Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold129
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: 3652842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 48564 characters in sequence are not A, C, G, or T
File 3 of 23
Found at i:317869 original size:18 final size:18
Alignment explanation
Indices: 317848--317883 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
317838 AATTTATTTA
317848 ATAAACTAATTTTATATC
1 ATAAACTAATTTTATATC
* *
317866 ATAAATTATTTTTATATC
1 ATAAACTAATTTTATATC
317884 TTTTTTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAAACTAATTTTATATC
Found at i:320083 original size:13 final size:13
Alignment explanation
Indices: 320067--320091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
320057 TACATTGTTC
320067 ATTGTATCGATAT
1 ATTGTATCGATAT
320080 ATTGTATCGATA
1 ATTGTATCGATA
320092 CATTCTGCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:320151 original size:20 final size:20
Alignment explanation
Indices: 320128--320165 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
320118 ATATATTTTG
320128 CATTGTATCGACACATTGCT
1 CATTGTATCGACACATTGCT
*
320148 CATTGTATCGATACATTG
1 CATTGTATCGACACATTG
320166 TATCGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (20 bp):
CATTGTATCGACACATTGCT
Found at i:320164 original size:13 final size:13
Alignment explanation
Indices: 320148--320177 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
320138 ACACATTGCT
320148 CATTGTATCGATA
1 CATTGTATCGATA
320161 CATTGTATCGATA
1 CATTGTATCGATA
320174 CATT
1 CATT
320178 CAGGCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:322511 original size:51 final size:51
Alignment explanation
Indices: 322456--322638 Score: 294
Period size: 51 Copynumber: 3.6 Consensus size: 51
322446 TAAGTTTCTC
*
322456 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* *
322507 AATTTTTTACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* * *
322558 AATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACC
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACT
*
322610 AATTTTTCATAATCGGGGATACTCCAACC
1 AATTTTTCACAATCGGGGATACTCCAACC
322639 TCGTTATTTC
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 86 0.70
52 36 0.30
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
Found at i:322739 original size:79 final size:78
Alignment explanation
Indices: 322573--322857 Score: 247
Period size: 79 Copynumber: 3.6 Consensus size: 78
322563 TTCACAATCG
* * *** *
322573 GGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGA-TTTATTTTC-AAAATATTGATTTCTCATAATCGGGGATACTCCAAC
322638 CTCGTTATTTCATCG--
64 CTCGTTATTTC--CGAA
* * *
322653 GGAATACTCCAACCCCAGCTTTATTTTCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
1 GGGATACTCCAACCCC-GATTTATTTTCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
322718 TCGTTATTTCCGAA
65 TCGTTATTTCCGAA
* ** * * *
322732 GGGATACTCCAATCCCGATTT-TATTTCCTAATCATCGATTTTTC-TCAACCGGGGATACTCCAA
1 GGGATACTCCAACCCCGATTTAT-TTTCAAAAT-ATTGATTTCTCAT-AATCGGGGATACTCCAA
* *
322795 CCCCGTTATTTTC-AA
63 CCTCGTTATTTCCGAA
* * * *
322810 GGGGATACTCCAACCCCGTTATTATCTCCAAAATATTAAATTTCTCAT
1 -GGGATACTCCAACCCCGAT-TTATTTTCAAAATATT-GATTTCTCAT
322858 CGGGAAATAT
Statistics
Matches: 165, Mismatches: 29, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
77 3 0.02
78 14 0.08
79 109 0.66
80 36 0.22
81 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTATTTTCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCT
CGTTATTTCCGAA
Found at i:323262 original size:51 final size:51
Alignment explanation
Indices: 323207--323389 Score: 285
Period size: 51 Copynumber: 3.6 Consensus size: 51
323197 TAAGTTTCTC
*
323207 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* *
323258 AATTTTTCACAATCGAGGATACTCCAACCCTGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* * * *
323309 AATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAATACC
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACT
*
323361 AATTTTTCATAATCGGGGATACTCCAACC
1 AATTTTTCACAATCGGGGATACTCCAACC
323390 TCGTTATTTC
Statistics
Matches: 121, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
51 86 0.71
52 35 0.29
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
Found at i:323459 original size:751 final size:751
Alignment explanation
Indices: 322254--324138 Score: 3499
Period size: 751 Copynumber: 2.5 Consensus size: 751
322244 TTTCCAACGG
* * * *
322254 TATCTCATTCCCCCTGTGAAACCTCCAAATCAACCCAAAAAAAATTCGAAAAGGAGGACAGCGCG
1 TATCTCATTCCCCCTGTGAAACCTCCAAATCAGCCCAAACAAAATTCAAAAAGGAGGATAGCGCG
322319 ATGCTGTCCCCTGTTTTGGTCATGAACAAAAGTTAAGCCGTTCTTCCCAACTTCATCCCGAGACA
66 ATGCTGTCCCCTGTTTTGGTCATGAACAAAAGTTAAGCCGTTCTTCCCAACTTCATCCCGAGACA
*
322384 TTCGGACGTCTCCTTGTAAT-CCCCTAGGCTCGGACAAAGGCTAAACCCAAAAGTATTTTTGTTA
131 TTCGGACGTCTCCTTGTAATCCCCCTAGGCTCGGACCAAGGCTAAACCCAAAAGTATTTTTGTTA
322448 AGTTTCTCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
196 AGTTTCTCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
*
322513 TTACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGAT
261 TCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGAT
322578 ACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCATAATCGGGGATACTCCAACCTCGT
326 ACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCATAATCGGGGATACTCCAACCTCGT
322643 TATTTCATCGGGAATACTCCAACCCCAGCTTTATTTTCAAAATATTGATTTCTCATAATTGGGGA
391 TATTTCATCGGGAATACTCCAACCCCAGCTTTATTTTCAAAATATTGATTTCTCATAATTGGGGA
* *
322708 TACTCCAACCTCGTTATTTCCGAAGGGATACTCCAATCCCGATTTTATTTCCTAATCATCGATTT
456 TACTCCAACCCCGCTATTTCCGAAGGGATACTCCAATCCCGATTTTATTTCCTAATCATCGATTT
322773 TTCTCAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTC
521 TTCTCAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTC
322838 CAAAATATTAAATTTCTCATCGGGAAATATATTCCAACCGCATCCTCGAAGGAATATTTCAACTT
586 CAAAATATTAAATTTCTCATCGGGAAATATATTCCAACCGCATCCTCGAAGGAATATTTCAACTT
*
322903 TTTTTCTTTTTGAATTTCCCTTAAATTCCAAACTTTTCTCTAGAGCACCCCTAGACCATTTTTCG
651 TTTTTCATTTTGAATTTCCCTTAAATTCCAAACTTTTCTCTAGAGCACCCCTAGACCATTTTTCG
322968 AAAACCTCACAGAATCCAATCAAGTCTCAACATTGT
716 AAAACCTCACAGAATCCAATCAAGTCTCAACATTGT
*
323004 TATCTCATTCCCCCTGTGAAACCTCCAAATTAGCCCAAACAAAATTCAAAAAGGAGGATAGCGCG
1 TATCTCATTCCCCCTGTGAAACCTCCAAATCAGCCCAAACAAAATTCAAAAAGGAGGATAGCGCG
* *
323069 ATGCTGTCCCCTGTTTTGGTCATGAACAAAAGTTAAGCCGTTCTTCCCAACTTCATCTCAAGACA
66 ATGCTGTCCCCTGTTTTGGTCATGAACAAAAGTTAAGCCGTTCTTCCCAACTTCATCCCGAGACA
323134 TTCGGACGTCTCCTTGTAATCCCCCTAGGCTCGGACCAAGGCTAAACCCAAAAGTATTTTTGTTA
131 TTCGGACGTCTCCTTGTAATCCCCCTAGGCTCGGACCAAGGCTAAACCCAAAAGTATTTTTGTTA
323199 AGTTTCTCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
196 AGTTTCTCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
*
323264 TCACAATCGAGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGAT
261 TCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGAT
*
323329 ACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTTTCATAATCGGGGATACTCCAACCTCGT
326 ACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCATAATCGGGGATACTCCAACCTCGT
*
323394 TATTTCATCGGGGATACTCCAACCCCAGCTTTATTTTCAAAATATTGATTTCTCATAATTGGGGA
391 TATTTCATCGGGAATACTCCAACCCCAGCTTTATTTTCAAAATATTGATTTCTCATAATTGGGGA
323459 TACTCCAACCCCGCTATTTCCGAAGGGATACTCCAATCCCGATTTTATTTCCTAATCATCGATTT
456 TACTCCAACCCCGCTATTTCCGAAGGGATACTCCAATCCCGATTTTATTTCCTAATCATCGATTT
*
323524 TTCTCAACTGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTC
521 TTCTCAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTC
*
323589 CAAAATATTAAATTTCTCATCGGGAAATATATTCCAACCGCGTCCTCGAAGGAATATTTCAACTT
586 CAAAATATTAAATTTCTCATCGGGAAATATATTCCAACCGCATCCTCGAAGGAATATTTCAACTT
323654 TTTTTCATTTTGAATTTCCCTTAAATTCCAAACTTTTCTCTAGAGCACCCCTAGACCATTTTTCG
651 TTTTTCATTTTGAATTTCCCTTAAATTCCAAACTTTTCTCTAGAGCACCCCTAGACCATTTTTCG
323719 AAAACCTCACAGAATCCAATCAAGTCTCAACATTGT
716 AAAACCTCACAGAATCCAATCAAGTCTCAACATTGT
323755 TATCTCATTCCCCCTGTGAAACCTCCAAATCAGCCCAAACAAAATTCAAAAAGGAGGATAGCGCG
1 TATCTCATTCCCCCTGTGAAACCTCCAAATCAGCCCAAACAAAATTCAAAAAGGAGGATAGCGCG
323820 ATGCTGTCCCCTGTTTTGGTCATGAACAAAAGTTAAGCCGTTCTTCCCAACTTCATCCCGAGACA
66 ATGCTGTCCCCTGTTTTGGTCATGAACAAAAGTTAAGCCGTTCTTCCCAACTTCATCCCGAGACA
323885 TTCGGACGTCTCCTTGTAATCCCCCTAGGCTCGGACCAAGGCTAAACCCAAAAGTATTTTTGTTA
131 TTCGGACGTCTCCTTGTAATCCCCCTAGGCTCGGACCAAGGCTAAACCCAAAAGTATTTTTGTTA
*
323950 AGTTTCTCAATTTTTCATAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTT
196 AGTTTCTCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
* * * * *
324015 CCACAATCGGGGATACTTCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATTGGGGAT
261 TCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGAT
* * *
324080 ACTCCAACCCC-AGTTTTATTT-CTAAAACACTAA-TTTTCACAATCGGGGATACTCCAACC
326 ACTCCAACCCCGA-TTTTATTTCCAAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
324139 CCGATTTTAT
Statistics
Matches: 1102, Mismatches: 31, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
749 25 0.02
750 153 0.14
751 924 0.84
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (751 bp):
TATCTCATTCCCCCTGTGAAACCTCCAAATCAGCCCAAACAAAATTCAAAAAGGAGGATAGCGCG
ATGCTGTCCCCTGTTTTGGTCATGAACAAAAGTTAAGCCGTTCTTCCCAACTTCATCCCGAGACA
TTCGGACGTCTCCTTGTAATCCCCCTAGGCTCGGACCAAGGCTAAACCCAAAAGTATTTTTGTTA
AGTTTCTCAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
TCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGAT
ACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCATAATCGGGGATACTCCAACCTCGT
TATTTCATCGGGAATACTCCAACCCCAGCTTTATTTTCAAAATATTGATTTCTCATAATTGGGGA
TACTCCAACCCCGCTATTTCCGAAGGGATACTCCAATCCCGATTTTATTTCCTAATCATCGATTT
TTCTCAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTC
CAAAATATTAAATTTCTCATCGGGAAATATATTCCAACCGCATCCTCGAAGGAATATTTCAACTT
TTTTTCATTTTGAATTTCCCTTAAATTCCAAACTTTTCTCTAGAGCACCCCTAGACCATTTTTCG
AAAACCTCACAGAATCCAATCAAGTCTCAACATTGT
Found at i:323477 original size:79 final size:77
Alignment explanation
Indices: 323322--323608 Score: 292
Period size: 79 Copynumber: 3.6 Consensus size: 77
323312 TTTTCACAAT
* * *
