Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 162 of 325
Found at i:49768671 original size:43 final size:43
Alignment explanation
Indices: 49768574--49768734 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
49768564 ATCGAGATGT
* * *
49768574 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
*
49768617 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCG-TAATGA
* * * * ** *
49768660 GATTTCGTGTAAGACCTTGTCT-GGATAGAGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTA-ATGA
* * *
49768702 GATAACATGTAA-ACCATATCTAGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTAGGACATTGGCAT
49768735 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 14 0.14
42 25 0.26
43 54 0.56
44 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
Found at i:49775876 original size:48 final size:47
Alignment explanation
Indices: 49775771--49775895 Score: 171
Period size: 48 Copynumber: 2.6 Consensus size: 47
49775761 CATGTTTAAC
* *
49775771 CGTGGGATATCCACCTAGCACCACGTTA-ATGAATCAATATATGTAA
1 CGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAA
* *
49775817 CGGTGGCATATCCACTTAGTACCACGTTACATGTATCAATATATGTAA
1 C-GTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAA
* *
49775865 TCGTGGTATATCCACTTAGCACCACATTACA
1 -CGTGGCATATCCACTTAGCACCACGTTACA
49775896 CATATAACCG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 1 0.01
47 24 0.35
48 43 0.62
49 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (47 bp):
CGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATGTAA
Found at i:49790279 original size:29 final size:29
Alignment explanation
Indices: 49790246--49790361 Score: 232
Period size: 29 Copynumber: 4.0 Consensus size: 29
49790236 GTGACGAGAT
49790246 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49790275 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49790304 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49790333 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49790362 CGCACTGGGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:49798393 original size:29 final size:29
Alignment explanation
Indices: 49798360--49798475 Score: 232
Period size: 29 Copynumber: 4.0 Consensus size: 29
49798350 GTGACGAGAT
49798360 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49798389 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49798418 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49798447 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49798476 CGCACTGGGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:49800670 original size:46 final size:46
Alignment explanation
Indices: 49800497--49800672 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
49800487 TGTAACCCGC
* * * * *
49800497 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* * * * *
49800543 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCAAATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC---GGAC-ATTTACAT
* * *
49800593 -C-TCA-CGAACTCGGACTCAACTCAACGTGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* *
49800636 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49800673 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 2 0.02
46 57 0.55
47 25 0.24
48 2 0.02
49 3 0.03
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:49804444 original size:38 final size:38
Alignment explanation
Indices: 49804401--49804477 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
49804391 TTTCAAATTA
49804401 ACATGTATAACCGTGCCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGCCATATCCACTTAGCACCACGTT
* **
49804439 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGCCATATCCACTTAGCACCACGTT
49804477 A
1 A
49804478 ATGAATCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGCCATATCCACTTAGCACCACGTT
Found at i:49808615 original size:40 final size:40
Alignment explanation
Indices: 49808549--49808715 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49808539 AAATTGAATG
* * *
49808549 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49808588 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49808628 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49808668 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49808708 ATATCCGG
1 ATATCCGG
49808716 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49816550 original size:40 final size:40
Alignment explanation
Indices: 49816484--49816650 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49816474 AAATTGAATG
* * *
49816484 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49816523 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49816563 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49816603 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49816643 ATATCCGG
1 ATATCCGG
49816651 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49819722 original size:40 final size:40
Alignment explanation
Indices: 49819656--49819822 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49819646 AAATTGAATG
* * *
49819656 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49819695 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49819735 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49819775 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49819815 ATATCCGG
1 ATATCCGG
49819823 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49827701 original size:40 final size:40
Alignment explanation
Indices: 49827635--49827801 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49827625 AAATTGAATG
* * *
49827635 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49827674 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49827714 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49827754 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49827794 ATATCCGG
1 ATATCCGG
49827802 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49832736 original size:38 final size:39
Alignment explanation
Indices: 49832544--49832762 Score: 298
Period size: 39 Copynumber: 5.6 Consensus size: 39
49832534 GTTCAAAACA
* * ** * *
49832544 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
49832584 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
49832624 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
49832663 CCTTCGGGCTTAGCCCGGATATCATAGCTCACACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
49832702 CCTTCGGGCTTAGCCCGG-TATCATAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
49832740 CCTTCGGGCTTAGCCC-GATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
49832763 CTCGAACATT
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
37 1 0.01
38 39 0.24
39 82 0.51
40 40 0.25
