bp):
AATTTAAATTTAAATTTATTTTAAATTTGAATTT
Found at i:22629231 original size:11 final size:11
Alignment explanation
Indices: 22629215--22629257 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
22629205 TTGAGTTTGG
22629215 ATTT-AATTTAA
1 ATTTAAATTT-A
22629226 ATTTAAATTTA
1 ATTTAAATTTA
* *
22629237 TTTTAAATTAA
1 ATTTAAATTTA
22629248 ATTTAAATTT
1 ATTTAAATTT
22629258 TAAAAGTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:22629247 original size:22 final size:22
Alignment explanation
Indices: 22629216--22629257 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
22629206 TGAGTTTGGA
*
22629216 TTTAATTTAAATTTAAATTTAT
1 TTTAAATTAAATTTAAATTTAT
22629238 TTTAAATTAAATTTAAATTT
1 TTTAAATTAAATTTAAATTT
22629258 TAAAAGTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAAATTAAATTTAAATTTAT
Found at i:22629957 original size:9 final size:9
Alignment explanation
Indices: 22629943--22629998 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
22629933 TTTTCATTGC
22629943 TAATATTAA
1 TAATATTAA
22629952 TAATATTAA
1 TAATATTAA
*
22629961 TAAGTCTTTAA
1 TAA-T-ATTAA
*
22629972 TAATAATAA
1 TAATATTAA
*
22629981 TAATAATTAG
1 TAAT-ATTAA
22629991 TAATATTA
1 TAATATTA
22629999 TTAAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 23 0.59
10 9 0.23
11 7 0.18
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (9 bp):
TAATATTAA
Found at i:22633005 original size:9 final size:9
Alignment explanation
Indices: 22632991--22633053 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
22632981 AAAATAAATA
22632991 AAAAAGAAG
1 AAAAAGAAG
*
22633000 AGAAAGAAAAAG
1 A-AAA-AGA-AG
22633012 AAAAA-AAG
1 AAAAAGAAG
22633020 AAAAAGAAG
1 AAAAAGAAG
22633029 AAAAAGAAG
1 AAAAAGAAG
*
22633038 AAAAA-AGG
1 AAAAAGAAG
22633046 AAAAAGAA
1 AAAAAGAA
22633054 AATAGAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 14 0.30
9 20 0.43
10 4 0.09
11 5 0.11
12 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:22633011 original size:6 final size:6
Alignment explanation
Indices: 22632997--22633077 Score: 60
Period size: 6 Copynumber: 13.2 Consensus size: 6
22632987 AATAAAAAAG
* * *
22632997 AAGAGA AAGAAA AAGAAA AA-AAGA AA-AAG AAGAAA AAGAAG AA-AAA
1 AAGAAA AAGAAA AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA AAGAAA
*
22633043 AGGAAA AAGAAA ATAGAAAAA ATAGAAA AAGAAA A
1 AAGAAA AAGAAA A-AG--AAA A-AGAAA AAGAAA A
22633078 GGAGAGGTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
5 7 0.11
6 42 0.68
7 6 0.10
9 7 0.11
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:22633020 original size:23 final size:23
Alignment explanation
Indices: 22632974--22633077 Score: 94
Period size: 23 Copynumber: 4.6 Consensus size: 23
22632964 CAGATGTCAT
*
22632974 GAAGAAAAA-AATAAA-TAAAAAA
1 GAAGAAAAAGAA-AAAGAAAAAAA
*
22632996 GAAGAGAAAGAAAAAGAAAAAAA
1 GAAGAAAAAGAAAAAGAAAAAAA
22633019 GAA-AAAGAAGAAAAAGAAGAAAAA
1 GAAGAAA-AAGAAAAAGAA-AAAAA
*
22633043 -AGGAAAAAGAAAATAG-AAAAAA
1 GAAGAAAAAGAAAA-AGAAAAAAA
*
22633065 -TAGAAAAAGAAAA
1 GAAGAAAAAGAAAA
22633078 GGAGAGGTCG
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
22 29 0.41
23 31 0.44
24 10 0.14
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (23 bp):
GAAGAAAAAGAAAAAGAAAAAAA
Found at i:22633029 original size:17 final size:17
Alignment explanation
Indices: 22633006--22633053 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
22632996 GAAGAGAAAG
22633006 AAAAAGAAAAA-AAGAA
1 AAAAAGAAAAAGAAGAA
22633022 AAAGAAGAAAAAGAAGAA
1 AAA-AAGAAAAAGAAGAA
*
22633040 AAAAGGAAAAAGAA
1 AAAAAGAAAAAGAA
22633054 AATAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 3 0.10
17 18 0.62
18 8 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAGAA
Found at i:22633061 original size:39 final size:38
Alignment explanation
Indices: 22632978--22633075 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 38
22632968 TGTCATGAAG
* *
22632978 AAAAA-AATAAATA-AAAAAGAAGAGAAAGAAAAAGAA
1 AAAAAGAAAAAATAGAAAAAGAAGAAAAAGAAAAAGAA
22633014 AAAAAGAAAAAGA-AGAAAAAGAAGAAAAAAGGAAAAAG-A
1 AAAAAGAAAAA-ATAGAAAAAGAAG-AAAAA-GAAAAAGAA
*