323322 CGGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTTTCATAATCGGGGATACTCCA
1 CGGGGATACTCCAACCCCG-TTTTATTTCC-AAAATATCAATTTCTCATAATTGGGGATACTCCA
*
323387 ACCTCGTTATTTCA
64 ACCCCGTTATTTCA
* * **
323401 TCGGGGATACTCCAACCCCAGCTTTATTTTCAAAATATTGATTTCTCATAATTGGGGATACTCCA
1 -CGGGGATACTCCAACCCC-GTTTTATTTCCAAAATATCAATTTCTCATAATTGGGGATACTCCA
*
323466 ACCCCGCTATTTC-
64 ACCCCGTTATTTCA
* * * * *
323479 CGAAGGGATACTCCAATCCCGATTTTATTTCC-TAATCATCGATTTTTC-TCAACTGGGGATACT
1 CG--GGGATACTCCAACCCCG-TTTTATTTCCAAAAT-ATCAATTTCTCAT-AATTGGGGATACT
323542 CCAACCCCGTTATTTTCA
61 CCAACCCCGTTA-TTTCA
* * *
323560 AGGGGATACTCCAACCCCGTTATTATCTCCAAAATATTAAATTTCTCAT
1 CGGGGATACTCCAACCCCGTT-TTATTTCCAAAATA-TCAATTTCTCAT
323609 CGGGAAATAT
Statistics
Matches: 171, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
77 2 0.01
78 7 0.04
79 119 0.70
80 40 0.23
81 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTTTATTTCCAAAATATCAATTTCTCATAATTGGGGATACTCCAAC
CCCGTTATTTCA
Found at i:324013 original size:51 final size:51
Alignment explanation
Indices: 323958--324190 Score: 369
Period size: 51 Copynumber: 4.6 Consensus size: 51
323948 TAAGTTTCTC
* *
323958 AATTTTTCATAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* *
324009 AATTTTCCACAATCGGGGATACTTCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* * *
324060 AATTTTCCACAATTGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* *
324111 AA-TTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACT
324162 AATTTTTCACAATCGGGGATACTCCAACC
1 AATTTTTCACAATCGGGGATACTCCAACC
324191 TCGTTATTTC
Statistics
Matches: 168, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
50 34 0.20
51 108 0.64
52 26 0.15
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
Found at i:324229 original size:80 final size:78
Alignment explanation
Indices: 324121--324357 Score: 237
Period size: 79 Copynumber: 3.0 Consensus size: 78
324111 AATTTTCACA
* * *
324121 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGGGGATACTC
1 ATCGAGGATACTCCAACTCCGATTTTATTTCC-AAAACA-TGATTTTTCACAATCGGGGATACTC
*
324186 CAACCTCGTTATTTC
64 CAACCCCGTTATTTC
* ** ** * * * *
324201 ATCGAGGATACTCCAACTCTGGCTTTATTTTTAAAATATTGATTTCTCATAATTGGGGATACTCC
1 ATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACA-TGATTTTTCACAATCGGGGATACTCC
324266 AACCCCGTTATTTC
65 AACCCCGTTATTTC
* * * *
324280 -T-GAGGGAATACTCCAA-TCCCGATTTTATTTCCTAATCATCGATTTTTCTCAACCGGGGATAC
1 ATCGA-GG-ATACTCCAACT-CCGATTTTATTTCCAAAACAT-GATTTTTCACAATCGGGGATAC
324342 TCCAACCCCGTTATTT
62 TCCAACCCCGTTATTT
324358 TCAAGGGGAT
Statistics
Matches: 126, Mismatches: 27, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
77 2 0.02
78 5 0.04
79 94 0.75
80 25 0.20
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (78 bp):
ATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACATGATTTTTCACAATCGGGGATACTCCA
ACCCCGTTATTTC
Found at i:328779 original size:13 final size:13
Alignment explanation
Indices: 328739--328824 Score: 70
Period size: 13 Copynumber: 7.5 Consensus size: 13
328729 CCGTTACAAG
328739 CAATGTATCGATA
1 CAATGTATCGATA
328752 CAA--T-TC-AT-
1 CAATGTATCGATA
328760 C-ATGTATCGATA
1 CAATGTATCGATA
328772 CAATGTATCGATA
1 CAATGTATCGATA
328785 C-A--T-T-G-TA
1 CAATGTATCGATA
*
328792 CCATGTATCGATA
1 CAATGTATCGATA
328805 CAATGTATCGATA
1 CAATGTATCGATA
*
328818 CATTGTA
1 CAATGTA
328825 CCATGTATCG
Statistics
Matches: 59, Mismatches: 2, Indels: 24
0.69 0.02 0.28
Matches are distributed among these distances:
7 4 0.07
8 3 0.05
9 4 0.07
10 6 0.10
11 4 0.07
12 3 0.05
13 35 0.59
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:328779 original size:33 final size:33
Alignment explanation
Indices: 328739--328840 Score: 170
Period size: 33 Copynumber: 3.1 Consensus size: 33
328729 CCGTTACAAG
* *
328739 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGTACCATGTATCGATA
328772 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGTACCATGTATCGATA
328805 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGTACCATGTATCGATA
328838 CAA
1 CAA
328841 ACAGTGGCAG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
32 3 0.05
33 63 0.95
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTGTACCATGTATCGATA
Found at i:328799 original size:20 final size:20
Alignment explanation
Indices: 328774--328839 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
328764 TATCGATACA
328774 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
328794 ATGTATCGATAC-----A--
1 ATGTATCGATACATTGTACC
328807 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
328827 ATGTATCGATACA
1 ATGTATCGATACA
328840 AACAGTGGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
15 1 0.03
18 1 0.03
20 25 0.64
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:328913 original size:19 final size:20
Alignment explanation
Indices: 328869--328921 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
328859 CTGCCAATCT
**
328869 CATGTATCGATACAATTGCC
1 CATGTATCGATACAATTGAA
*
328889 CATGTATCAATACAA-TGAA
1 CATGTATCGATACAATTGAA
328908 CATGTATCGATACA
1 CATGTATCGATACA
328922 TTCAAGGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:329005 original size:71 final size:71
Alignment explanation
Indices: 328909--329062 Score: 274
Period size: 71 Copynumber: 2.2 Consensus size: 71
328899 TACAATGAAC
328909 ATGTATCGATACATTCAAGGGTTTTGACCTTTGTACCCTAAGTCAACCATAATGTATCGATACAA
1 ATGTATCGATACATTCAAGGGTTTTGACCTTTGTACCCTAAGTCAACCATAATGTATCGATACAA
*
328974 AGCA-TA
66 A-CACCA
328980 ATGTATCGATACATTCAAGGGTTTTGACCTTTGTACCCTAAGTCAACCATAATGTATCGATACAA
1 ATGTATCGATACATTCAAGGGTTTTGACCTTTGTACCCTAAGTCAACCATAATGTATCGATACAA
*
329045 ATACCA
66 ACACCA
329051 ATGTATCGATAC
1 ATGTATCGATAC
329063 TTTGAAGTAT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
70 1 0.01
71 79 0.99
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (71 bp):
ATGTATCGATACATTCAAGGGTTTTGACCTTTGTACCCTAAGTCAACCATAATGTATCGATACAA
ACACCA
Found at i:329572 original size:20 final size:22
Alignment explanation
Indices: 329495--329589 Score: 113
Period size: 22 Copynumber: 4.4 Consensus size: 22
329485 AGTTTTCGTT
329495 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAATTAAAGAA
329517 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAATTAAAGAA
* * *
329539 TTTATCCCCTTTAA-TCAA-AA
1 TTTCTCCCCCTTAATTAAAGAA
* * * *
329559 TTTCTCCTCCTTAATCAACGCA
1 TTTCTCCCCCTTAATTAAAGAA
329581 TTTCTCCCC
1 TTTCTCCCC
329590 TTTTGTCAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 13 0.22
21 4 0.07
22 43 0.72
ACGTcount: A:0.27, C:0.32, G:0.03, T:0.38
Consensus pattern (22 bp):
TTTCTCCCCCTTAATTAAAGAA
Found at i:331622 original size:18 final size:20
Alignment explanation
Indices: 331581--331623 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
331571 CTATAGACCC
331581 TAATTCATATCAAACAAGCA
1 TAATTCATATCAAACAAGCA
*
331601 TAATTCAT-TCACACAA-CA
1 TAATTCATATCAAACAAGCA
331619 TAATT
1 TAATT
331624 AACATCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (20 bp):
TAATTCATATCAAACAAGCA
Found at i:333919 original size:19 final size:19
Alignment explanation
Indices: 333895--333959 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
333885 TAGCCAAACT
333895 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
333914 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
333927 TGTATCGATACACATAAAATA
1 TGTATCGATACAC--AAAATA
333948 TGTATCGATACA
1 TGTATCGATACA
333960 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:333931 original size:13 final size:13
Alignment explanation
Indices: 333913--333938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
333903 TACACAAAAT
333913 ATGTATCGATACA
1 ATGTATCGATACA
333926 ATGTATCGATACA
1 ATGTATCGATACA
333939 CATAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:333936 original size:32 final size:33
Alignment explanation
Indices: 333895--333959 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
333885 TAGCCAAACT
333895 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
333927 TGTATCGATACACATAAAATATGTATCGATACA
1 TGTATCGATACACA-AAAATATGTATCGATACA
333960 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:335694 original size:20 final size:19
Alignment explanation
Indices: 335665--335703 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
335655 AGGTCAAAAC
335665 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
335684 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
335704 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:335731 original size:13 final size:13
Alignment explanation
Indices: 335713--335737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
335703 ATAATGCACA
335713 GTATCGATACATT
1 GTATCGATACATT
335726 GTATCGATACAT
1 GTATCGATACAT
335738 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:335750 original size:20 final size:22
Alignment explanation
Indices: 335725--335777 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
335715 ATCGATACAT
*
335725 TGTATCGATACATGAC-CA-AA
1 TGTATCGATACATGACAAAGAA
*
335745 TGTATCGATAC-TTACAAAGAA
1 TGTATCGATACATGACAAAGAA
335766 TGTATCGATACA
1 TGTATCGATACA
335778 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (22 bp):
TGTATCGATACATGACAAAGAA
Found at i:335863 original size:33 final size:33
Alignment explanation
Indices: 335819--335881 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
335809 CTTAACTGTT
*
335819 TGTATCGATACAT-ACAAAGATGTATCGATATAA
1 TGTATCAATACATCACAAA-ATGTATCGATATAA
* *
335852 TGTATCAATACATCCCAAATTGTATCGATA
1 TGTATCAATACATCACAAAATGTATCGATA
335882 CATTGGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (33 bp):
TGTATCAATACATCACAAAATGTATCGATATAA
Found at i:342036 original size:13 final size:13
Alignment explanation
Indices: 342018--342055 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
342008 CAGCATTCTC
*
342018 TGTATCGATACAT
1 TGTATCGATACAG
342031 TGTATCGATACAG
1 TGTATCGATACAG
342044 TGTATCGATACA
1 TGTATCGATACA
342056 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:342535 original size:21 final size:21
Alignment explanation