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:49838466 original size:49 final size:48
Alignment explanation
Indices: 49838275--49838504 Score: 209
Period size: 49 Copynumber: 4.8 Consensus size: 48
49838265 TCGGCCACAT
* *
49838275 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAACTT-GA-C
1 TATGA-AGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATA
* * * **
49838322 T-TG-TGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATA
1 TATGAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATA
* * * ** *
49838368 CATGAGAGCCAATGTAAGACCTGTCTGGGACATGGTATCGGCCTCGATA
1 TATGA-AGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATA
* * * *
49838417 TATGAAAGTCAGTGTAAGACCTGTCTGGGACATAGCATTAACTTAGATA
1 TATG-AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATA
* * *
49838466 TGTG-AGCCAGTGTAAGACCATGTTTGGAACATGGCATCA
1 TATGAAGCCAGTGTAAGACC-TGTCTGGGACATGGCATCA
49838505 GCATTATACC
Statistics
Matches: 145, Mismatches: 31, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
44 32 0.22
45 2 0.01
46 2 0.01
47 17 0.12
48 15 0.10
49 76 0.52
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
TATGAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACTTCGATA
Found at i:49840872 original size:30 final size:30
Alignment explanation
Indices: 49840836--49840896 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49840826 CATTTAATGC
* * *
49840836 AAACTTTGGTAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTACCCCT
* *
49840866 AAACTTTTGCATAATTACACTTTTACCCCT
1 AAACTTTGGCAAAATTACACTTTTACCCCT
49840896 A
1 A
49840897 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTACCCCT
Found at i:49845654 original size:61 final size:61
Alignment explanation
Indices: 49845556--49845704 Score: 210
Period size: 61 Copynumber: 2.4 Consensus size: 61
49845546 ATATATATAA
* ** *
49845556 CAGGATTACTAGTCCTA-GCTAAATCCTGTCTCCAATATATATATACTCAATAGAGCTTAGT
1 CAGGATTACCAGT-CTAGGCTAAATCCTACCTCCAATATATATATACTCAATAGAGATTAGT
* *
49845617 CAGGATTACCAGTCTAGGCTAAATCTTACCTCTAATATATATATACTCAATAGAGATTAGT
1 CAGGATTACCAGTCTAGGCTAAATCCTACCTCCAATATATATATACTCAATAGAGATTAGT
* *
49845678 CAAGATTACCAGTCCAGGCTAAATCCT
1 CAGGATTACCAGTCTAGGCTAAATCCT
49845705 TTTTATGACA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
60 3 0.04
61 75 0.96
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (61 bp):
CAGGATTACCAGTCTAGGCTAAATCCTACCTCCAATATATATATACTCAATAGAGATTAGT
Found at i:49846865 original size:2 final size:2
Alignment explanation
Indices: 49846858--49846885 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
49846848 ATCGAGCTGA
49846858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49846886 CTATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49847668 original size:40 final size:40
Alignment explanation
Indices: 49847606--49847749 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
49847596 AAGCTTACGA
* * *
49847606 GTCTTTAA-CCCAGATACCATTCCAGCACGA-AGCCTGCGG
1 GTCTTTAAGCCCGGATACAATTCCAGCA-TATAGCCTGCGG
* *
49847645 GTCTTTATGCCCGGATACAATTCCAGCATATAGCCTACGG
1 GTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGG
*
49847685 GTCTTTAAGCCTGGATACAATTCCAGCATATAGCCTGCGG
1 GTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGG
49847725 GTCTTTAAGCCCGGATACAATTCCA
1 GTCTTTAAGCCCGGATACAATTCCA
49847750 AATATCATAC
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 8 0.09
40 86 0.91
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
GTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGG
Found at i:49849028 original size:21 final size:21
Alignment explanation
Indices: 49849002--49849042 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49848992 CGGCAATTTC
49849002 AATTCAGACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
49849023 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
49849043 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.32
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:49849052 original size:21 final size:21
Alignment explanation
Indices: 49849013--49849052 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49849003 ATTCAGACCT
* *
49849013 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
49849034 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
49849053 ACTTAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:49854933 original size:40 final size:40
Alignment explanation
Indices: 49854870--49854974 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
49854860 CATTTGAATG
* * *
49854870 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TT
* * *
49854910 ATGTCCGAGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
49854950 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
49854975 ATGGTGCAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 54 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
Found at i:49857074 original size:20 final size:20
Alignment explanation
Indices: 49857049--49857089 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
49857039 GAAAACAGAT
49857049 ATCATATCAATTTCAAACTA
1 ATCATATCAATTTCAAACTA
49857069 ATCATATCAATTTCAAACTA
1 ATCATATCAATTTCAAACTA
49857089 A
1 A
49857090 CACTTACTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (20 bp):
ATCATATCAATTTCAAACTA
Found at i:49865108 original size:40 final size:39
Alignment explanation
Indices: 49864940--49865110 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
49864930 AGAAATTGAA
* *
49864940 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
49864980 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
49865020 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
49865060 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
49865100 TGATATCCGGG
1 TGATATCCGGG
49865111 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:49873211 original size:40 final size:39
Alignment explanation
Indices: 49873043--49873213 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
49873033 AGAAATTGAA
* *
49873043 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
49873083 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
49873123 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
49873163 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
49873203 TGATATCCGGG
1 TGATATCCGGG
49873214 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:49876343 original size:25 final size:25
Alignment explanation
Indices: 49876315--49876366 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
49876305 TAGTCCGAAT
*
49876315 ATATTAAGTAAACCAATCATTCATC
1 ATATTAAATAAACCAATCATTCATC
49876340 ATATTAAATAAACCAATCATTCATC
1 ATATTAAATAAACCAATCATTCATC
49876365 AT