22633053 AAATAGAAAAAATAGAAAAAGAA
1 AAAAAGAAAAAATAGAAAAAGAA
22633076 AAGGAGAGGT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
36 5 0.09
37 5 0.09
38 11 0.21
39 25 0.47
40 7 0.13
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (38 bp):
AAAAAGAAAAAATAGAAAAAGAAGAAAAAGAAAAAGAA
Found at i:22633062 original size:21 final size:22
Alignment explanation
Indices: 22632976--22633077 Score: 77
Period size: 22 Copynumber: 4.5 Consensus size: 22
22632966 GATGTCATGA
*
22632976 AGAAAAAAATAAATA-AAAAAGA-
1 AGAAAAAGA-AAATAGAAAAA-AT
* *
22632998 AGAGAAAGAAAA-AGAAAAAAAG
1 AGAAAAAGAAAATAG-AAAAAAT
* *
22633020 AAAAAGAAGAAAA-AGAAGAAAAA
1 AGAAA-AAGAAAATAGAA-AAAAT
22633043 AGGAAAAAGAAAATAGAAAAAAT
1 A-GAAAAAGAAAATAGAAAAAAT
22633066 AGAAAAAGAAAA
1 AGAAAAAGAAAA
22633078 GGAGAGGTCG
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.02
21 4 0.06
22 28 0.42
23 26 0.39
24 7 0.11
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (22 bp):
AGAAAAAGAAAATAGAAAAAAT
Found at i:22634048 original size:49 final size:49
Alignment explanation
Indices: 22633970--22634878 Score: 696
Period size: 49 Copynumber: 18.5 Consensus size: 49
22633960 TCTACAGGTT
22633970 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
** * * * * * **
22634019 CAAAAGGAAAGGTTTAAGTCGCAATGGCGAA-CCTTA-TACCTC-AGAGATT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCACGA-AGACA
* *
22634068 TGAAAGGAAAGATTTAAGCCCCAACGGCGAATCCAGTACCACGAAGACA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
** * * *
22634117 CAAAGGGAAAGATTTAAGTCGCAATGGCGAA-CCTTA-TACCTC-AGAGACA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCACGA-AGACA
* * *
22634166 TGAAGGGAAAGATTTAAGCCACAATGGCGAATCCAGTACCACGAAGATA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
* * * * *
22634215 TGAAGGGAAAGGTTTAAGTCGTAATGGCGAA-CCTTA-TACCTC-AGAGACA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCACGA-AGACA
* * * * *
22634264 TGAAAGGGAAAGGTTTAAGTCGTAATGGCGAA-CCTTA-TACCTC-AGAGACA
1 TG-AAGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCACGA-AGACA
22634314 TGAAAGGG-AAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
1 TG-AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
** * * * * *
22634363 CAAAGGGAAAGGTTTAAGTCACAATGGCGAA-CCTTGTACCTTA-GAAG-CA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACC--ACGAAGACA
** * *
22634412 TGAAGAAAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
* * * *
22634461 TAAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCACGAGGATA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
* * * *
22634510 TGAAGGGAAAGATTTAAGCCACAACGACGAATCTAGTACCACGAAGATA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
* * * * * * *
22634559 TGGAGGGAAAGGTTTAAGCCACAACGGTGAA-CCTTGTACC-CCAAAAGCA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGAAGA-CA
* * *
22634608 TGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCATGAAGATA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
* * *
22634657 T-AGAGGGAAAGGTTTAAGTCGCAACGGCGAA-CCATGTACGTCA-AAAG-CA
1 TGA-AGGGAAAGATTTAAGCCGCAACGGCGAATCCA-GTAC--CACGAAGACA
** * *
22634706 TGAAGGGAAAGATTTAAGCCGCAACGGTAAATCCAGTACCATGAAGATA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
* * * * * *
22634755 TGGAGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTTGTACCTCAGAAG-CA
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCAC-GAAGACA
* * * * **
22634804 TGAAGGGAAAGATTTAAGTCGCAACAGCAAATCTAGTACCACGAAGATT
1 TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
* * *
22634853 TAAAGGGAAAAGGTTTAAGTCGCAAC
1 TGAAGGG-AAAGATTTAAGCCGCAAC
22634879 AATGAACCCT
Statistics
Matches: 695, Mismatches: 122, Indels: 85
0.77 0.14 0.09
Matches are distributed among these distances:
47 3 0.00
48 41 0.06
49 541 0.78
50 107 0.15
51 3 0.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.18
Consensus pattern (49 bp):
TGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA
Found at i:22634458 original size:246 final size:246
Alignment explanation
Indices: 22634024--22634478 Score: 768
Period size: 246 Copynumber: 1.8 Consensus size: 246