Indices: 342498--342542 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
342488 GCAGCACTCA
*
342498 CCAGGTCGCGACCGGCA-CCC
1 CCAGGTCGCAACCGGCAGCCC
*
342518 CCAGGTCGCAATCGGGCAGCCC
1 CCAGGTCGCAA-CCGGCAGCCC
342540 CCA
1 CCA
342543 CACTCACAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 5 0.24
22 6 0.29
ACGTcount: A:0.18, C:0.47, G:0.29, T:0.07
Consensus pattern (21 bp):
CCAGGTCGCAACCGGCAGCCC
Found at i:343933 original size:16 final size:16
Alignment explanation
Indices: 343914--343945 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
343904 GTGATTAAAA
343914 GAAATTGTTAAATTGC
1 GAAATTGTTAAATTGC
343930 GAAATTGTTAAATTGC
1 GAAATTGTTAAATTGC
343946 TTTATTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
GAAATTGTTAAATTGC
Found at i:344277 original size:14 final size:14
Alignment explanation
Indices: 344258--344301 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
344248 AAAGATACAC
*
344258 TATAACTAAGTTAT
1 TATAACAAAGTTAT
344272 TATAACAAAGTTAT
1 TATAACAAAGTTAT
*
344286 GCTATAACAAACTTAT
1 --TATAACAAAGTTAT
344302 GGTGTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 13 0.50
16 13 0.50
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (14 bp):
TATAACAAAGTTAT
Found at i:344293 original size:16 final size:16
Alignment explanation
Indices: 344257--344302 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
344247 GAAAGATACA
*
344257 CTATAACTAAGTTAT-
1 CTATAACAAAGTTATG
344272 -TATAACAAAGTTATG
1 CTATAACAAAGTTATG
*
344287 CTATAACAAACTTATG
1 CTATAACAAAGTTATG
344303 GTGTTTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 13 0.48
16 14 0.52
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (16 bp):
CTATAACAAAGTTATG
Found at i:351085 original size:155 final size:155
Alignment explanation
Indices: 350845--351389 Score: 558
Period size: 155 Copynumber: 3.5 Consensus size: 155
350835 CCTAGGACTC
* * * ** *
350845 GGTTCTAAAAAAATTACTAAAATGCCCCTAGGGTATACCTTCGACGTAAAAGTATCCT-AGTAAC
1 GGTTCT-AAAAAATTACGAAAATACCCCTAGGGAATACCTTTAACGTAAAAGTA-CCTGA-TACC
* * * * ** * *
350909 CTTAAAAGACTTAAAAA-GATCATAAATGGGATAAACCTATCCTAAATGCCCACCTTCGACATAA
63 CCTAAAGGACTTAAAAAGGATCATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAA
*
350973 AAGTGGACCCAACGATGGCCTAAGAGTT
128 AAGTGGACCCAATGATGGCCTAAGAGTT
* * * * **
351001 GGTTCTAGAAAATTACAAAAATACCTCTAGGGAATACCTTTGACGTAAAAGTATTTGATACCCCT
1 GGTTCTAAAAAATTACGAAAATACCCCTAGGGAATACCTTTAACGTAAAAGTACCTGATACCCCT
*
351066 AAAGGACTTAAAAAGGATCATAAAAGGGATGAACCTATCCTAAATATCTACCTTTAACATAAAAG
66 AAAGGACTTAAAAAGGATCATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAG
** * * * *
351131 CAGACCCGATGACGGCCTAGGAATT
131 TGGACCCAATGATGGCCTAAGAGTT
* * **
351156 GGTTCTAAAAAATTATGAAAACACCTTTAGGGAATACCTTTAACGTAAAAGTACCTGATACCCCC
1 GGTTCTAAAAAATTACGAAAATACCCCTAGGGAATACCTTTAACGTAAAAGTACCTGATA-CCCC
* * * ** * * * * *
351221 TAAGGGATTTAAAGAGGATTTTAAAAGGAATGAACTTATCCTAGATATCTACTTTTGGCATAAAA
65 TAAAGGACTTAAAAAGGATCATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAA
** *
351286 GTGGACCCTGTGATGACCTAAGAGTT
130 GTGGACCCAATGATGGCCTAAGAGTT
* * *
351312 GGTTCTAAAAAATTATGAAAATACCCCTA-AGAGATACTTTTAACGTAAAAGTA-CTCGATACCC
1 GGTTCTAAAAAATTACGAAAATACCCCTAGGGA-ATACCTTTAACGTAAAAGTACCT-GATACCC
* *
351375 CTAAGGGATTTAAAA
64 CTAAAGGACTTAAAA
351390 CATAAAGGAA
Statistics
Matches: 326, Mismatches: 58, Indels: 11
0.83 0.15 0.03
Matches are distributed among these distances:
154 19 0.06
155 176 0.54
156 131 0.40
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (155 bp):
GGTTCTAAAAAATTACGAAAATACCCCTAGGGAATACCTTTAACGTAAAAGTACCTGATACCCCT
AAAGGACTTAAAAAGGATCATAAAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAG
TGGACCCAATGATGGCCTAAGAGTT
Found at i:352006 original size:164 final size:171
Alignment explanation
Indices: 351613--352023 Score: 463
Period size: 164 Copynumber: 2.4 Consensus size: 171
351603 ATTTGATTTT
* * * * ** * *
351613 TTTAATTTACAAAAAT-TCATTTTGTACCTTAATGGAATTCTGAAAAGATATAAAAAGTTTTTAA
1 TTTATTTTAGAAAAATACCATTTCGTACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTT-A
*
351677 AATCTTTTATACCCCTATGGACCCCCATAGAAATATAAAAGATTAGAAAAGAAAGATTTAAATTT
65 AATCTTTTATACCCCTACGGACCCCCATAGAAATATAAAAGATTAGAAAAGAAAGATTTAAATTT
** *
351742 ATCTTGGTTATGAAAGTGTTGATTTAATTTAATTTAATTTAA
130 ATCTTAATTATGAAAGAGTTGATTTAATTTAATTTAATTTAA
* * * *
351784 TTTGTTTTTGAAAAATACCATTTCGTA-TTATAATGGAAACCCGAAAAGATACGAAAAGTTTTTG
1 TTTATTTTAGAAAAATACCATTTCGTACCT-TAATGGAAACCCGAAAAGATATGAAAAGTTTTT-
* * *
351848 AAATCTTTTATGCCCCTACGGA-CCCCATAGGAATATAAAAGATTA-AGAAA-AATGA-TTAATA
64 AAATCTTTTATACCCCTACGGACCCCCATAGAAATATAAAAGATTAGA-AAAGAAAGATTTAA-A
351909 TTTAT-TTCAATTAT-AAA-AG-T-A-TTAATTTAATTTAATTT-A
127 TTTATCTT-AATTATGAAAGAGTTGATTTAATTTAATTTAATTTAA
*
351948 TTTATTTTCAG-AAAATACCATTTCGTACCTTAATGAAAACCCGAAAAGATATGAAAAGTTTTTA
1 TTTATTTT-AGAAAAATACCATTTCGTACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTA
*
352012 AATATTTCTATA
65 AATCTTT-TATA
352024 TCTCTATGGA
Statistics
Matches: 205, Mismatches: 27, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
163 7 0.03
164 58 0.28
165 19 0.09
166 1 0.00
167 1 0.00
168 1 0.00
169 9 0.04
170 15 0.07
171 38 0.19
172 56 0.27
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (171 bp):
TTTATTTTAGAAAAATACCATTTCGTACCTTAATGGAAACCCGAAAAGATATGAAAAGTTTTTAA
ATCTTTTATACCCCTACGGACCCCCATAGAAATATAAAAGATTAGAAAAGAAAGATTTAAATTTA
TCTTAATTATGAAAGAGTTGATTTAATTTAATTTAATTTAA
Found at i:353156 original size:15 final size:16
Alignment explanation
Indices: 353130--353159 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
353120 TATCGTCATT
353130 TTTCTCTTTTTTTTAA
1 TTTCTCTTTTTTTTAA
353146 TTTCT-TTTTTTTTA
1 TTTCTCTTTTTTTTA
353160 TGTTACTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTCTCTTTTTTTTAA
Found at i:353352 original size:14 final size:15
Alignment explanation
Indices: 353317--353353 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
353307 TAACAAAAAT
353317 AATT-AAATTATAAA
1 AATTAAAATTATAAA
353331 AATTAAAATT-TAAA
1 AATTAAAATTATAAA
353345 AATTAAAAT
1 AATTAAAAT
353354 AAAATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTAAAATTATAAA
Found at i:355115 original size:28 final size:28
Alignment explanation
Indices: 355075--355179 Score: 167
Period size: 28 Copynumber: 3.8 Consensus size: 28
355065 TTTTGGAGAT
355075 AATAACGGGGTTGGAGTATCCCCTTGAA
1 AATAACGGGGTTGGAGTATCCCCTTGAA
355103 AATAACGGGGTTGGAGTATCCCCTTGAA
1 AATAACGGGGTTGGAGTATCCCCTTGAA
*
355131 AATAACGGGGTTGGAGTATCCCCGATG-A
1 AATAACGGGGTTGGAGTATCCCC-TTGAA
* *
355159 AATAACGAGGTTGGAATATCC
1 AATAACGGGGTTGGAGTATCC
355180 TCGATTGTGA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
28 71 0.97
29 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCTTGAA
Found at i:355230 original size:51 final size:50
Alignment explanation
Indices: 355167--355388 Score: 207
Period size: 53 Copynumber: 4.3 Consensus size: 50
355157 GAAATAACGA
* *
355167 GGTTGGAATATCCTCGAT-TGTGAAAGATTGGTGTTTTTAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATATG-GAAA-ATTGGTGTTTTTAAAATAAAACCGG
* * *
355218 GGTTGGAGTATCCCCGATCAAAGGAAATTTGGT-TTTTTGAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGAT--ATGGAAAATTGGTGTTTTT--AAAATAAAACCGG
* * * ** *
355271 GGTTAGAGTATCCCCGATTAAAGGAAATTTGGTGTTTCGAAAAATAAAACCGT
1 GGTTGGAGTATCCCCGA-T-ATGGAAAATTGGTGTTT-TTAAAATAAAACCGG
* * *
355324 GGTTAGAATATCCCCGATATGGAAAATTAGTG-TTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATATGGAAAATTGGTGTTTTTA-AAATAAAACCGG
355374 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
355389 CATTATGAGA
Statistics
Matches: 143, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
49 1 0.01
50 26 0.18
51 32 0.22
52 6 0.04
53 73 0.51
54 5 0.03
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATATGGAAAATTGGTGTTTTTAAAATAAAACCGG
Found at i:355280 original size:53 final size:52
Alignment explanation
Indices: 355194--355388 Score: 243
Period size: 53 Copynumber: 3.8 Consensus size: 52
355184 TTGTGAAAGA
* *
355194 TTGGTGTTTT-TAAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAAT
1 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGAT-AAAGGAAAT
* *
355246 TTGGTTTTTTGAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAAAGGAAAT
1 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGA-TAAAGGAAAT
* * * * *
355299 TTGGTGTTTCGAAAAATAAAACCGTGGTTAGAATATCCCCGAT-ATGGAAAA
1 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATAAAGGAAAT
* * *
355350 TTAGTGTTTT-AGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCC
355389 CATTATGAGA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 25 0.20
51 14 0.11
52 10 0.08
53 74 0.60
54 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (52 bp):
TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATAAAGGAAAT
Found at i:355337 original size:106 final size:103
Alignment explanation
Indices: 355205--355393 Score: 252
Period size: 103 Copynumber: 1.8 Consensus size: 103
355195 TGGTGTTTTT
* * * * * *
355205 AAAATAAAACCGGGGTTGGAGTATCCCCGATCAAAGGAAATTTGGTTTTTTGAAAAATAAAATCG
1 AAAATAAAACCGGGGTTAGAATATCCCCGAT--AAGGAAAATTAGTGTTTT-AAAAATAAAACCG
*
355270 GGGTTAGAGTATCCCCGATTAAAGGAAATTTGGTGTTTCGA
63 GGGTTAGAGTATCCCCCATTAAAGGAAATTTGGTGTTTCGA
* * *
355311 AAAATAAAACCGTGGTTAGAATATCCCCGATATGGAAAATTAGTGTTTTAGAAATAAAACCGGGG
1 AAAATAAAACCGGGGTTAGAATATCCCCGATAAGGAAAATTAGTGTTTTAAAAATAAAACCGGGG
*
355376 TTGGAGTATCCCCCATTA
66 TTAGAGTATCCCCCATTA
355394 TGAGAAATCA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
103 30 0.42
104 14 0.19
106 28 0.39
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (103 bp):
AAAATAAAACCGGGGTTAGAATATCCCCGATAAGGAAAATTAGTGTTTTAAAAATAAAACCGGGG
TTAGAGTATCCCCCATTAAAGGAAATTTGGTGTTTCGA
Found at i:355563 original size:51 final size:52
Alignment explanation
Indices: 355477--355575 Score: 164
Period size: 51 Copynumber: 1.9 Consensus size: 52
355467 CGATTGTGAA
* *
355477 AAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGG
*
355529 AAATTGGTG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
1 AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTA
355576 TGATCAATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 35 0.80
52 9 0.20
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (52 bp):
AAATTGGTGTTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGG
Found at i:355585 original size:51 final size:50
Alignment explanation
Indices: 355453--355578 Score: 155
Period size: 51 Copynumber: 2.5 Consensus size: 50
355443 GAGGTAACGA
* * * *
355453 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATG--AAATTGGTGTTTTTGAAAATAAAACCGG
* *
355505 AGTTGGAGTATCCCCGATTAAAGGAAATTGGTG-TTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAATTGGTGTTTTTGAAAATAAAACCGG
355556 GGTTGGAGTATCCCCGATTATGA
1 GGTTGGAGTATCCCCGATTATGA
355579 TCAATTGAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
49 3 0.05
51 34 0.53
52 26 0.41
54 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGAAATTGGTGTTTTTGAAAATAAAACCGG
Found at i:357078 original size:50 final size:50
Alignment explanation
Indices: 357018--357231 Score: 392
Period size: 50 Copynumber: 4.3 Consensus size: 50
357008 GCTTTTTTCA
*
357018 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
357068 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
* * *
357118 TTTCCCATGCATGCCTCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
357168 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
357218 TTTCCCATGCATGC
1 TTTCCCATGCATGC
357232 ATTTTCTATT
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 157 1.00
ACGTcount: A:0.15, C:0.26, G:0.14, T:0.44
Consensus pattern (50 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
Found at i:357975 original size:62 final size:62
Alignment explanation
Indices: 357836--358531 Score: 974
Period size: 62 Copynumber: 11.4 Consensus size: 62
357826 TGGGGCTTTG
* * * *
357836 AAAGGCATCCTGCTCTTTGAGAACTGG-AAGGTGCCACCAACTTGTGTGGGCTTTTTGAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGC--TTTGAAAGGA
* *
357899 AAAGACGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
357961 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
* * *
358023 AAAGGCGTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
* * *
358083 AAAGGCATCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
* *
358145 AAAGGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG-A
* * *
358208 AAA-GCGTCCTGCTCTTTGAAGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTT-AAACGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GGA
* * *
358267 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
* * *
358329 AAAGGCGTCCTGCTCTTTGAGGACCGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG-A
* * * *
358392 AAA-GCGTCCTGCTCTTTGAAGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
* *
358451 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT------A
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
358507 AAAGGCGTCCTGCTCTTTGAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
358532 AAAAAGGTGA
Statistics
Matches: 575, Mismatches: 45, Indels: 33
0.88 0.07 0.05
Matches are distributed among these distances:
56 26 0.05
59 9 0.02
60 155 0.27
62 329 0.57
63 33 0.06
64 23 0.04
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (62 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
Found at i:358094 original size:122 final size:122
Alignment explanation
Indices: 357836--358535 Score: 958
Period size: 122 Copynumber: 5.7 Consensus size: 122
357826 TGGGGCTTTG
* * * *
357836 AAAGGCATCCTGCTCTTTGAGAACTGG-AAGGTGCCACCAACTTGTGTGGGCTTTTTGAAAAGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGC--TTTGAAAGGAA
*
357900 AAGACGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GA
64 AAGGCGTCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA
357961 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
* *
358026 GGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGA
66 GGCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
358083 AAAGGCATCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
* * *
358148 GGCGTCCTGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
66 GGCGTCCTGCTCTTTGAGGA-C-TAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-A
* * *
358208 AAA-GCGTCCTGCTCTTTGAAGACT--AAAGGTGCCACCAGCTTGTGTGGGCTTT-AAACGGAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GGAAA
* * *
358269 AGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGA
65 AGGCGTCCTGCTCTTTGAGGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
358329 AAAGGCGTCCTGCTCTTTGAGGACCGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA
* * *
358394 A-GCGTCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGA
65 AGGCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
358451 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT------AAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
358510 GGCGTCCTGCTCTTTGAGGACTAAAA
66 GGCGTCCTGCTCTTTGAGGACTAAAA
358536 AGGTGAAAGG
Statistics
Matches: 519, Mismatches: 42, Indels: 37
0.87 0.07 0.06
Matches are distributed among these distances:
115 3 0.01
116 23 0.04
121 11 0.02
122 293 0.56
123 1 0.00
124 131 0.25
125 34 0.07
126 23 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (122 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
GGCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:358134 original size:184 final size:184
Alignment explanation
Indices: 357843--358530 Score: 1142
Period size: 184 Copynumber: 3.8 Consensus size: 184
357833 TTGAAAGGCA
* * *
357843 TCCTGCTCTTTG-AGAACTGGAAGGTGCCACCAACTTGTGTGGGCTTTTTGAAAA-GAAAAGACG
1 TCCTGCTCTTTGAAG-ACT-AAAGGTGCCACCAGCTTGTGTGGGC--TTT-AAAAGGAAAAGGCG
* * *
357906 TCCTGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCC
61 TCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
* *
357971 TGCTCTTTGAGGACTGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAAGGCG
126 TGCTCTTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAA-GCG
* *
358030 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
1 TCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
358095 CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTC
66 CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTC
358160 TTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCG
131 TTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCG
*
358214 TCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAACGGAAAAGGCGTCCTG
1 TCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
*
358279 CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAAGGCGTCCTGCTC
66 CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTC
*
358344 TTTGAGGACCGAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCG
131 TTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCG
358398 TCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
1 TCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
358463 CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTC
66 CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTC
358522 TTTGAGGAC
131 TTTGAGGAC
358531 TAAAAAGGTG
Statistics
Matches: 481, Mismatches: 17, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
178 25 0.05
183 4 0.01
184 410 0.85
185 3 0.01
186 23 0.05
187 15 0.03
188 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (184 bp):
TCCTGCTCTTTGAAGACTAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
CTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTC
TTTGAGGACCGGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAAGCG
Found at i:358481 original size:28 final size:28
Alignment explanation
Indices: 358449--358538 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 28
358439 GCTTTAAAAG
358449 GAAAAGGCGTCCTGCTCTTTGAGGACTA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTA
* ** ** * * * *
358477 GAAAAATGCCACCAACT-TGTGTGGGCTT
1 G-AAAAGGCGTCCTGCTCTTTGAGGACTA
*
358505 TAAAAGGCGTCCTGCTCTTTGAGGACTA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTA
358533 -AAAAGG
1 GAAAAGG
358539 TGAAAGGAGA
Statistics
Matches: 41, Mismatches: 19, Indels: 5
0.63 0.29 0.08
Matches are distributed among these distances:
27 16 0.39
28 15 0.37
29 10 0.24
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (28 bp):
GAAAAGGCGTCCTGCTCTTTGAGGACTA
Found at i:371985 original size:28 final size:28
Alignment explanation
Indices: 371945--372026 Score: 112
Period size: 28 Copynumber: 2.9 Consensus size: 28
371935 TTTTGGAGAT
*
371945 AATAACGGGGTTGGAGTATCCCC-TTGAA
1 AATAACGGGGTTGGAGTATCCCCGATG-A
371973 AATAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* * *
372001 AATAACGAGGTTGGAATATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
372027 TGTGAAAGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 47 0.96
29 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:372073 original size:52 final size:51
Alignment explanation
Indices: 372009--372231 Score: 243
Period size: 53 Copynumber: 4.3 Consensus size: 51
371999 GAAATAACGA
* * **
372009 GGTTGGAATATCCTCGAT-TGTGAAAGATTGGTGTTTTTTAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATATG-GAAA-ATTGGTGTTTTGAAAAATAAAACCGG
* *
372061 GGTTGGAGTATCCCCGATCAGAGGAAATTTGGTGTTTTGAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGAT-A-TGGAAAATTGGTGTTTTGAAAAATAAAACCGG
* * * * *
372114 GGTTAGAGTATCCCCGATTAAAGGAAATTTGGTGTTTCGAAAAATAAAACCGT
1 GGTTGGAGTATCCCCGA-T-ATGGAAAATTGGTGTTTTGAAAAATAAAACCGG
* * * *
372167 GGTTAGAATATCCCCGATATGGAAAATTAGTGTTTT-AGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATATGGAAAATTGGTGTTTTGAAAAATAAAACCGG
372217 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
372232 CATTATGAGA
Statistics
Matches: 148, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
50 25 0.17
51 14 0.09
52 17 0.11
53 85 0.57
54 6 0.04
55 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATATGGAAAATTGGTGTTTTGAAAAATAAAACCGG
Found at i:372105 original size:53 final size:51
Alignment explanation
Indices: 372036--372231 Score: 250
Period size: 53 Copynumber: 3.8 Consensus size: 51
372026 TTGTGAAAGA