1 AT
49876367 TTGGTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATTAAATAAACCAATCATTCATC
Found at i:49879393 original size:47 final size:46
Alignment explanation
Indices: 49879276--49879451 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
49879266 TGTAACCCGC
* *
49879276 CCATAAGCGAACTTGGACTCAACTCAACGAGCTC-GAGC-GTTAGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-CAGTTA-CAT
* *
49879322 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTACAT
* * * *
49879372 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACAGTTACAT
*
49879415 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49879452 AGCTCAACCA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.53
47 30 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACAGTTACAT
Found at i:49879442 original size:93 final size:93
Alignment explanation
Indices: 49879283--49879451 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
49879273 CGCCCATAAG
* * *
49879283 CGAACTTGGACTCAACTCAACGAGCTCGAGCGTTAGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCATTAGCATCCATAAGTGAACTCGGACTCAACTCA
49879348 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
49879376 CGAACTCGGACTCAACTCAACGAGTTTG-GACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAG-CATTAGCATCCATAAGTGAACTCGGACTCAACTC
49879440 AACGAGTTCGGA
65 AACGAGTTCGGA
49879452 AGCTCAACCA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCATTAGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49879470 original size:46 final size:46
Alignment explanation
Indices: 49879327--49879463 Score: 122
Period size: 47 Copynumber: 3.0 Consensus size: 46
49879317 AGCATCCATG
*
49879327 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGAAGCTC-A---ACCATCTC
* * ** * *
49879375 A-CGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCA--TA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA-AGCT-CAACCATCTC
49879420 AGTGAACTCGGACTCAACTCAACGAGTTCGGAAGCTCAACCATC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGAAGCTCAACCATC
49879464 CTAGTGACAT
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
44 5 0.07
45 4 0.06
46 28 0.40
47 30 0.43
48 1 0.01
49 1 0.01
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGAAGCTCAACCATCTC
Found at i:49883392 original size:46 final size:45
Alignment explanation
Indices: 49883342--49883517 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
49883332 TGTTTGGGCA
49883342 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
49883388 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
49883435 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
49883481 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49883518 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:49883497 original size:93 final size:93
Alignment explanation
Indices: 49883338--49883509 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
49883328 AGGATGTTTG
* *
49883338 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49883403 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
49883431 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49883496 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49883510 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:49889028 original size:40 final size:42
Alignment explanation
Indices: 49888838--49889048 Score: 212
Period size: 43 Copynumber: 4.9 Consensus size: 42
49888828 GTTTGGGCAT
*
49888838 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-TGCAA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGTG-AA
* *** * * *
49888880 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCAT
1 ---CCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAGT--G-AA
49888930 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-GTGAA
* * *
49888973 CCGAGCTCGTTGAGTTGAGCCCAAGTTCACTTATGGA-TG-C
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGTGAA
49889013 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49889049 GCGGGTTACA
Statistics
Matches: 143, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
40 34 0.24
41 2 0.01
43 36 0.25
44 1 0.01
45 29 0.20
46 9 0.06
47 28 0.20
48 1 0.01
50 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (42 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGTGAA
Found at i:49895432 original size:46 final size:45
Alignment explanation
Indices: 49895382--49895548 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
49895372 TGTTTGGGCA
49895382 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
49895428 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
49895475 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
49895521 CCCGAGCTCATTGAGTTGAGTCCGAGTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTT
49895549 TGCTTTTGGG
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 58 0.59
47 31 0.32
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:49895537 original size:93 final size:93
Alignment explanation
Indices: 49895378--49895548 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
49895368 AGGATGTTTG
* * * *
49895378 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
49895443 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
49895471 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
49895536 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
49895549 TGCTTTTGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:49899424 original size:39 final size:39
Alignment explanation
Indices: 49899370--49899495 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
49899360 CCCGGAAAGC
* * * * *
49899370 CCGGACATATTTCCAGCACGTAGCCTGCGAACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
49899409 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
49899448 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
49899487 CCGGATATA
1 CCGGATATA
49899496 CATCACTGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:49901821 original size:20 final size:20
Alignment explanation
Indices: 49901776--49901818 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
49901766 TTAAATTTAA
*
49901776 TTTATATATTTTTTGGATTT
1 TTTATATATTTTTTCGATTT
*
49901796 TTTATATATTTATTTCTATTT
1 TTTATATATTT-TTTCGATTT
49901817 TT
1 TT
49901819 ATAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTATATATTTTTTCGATTT
Found at i:49907448 original size:43 final size:43
Alignment explanation
Indices: 49907378--49907502 Score: 180
Period size: 43 Copynumber: 2.9 Consensus size: 43
49907368 TTTATTTAAA
* * * *
49907378 AAAATACCACTAAAGACCATGACCTTTAGCGGCA-TTTTTCTCG
1 AAAACACCGCTAAAGACCATGACCTTTAGCGACACTTTTCCT-G
49907421 AAAACACCGCTAAAGACCATGACCTTTAGCGACACTTTTCCTG