22634014 AGACACAAAA
**
22634024 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAGATTTGAAAGGAAAGATTTAAGCCC
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAGACATGAAAGGAAAGATTTAAGCCC
*
22634089 CAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGATTTAAGTCGCAATGGCGAACCTTAT
66 CAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGATTTAAGTCACAATGGCGAACCTTAT
** * *
22634154 ACCTCAGAGACATGAAGGGAAAGATTTAAGCCACAATGGCGAATCCAGTACCACGAAGATATGAA
131 ACCTCAGAGACATGAAGAAAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATAAA
*
22634219 GGGAAAGGTTTAAGTCGTAATGGCGAACCTTATACCTCAGAGACATGAAAG
196 GGGAAAGATTTAAGTCGTAATGGCGAACCTTATACCTCAGAGACATGAAAG
* * *
22634270 GGAAAGGTTTAAGTCGTAATGGCGAACCTTATACCTCAGAGACATGAAAGGGAAGATTTAAGCCG
1 GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAGACATGAAAGGAAAGATTTAAGCCC
* *
22634335 CAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCACAATGGCGAACCTTGT
66 CAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGATTTAAGTCACAATGGCGAACCTTAT
*
22634400 ACCTTAGA-AGCATGAAGAAAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATAA
131 ACCTCAGAGA-CATGAAGAAAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATAA
22634464 AGGGAAAGATTTAAG
195 AGGGAAAGATTTAAG
22634479 CCGCAACGGT
Statistics
Matches: 194, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
245 1 0.01
246 193 0.99
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (246 bp):
GGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAGACATGAAAGGAAAGATTTAAGCCC
CAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGATTTAAGTCACAATGGCGAACCTTAT
ACCTCAGAGACATGAAGAAAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATAAA
GGGAAAGATTTAAGTCGTAATGGCGAACCTTATACCTCAGAGACATGAAAG
Found at i:22634940 original size:196 final size:196
Alignment explanation
Indices: 22634073--22634941 Score: 792
Period size: 196 Copynumber: 4.4 Consensus size: 196
22634063 AGATTTGAAA
* * * * * * * * *
22634073 GGAAAGATTTAAGCCCCAACGGCGAATCC-AGTACCACGAAGACACAAAGGGAAAGATTTAAGTC
1 GGAAAGGTTTAAGTCGCAACGGCGAACCCTA-TACCTCAAAAACATAAAGGGAAAGATTTAAGCC
* * * * * * *
22634137 GCAATGGCGAA-CCTTA-TACCTC-AGAGACATGAAGGGAAAGATTTAAGCCACAATGGCGAATC
65 GCAACGACGAATCC--AGTACCACGA-AGATATGGAGGGAAAGGTTTAAGTCACAATGGCGAA-C
* * * * * * * *
22634199 C-AGTACCAC-GAAGATATGAAGGGAAAGGTTTAAGTCGTAATGGCGAA-CCTTA-TACCTC-AG
126 CTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCACGA-
*
22634259 AGACATGAAAG
187 AGATAT-AAAG
* * * * *
22634270 GGAAAGGTTTAAGTCGTAATGGCGAACCTTATACCTCAGAGACATGAAAGGG-AAGATTTAAGCC
1 GGAAAGGTTTAAGTCGCAACGGCGAACCCTATACCTCAAAAACAT-AAAGGGAAAGATTTAAGCC
* * ***
22634334 GCAACGGCGAATCCAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCACAATGGCGAACCTTG
65 GCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCACAATGGCGAACCTTG
* ** *
22634399 TACCTTAGAAGCATGAAGAAAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATAA
130 TACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAA
22634464 AG
195 AG
* * * * * * ** * *
22634466 GGAAAGATTTAAGCCGCAACGGTGAATCC-AGTACCACGAGGATATGAAGGGAAAGATTTAAGCC
1 GGAAAGGTTTAAGTCGCAACGGCGAACCCTA-TACCTCAAAAACATAAAGGGAAAGATTTAAGCC
* * * * *
22634530 ACAACGACGAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGCCACAACGGTGAACCTTG
65 GCAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCACAATGGCGAACCTTG
* * * * *
22634595 TACCCCAAAAGCATGAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCATGAAGATATAG
130 TACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAA
22634660 AG
195 AG
* * * * *
22634662 GGAAAGGTTTAAGTCGCAACGGCGAACCATGTACGTCAAAAGCATGAAGGGAAAGATTTAAGCCG
1 GGAAAGGTTTAAGTCGCAACGGCGAACCCTATACCTCAAAAACATAAAGGGAAAGATTTAAGCCG
*** * *
22634727 CAACGGTAAATCCAGTACCATGAAGATATGGAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTGT
66 CAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCACAATGGCGAACCTTGT
* * * * *
22634792 ACCTCAGAAGCATGAAGGGAAAGATTTAAGTCGCAACAGCAAATCTAGTACCACGAAGATTTAAA
131 ACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAAA
22634857 G
196 G