** *
372036 TTGGTGTTTTTTAAAATAAAACCGGGGTTGGAGTATCCCCGATCAGAGGAAAT
1 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGAT-A-AGGAAAT
372089 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATTAAAGGAAAT
1 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGA-T-AAGGAAAT
* * * * *
372142 TTGGTGTTTCGAAAAATAAAACCGTGGTTAGAATATCCCCGATATGGAAAA
1 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATAAGGAAAT
* * *
372193 TTAGTGTTTT-AGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCC
372232 CATTATGAGA
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
50 25 0.20
51 14 0.11
52 1 0.01
53 85 0.67
54 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
TTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATAAGGAAAT
Found at i:372244 original size:103 final size:106
Alignment explanation
Indices: 372048--372236 Score: 276
Period size: 103 Copynumber: 1.8 Consensus size: 106
372038 GGTGTTTTTT
* * * *
372048 AAAATAAAACCGGGGTTGGAGTATCCCCGATCAGAGGAAATTTGGTGTTTTGAAAAATAAAACCG
1 AAAATAAAACCGGGGTTAGAATATCCCCGATCAGAGGAAAATTAGTGTTTTGAAAAATAAAACCG
*
372113 GGGTTAGAGTATCCCCGATTAAAGGAAATTTGGTGTTTCGA
66 GGGTTAGAGTATCCCCCATTAAAGGAAATTTGGTGTTTCGA
* * *
372154 AAAATAAAACCGTGGTTAGAATATCCCCGAT-A-TGGAAAATTAGTGTTTT-AGAAATAAAACCG
1 AAAATAAAACCGGGGTTAGAATATCCCCGATCAGAGGAAAATTAGTGTTTTGAAAAATAAAACCG
*
372216 GGGTTGGAGTATCCCCCATTA
66 GGGTTAGAGTATCCCCCATTA
372237 TGAGAAATCA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
103 31 0.42
104 14 0.19
105 1 0.01
106 28 0.38
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (106 bp):
AAAATAAAACCGGGGTTAGAATATCCCCGATCAGAGGAAAATTAGTGTTTTGAAAAATAAAACCG
GGGTTAGAGTATCCCCCATTAAAGGAAATTTGGTGTTTCGA
Found at i:372305 original size:28 final size:28
Alignment explanation
Indices: 372265--372341 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
372255 GAAATAAAGC
* **
372265 CGAGGTTGGAGTATCCCC-TTAGAGGTAA
1 CGAGGTTGGAGTATCCCCGAT-GAAATAA
372293 CGAGGTTGGAGTATCCCCGATGAAATAA
1 CGAGGTTGGAGTATCCCCGATGAAATAA
372321 CGAGGTTGGAGTA-CCCTCGAT
1 CGAGGTTGGAGTATCCC-CGAT
372342 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 3 0.07
28 40 0.91
29 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCGATGAAATAA
Found at i:372394 original size:52 final size:51
Alignment explanation
Indices: 372325--372445 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 51
372315 AAATAACGAG
* * *
372325 GTTGGAGTA-CCCTCGATTGTGAA-AAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCC-CGATT-TAAAGAAATTGGTG-TTTTGAAAATAAAACCGGA
372377 GTTGGAGTATCCCCGA-TTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGA
1 GTTGGAGTATCCCCGATTTAAA-GAAATTGGTGTTTTGAAAATAAAACCGGA
*
372428 GTTGAAGTATCCCCGATT
1 GTTGGAGTATCCCCGATT
372446 ATGATCAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
50 3 0.05
51 33 0.54
52 22 0.36
53 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTTAAAGAAATTGGTGTTTTGAAAATAAAACCGGA
Found at i:372437 original size:51 final size:51
Alignment explanation
Indices: 372035--372446 Score: 245
Period size: 53 Copynumber: 7.9 Consensus size: 51
372025 ATTGTGAAAG
* * * *
372035 ATTGGTGTTTTTTAAAATAAAACCGGGGTTGGAGTATCCCCGATCAGAGGAA
1 ATTGGTG-TTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAA
* *
372087 ATTTGGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATTAAAGGAA
1 A-TTGGTGTTTTG-AAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAA
* * * *
372140 ATTTGGTGTTTCGAAAAATAAAACCGTG-GTTAGAATATCCCCGA-T-ATGGAAA
1 A-TTGGTGTTTTG-AAAATAAAACCG-GAGTTGGAGTATCCCCGATTAAAGG-AA
* * * *
372192 ATTAGTGTTTT-AGAAATAAAACCGGGGTTGGAGTATCCCCCATT-ATGAGAA
1 ATTGGTGTTTTGA-AAATAAAACCGGAGTTGGAGTATCCCCGATTAAAG-GAA
*** * * * *
372243 ATCAATATTTTGGAAATAAAGCC-GAGGTTGGAGTATCCCC--TTAGAGGTAA
1 ATTGGTGTTTTGAAAATAAAACCGGA-GTTGGAGTATCCCCGATTAAAGG-AA
* * ***** * *
372293 CGAGGTTGGAGTATCCCCGATGAAATAAC-GAGGTTGGAGTA-CCCTCGATTGTGAA--AA
1 --A--TTGGTGTTTTGAAAAT-AAA-ACCGGA-GTTGGAGTATCCC-CGA-T-TAAAGGAA
* *
372350 ATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAA
1 ATTGGTG-TTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAA
*
372402 ATTGGTGTTTTGAAAATAAAACCGGAGTTGAAGTATCCCCGATTA
1 ATTGGTGTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTA
372447 TGATCAATTG
Statistics
Matches: 285, Mismatches: 47, Indels: 57
0.73 0.12 0.15
Matches are distributed among these distances:
49 5 0.02
50 31 0.11
51 84 0.29
52 34 0.12
53 95 0.33
54 10 0.04
55 7 0.02
56 14 0.05
57 2 0.01
59 1 0.00
60 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
ATTGGTGTTTTGAAAATAAAACCGGAGTTGGAGTATCCCCGATTAAAGGAA
Found at i:373399 original size:18 final size:18
Alignment explanation
Indices: 373375--373445 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
373365 AATTGCTACC
373375 TGCTGGAGTTGCTGCTC-
1 TGCTGGAGTTGCTGCTCG
* *
373392 TCGCTGGAGCTGCTGTTGCG
1 T-GCTGGAGTTGCTGCT-CG
*
373412 TGCTGGAGTTGCAG-TCG
1 TGCTGGAGTTGCTGCTCG
373429 TTGCTGGAGTTGCTGCT
1 -TGCTGGAGTTGCTGCT
373446 GTTGTTGCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.07
18 27 0.61
19 13 0.30
20 1 0.02
ACGTcount: A:0.07, C:0.21, G:0.38, T:0.34
Consensus pattern (18 bp):
TGCTGGAGTTGCTGCTCG
Found at i:373435 original size:37 final size:39
Alignment explanation
Indices: 373375--373474 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 39
373365 AATTGCTACC
* *
373375 TGCTGGAGTTGCTGCTC-TCGCTGGA-GCTGC-TGTTGCG
1 TGCTGGAGTTGCAG-TCGTTGCTGGATGCTGCTTGTTGCG
373412 TGCTGGAGTTGCAGTCGTTGCTGGAGTTGCTGCTGTTGTTGCG
1 TGCTGGAGTTGCAGTCGTTGCTGGA--TGCTGC--TTGTTGCG
373455 TGCTGGAGTTGCAGTCGTTG
1 TGCTGGAGTTGCAGTCGTTG
373475 GCCACTAGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
36 2 0.04
37 20 0.37
40 5 0.09
43 27 0.50
ACGTcount: A:0.07, C:0.19, G:0.39, T:0.35
Consensus pattern (39 bp):
TGCTGGAGTTGCAGTCGTTGCTGGATGCTGCTTGTTGCG
Found at i:374055 original size:50 final size:50
Alignment explanation
Indices: 373995--374208 Score: 385
Period size: 50 Copynumber: 4.3 Consensus size: 50
373985 GCTTTTTTCA
373995 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATG-
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
374044 TCTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 T-TTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
* * *
374095 TTTCCCATGCATGCCTCCGCATGTTTTGTCTCCAATTGCAATTTTTGTGT
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
374145 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
1 TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
374195 TTTCCCATGCATGC
1 TTTCCCATGCATGC
374209 ATTTTCTATT
Statistics
Matches: 157, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
49 1 0.01
50 155 0.99
51 1 0.01
ACGTcount: A:0.15, C:0.27, G:0.14, T:0.43
Consensus pattern (50 bp):
TTTCCCATGCATGCCTCTGCATGTTTTGTCTCCAATTGCAATTTTTATGC
Found at i:377268 original size:2 final size:2
Alignment explanation
Indices: 377261--377297 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
377251 GATCTTTCTT
377261 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
377298 TAAGGTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:377891 original size:13 final size:12
Alignment explanation
Indices: 377868--377892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
377858 GTCAAGTTAC
377868 TAAAATTTTTTT
1 TAAAATTTTTTT
377880 TAAAATTTTTTT
1 TAAAATTTTTTT
377892 T
1 T
377893 CAAGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAAAATTTTTTT
Found at i:381432 original size:28 final size:28
Alignment explanation
Indices: 381398--381451 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
381388 GCTTTTGGTT
* *
381398 AATATTAAAATATTAATTATTAATATAA
1 AATATTAAAATATTAAATAATAATATAA
* *
381426 AATATTAATATTTTAAATAATAATAT
1 AATATTAAAATATTAAATAATAATAT
381452 TTTAATGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AATATTAAAATATTAAATAATAATATAA
Found at i:381441 original size:21 final size:20
Alignment explanation
Indices: 381396--381452 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
381386 TTGCTTTTGG
381396 TTAATATTAAAATATTAATTA
1 TTAATA-TAAAATATTAATTA
*
381417 TTAATATAAAATATTAATATT
1 TTAATATAAAATATTAAT-TA
381438 TTAA-ATAATAATATT
1 TTAATATAA-AATATT
381453 TTAATGATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATATAAAATATTAATTA
Found at i:381449 original size:15 final size:15
Alignment explanation
Indices: 381425--381456 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
381415 TATTAATATA
*
381425 AAATATTAATATTTT
1 AAATAATAATATTTT
381440 AAATAATAATATTTT
1 AAATAATAATATTTT
381455 AA
1 AA
381457 TGATATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATAATAATATTTT
Found at i:381609 original size:22 final size:21
Alignment explanation
Indices: 381588--381627 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
381578 TATTAATATA
*
381588 ATAATTATTAAAGTATTTTAT
1 ATAATTATTAAAATATTTTAT
*
381609 ATTATTATTAAAATATTTT
1 ATAATTATTAAAATATTTT
381628 CTCTAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
ATAATTATTAAAATATTTTAT
Found at i:381682 original size:13 final size:14
Alignment explanation
Indices: 381664--381717 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
381654 TAAATATTAA
381664 AATATTAAT-TTTT
1 AATATTAATATTTT
381677 AATATTAATATTTT
1 AATATTAATATTTT
* **
381691 AGTAGAAATATTTT
1 AATATTAATATTTT
*
381705 AATAATAATATTT
1 AATATTAATATTT
381718 AAAATAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
13 9 0.26
14 25 0.74
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:381789 original size:21 final size:23
Alignment explanation
Indices: 381756--381807 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
381746 TAATTAAATT
381756 TAAAATATTATTAT-TTAT-TAC
1 TAAAATATTATTATATTATATAC
*
381777 TAAAA-ATTAATTATATTATATTC
1 TAAAATATT-ATTATATTATATAC
381800 TAAAATAT
1 TAAAATAT
381808 CTAAAGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 10 0.38
22 4 0.15
23 7 0.27
24 2 0.08
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAATATTATTATATTATATAC
Found at i:382116 original size:31 final size:31
Alignment explanation
Indices: 382069--382137 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