1 AAAACACCGCTAAAGACCATGACCTTTAGCGACACTTTTCCTG
* *
49907464 AAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTT
1 AAAACACCGCTAAAGACCATGACCTTTAGCGACACTTTT
49907503 TTTACAAACG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
43 69 0.92
44 6 0.08
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
AAAACACCGCTAAAGACCATGACCTTTAGCGACACTTTTCCTG
Found at i:49907512 original size:43 final size:43
Alignment explanation
Indices: 49907387--49907520 Score: 159
Period size: 43 Copynumber: 3.1 Consensus size: 43
49907377 AAAAATACCA
* *
49907387 CTAAAGACCATGACCTTTAGCG--GCATTTTTCT-CGAAAACACCG
1 CTAAAGACCATGACCTTTAGCGACGC-TTTTTTTAC--AAACGCCG
* * *
49907430 CTAAAGACCATGACCTTTAGCGACACTTTTCCTGA-AAACGCCG
1 CTAAAGACCATGACCTTTAGCGACGCTTTT-TTTACAAACGCCG
49907473 CTAAAGACCATGACCTTTAGCGACGCTTTTTTTACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGACGCTTTTTTTACAAACGCCG
49907516 CTAAA
1 CTAAA
49907521 AAATATAAAC
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
42 2 0.03
43 71 0.91
44 4 0.05
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
CTAAAGACCATGACCTTTAGCGACGCTTTTTTTACAAACGCCG
Found at i:49912133 original size:17 final size:17
Alignment explanation
Indices: 49912113--49912145 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
49912103 AACGAAGGAT
49912113 CGAGAGAAAAAGAGTAA
1 CGAGAGAAAAAGAGTAA
49912130 CGAGAGAAAAAGAGTA
1 CGAGAGAAAAAGAGTA
49912146 GCTAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.30, T:0.06
Consensus pattern (17 bp):
CGAGAGAAAAAGAGTAA
Found at i:49913323 original size:24 final size:24
Alignment explanation
Indices: 49913296--49913345 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
49913286 AACCAAAATA
49913296 AAATTAATTTTTATATAAACTTTT
1 AAATTAATTTTTATATAAACTTTT
49913320 AAATTAATTTTTATATAAACTTTT
1 AAATTAATTTTTATATAAACTTTT
49913344 AA
1 AA
49913346 CAAATATACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
AAATTAATTTTTATATAAACTTTT
Found at i:49913343 original size:12 final size:12
Alignment explanation
Indices: 49913304--49913344 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
49913294 TAAAATTAAT
49913304 TTTTATATAAAC
1 TTTTATATAAAC
* * *
49913316 TTTTAAATTAAT
1 TTTTATATAAAC
49913328 TTTTATATAAAC
1 TTTTATATAAAC
49913340 TTTTA
1 TTTTA
49913345 ACAAATATAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:49914017 original size:41 final size:41
Alignment explanation
Indices: 49913960--49914086 Score: 193
Period size: 41 Copynumber: 3.1 Consensus size: 41
49913950 GTTATATGAC
49913960 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
49914001 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTACTGCTC-GAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
49914041 TTTTAGCGGCGTTTTACCAAAAAACGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTG-GT
49914084 TTT
1 TTT
49914087 ACAATTTTTG
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
40 20 0.26
41 53 0.68
42 1 0.01
43 4 0.05
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:49915010 original size:13 final size:13
Alignment explanation
Indices: 49914992--49915017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49914982 TGGCCGTGTG
49914992 AAAGGACACGGGC
1 AAAGGACACGGGC
49915005 AAAGGACACGGGC
1 AAAGGACACGGGC
49915018 GTGTCTCCAG
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:0.23, G:0.38, T:0.00
Consensus pattern (13 bp):
AAAGGACACGGGC
Found at i:49919999 original size:2 final size:2
Alignment explanation
Indices: 49919992--49920020 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49919982 TTCAAAATTT
49919992 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 T
49920021 TTACAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49920367 original size:16 final size:17
Alignment explanation
Indices: 49920337--49920374 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
49920327 AATTTGCAGT
49920337 AAATATATAAGTAAATA
1 AAATATATAAGTAAATA
49920354 ATAATAT-TAA-TAAATA
1 A-AATATATAAGTAAATA
49920370 AAATA
1 AAATA
49920375 ATGATCGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 4 0.20
18 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATATATAAGTAAATA
Found at i:49921516 original size:18 final size:18
Alignment explanation
Indices: 49921480--49921517 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
49921470 ACGATTAATG
*
49921480 AAGAAAAACAGAAGAGAA
1 AAGAAAAACAGAAAAGAA
49921498 AAGAAAAACA-AAAATGAA
1 AAGAAAAACAGAAAA-GAA
49921516 AA
1 AA
49921518 AAAGATCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.03
Consensus pattern (18 bp):
AAGAAAAACAGAAAAGAA
Found at i:49922661 original size:47 final size:47
Alignment explanation
Indices: 49922540--49922912 Score: 315
Period size: 47 Copynumber: 8.6 Consensus size: 47
49922530 GAATAGAAAA
* * * *
49922540 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT-T
* * *
49922588 AACGTGGTGTTAAGTGGATATGCCACGGTTACATATATCAATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATT
*
49922635 AGCGTGGTGCTAAGTGGATATACCAC-G----AT-TA-C-A--CATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT-T
*
49922673 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATT
* * * *
49922720 AATGTTGTGCTAAGTGGATATACCATGGTT--A-A-A-C-A-T--GT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATT
*
49922758 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATT
* * *
49922805 AACGTGGTGCTAAGTGGATATATCATGGTT--A-A-A-C-A-T--GT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATT
* * *
49922843 AACGTGGTAG-TAAGTGGATATGCCATGGTTGCATATATCGATTCATT
1 AACGTGGT-GCTAAGTGGATATACCACGGTTACATATATCGATTCATT
49922890 AACGTGGTGC---GTGGATATACCAC
1 AACGTGGTGCTAAGTGGATATACCAC
49922913 AATTAAACAT
Statistics
Matches: 263, Mismatches: 31, Indels: 66
0.73 0.09 0.18
Matches are distributed among these distances:
37 3 0.01
38 79 0.30
39 3 0.01
40 5 0.02
41 6 0.02
42 6 0.02
43 6 0.02
44 17 0.06
45 5 0.02
46 3 0.01
47 88 0.33
48 42 0.16
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCATT
Found at i:49922688 original size:38 final size:38
Alignment explanation
Indices: 49922637--49922950 Score: 147
Period size: 38 Copynumber: 7.6 Consensus size: 38
49922627 AATTCATTAG
49922637 CGTGGTGCTAAGTGGATATACCACGATTACACATGTAA
1 CGTGGTGCTAAGTGGATATACCACGATTACACATGTAA
*
49922675 CGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCAT-TAA
1 CGTGGTGCTAAGTGGATATACCAC-G----AT-TA-C-A--CATGTAA
* * * * *
49922722 TGTTGTGCTAAGTGGATATACCATGGTTAAACATGTAA
1 CGTGGTGCTAAGTGGATATACCACGATTACACATGTAA
*
49922760 CGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCAT-TAA
1 CGTGGTGCTAAGTGGATATACCAC-G----AT-TA-C-A--CATGTAA
* * * *
49922807 CGTGGTGCTAAGTGGATATATCATGGTTAAACATGTAA