*** * *
22634858 GGAAAAGGTTTAAGTCGCAACAATGAACCCTATACCTCAAAAACATAAAGGG-AAG-GTTGAGAC
1 GG-AAAGGTTTAAGTCGCAACGGCGAACCCTATACCTCAAAAACATAAAGGGAAAGATTTAAG-C
* *
22634921 CGCCACGACGAACCCAGTACC
64 CGCAACGACGAATCCAGTACC
22634942 TTAAAAACAT
Statistics
Matches: 546, Mismatches: 111, Indels: 31
0.79 0.16 0.05
Matches are distributed among these distances:
195 10 0.02
196 348 0.64
197 171 0.31
198 17 0.03
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (196 bp):
GGAAAGGTTTAAGTCGCAACGGCGAACCCTATACCTCAAAAACATAAAGGGAAAGATTTAAGCCG
CAACGACGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCACAATGGCGAACCTTGT
ACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATAAA
G
Found at i:22635299 original size:39 final size:39
Alignment explanation
Indices: 22635236--22635738 Score: 370
Period size: 39 Copynumber: 12.9 Consensus size: 39
22635226 TCACCATCAA
* * *
22635236 CCAATCTGTTACCCAGAGCTTGGGGCAGATTACAGCCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCAT
* * * * *
22635275 CCGATCTCTTATCCCGAGCCTGGGGCAGATCATCA-TCAG
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCAT
* * * *
22635314 CAAATCTCTTACCCCGAGCCTAGAGCAGATTGCAGCCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCAT
* * * * * *
22635353 TCGATCTCTTACCCCGAGCCTGGGGCAAATCACTA-TCAA
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTAC-AGCCAT
* * * **
22635392 CCAATCTCTTACCCTGAACTTGGGGCAGATTGTAGCCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCAT
** * * * * *
22635431 CTGATCTCTTACCCCCAGCCTGGGGCAAATCACCA-TCAA
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCAT
* * * *
22635470 CCAATCTCTTACCTCGAGCTTGAGGCAGATTGCAGCCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCAT
* * * * *
22635509 CCGATCTCTTACCCCGAGCCTGAGGCAGATCAC-GATCAG
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAG-CCAT
* * * * * *
22635548 CCAATCTCTTACCCCAAGCTTAGGGCAAATTGCAACCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCAT
* * * * * *
22635587 CCGATCTCATACCCCGAGCTTGGGGCAGATCACCA-TCAG
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCAT
* * * *
22635626 CCAATCTCTTACCCCGAGCTTGGGGCAGATCACCA-TCAG
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCAT
* *
22635665 CCAATCTCTTACCTCGAGCCTGGGGCAAATTACAGCCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCAT
* * *
22635704 TCGATCTCTTACCCCGAGCATGGGGCAGATTACAG
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAG
22635739 TTATCCAAAG
Statistics
Matches: 353, Mismatches: 101, Indels: 20
0.74 0.21 0.04
Matches are distributed among these distances:
38 8 0.02
39 339 0.96
40 6 0.02
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (39 bp):
CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAGCCAT
Found at i:22635359 original size:78 final size:77
Alignment explanation
Indices: 22635225--22635691 Score: 483
Period size: 78 Copynumber: 6.0 Consensus size: 77
22635215 GTGAAGTTAC
* * * * * * * *
22635225 ATCACCATCAACCAATCTGTTACCCAGAGCTTGGGGCAGATTACAGCCATCCGATCTCTTATCCC
1 ATCA-CATCAGCCAATCTCTTACCCCGAGCCTAGAGCAGATTGCAGCCATCCGATCTCTTACCCC
22635290 GAGCCTGGGGCAG
65 GAGCCTGGGGCAG
* *
22635303 ATCATCATCAGCAAATCTCTTACCCCGAGCCTAGAGCAGATTGCAGCCATTCGATCTCTTACCCC
1 ATCA-CATCAGCCAATCTCTTACCCCGAGCCTAGAGCAGATTGCAGCCATCCGATCTCTTACCCC
*
22635368 GAGCCTGGGGCAA
65 GAGCCTGGGGCAG
* * * * * * * *
22635381 ATCACTATCAACCAATCTCTTACCCTGAACTTGGGGCAGATTGTAGCCATCTGATCTCTTACCCC
1 ATCAC-ATCAGCCAATCTCTTACCCCGAGCCTAGAGCAGATTGCAGCCATCCGATCTCTTACCCC
* *
22635446 CAGCCTGGGGCAA
65 GAGCCTGGGGCAG
* * *
22635459 ATCACCATCAACCAATCTCTTACCTCGAG-CTTGAGGCAGATTGCAGCCATCCGATCTCTTACCC
1 ATCA-CATCAGCCAATCTCTTACCCCGAGCCTAGA-GCAGATTGCAGCCATCCGATCTCTTACCC
*
22635523 CGAGCCTGAGGCAG
64 CGAGCCTGGGGCAG
* * * * * *
22635537 ATCACGATCAGCCAATCTCTTACCCCAAGCTTAGGGCAAATTGCAACCATCCGATCTCATACCCC
1 ATCAC-ATCAGCCAATCTCTTACCCCGAGCCTAGAGCAGATTGCAGCCATCCGATCTCTTACCCC
*
22635602 GAGCTTGGGGCAG
65 GAGCCTGGGGCAG
* * * *
22635615 ATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA-T-CA-CCATCAGCCAATCTCTTAC
1 ATCA-CATCAGCCAATCTCTTACCCCGAGCCTAGAGCAGATTGCAGCCAT---CCGATCTCTTAC
*