382059 TAAATTATAT
* *
382069 TATT-AAAATATTAATATACAAGTTTAATAA
1 TATTCAAAATATAAATATACAACTTTAATAA
382099 TATTCAAAATATAAATATACAACTTTAATAA
1 TATTCAAAATATAAATATACAACTTTAATAA
*
382130 TACTCAAA
1 TATTCAAA
382138 TAAGGTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.36
Consensus pattern (31 bp):
TATTCAAAATATAAATATACAACTTTAATAA
Found at i:385125 original size:15 final size:14
Alignment explanation
Indices: 385088--385141 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
385078 TTTAATAATT
*
385088 AATAAAAATTAAAA
1 AATAAAAATAAAAA
385102 AATAGAAAAGTCAAAAA
1 AATA-AAAA-T-AAAAA
385119 AATAAAAATAATAAA
1 AATAAAAATAA-AAA
385134 AATAAAAA
1 AATAAAAA
385142 ATCTAAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
14 6 0.17
15 16 0.46
16 5 0.14
17 8 0.23
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.17
Consensus pattern (14 bp):
AATAAAAATAAAAA
Found at i:385126 original size:16 final size:15
Alignment explanation
Indices: 385088--385156 Score: 61
Period size: 16 Copynumber: 4.5 Consensus size: 15
385078 TTTAATAATT
*
385088 AATAAAAAT-TAAAA
1 AATAAAAATCAAAAA
385102 AATAGAAAAGTCAAAAA
1 AATA-AAAA-TCAAAAA
385119 AATAAAAAT-AATAAA
1 AATAAAAATCAA-AAA
*
385134 AATAAAAAATCTAAAA
1 AAT-AAAAATCAAAAA
*
385150 ACTAAAA
1 AATAAAA
385157 GAAAAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.13
15 15 0.33
16 16 0.35
17 9 0.20
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.17
Consensus pattern (15 bp):
AATAAAAATCAAAAA
Found at i:385126 original size:31 final size:30
Alignment explanation
Indices: 385088--385169 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
385078 TTTAATAATT
*
385088 AATAAAAATTAAAAAATAGAAAAGTCAAAAA
1 AATAAAAA-TAAAAAATAGAAAAATCAAAAA
*
385119 AATAAAAATAATAAAAATA-AAAAATCTAAAA
1 AATAAAAAT-A-AAAAATAGAAAAATCAAAAA
*
385150 ACTAAAAGA-AAAAAATAGAA
1 AATAAAA-ATAAAAAATAGAA
385170 GAACAAACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
29 7 0.16
30 4 0.09
31 25 0.57
32 8 0.18
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.16
Consensus pattern (30 bp):
AATAAAAATAAAAAATAGAAAAATCAAAAA
Found at i:385148 original size:15 final size:16
Alignment explanation
Indices: 385116--385156 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
385106 GAAAAGTCAA
385116 AAAAAT-AAAAATAAT
1 AAAAATAAAAAATAAT
*
385131 AAAAATAAAAAAT-CT
1 AAAAATAAAAAATAAT
385146 AAAAACTAAAA
1 AAAAA-TAAAA
385157 GAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAAATAAT
Found at i:385661 original size:58 final size:58
Alignment explanation
Indices: 385571--385685 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
385561 ATCGACATCT
385571 TTAAAAGTAATTGTTTACAATATGCATGTAAGAGTAAAACATAAATGAATAAAATAAA
1 TTAAAAGTAATTGTTTACAATATGCATGTAAGAGTAAAACATAAATGAATAAAATAAA
*
385629 TTAAAAGTAATTGTTTACAATATTCATGTAAGAGTAAAACATAAATGAATAAAATAA
1 TTAAAAGTAATTGTTTACAATATGCATGTAAGAGTAAAACATAAATGAATAAAATAA
385686 TTCGTACCCC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.30
Consensus pattern (58 bp):
TTAAAAGTAATTGTTTACAATATGCATGTAAGAGTAAAACATAAATGAATAAAATAAA
Found at i:387255 original size:16 final size:16
Alignment explanation
Indices: 387220--387288 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
387210 AGTTTTGGTT
*
387220 ATTTTGAGTTTAGGGT-
1 ATTTTGAGTTT-GAGTC
387236 ATTTTGAGTTTGAGTC
1 ATTTTGAGTTTGAGTC
*
387252 ATTTT-AGATTTGGGTC
1 ATTTTGAG-TTTGAGTC
* * *
387268 ATTTTGGGTTTAAGAC
1 ATTTTGAGTTTGAGTC
387284 ATTTT
1 ATTTT
387289 CGGGTTCAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
15 5 0.11
16 38 0.86
17 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.25, T:0.51
Consensus pattern (16 bp):
ATTTTGAGTTTGAGTC
Found at i:388798 original size:10 final size:9
Alignment explanation
Indices: 388785--388835 Score: 59
Period size: 9 Copynumber: 5.3 Consensus size: 9
388775 GAAAAAAAGG
388785 AAAAGAATAA
1 AAAAGAA-AA
388795 AAAAGAAAA
1 AAAAGAAAA
388804 AATAGAGAAAA
1 AA-A-AGAAAA
388815 AGAAAG-AAA
1 A-AAAGAAAA
388824 AAAAGAAAA
1 AAAAGAAAA
388833 AAA
1 AAA
388836 GAAGAGTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 4 0.11
9 14 0.38
10 10 0.27
11 8 0.22
12 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:388834 original size:20 final size:21
Alignment explanation
Indices: 388796--388838 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
388786 AAAGAATAAA
*
388796 AAAGAAAAAATAGAGAAAAAG
1 AAAGAAAAAATAGAAAAAAAG
388817 AAAGAAAAAA-AGAAAAAAAG
1 AAAGAAAAAATAGAAAAAAAG
388837 AA
1 AA
388839 GAGTTCTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAATAGAAAAAAAG
Found at i:388835 original size:8 final size:8
Alignment explanation
Indices: 388774--388838 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
388764 GAGGAAAACC
388774 AGAAAAAA
1 AGAAAAAA
*
388782 AGGAAAAGA
1 A-GAAAAAA
*
388791 A-TAAAAA
1 AGAAAAAA
388798 AGAAAAAATA
1 AG-AAAAA-A
388808 GAGAAAAAGAA
1 -AG-AAAA-AA
388819 AGAAAAAA
1 AGAAAAAA
388827 AGAAAAAA
1 AGAAAAAA
388835 AGAA
1 AGAA
388839 GAGTTCTAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
7 5 0.11
8 15 0.32
9 15 0.32
10 3 0.06
11 8 0.17
12 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (8 bp):
AGAAAAAA
Found at i:389513 original size:34 final size:35
Alignment explanation
Indices: 389475--389541 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
389465 CCTTACAACA
389475 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
389509 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
389542 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:390038 original size:22 final size:24
Alignment explanation
Indices: 389982--390041 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 24
389972 TTAAATGGTG
389982 TGAACAGTGATGTATCGATACTAT
1 TGAACAGTGATGTATCGATACTAT
* *
390006 TTATGATAGTGATGTATCGATAC-A-
1 TGA--ACAGTGATGTATCGATACTAT
390030 TGAACAGTGATG
1 TGAACAGTGATG
390042 AATAGTGATG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 8 0.27
24 4 0.13
25 1 0.03
26 17 0.57
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (24 bp):
TGAACAGTGATGTATCGATACTAT
Found at i:390048 original size:10 final size:10
Alignment explanation
Indices: 390029--390059 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
390019 GTATCGATAC
*
390029 ATGAACAGTG
1 ATGAATAGTG
390039 ATGAATAGTG
1 ATGAATAGTG
390049 ATGAATAGTG
1 ATGAATAGTG
390059 A
1 A
390060 AAATGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.29, T:0.26
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:390147 original size:53 final size:53
Alignment explanation
Indices: 390083--390219 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
390073 CTACTACCAA
*
390083 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
390136 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
390189 TGTATTGATACATATTTGTGTGTATCAATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
390220 TATGCAATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 65 0.84
54 12 0.16
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:393426 original size:52 final size:52
Alignment explanation
Indices: 393356--393476 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
393346 GAAAATTTAT
* *
393356 CTGCATGTATCAATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
393408 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
393460 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
393477 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:393489 original size:52 final size:52
Alignment explanation
Indices: 393356--393496 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
393346 GAAAATTTAT
* *
393356 CTGCATGTATCAATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
393408 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
393460 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
393497 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:393503 original size:13 final size:13
Alignment explanation
Indices: 393485--393509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
393475 CAAAGATCAG
393485 TGTATCGATACAA
1 TGTATCGATACAA
393498 TGTATCGATACA
1 TGTATCGATACA
393510 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:393593 original size:13 final size:13
Alignment explanation
Indices: 393575--393599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
393565 CAAAAAAATA
393575 TGTATCGATACAT
1 TGTATCGATACAT
393588 TGTATCGATACA
1 TGTATCGATACA
393600 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:393595 original size:33 final size:33
Alignment explanation
Indices: 393553--393619 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
393543 AGTAGCTTAA
393553 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
393586 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
393619 A
1 A
393620 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:394309 original size:13 final size:13
Alignment explanation
Indices: 394291--394316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
394281 ACCAAGGAAA
394291 TGTATCGATACAT
1 TGTATCGATACAT
394304 TGTATCGATACAT
1 TGTATCGATACAT
394317 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:394380 original size:20 final size:19
Alignment explanation
Indices: 394355--394441 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
394345 TTTACCCAGA
394355 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
394375 TGTATCGAT--A----CAT
1 TGTATCGATACATTTTCAT
* *
394388 TGTATTGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
394408 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
394428 TGTATCGATACATT
1 TGTATCGATACATT
394442 CAGGCATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
13 11 0.20
15 1 0.02
18 1 0.02
19 1 0.02
20 41 0.75
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:394398 original size:33 final size:33
Alignment explanation
Indices: 394355--394421 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
394345 TTTACCCAGA
*
394355 TGTATCGATACATT-TTGCATTGTATCGATACAT
1 TGTATCGATACATTGCT-CATTGTATCGATACAT
*
394388 TGTATTGATACATTGCTCATTGTATCGATACAT