1 CGTGGTGCTAAGTGGATATACCACGATTACACATGTAA
* *
49922845 CGTGGTAG-TAAGTGGATATGCCATGGTTGCATATATCGATTCAT-TAA
1 CGTGGT-GCTAAGTGGATATACCA----CG-AT-TA-C-A--CATGTAA
* *
49922892 CGTGGTGC---GTGGATATACCACAATTAAACATGTAA
1 CGTGGTGCTAAGTGGATATACCACGATTACACATGTAA
* *
49922927 TGTGGTGCTAAGTGGATATGCCAC
1 CGTGGTGCTAAGTGGATATACCAC
49922951 AGTTATACAT
Statistics
Matches: 210, Mismatches: 28, Indels: 76
0.67 0.09 0.24
Matches are distributed among these distances:
34 3 0.01
35 10 0.05
36 1 0.00
37 6 0.03
38 82 0.39
39 7 0.03
41 4 0.02
42 4 0.02
43 4 0.02
44 17 0.08
45 1 0.00
46 6 0.03
47 56 0.27
48 9 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (38 bp):
CGTGGTGCTAAGTGGATATACCACGATTACACATGTAA
Found at i:49922730 original size:85 final size:85
Alignment explanation
Indices: 49922582--49922955 Score: 567
Period size: 85 Copynumber: 4.4 Consensus size: 85
49922572 ACATATTGAT
* * *
49922582 ACATGTAACGTGGTGTTAAGTGGATATGCCACGGTTACATATATCAATTCATTAGCGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
*
49922647 AGTGGATATACCACGATTAC
66 AGTGGATATACCACGATTAA
* *
49922667 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAATGTTGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
* *
49922732 AGTGGATATACCATGGTTAA
66 AGTGGATATACCACGATTAA
49922752 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
* * *
49922817 AGTGGATATATCATGGTTAA
66 AGTGGATATACCACGATTAA
* *
49922837 ACATGTAACGTGGTAG-TAAGTGGATATGCCATGGTTGCATATATCGATTCATTAACGTGGTGC-
1 ACATGTAACGTGGT-GCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCT
*
49922900 --GTGGATATACCACAATTAA
65 AAGTGGATATACCACGATTAA
* *
49922919 ACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
49922956 TACATGTTAA
Statistics
Matches: 266, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
81 1 0.00
82 46 0.17
85 218 0.82
86 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
AGTGGATATACCACGATTAA
Found at i:49928233 original size:38 final size:38
Alignment explanation
Indices: 49928178--49928641 Score: 253
Period size: 38 Copynumber: 11.0 Consensus size: 38
49928168 GAATGGAAAA
*
49928178 AACGTGGTGCTAGGTGGATATACCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* **
49928216 AACGTGTTGCTAAGTGGATATACTACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGG--ATA-TAC-----CAC-GGTT-ATACATGT
* *
49928264 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GT
*
49928311 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * * *
49928349 AACGTGGTGCTAAGTTGATATGCCACAGTTACATATATCGATTCATT
1 AACGTGGTGCTAAGTGGATATACCAC-GGT---TATA-C-A-T--GT
* * * *
49928396 AATGTTGTGCTAAGTGGATATACAACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
49928434 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTAATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GT
* * * *
49928481 AACGTGGTGCTAAATGGATATATCACAGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
** *
49928519 AACGTGGTGCTAAGTGGATATGTCACGGTTCCATATATCGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GT
* * *
49928566 AACATGGTGCTAAGTGGATATACCACAGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
49928604 AACGTGGTGCTAAGTGGATATGCCACAGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
49928642 TAATTTGAAA
Statistics
Matches: 329, Mismatches: 51, Indels: 92
0.70 0.11 0.19
Matches are distributed among these distances:
38 127 0.39
39 4 0.01
40 11 0.03
41 7 0.02
42 16 0.05
43 17 0.05
44 4 0.01
45 6 0.02
46 11 0.03
47 102 0.31
48 24 0.07
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:49928328 original size:47 final size:47
Alignment explanation
Indices: 49928215--49928596 Score: 323
Period size: 47 Copynumber: 8.7 Consensus size: 47
49928205 GTTATACATG
* * * * * *
49928215 TAACGTGTTGCTAAGTGGATATACTACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
49928262 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
*
49928310 TAACGTGGTGCTAAGTGGATATACCACGGTT--A-A-A-C-A-T--G
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* * *
49928348 TAACGTGGTGCTAAGTTGATATGCCACAGTTACATATATCGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* * * *
49928395 TAATGTTGTGCTAAGTGGATATACAACGGTT--A-A-A-C-A-T--G
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
49928433 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTAAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* * * *
49928480 TAACGTGGTGCTAAATGGATATATCACAGTT--A-A-A-C-A-T--G
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
** *
49928518 TAACGTGGTGCTAAGTGGATATGTCACGGTTCCATATATCGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
49928565 TAACATGGTGCTAAGTGGATATACCACAGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
49928597 AACATGTAAC
Statistics
Matches: 267, Mismatches: 40, Indels: 55
0.74 0.11 0.15
Matches are distributed among these distances:
38 83 0.31
40 6 0.02
41 6 0.02
42 6 0.02
43 6 0.02
44 6 0.02
45 6 0.02
47 109 0.41
48 39 0.15
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
Found at i:49928361 original size:85 final size:85
Alignment explanation
Indices: 49928258--49928634 Score: 619
Period size: 85 Copynumber: 4.4 Consensus size: 85
49928248 ACATATTGAT
*
49928258 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
*
49928323 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACAGTTAA
* * * *
49928343 ACATGTAACGTGGTGCTAAGTTGATATGCCACAGTTACATATATCGATTCATTAATGTTGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
* *
49928408 AGTGGATATACAACGGTTAA
66 AGTGGATATACCACAGTTAA
*
49928428 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTAATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
* *
49928493 AATGGATATATCACAGTTAA
66 AGTGGATATACCACAGTTAA
* * *
49928513 ACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTCCATATATCGATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
49928578 AGTGGATATACCACAGTTAA
66 AGTGGATATACCACAGTTAA
*
49928598 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
49928635 TACATGTTAA
Statistics
Matches: 268, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 268 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
AGTGGATATACCACAGTTAA
Found at i:49930817 original size:44 final size:44
Alignment explanation
Indices: 49930758--49930973 Score: 146
Period size: 44 Copynumber: 4.7 Consensus size: 44
49930748 GTGTTTAGTT
* *
49930758 TGCTCCGCTGTAACTTCAGGGAGATAAGACTTGTGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATC
* * *
49930802 TGCTCCACTGCAACTTCAAGGAGATAAGATTCGCCATAATTTGTAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-----C-----TTGTGGCTTCAATC
* * * * *
49930856 TGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTGTCTTTAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TGGCTTCAATC