22635677 CTCGAGCCTGGGGCA
62 CCCGAGCCTGGGGCA
22635692 AATTACAGCC
Statistics
Matches: 328, Mismatches: 52, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
75 4 0.01
76 2 0.01
77 5 0.02
78 313 0.95
79 4 0.01
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (77 bp):
ATCACATCAGCCAATCTCTTACCCCGAGCCTAGAGCAGATTGCAGCCATCCGATCTCTTACCCCG
AGCCTGGGGCAG
Found at i:22635514 original size:156 final size:155
Alignment explanation
Indices: 22635225--22635694 Score: 597
Period size: 156 Copynumber: 3.0 Consensus size: 155
22635215 GTGAAGTTAC
* * * *
22635225 ATCACCATCAACCAATCTGTTACCCAGAGCTTGGGGCAGATTACAGCCATCCGATCTCTTATCCC
1 ATCACCATCAACCAATCTCTTACCC-GAACTTGGGGCAGATTGCAGCCATCCGATCTCTTACCCC
* * * *
22635290 GAGCCTGGGGCAGATCATCATCAGCAAATCTCTTACCCCGAGCCT-AGAGCAGATTGCAGCCATT
65 GAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAG-GCAGATTGCAGCCATC
22635354 CGATCTCTTACCCCGAGCCTGGGGCAA
129 CGATCTCTTACCCCGAGCCTGGGGCAA
* * *
22635381 ATCACTATCAACCAATCTCTTACCCTGAACTTGGGGCAGATTGTAGCCATCTGATCTCTTACCCC
1 ATCACCATCAACCAATCTCTTACCC-GAACTTGGGGCAGATTGCAGCCATCCGATCTCTTACCCC
* * * *
22635446 CAGCCTGGGGCAAATCACCATCAACCAATCTCTTACCTCGAGCTTGAGGCAGATTGCAGCCATCC
65 GAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAGATTGCAGCCATCC
* *
22635511 GATCTCTTACCCCGAGCCTGAGGCAG
130 GATCTCTTACCCCGAGCCTGGGGCAA
* * * * * * *
22635537 ATCACGATCAGCCAATCTCTTACCCCAAGCTTAGGGCAAATTGCAACCATCCGATCTCATACCCC
1 ATCACCATCAACCAATCTCTTACCCGAA-CTTGGGGCAGATTGCAGCCATCCGATCTCTTACCCC
* *
22635602 GAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAGA-T-CA-CCATCA
65 GAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAGATTGCAGCCAT--
* *
22635664 GCCAATCTCTTACCTCGAGCCTGGGGCAA
128 -CCGATCTCTTACCCCGAGCCTGGGGCAA
22635693 AT
1 AT
22635695 TACAGCCATT
Statistics
Matches: 272, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
153 4 0.01
154 2 0.01
155 3 0.01
156 261 0.96
157 2 0.01
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (155 bp):
ATCACCATCAACCAATCTCTTACCCGAACTTGGGGCAGATTGCAGCCATCCGATCTCTTACCCCG
AGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGAGGCAGATTGCAGCCATCCG
ATCTCTTACCCCGAGCCTGGGGCAA
Found at i:22636904 original size:31 final size:33
Alignment explanation
Indices: 22636869--22636932 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 33
22636859 ATTTACATAT
* *
22636869 CATACCCTATAATTTTTCACA-TTTG-CATTTC
1 CATACCATATAATTATTCACATTTTGACATTTC
* *
22636900 CATACCATGTAATTATTCATATTTTGACATTTC
1 CATACCATATAATTATTCACATTTTGACATTTC
22636933 ATTTTAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 17 0.63
32 4 0.15
33 6 0.22
ACGTcount: A:0.28, C:0.22, G:0.05, T:0.45
Consensus pattern (33 bp):
CATACCATATAATTATTCACATTTTGACATTTC
Found at i:22641024 original size:5 final size:5
Alignment explanation
Indices: 22641014--22641039 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22641004 GAACAAATAT
22641014 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
22641040 ATTCTATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:22649309 original size:18 final size:18
Alignment explanation
Indices: 22649286--22649323 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
22649276 TAATATAGTT
22649286 TTATTC-AGTTTATTCGAA
1 TTATTCGAG-TTATTCGAA
22649304 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
22649322 TT
1 TT
22649324 CGAAAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:22649411 original size:23 final size:23
Alignment explanation
Indices: 22649368--22649412 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22649358 AAAAAAATTC
**
22649368 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
22649391 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
22649413 ATTCAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:22656778 original size:330 final size:329
Alignment explanation
Indices: 22656162--22656824 Score: 1245
Period size: 330 Copynumber: 2.0 Consensus size: 329
22656152 GTTAATAATA
22656162 ATTTTTATATTAAATTTTGATTTGATGAATTTTAATTAATTGAATTAATGATTACTATAAGTGGT
1 ATTTTTATATTAAATTTTGATTTGATGAATTTTAATTAATTGAATTAATGATTACTATAAGTGGT