1 TGTATCGATACATTGCTCATTGTATCGATACAT
394421 T
1 T
394422 TTACAATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTGCTCATTGTATCGATACAT
Found at i:394421 original size:13 final size:13
Alignment explanation
Indices: 394372--394402 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
394362 ATACATTTTG
394372 CATTGTATCGATA
1 CATTGTATCGATA
*
394385 CATTGTATTGATA
1 CATTGTATCGATA
394398 CATTG
1 CATTG
394403 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:396833 original size:51 final size:51
Alignment explanation
Indices: 396730--396856 Score: 179
Period size: 51 Copynumber: 2.5 Consensus size: 51
396720 AAATTTATAG
* **
396730 ATTTTTCAT-CTCGGGGATACTCCAA-TCCGGTTTCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCAATTTCATTTCCAAAACATCA
* *
396779 ATTTTTCTTAATCGGGGATACTCCAACTCCAATTTTATTTCCAAAACA-CTA
1 ATTTTTCATAATCGGGGATACTCCAACTCCAATTTCATTTCCAAAACATC-A
396830 ATTTTTCATAATCGGGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
396857 CCCGTTATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
49 8 0.12
50 16 0.23
51 45 0.65
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCAATTTCATTTCCAAAACATCA
Found at i:396883 original size:79 final size:79
Alignment explanation
Indices: 396792--396939 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 79
396782 TTTCTTAATC
* * * * *
396792 GGGGATACTCCAACTCCAATTTTATTTCCAAAACACTAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAACTTTATTTCCAAAACACTAATTTCTCACAATCAGGGATACTCCAAC
396857 CCCGTTATTTCTGA
66 CCCGTTATTTCTGA
* * * * *
396871 GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTCTCACAATCAGGGATACTTCAAC
1 GGGGATACTCCAACCCCAACTTTATTTCCAAAACACTAATTTCTCACAATCAGGGATACTCCAAC
396936 CCCG
66 CCCG
396940 ACCTTATTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 59 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCAACTTTATTTCCAAAACACTAATTTCTCACAATCAGGGATACTCCAAC
CCCGTTATTTCTGA
Found at i:396936 original size:51 final size:52
Alignment explanation
Indices: 396872--396990 Score: 170
Period size: 51 Copynumber: 2.3 Consensus size: 52
396862 TATTTCTGAG
*
396872 GGGATACTCCAACCCCAG-CTTTATTTCCAAAATATTGATTTCTCACAATCA
1 GGGATACTCCAACCCCAGACCTTATTTCCAAAATATTGATTTCTCACAATCA
* * * **
396923 GGGATACTTCAACCCC-GACCTTATTTCTAAAATATTGATTTCTCATAATTG
1 GGGATACTCCAACCCCAGACCTTATTTCCAAAATATTGATTTCTCACAATCA
396974 GGGATACTCCAACCCCA
1 GGGATACTCCAACCCCA
396991 TTATTTTCAC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 1 0.02
51 58 0.98
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (52 bp):
GGGATACTCCAACCCCAGACCTTATTTCCAAAATATTGATTTCTCACAATCA
Found at i:396977 original size:130 final size:128
Alignment explanation
Indices: 396830--397168 Score: 398
Period size: 130 Copynumber: 2.6 Consensus size: 128
396820 CAAAACACTA
*
396830 ATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAA-CCCCAGCTTT
1 ATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT-TGAGGGGATACTCCAATCCCGA-CTTT
*
396894 ATTTCCAAAATATTGA-TTTCTCACAATCAGGGATACTTCAACCC-CGACCTTATTTCTAAAAT-
64 ATTTCCAAAATATT-ATTTTCT-ACAATCAGGGACACTTCAACCCTCG-CCTTATTTCT-AAATC
*
396956 ATTG
125 ATCG
* * * * * *
396960 ATTTCTCATAATTGGGGATACTCCAACCCCATTATTTTCACAGGGATACTCCAATCCCGATTTTA
1 ATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTGA-GGGGATACTCCAATCCCGACTTTA
*** * * *
397025 TTTTTGAAACATCTATTTTCTATAATCAGGGACACTTCAACCCTTGCCTTATTTCTAAATCATCG
65 TTTCCAAAATAT-TATTTTCTACAATCAGGGACACTTCAACCCTCGCCTTATTTCTAAATCATCG
* * *
397090 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAATCCCGTCATTA
1 ATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTTTGAGGGGATACTCCAATCCCGACTTTA
*
397155 TCTCCAAAATATTA
65 TTTCCAAAATATTA
397169 AATTTTTTGT
Statistics
Matches: 173, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
129 8 0.05
130 149 0.86
131 16 0.09
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (128 bp):
ATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTGAGGGGATACTCCAATCCCGACTTTAT
TTCCAAAATATTATTTTCTACAATCAGGGACACTTCAACCCTCGCCTTATTTCTAAATCATCG
Found at i:398445 original size:57 final size:57
Alignment explanation
Indices: 398376--398492 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
398366 TGAAAATATT
*
398376 ATGATTATGCCAACATTTCCATGCATATTTTTGCATCTATGTATTCATGTTGTAGAC
1 ATGATTATGCCAACATTTCCATGCATATTTTTGCATCCATGTATTCATGTTGTAGAC
*
398433 ATGATTATGCCAACATTTCCATGCATATTTTTGCATCCATGTATTCATGTTTTAGAC
1 ATGATTATGCCAACATTTCCATGCATATTTTTGCATCCATGTATTCATGTTGTAGAC
398490 ATG
1 ATG
398493 TTTTTGTGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (57 bp):
ATGATTATGCCAACATTTCCATGCATATTTTTGCATCCATGTATTCATGTTGTAGAC
Found at i:398899 original size:58 final size:56
Alignment explanation
Indices: 398831--399187 Score: 267
Period size: 58 Copynumber: 6.1 Consensus size: 56
398821 ATATTCGTTA
* *
398831 TTTTCTATGTTTTAAGGTCTATTATACAATCTT-ATGCATTTTAGGCCAATTTTAGCCAT
1 TTTTC-ATGATTTAAGGACTATTATA-AAT-TTCATGCATTTTAGGCC-ATTTTAGCCAT
* * * * *
398890 TTTTCATGTTTTAAGGACTTTTATGAGATTTCATGCATTTTTAAGTCATTTTAGCCAT
1 TTTTCATGATTTAAGGACTATTAT-AAATTTCATGCA-TTTTAGGCCATTTTAGCCAT
* * * *
398948 TTTTCATGATTTAAGGACTTTTATGAGATTTCATGCATTTTTAGGTCATTTTAGCTAT
1 TTTTCATGATTTAAGGACTATTAT-AAATTTCATGCA-TTTTAGGCCATTTTAGCCAT
* * * **
399006 TTTTCATGATTTAAGG-GTATTATATAATTTCATGCATTTTAGCACCATTTCAATCAT
1 TTTTCATGATTTAAGGACTATTATA-AATTTCATGCATTTTAG-GCCATTTTAGCCAT
* * * * *
399063 TTTTCATGATTTAGGGA-TCATCATGTAAATCT-ATGCATTTTAGAACCATTTTAGTCAT
1 TTTTCATGATTTAAGGACT-AT--TATAAATTTCATGCATTTTAG-GCCATTTTAGCCAT
* * * * *
399121 TTTTCATGATTTAGAAGAGTTATTATGTAATTTCATAG-ATTTTAGGATCATTTTAGTCA-
1 TTTTCATGATTTA-AGGA-CTATTAT-AAATTTCAT-GCATTTTAGG-CCATTTTAGCCAT
399180 TTTTCATG
1 TTTTCATG
399188 TTGATGAATT
Statistics
Matches: 252, Mismatches: 30, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
56 7 0.03
57 41 0.16
58 146 0.58
59 31 0.12
60 25 0.10
61 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (56 bp):
TTTTCATGATTTAAGGACTATTATAAATTTCATGCATTTTAGGCCATTTTAGCCAT
Found at i:398950 original size:116 final size:115
Alignment explanation
Indices: 398831--399187 Score: 281
Period size: 115 Copynumber: 3.1 Consensus size: 115
398821 ATATTCGTTA
* *
398831 TTTTCTATGTTTTAAGGTCTATTAT-ACAATCTT-ATGCA-TTTTAGGCCAATTTTAGCCATTTT
1 TTTTC-ATGATTTAAGGACTATTATGA-AAT-TTCATGCATTTTTAGGCC-ATTTTAGCCATTTT
* *
398893 TCATGTTTTAA-GG-ACTTTTATGAGATTTCATGCATTTTTAAGTCATTTTAGCCAT
62 TCATGATTTAAGGGTA-TTATAT-A-ATTTCATGCATTTTTAAGTCATTTTAGCCAT
* * * *
398948 TTTTCATGATTTAAGGACTTTTATGAGATTTCATGCATTTTTAGGTCATTTTAGCTATTTTTCAT
1 TTTTCATGATTTAAGGACTATTATGAAATTTCATGCATTTTTAGGCCATTTTAGCCATTTTTCAT
* * **
399013 GATTTAAGGGTATTATATAATTTCATGCA-TTTT-AGCACCATTTCAATCAT
66 GATTTAAGGGTATTATATAATTTCATGCATTTTTAAG--TCATTTTAGCCAT
* * * * *
399063 TTTTCATGATTTAGGGA-TCATCATGTAAATCT-ATGCA-TTTTAGAACCATTTTAGTCATTTTT
1 TTTTCATGATTTAAGGACT-ATTATG-AAATTTCATGCATTTTTAG-GCCATTTTAGCCATTTTT
* * * *
399125 CATGATTTAGAAGAGTTATTATGTAATTTCATAG-A-TTTTAGGATCATTTTAGTCA-
63 CATGATTT--AAG-GGTATTATATAATTTCAT-GCATTTTTAAG-TCATTTTAGCCAT
399180 TTTTCATG
1 TTTTCATG
399188 TTGATGAATT
Statistics
Matches: 198, Mismatches: 27, Indels: 30
0.78 0.11 0.12
Matches are distributed among these distances:
113 2 0.01
114 11 0.06
115 68 0.34
116 51 0.26
117 32 0.16
118 32 0.16
119 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (115 bp):
TTTTCATGATTTAAGGACTATTATGAAATTTCATGCATTTTTAGGCCATTTTAGCCATTTTTCAT
GATTTAAGGGTATTATATAATTTCATGCATTTTTAAGTCATTTTAGCCAT
Found at i:401021 original size:29 final size:30
Alignment explanation
Indices: 400958--401023 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
400948 GCCTAAAAAA
* *
400958 CCCTAAAGTGCATGGAAATGTTAAAATGGT
1 CCCTAAAATGCATGGAAATGTCAAAATGGT
* *
400988 -GCTAAAATGCATGGAATTG-CAAAATGGT
1 CCCTAAAATGCATGGAAATGTCAAAATGGT
401016 CCCTAAAA
1 CCCTAAAA
401024 CATGAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (30 bp):
CCCTAAAATGCATGGAAATGTCAAAATGGT
Found at i:401040 original size:58 final size:57
Alignment explanation
Indices: 400979--401257 Score: 222
Period size: 58 Copynumber: 4.8 Consensus size: 57
400969 ATGGAAATGT
* * * *
400979 TAAAATGGTGCTAAAATGCATGGAATTGCAAAATGGTCCCTAAAACATGAAAAATGAT
1 TAAAATGGTCCTAAAATGCATGAAATTGCAAAATGAT-CCTAAAACATGAAAAATGAC
* * * * * *
401037 TAAAATAG-CCATAAAGTGCATGAAATTGCATAAATGATCTTAAATCATGGAAGATGAC
1 TAAAATGGTCC-TAAAATGCATGAAATTGCA-AAATGATCCTAAAACATGAAAAATGAC
** ** * * * *
401095 TAAGGTGGTCCTAAAATGCAT-AGAATTATATAATAACCCCTAAATCATGAAAAATGAC
1 TAAAATGGTCCTAAAATGCATGA-AATTGCAAAATGA-TCCTAAAACATGAAAAATGAC
* * * * * *
401153 TAAAATGGTTCT-AGATGTATGAAATTGCAAGATAATCCTAAAATCATGAAAAATTAC
1 TAAAATGGTCCTAAAATGCATGAAATTGCAAAATGATCCTAAAA-CATGAAAAATGAC
* * * *
401210 TAAAATGATCCTAAAATGCATAAAACTGCATAAATGGTCCTAAAACAT
1 TAAAATGGTCCTAAAATGCATGAAATTGCA-AAATGATCCTAAAACAT
401258 TACCAAGTAC
Statistics
Matches: 169, Mismatches: 43, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
56 6 0.04
57 43 0.25
58 101 0.60
59 19 0.11
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (57 bp):
TAAAATGGTCCTAAAATGCATGAAATTGCAAAATGATCCTAAAACATGAAAAATGAC
Found at i:401957 original size:18 final size:18
Alignment explanation
Indices: 401934--401971 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
401924 CTTGAAGAAA
401934 CTCTCTTTTTCCTTTTTT
1 CTCTCTTTTTCCTTTTTT
**
401952 CTCTCTTTTTTTTTTTTT
1 CTCTCTTTTTCCTTTTTT
401970 CT
1 CT
401972 TTTTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
CTCTCTTTTTCCTTTTTT
Found at i:401963 original size:12 final size:12
Alignment explanation
Indices: 401945--401996 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
401935 TCTCTTTTTC
401945 CTTTTTTCTCTCTT
1 CTTTTTT-TCT-TT
*
401959 -TTTTTTTTTTT
1 CTTTTTTTCTTT
401970 CTTTTTTTCTTT
1 CTTTTTTTCTTT
*
401982 CTCTTTTTC-TT
1 CTTTTTTTCTTT
401993 CTTT
1 CTTT
401997 GGTTTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 7 0.21
12 20 0.61
13 6 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTTTCTTT
Found at i:401965 original size:14 final size:13
Alignment explanation