* * * * * *
49930901 TACTCCGCTGCAACTTTAGGAAGATAACACTTATGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATC
* * *
49930945 TGCTTCACTACAACTTCAAGGAGATAAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGA
49930974 GTCACCATGA
Statistics
Matches: 129, Mismatches: 30, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
43 2 0.02
44 56 0.43
45 30 0.23
46 2 0.02
49 1 0.01
54 38 0.29
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATC
Found at i:49930898 original size:143 final size:143
Alignment explanation
Indices: 49930697--49930973 Score: 376
Period size: 143 Copynumber: 1.9 Consensus size: 143
49930687 AGGTTTGTGT
* * * * * * *
49930697 ATTTGTGGCTTCAATCTATTCCGCTACGACTTCAAGGAAATTAAATTCGTTGTGTTTAGTTTGCT
1 ATTTGTAGCTTCAATCTATTCCACTACAACTTCAAGGAAATTAAATTCGCTGTCTTTAGTCTACT
* * * * *
49930762 CCGCTGTAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAAGGAGAT
66 CCGCTGCAACTTCAGGAAGATAACACTTATGGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
49930827 AAGATTCGCCATA
131 AAGATTCGCCATA
* * * *
49930840 ATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA-TAAGATTCGCTGTCTTTAGTCTAC
1 ATTTGTAGCTTCAATCTATTCCACTACAACTTCAAGGAAATTAA-ATTCGCTGTCTTTAGTCTAC
* *
49930904 TCCGCTGCAACTTTAGGAAGATAACACTTATGGCTTCAATCTGCTTCACTACAACTTCAAGGAGA
65 TCCGCTGCAACTTCAGGAAGATAACACTTATGGCTTCAATCTGCTCCACTACAACTTCAAGGAGA
49930969 TAAGA
130 TAAGA
49930974 GTCACCATGA
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
142 3 0.03
143 112 0.97
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (143 bp):
ATTTGTAGCTTCAATCTATTCCACTACAACTTCAAGGAAATTAAATTCGCTGTCTTTAGTCTACT
CCGCTGCAACTTCAGGAAGATAACACTTATGGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
AAGATTCGCCATA
Found at i:49943163 original size:16 final size:17
Alignment explanation
Indices: 49943133--49943170 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
49943123 ATTTGTAGTG
49943133 AAATATATAAGTAAATA
1 AAATATATAAGTAAATA
49943150 ATAATAT-TAA-TAAATA
1 A-AATATATAAGTAAATA
49943166 AAATA
1 AAATA
49943171 ATGATCGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 4 0.20
18 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATATATAAGTAAATA
Found at i:49959376 original size:73 final size:73
Alignment explanation
Indices: 49959257--49959463 Score: 342
Period size: 73 Copynumber: 2.8 Consensus size: 73
49959247 GTGTGACTGT
* * * *
49959257 GTAAGACCATGTCTGGGACTTGGTATCGGTGATGATATATGTGCCAGCATAAGACCATGTCCCAA
1 GTAAGACCATGTTTGGGACATGGTATCAGCGATGATATATGTGCCAGCATAAGACCATGTCCCAA
49959322 GTGCCAGC
66 GTGCCAGC
*
49959330 GTAAGACCATGTTTGGGACATGGAATCAGCGATGATATATGTGCCAGCATAAGACCATGTCCCAA
1 GTAAGACCATGTTTGGGACATGGTATCAGCGATGATATATGTGCCAGCATAAGACCATGTCCCAA
49959395 GTGCCAGC
66 GTGCCAGC
* **
49959403 GTAAGACCATGTTTGGGACATGGTATCAGCGATGATATATGTGCTAGTGTAAGACCATGTC
1 GTAAGACCATGTTTGGGACATGGTATCAGCGATGATATATGTGCCAGCATAAGACCATGTC
49959464 TGGGACATGG
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 125 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (73 bp):
GTAAGACCATGTTTGGGACATGGTATCAGCGATGATATATGTGCCAGCATAAGACCATGTCCCAA
GTGCCAGC
Found at i:49959490 original size:48 final size:47
Alignment explanation
Indices: 49959403--49959572 Score: 182
Period size: 48 Copynumber: 3.6 Consensus size: 47
49959393 AAGTGCCAGC
* * *
49959403 GTAAGACCATGTTTGGGACATGGTATCAGCGATGATATATGTG-CTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCGATG-TATATGTGACTA-T
* * * *
49959451 GTAAGACCATGTCTGGGACATGGCATTGGCGTTGCTATATGTGCCCAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCGATG-TATATGTGACTAT
* * *
49959499 GTAAGACCATGTCTGGGACATGGAATCGGTGATG-ATATGTGGATTCAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCGATGTATATGT-GACT-AT
*
49959547 GTAAGACCATGTCTAGGACATGGCAT
1 GTAAGACCATGTCTGGGACATGGCAT
49959573 TGGTACTTAT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
46 6 0.06
47 1 0.01
48 94 0.91
49 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCGATGTATATGTGACTAT
Found at i:49965519 original size:75 final size:75
Alignment explanation
Indices: 49965424--49965567 Score: 225
Period size: 75 Copynumber: 1.9 Consensus size: 75
49965414 AATGATGCCC
*
49965424 CATTTTCCTATTAGCCAAACAAACTAGGTTGCCATTTCCACTAAGTATAACTCAGGCAGATACTA
1 CATTTTCCTATTAGCCAAACAAACTAGGTTGCCATTTCCACTAAGTACAACTCAGGCAGATACTA
49965489 TTTTGTGTCT
66 TTTTGTGTCT
* * * * * *
49965499 CATTTTCCTGTTAGTCAAACAAACTAGGTTGCCATTTCCTCTAAGTACAACTCGGGTATATACTA
1 CATTTTCCTATTAGCCAAACAAACTAGGTTGCCATTTCCACTAAGTACAACTCAGGCAGATACTA
49965564 TTTT
66 TTTT
49965568 TCCCATCATT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (75 bp):
CATTTTCCTATTAGCCAAACAAACTAGGTTGCCATTTCCACTAAGTACAACTCAGGCAGATACTA
TTTTGTGTCT
Found at i:49968130 original size:25 final size:25
Alignment explanation
Indices: 49968102--49968150 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
49968092 TTTAGCCTGG
* * *
49968102 ATAAGCGTTCTGATACATTGCTTGC
1 ATAAGCATCCTGATACATGGCTTGC
*
49968127 ATAAGCATCCTGTTACATGGCTTG
1 ATAAGCATCCTGATACATGGCTTG
49968151 AGAAAGTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
ATAAGCATCCTGATACATGGCTTGC
Found at i:49971148 original size:9 final size:9
Alignment explanation
Indices: 49971134--49971160 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
49971124 ACACTAAATC
49971134 GTAAAAGTT
1 GTAAAAGTT
49971143 GTAAAAGTT
1 GTAAAAGTT
49971152 GTAAAAGTT
1 GTAAAAGTT
49971161 AATTGCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (9 bp):
GTAAAAGTT
Found at i:49972607 original size:13 final size:13
Alignment explanation
Indices: 49972588--49972767 Score: 82
Period size: 13 Copynumber: 13.4 Consensus size: 13
49972578 TGGCTATTCA
49972588 AAATGGTTATATG
1 AAATGGTTATATG
* *
49972601 AATTGGTTATACG
1 AAATGGTTATATG
* *
49972614 AAATGGTGATGTG
1 AAATGGTTATATG
* *
49972627 AAATGATTATAAG
1 AAATGGTTATATG
*
49972640 AATTGGTTATATTG
1 AAATGGTTATA-TG
* *
49972654 AAATAGATATATATAC
1 AAAT-GGT-TATAT-G
49972670 AGAATGGTTATATG
1 A-AATGGTTATATG
*
49972684 -AATCAGTTATATGG
1 AAAT-GGTTATAT-G
* *
49972698 AAATAGG-TAAACG
1 AAAT-GGTTATATG
**
49972711 AAATAATTATAT-
1 AAATGGTTATATG
49972723 AAATCGGTTATATGG
1 AAAT-GGTTATAT-G
**
49972738 AAATAATTATATG
1 AAATGGTTATATG
49972751 --ATGTGTTATATG
1 AAATG-GTTATATG
49972763 AAATG
1 AAATG
49972768 TCTATATTGA
Statistics
Matches: 119, Mismatches: 33, Indels: 29
0.66 0.18 0.16
Matches are distributed among these distances:
11 2 0.02
12 14 0.12
13 60 0.50
14 17 0.14
15 16 0.13
16 7 0.06
17 3 0.03
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.36
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:49972617 original size:26 final size:26