22656227 TTAGTCTAAAAGTCAAGTGGTTTATGAAATTGAGGTATTGGGACCTCATTTTCATAATTTAAGGT
66 TTAGTCTAAAAGTCAAGTGGTTTATGAAATTGAGGTATTGGGACCTCATTTTCATAATTTAAGGT
22656292 TGTAAATAATTTTTTTAATATTTAAAAAGTCATATTATAGGTGAATTGGGGTTTGGTTCGGTAAT
131 TGTAAATAATTTTTTTAATATTTAAAAAGTCATATTATAGGTGAATTGGGGTTTGGTTCGGTAAT
* *
22656357 TTTGACGATGGGCTGCTTAATTAAGGTAAAAGGATTAAATTGTAAAAGAGGCAAAAGTGAATTGC
196 TTTGACGATGGGCTGCTTAATTAAGATAAAAGGACTAAATTGTAAAAGAGGCAAAAGTGAATTGC
*
22656422 TACAGATTTAAATACAAAAAGGACCAAAATAGTGATTAAACCATGATCAAAAAGTCCAAGCGGTG
261 TACAGATTTAAATACAAAAAGGACCAAAATAGTGATTAAACAATGATCAAAAAGTCCAAGCGGTG
22656487 GTGG
326 GTGG
22656491 ATTTTTATATTAAATTTTGATTTGATGAATTTTAATTAATTGAATTAATGATTACTATAAGTGGT
1 ATTTTTATATTAAATTTTGATTTGATGAATTTTAATTAATTGAATTAATGATTACTATAAGTGGT
* *
22656556 TTAGTCTAAAAGTTAAGTGGTTTATGAAATTGAGGTATTGGGACCTCGTTTTCATAATTTAAGGT
66 TTAGTCTAAAAGTCAAGTGGTTTATGAAATTGAGGTATTGGGACCTCATTTTCATAATTTAAGGT
22656621 TGTAAATAATTTTTTTTAATATTTAAAAAGTCATATTATAGGTGAATTGGGGTTTGGTTCGGTAA
131 TGTAAATAA-TTTTTTTAATATTTAAAAAGTCATATTATAGGTGAATTGGGGTTTGGTTCGGTAA
*
22656686 TTTTGATGATGGGCTGCTTAATTAAGATAAAAGGACTAAATTGTAAAAGAGGCAAAAGTGAATTG
195 TTTTGACGATGGGCTGCTTAATTAAGATAAAAGGACTAAATTGTAAAAGAGGCAAAAGTGAATTG
* *
22656751 CTACAGATTTAAATACAAAAGGGACCAAAATAGTGATTAAACAATGATTAAAAAGTCCAAGCGGT
260 CTACAGATTTAAATACAAAAAGGACCAAAATAGTGATTAAACAATGATCAAAAAGTCCAAGCGGT
22656816 GGTGG
325 GGTGG
22656821 ATTT
1 ATTT
22656825 CAATATTCCA
Statistics
Matches: 325, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
329 137 0.42
330 188 0.58
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (329 bp):
ATTTTTATATTAAATTTTGATTTGATGAATTTTAATTAATTGAATTAATGATTACTATAAGTGGT
TTAGTCTAAAAGTCAAGTGGTTTATGAAATTGAGGTATTGGGACCTCATTTTCATAATTTAAGGT
TGTAAATAATTTTTTTAATATTTAAAAAGTCATATTATAGGTGAATTGGGGTTTGGTTCGGTAAT
TTTGACGATGGGCTGCTTAATTAAGATAAAAGGACTAAATTGTAAAAGAGGCAAAAGTGAATTGC
TACAGATTTAAATACAAAAAGGACCAAAATAGTGATTAAACAATGATCAAAAAGTCCAAGCGGTG
GTGG
Found at i:22658333 original size:34 final size:34
Alignment explanation
Indices: 22658290--22658371 Score: 128
Period size: 34 Copynumber: 2.4 Consensus size: 34
22658280 TACAGTGCCA
* *
22658290 TTGGTGTGCTGGATGGATTAGCTCATACGAGCAT
1 TTGGTGTGCTGGATGGACTAGCTCATACAAGCAT
* *
22658324 TTGGTGTGCTGTATGGACTGGCTCATACAAGCAT
1 TTGGTGTGCTGGATGGACTAGCTCATACAAGCAT
22658358 TTGGTGTGCTGGAT
1 TTGGTGTGCTGGAT
22658372 TGATAGTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.18, C:0.15, G:0.33, T:0.34
Consensus pattern (34 bp):
TTGGTGTGCTGGATGGACTAGCTCATACAAGCAT
Found at i:22661166 original size:16 final size:16
Alignment explanation
Indices: 22661127--22661168 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22661117 TGTATAAAAA
22661127 AAACAT-AAATATAAAT
1 AAACATGAAA-ATAAAT
*
22661143 AGACATGAAAATAAAT
1 AAACATGAAAATAAAT
*
22661159 AAAGATGAAA
1 AAACATGAAA
22661169 TAAGAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.19
Consensus pattern (16 bp):
AAACATGAAAATAAAT
Found at i:22662631 original size:3 final size:3
Alignment explanation
Indices: 22662623--22662659 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
22662613 CTTGAAGCCT
22662623 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
22662660 TTGGGCCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:22666888 original size:40 final size:40
Alignment explanation
Indices: 22666749--22666890 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
22666739 CATAACTGAT
* *
22666749 AGTGACACTGTAAACACTTCGATAATATTGCCGAACTGGC
1 AGTGACACTGTAAACACTACGATAATATTACCGAACTGGC
* * * *
22666789 AGTGACACTGTAAACATTGC-AAAAGTATTACCAAACTGGC
1 AGTGACACTGTAAACACTACGATAA-TATTACCGAACTGGC
* * *
22666829 AGTGACACTGTAAATACTACGATAATATTACTGAACTGGT
1 AGTGACACTGTAAACACTACGATAATATTACCGAACTGGC
**
22666869 AGCAACACTGTAAACACTACGA
1 AGTGACACTGTAAACACTACGA
22666891 CATTATAATT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 79 0.93
41 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (40 bp):
AGTGACACTGTAAACACTACGATAATATTACCGAACTGGC
Found at i:22673161 original size:15 final size:13