Indices: 401946--401989 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
401936 CTCTTTTTCC
*
401946 TTTTTTCTCTCTTT
1 TTTTTTTTCTC-TT
*
401960 TTTTTTTTTTCTT
1 TTTTTTTTCTCTT
401973 TTTTTCTTTCTCTT
1 TTTTT-TTTCTCTT
401987 TTT
1 TTT
401990 CTTCTTTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 7 0.27
14 19 0.73
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTCTCTT
Found at i:401975 original size:26 final size:26
Alignment explanation
Indices: 401939--401989 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
401929 AGAAACTCTC
*
401939 TTTTTCCTTTTTTCTCTCTTTTTTTT
1 TTTTTCCTTTTTTCTCTCTCTTTTTT
* *
401965 TTTTTCTTTTTTTCTTTCTCTTTTT
1 TTTTTCCTTTTTTCTCTCTCTTTTT
401990 CTTCTTTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTCCTTTTTTCTCTCTCTTTTTT
Found at i:401979 original size:8 final size:8
Alignment explanation
Indices: 401939--401981 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
401929 AGAAACTCTC
*
401939 TTTTTCCT
1 TTTTTTCT
401947 TTTTTCTCT
1 TTTTT-TCT
401956 CTTTTTT-T
1 -TTTTTTCT
401964 TTTTTTCT
1 TTTTTTCT
401972 TTTTTTCT
1 TTTTTTCT
401980 TT
1 TT
401982 CTCTTTTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
7 6 0.19
8 17 0.55
9 3 0.10
10 5 0.16
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCT
Found at i:402002 original size:28 final size:26
Alignment explanation
Indices: 401946--402004 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
401936 CTCTTTTTCC
* * *
401946 TTTTTTCTCTCTTTTTTTTTTTTTCT
1 TTTTTTCTCTCTTTTTCTTCTTTGCT
*
401972 TTTTTTCTTTCTCTTTTTCTTCTTTGGT
1 TTTTTTC--TCTCTTTTTCTTCTTTGCT
402000 TTTTT
1 TTTTT
402005 AAAACTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.26
28 20 0.74
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.81
Consensus pattern (26 bp):
TTTTTTCTCTCTTTTTCTTCTTTGCT
Found at i:403474 original size:20 final size:20
Alignment explanation
Indices: 403419--403475 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
403409 TTTATGTTGA
* *
403419 AATATAAAATTTTATA-AAT
1 AATATAATATTTTATATTAT
403438 AA-AT-AT-TTTTA-ATTTAT
1 AATATAATATTTTATA-TTAT
403455 AATATAATATTTTATATTAT
1 AATATAATATTTTATATTAT
403475 A
1 A
403476 TTATGAGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
15 1 0.03
16 5 0.17
17 5 0.17
18 4 0.13
19 4 0.13
20 10 0.33
21 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATAATATTTTATATTAT
Found at i:404364 original size:13 final size:13
Alignment explanation
Indices: 404346--404371 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
404336 AATTTTTTTG
404346 TGTATCGATACAT
1 TGTATCGATACAT
404359 TGTATCGATACAT
1 TGTATCGATACAT
404372 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:404368 original size:34 final size:32
Alignment explanation
Indices: 404325--404389 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
404315 TACAAGCCAA
*
404325 TGTATCGATATAATTTTTTTGTGTATCGATACAT
1 TGTATCGATA-AA-TATTTTGTGTATCGATACAT
*
404359 TGTATCGATACATATTTTGTGTATCGATACA
1 TGTATCGATAAATATTTTGTGTATCGATACA
404390 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 18 0.62
33 1 0.03
34 10 0.34
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (32 bp):
TGTATCGATAAATATTTTGTGTATCGATACAT
Found at i:404466 original size:20 final size:20
Alignment explanation
Indices: 404442--404516 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
404432 CATCTTTTTC
*
404442 ATGTATCGATACATTGCAAC-
1 ATGTATCGATACTTTG-AACT
404462 ATGTATCGATACTTTGAACT
1 ATGTATCGATACTTTGAACT
*
404482 GTGTATCGATACTTTGAACT
1 ATGTATCGATACTTTGAACT
*
404502 GTGTATCGATACTTT
1 ATGTATCGATACTTT
404517 TAAGGGTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 3 0.06
20 49 0.94
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACTTTGAACT
Found at i:406957 original size:13 final size:13
Alignment explanation
Indices: 406939--406976 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
406929 ATAATCTCCC
406939 TGTATCGATACAG
1 TGTATCGATACAG
*
406952 TGTATCGATACAT
1 TGTATCGATACAG
406965 TGTATCGATACA
1 TGTATCGATACA
406977 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:409070 original size:15 final size:15
Alignment explanation
Indices: 409047--409082 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
409037 TTGTTCATCA
* *
409047 ATTTGGAGCTTCTTC
1 ATTTTGAGCTTCCTC
409062 ATTTTGAGCTTCCTC
1 ATTTTGAGCTTCCTC
409077 ATTTTG
1 ATTTTG
409083 GACATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.17, T:0.50
Consensus pattern (15 bp):
ATTTTGAGCTTCCTC
Found at i:413163 original size:13 final size:13
Alignment explanation
Indices: 413145--413170 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
413135 AATTTTTTTG
413145 TGTATCGATACAT
1 TGTATCGATACAT
413158 TGTATCGATACAT
1 TGTATCGATACAT
413171 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:413181 original size:32 final size:34
Alignment explanation
Indices: 413124--413188 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
413114 TACAAGCCAA
*
413124 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
413158 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
413189 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:413293 original size:20 final size:20
Alignment explanation
Indices: 413240--413295 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
413230 ACATCTTTTT
*
413240 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
*
413260 CATGTATCAATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
413279 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
413296 TAAGGGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:415692 original size:49 final size:49
Alignment explanation
Indices: 415630--415739 Score: 184
Period size: 49 Copynumber: 2.2 Consensus size: 49
415620 ATTTTACAAA
**
415630 ACAAATTTATTTCAAATATTTCTCCCCTTCTTCATCTCTCCCTGTTTTT
1 ACAAATTTATTTCAAATATTTCTCCCCTTCTTCATCTCTCCCCCTTTTT
* *
415679 ACAAATTTATTTCAAATATTTCTCCCTTTTTTCATCTCTCCCCCTTTTT
1 ACAAATTTATTTCAAATATTTCTCCCCTTCTTCATCTCTCCCCCTTTTT
415728 ACAAATTTATTT
1 ACAAATTTATTT
415740 TTAGTTTCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.23, C:0.26, G:0.01, T:0.50
Consensus pattern (49 bp):
ACAAATTTATTTCAAATATTTCTCCCCTTCTTCATCTCTCCCCCTTTTT
Found at i:417595 original size:33 final size:33
Alignment explanation
Indices: 417558--417622 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
417548 TAGTCCCCCT
*
417558 TGTATCAATACGAAGAACGTAGTATTGATACAA
1 TGTATCAATACGAAGAACGTAATATTGATACAA
* * *
417591 TGTATCGATACTAAGAACTTAATATTGATACA
1 TGTATCAATACGAAGAACGTAATATTGATACA
417623 TCTGGATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (33 bp):
TGTATCAATACGAAGAACGTAATATTGATACAA
Found at i:417662 original size:20 final size:21
Alignment explanation
Indices: 417632--417671 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
417622 ATCTGGATTT
417632 TTCAGATGTATCGATACATTG
1 TTCAGATGTATCGATACATTG
417653 TTCA-ATGTATCGATACATT
1 TTCAGATGTATCGATACATT
417672 ATGGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCAGATGTATCGATACATTG
Found at i:422342 original size:20 final size:20
Alignment explanation
Indices: 422317--422389 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
422307 CAACTTTTTT
422317 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
422337 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
422358 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
422378 ATGTATCGATAC
1 ATGTATCGATAC
422390 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:422355 original size:41 final size:41
Alignment explanation
Indices: 422296--422389 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
422286 CTGCCAAGAA
*
422296 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
422337 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
422378 ATGTATCGATAC
1 ATGTATCGATAC
422390 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:422371 original size:21 final size:21
Alignment explanation
Indices: 422296--422371 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
422286 CTGCCAAGAA
* *
422296 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
422317 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
422337 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
422358 ATGTATCGATACAT
1 ATGTATCGATACAT
422372 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:423056 original size:23 final size:23
Alignment explanation
Indices: 423026--423072 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
423016 ATCTCCCCCT
423026 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
423049 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
423072 T
1 T
423073 TTATTTGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATCAAGTAATTCATATCAAAA
Found at i:424875 original size:13 final size:13
Alignment explanation
Indices: 424857--424895 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
424847 ATAATCACCC
*
424857 TGTATCGATACAG
1 TGTATCGATACAA
424870 TGTATCGATACAA
1 TGTATCGATACAA
424883 TGTATCGATACAA
1 TGTATCGATACAA
424896 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:424960 original size:20 final size:20
Alignment explanation
Indices: 424881--424960 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 20
424871 GTATCGATAC
424881 AATGTATCGATACA-AAGAAA
1 AATGTATCGATACATAA-AAA
*
424901 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACATA-AA----AA
*
424926 GATGTATCGATACATAAAAA
1 AATGTATCGATACATAAAAA
*
424946 CATGTATCGATACAT
1 AATGTATCGATACAT
424961 TTTGGACATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
20 29 0.58
21 2 0.04
22 1 0.02
24 2 0.04
25 16 0.32
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATAAAAA
Found at i:426995 original size:15 final size:15
Alignment explanation
Indices: 426975--427005 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
426965 ATTTCGTTTG
*
426975 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
426990 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
427005 G
1 G
427006 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Done.