Alignment explanation
Indices: 49972588--49972767 Score: 91
Period size: 26 Copynumber: 6.7 Consensus size: 26
49972578 TGGCTATTCA
* * *
49972588 AAATGGTTATATGAATTGGTTATACG
1 AAATGGTTATATGAAATGATTATAAG
* *
49972614 AAATGGTGATGTGAAATGATTATAAG
1 AAATGGTTATATGAAATGATTATAAG
* *
49972640 AATTGGTTATATTGAAATAGATATATATAC
1 AAATGGTTATA-TGAAAT-GAT-TATA-AG
* *
49972670 AGAATGGTTATATG-AATCAGTTATATGG
1 A-AATGGTTATATGAAATGA-TTATA-AG
* * * *
49972698 AAATAGG-TAAACGAAATAATTAT-AT
1 AAAT-GGTTATATGAAATGATTATAAG
* *
49972723 AAATCGGTTATATGGAAATAATTATATG
1 AAAT-GGTTATAT-GAAATGATTATAAG
49972751 --ATGTGTTATATGAAATG
1 AAATG-GTTATATGAAATG
49972768 TCTATATTGA
Statistics
Matches: 118, Mismatches: 24, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
25 12 0.10
26 41 0.35
27 28 0.24
28 16 0.14
29 8 0.07
30 4 0.03
31 9 0.08
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.36
Consensus pattern (26 bp):
AAATGGTTATATGAAATGATTATAAG
Found at i:49973490 original size:21 final size:21
Alignment explanation
Indices: 49973466--49973513 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
49973456 GGCACTTAGG
* *
49973466 TTGAATATTTTTAGTATGT-TT
1 TTGAATATGTTT-GAATGTGTT
49973487 TTGAA-ATGTTTGAATGTGTT
1 TTGAATATGTTTGAATGTGTT
49973507 TTGAATA
1 TTGAATA
49973514 GGTAGAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.22
20 12 0.52
21 6 0.26
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (21 bp):
TTGAATATGTTTGAATGTGTT
Found at i:49994536 original size:34 final size:32
Alignment explanation
Indices: 49994487--49994578 Score: 78
Period size: 34 Copynumber: 2.8 Consensus size: 32
49994477 ATTTTAGTTA
* * *
49994487 GGGCCTTAGCTCATTCTAGAATCAGAAACAGTG
1 GGGCCTAAGCCCATTC-AGAATCAGAAACAATG
* * *
49994520 TGGGCCTGAGCCCATTCCAGTAA-CAGTATCAATG
1 -GGGCCTAAGCCCATT-CAG-AATCAGAAACAATG
49994554 GGGCCTAAGCCCATTACAGAATCAG
1 GGGCCTAAGCCCATT-CAGAATCAG
49994579 TGCAGTATAC
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
32 2 0.04
33 20 0.42
34 23 0.48
35 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (32 bp):
GGGCCTAAGCCCATTCAGAATCAGAAACAATG
Found at i:49994976 original size:27 final size:27
Alignment explanation
Indices: 49994941--49995020 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
49994931 TAGGGCAAAT
*
49994941 CAGTCATTTTACCTTACAGGGGTATTA
1 CAGTCATTTTACCTTATAGGGGTATTA
* * *
49994968 CAGTAATTTTACCTTGTAGGAGTATTA
1 CAGTCATTTTACCTTATAGGGGTATTA
* **
49994995 TAGTCATTTTATGTTATAGGGGTATT
1 CAGTCATTTTACCTTATAGGGGTATT
49995021 TTGGCCATTT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCTTATAGGGGTATTA
Found at i:49995109 original size:27 final size:27
Alignment explanation
Indices: 49995054--49995156 Score: 136
Period size: 27 Copynumber: 3.9 Consensus size: 27
49995044 TATTTCGGCT
*
49995054 ATTTTATCTCATAA-GGAAAAATCGTC
1 ATTTTATCACATAAGGGAAAAATCGTC
* *
49995080 ATTTTATCACATAAGGGCAAAATAGTC
1 ATTTTATCACATAAGGGAAAAATCGTC
* * *
49995107 ATTTTGTCTCATAAGGGCAAAATCGTC
1 ATTTTATCACATAAGGGAAAAATCGTC
*
49995134 ATTTTATAACATAAGGGAAAAAT
1 ATTTTATCACATAAGGGAAAAAT
49995157 TCTCAATTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 13 0.20
27 53 0.80
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (27 bp):
ATTTTATCACATAAGGGAAAAATCGTC
Found at i:49995171 original size:54 final size:54
Alignment explanation
Indices: 49995054--49995177 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
49995044 TATTTCGGCT
* * *
49995054 ATTTTATCTCATAA-GGAAAAATCGTCATTTTATCACATAAGGGCAAAATAGTC
1 ATTTTATCTCATAAGGGAAAAATCGTCATTTTATAACATAAGGGAAAAATACTC
* * *
49995107 ATTTTGTCTCATAAGGGCAAAATCGTCATTTTATAACATAAGGGAAAAATTCTC
1 ATTTTATCTCATAAGGGAAAAATCGTCATTTTATAACATAAGGGAAAAATACTC
*
49995161 AATTTT-TCTCAAAAGGG
1 -ATTTTATCTCATAAGGG
49995178 TTCAGGTACC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
53 13 0.21
54 44 0.71
55 5 0.08
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (54 bp):
ATTTTATCTCATAAGGGAAAAATCGTCATTTTATAACATAAGGGAAAAATACTC
Found at i:49997402 original size:40 final size:40
Alignment explanation
Indices: 49997347--49997569 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
49997337 TTATTCGATG
49997347 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
49997387 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
49997430 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
49997470 ATATCC-GGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
49997509 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
49997549 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
49997570 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 51 0.31
40 76 0.46
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:49997551 original size:79 final size:80
Alignment explanation
Indices: 49997347--49997569 Score: 317
Period size: 79 Copynumber: 2.8 Consensus size: 80
49997337 TTATTCGATG
*
49997347 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCC-GGCTAAGTCCCGAAGGCA
*
49997412 TTTGTGCGAGTAGTTGCT
65 TTTATGC--GTAGTTGCT
* *
49997430 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTG-CTATATCCGGCTAAGTCCCGAAGGCA
49997494 TTTATGC-TAG-TGACT
65 TTTATGCGTAGTTG-CT
* * *
49997509 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGCTAAGTCCCGAAG
49997570 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
78 2 0.02
79 59 0.46
80 2 0.02
82 25 0.19
83 41 0.32
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGCTAAGTCCCGAAGGCAT
TTATGCGTAGTTGCT
Found at i:50017217 original size:24 final size:24
Alignment explanation
Indices: 50016973--50017215 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
50016963 GCAAAGACCA
50016973 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50016997 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50017021 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
50017045 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50017069 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50017093 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
50017117 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
50017141 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50017165 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
50017189 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
50017213 TAT
1 TAT
50017216 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:50024983 original size:40 final size:40
Alignment explanation
Indices: 50024928--50025151 Score: 281
Period size: 40 Copynumber: 5.5 Consensus size: 40
50024918 TTATTCGATG
50024928 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACT
*