Alignment explanation
Indices: 22673130--22673162 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
22673120 TGTACAAGAA
22673130 ACACACGGGCTAG
1 ACACACGGGCTAG
22673143 ACACACGGGCTAG
1 ACACACGGGCTAG
22673156 ACACACG
1 ACACACG
22673163 ACCGTGTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.33, G:0.27, T:0.06
Consensus pattern (13 bp):
ACACACGGGCTAG
Found at i:22673709 original size:40 final size:40
Alignment explanation
Indices: 22673658--22673801 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 40
22673648 TCATAATTGG
* * *
22673658 CAGTGACACTGTAAACATTACGATAATATTACCGAATTGA
1 CAGTGAAACTGTAAACACTACGATAATATTACCGAACTGA
* *
22673698 CAGTGAAACTGTAAACACTACGAAAATATTTACCGAACTGG
1 CAGTGAAACTGTAAACACTACGATAATA-TTACCGAACTGA
* ** *
22673739 CTGTGATAA-TGTAAACACTGA-GATAATAGAACTGAACTGA
1 CAGTGA-AACTGTAAACACT-ACGATAATATTACCGAACTGA
* *
22673779 CAGTGACACTATAAACACTACGA
1 CAGTGAAACTGTAAACACTACGA
22673802 CATTATAATT
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 49 0.58
41 31 0.36
42 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (40 bp):
CAGTGAAACTGTAAACACTACGATAATATTACCGAACTGA
Found at i:22680673 original size:22 final size:22
Alignment explanation
Indices: 22680625--22680673 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
22680615 ACTATACAAC
*
22680625 AAAAAATTGAAATAAATAAGTG
1 AAAAAATTGAAATAAACAAGTG
* *
22680647 AAAAAATTTAAGTAAACAA-TG
1 AAAAAATTGAAATAAACAAGTG
*
22680668 ACAAAA
1 AAAAAA
22680674 CAACAAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.65, C:0.04, G:0.10, T:0.20
Consensus pattern (22 bp):
AAAAAATTGAAATAAACAAGTG
Found at i:22680742 original size:19 final size:19
Alignment explanation
Indices: 22680703--22680738 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22680693 AAATAAGCAA
*
22680703 AAATTCAAGTAAACAACAT
1 AAATCCAAGTAAACAACAT
22680722 AAATCCAAGT-AACAACA
1 AAATCCAAGTAAACAACA
22680739 ATAACACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.17
Consensus pattern (19 bp):
AAATCCAAGTAAACAACAT
Found at i:22681142 original size:58 final size:58
Alignment explanation
Indices: 22681073--22681192 Score: 206
Period size: 58 Copynumber: 2.1 Consensus size: 58
22681063 AAAAGGAGTT
*
22681073 GTTTATGAGTGTTATTT-AGGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTGTT-TTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
*
22681131 GTTTATGAGTGTTTTTGAAGAATGAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
22681189 GTTT
1 GTTT
22681193 GTTGATGGGT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
57 3 0.05
58 56 0.95
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (58 bp):
GTTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
Found at i:22681446 original size:23 final size:23
Alignment explanation
Indices: 22681403--22681447 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22681393 AAAAAAATTC
**
22681403 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
22681426 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
22681448 ATTCGAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:22681639 original size:40 final size:41
Alignment explanation
Indices: 22681595--22681709 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
22681585 AAACGATCAT
* *
22681595 AACTGGCAGTGACACTGTAAACATTGCGATAATA-TTACCG
1 AACTGGCAGTGACAATGTAAACACTGCGATAATATTTACCG
** * * *
22681635 AACTGATAGTGACATTGTAAACACTACGAAAATATTTACCG
1 AACTGGCAGTGACAATGTAAACACTGCGATAATATTTACCG
* *
22681676 AACTGGCAGTGATAATGTAAACACTGTGATAATA
1 AACTGGCAGTGACAATGTAAACACTGCGATAATA
22681710 GAATTGAACT
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
40 28 0.46
41 33 0.54
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (41 bp):
AACTGGCAGTGACAATGTAAACACTGCGATAATATTTACCG
Found at i:22681687 original size:41 final size:40
Alignment explanation
Indices: 22681595--22681700 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
22681585 AAACGATCAT
* * * *
22681595 AACTGGCAGTGACACTGTAAACATTGCGATAATATTACCG
1 AACTGGCAGTGACAATGTAAACACTACGAAAATATTACCG
** *
22681635 AACTGATAGTGACATTGTAAACACTACGAAAATATTTACCG
1 AACTGGCAGTGACAATGTAAACACTACGAAAATA-TTACCG
*
22681676 AACTGGCAGTGATAATGTAAACACT
1 AACTGGCAGTGACAATGTAAACACT
22681701 GTGATAATAG
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 28 0.51
41 27 0.49
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (40 bp):
AACTGGCAGTGACAATGTAAACACTACGAAAATATTACCG
Found at i:22683513 original size:9 final size:9
Alignment explanation
Indices: 22683501--22683525 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22683491 TAAAGCCATT
22683501 AAAATGTGG
1 AAAATGTGG
22683510 AAAATGTGG
1 AAAATGTGG
22683519 AAAATGT
1 AAAATGT
22683526 AAAGTAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (9 bp):
AAAATGTGG
Found at i:22694598 original size:16 final size:16
Alignment explanation
Indices: 22694577--22694608 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22694567 GGTAATTTTT
*
22694577 ATGTTAAAGGATTAAA
1 ATGTTAAAGGAATAAA
22694593 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
22694609 TTTATAAGGA
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:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:22695062 original size:27 final size:27
Alignment explanation
Indices: 22695024--22695142 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
22695014 TGAGGAGTAA
*
22695024 TCTGATTCTGGCTCGAAAGAGCTTTAT
1 TCTGATTCTGGCTCGAAAGAGCGTTAT
22695051 TCTGATTCTGGCTCGAAAGAGCGTTAT
1 TCTGATTCTGGCTCGAAAGAGCGTTAT
* * * *
22695078 TTTGATTTTGGCTCAAAAGGGCGTTAT
1 TCTGATTCTGGCTCGAAAGAGCGTTAT
* *
22695105 TCTGATTCTGGCTTGAAAGAGCATTAT
1 TCTGATTCTGGCTCGAAAGAGCGTTAT
*
22695132 TCTAATTCTGG
1 TCTGATTCTGG
22695143 GCTTGTAAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.38
Consensus pattern (27 bp):
TCTGATTCTGGCTCGAAAGAGCGTTAT
Found at i:22698863 original size:16 final size:16
Alignment explanation
Indices: 22698842--22698873 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22698832 TGGTAATTTT
*
22698842 ATGTTAAAGGATTAAA
1 ATGTTAAAGGAATAAA
22698858 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
22698874 TTTATAAGGA
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:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:22699330 original size:27 final size:27
Alignment explanation
Indices: 22699292--22699408 Score: 189
Period size: 27 Copynumber: 4.3 Consensus size: 27
22699282 AGGAGTAATT
22699292 TGATTCTGGCTCGAAAGAGCGTTATTC
1 TGATTCTGGCTCGAAAGAGCGTTATTC
22699319 TGATTCTGGCTCGAAAGAGCGTTATTC
1 TGATTCTGGCTCGAAAGAGCGTTATTC
* *
22699346 TGATTTTGGCTCGAAAGGGCGTTATTC
1 TGATTCTGGCTCGAAAGAGCGTTATTC
* * *
22699373 TGATTCTGGCTTGAAAGAGCATTATTT
1 TGATTCTGGCTCGAAAGAGCGTTATTC
22699400 TGATTCTGG
1 TGATTCTGG
22699409 GTTAGTAAGA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.37
Consensus pattern (27 bp):
TGATTCTGGCTCGAAAGAGCGTTATTC
Found at i:22699440 original size:24 final size:24
Alignment explanation
Indices: 22699413--22699471 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
22699403 TTCTGGGTTA
22699413 GTAAGAGCTAACCATTTTGGGCTC
1 GTAAGAGCTAACCATTTTGGGCTC
*
22699437 GTAAGAGCTAAGCATTTTGGGCTC
1 GTAAGAGCTAACCATTTTGGGCTC
*
22699461 GTATGAGCTAA
1 GTAAGAGCTAA
22699472 TTTTGTCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (24 bp):
GTAAGAGCTAACCATTTTGGGCTC
Found at i:22704288 original size:17 final size:18
Alignment explanation
Indices: 22704251--22704290 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22704241 TAACAAAATG
22704251 ATGCAGTGACAAAATAAA
1 ATGCAGTGACAAAATAAA
* *
22704269 ATGCAGTGATAATA-AAA
1 ATGCAGTGACAAAATAAA
22704286 ATGCA
1 ATGCA
22704291 TTAAAACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (18 bp):
ATGCAGTGACAAAATAAA
Found at i:22719040 original size:19 final size:19
Alignment explanation
Indices: 22719016--22719055 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
22719006 CCAAGCCAAA
22719016 TTTAGCAAAGTTTGAATTT
1 TTTAGCAAAGTTTGAATTT
22719035 TTTAGCAAAGTTTGAATTT
1 TTTAGCAAAGTTTGAATTT
22719054 TT
1 TT
22719056 CAAACCTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (19 bp):
TTTAGCAAAGTTTGAATTT
Done.