50024968 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTACT
* * * *
50025011 ATACCCAGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* * *
50025051 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* * *
50025091 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
* *
50025131 ATATCC-GGTTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
50025152 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
39 12 0.08
40 112 0.70
43 35 0.22
44 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
Found at i:50025074 original size:83 final size:79
Alignment explanation
Indices: 50024935--50025151 Score: 260
Period size: 83 Copynumber: 2.7 Consensus size: 79
50024925 ATGATATCCG
* *
50024935 GGCTAAGTCCCGAAGGCATTTGTG-TAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTATATCC-GGCTAAGTCCCGAAGGCATTTATG
50024999 CGAGTAGTTG-CTATACCCA
64 C---TAG-TGACTATACCCA
*
50025018 GGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGGCATTTATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCG-GCTAAGTCCCGAAGGCATTTATGC
* *
50025083 TAGTGACTATATCCG
65 TAGTGACTATACCCA
* * * *
50025098 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGTTAAATCCCGAAG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGCTAAGTCCCGAAG
50025152 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 14 0.12
80 44 0.37
81 2 0.02
82 1 0.01
83 58 0.48
84 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCATTTATGCT
AGTGACTATACCCA
Found at i:50029181 original size:34 final size:33
Alignment explanation
Indices: 50029136--50029227 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 33
50029126 GTTTCAGTTA
*
50029136 GGGCCTTAGCCCATTTCAGAATCAGAAACAGTG
1 GGGCCTAAGCCCATTTCAGAATCAGAAACAGTG
* * * *
50029169 TGGGCCTGAGCCCATTCCAGTAAT-AGTATCAGTG
1 -GGGCCTAAGCCCATTTCAG-AATCAGAAACAGTG
*
50029203 AGGCCTAAGCCCATTAT-AGAATCAG
1 GGGCCTAAGCCCATT-TCAGAATCAG
50029228 TGCAATATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
32 3 0.06
33 17 0.35
34 25 0.52
35 3 0.06
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (33 bp):
GGGCCTAAGCCCATTTCAGAATCAGAAACAGTG
Found at i:50029664 original size:27 final size:27
Alignment explanation
Indices: 50029626--50029732 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 27
50029616 TAAGGAAAAT
**
50029626 CAGTCATTTTACCTTGCAGGGGTATTA
1 CAGTCATTTTACCTTATAGGGGTATTA
50029653 CAGTCATTTTACCTTATAGGGGTATTA
1 CAGTCATTTTACCTTATAGGGGTATTA
* * *
50029680 TAATCATTTTACCTTATAGGGGTATTT
1 CAGTCATTTTACCTTATAGGGGTATTA
* *
50029707 CGGTCA-TTTACCCTTATAGGAGTATT
1 CAGTCATTTTA-CCTTATAGGGGTATT
50029733 TTCGTCATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
26 4 0.06
27 66 0.94
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCTTATAGGGGTATTA
Found at i:50029733 original size:27 final size:26
Alignment explanation
Indices: 50029655--50029742 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
50029645 GGGTATTACA
* * *
50029655 GTCATTTTACCTTATAGGGGTATTATA
1 GTCA-TTTACCTTATAGGAGTATTTTC
* *
50029682 ATCATTTTACCTTATAGGGGTA-TTTC
1 GTCA-TTTACCTTATAGGAGTATTTTC
50029708 GGTCATTTACCCTTATAGGAGTATTTTC
1 -GTCATTTA-CCTTATAGGAGTATTTTC
50029736 GTCATTT
1 GTCATTT
50029743 TATCACATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
26 6 0.11
27 43 0.81
28 4 0.08
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (26 bp):
GTCATTTACCTTATAGGAGTATTTTC
Found at i:50029741 original size:54 final size:54
Alignment explanation
Indices: 50029627--50029744 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
50029617 AAGGAAAATC
* *
50029627 AGTCATTTTACCTTGCAGGGGTATTACAGTCATTTTACCTTATAGGGGTATTAT
1 AGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCTTATAGGAGTATTAT
* * * * *
50029681 AATCATTTTACCTTATAGGGGTATTTCGGTCA-TTTACCCTTATAGGAGTATTTT
1 AGTCATTTTACCTTACAGGGGTATTACAGTCATTTTA-CCTTATAGGAGTATTAT
*
50029735 CGTCATTTTA
1 AGTCATTTTA
50029745 TCACATAAGG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 4 0.07
54 50 0.93
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (54 bp):
AGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCTTATAGGAGTATTAT
Found at i:50032496 original size:2 final size:2
Alignment explanation
Indices: 50032489--50032531 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
50032479 AGTGTCGAGT
*
50032489 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50032531 T
1 T
50032532 GTTAAGCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50036889 original size:13 final size:13
Alignment explanation
Indices: 50036871--50036895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50036861 AGTAATCGTG
50036871 CACGGGCGTGTCA
1 CACGGGCGTGTCA
50036884 CACGGGCGTGTC
1 CACGGGCGTGTC
50036896 CCTACCGAGC
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:0.12, C:0.32, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGGCGTGTCA
Found at i:50043090 original size:21 final size:21
Alignment explanation
Indices: 50043051--50043090 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50043041 ATTCTATTAG
* **
50043051 ATTTTATAATTTTTTATTTTT
1 ATTTTACAATTTTCAATTTTT
50043072 ATTTTACAATTTTCAATTT
1 ATTTTACAATTTTCAATTT
50043091 CGGCTATTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTTACAATTTTCAATTTTT
Found at i:50049740 original size:29 final size:29
Alignment explanation
Indices: 50049708--50049780 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
50049698 CTTCGAGCTC
*
50049708 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50049737 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50049766 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
50049781 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:50057873 original size:29 final size:29
Alignment explanation
Indices: 50057841--50057913 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
50057831 CTTCGAGCTC
*
50057841 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50057870 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50057899 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
50057914 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:50062436 original size:12 final size:12
Alignment explanation
Indices: 50062419--50062449 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
50062409 AAAAAAAAAC
50062419 AACTAAATAAGA
1 AACTAAATAAGA
*
50062431 AACTAAATAAGC
1 AACTAAATAAGA
50062443 AACTAAA
1 AACTAAA
50062450 CCATATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.65, C:0.13, G:0.06, T:0.16
Consensus pattern (12 bp):
AACTAAATAAGA
Found at i:50064320 original size:23 final size:23
Alignment explanation
Indices: 50064288--50064335 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
50064278 ATAGTAAAGT
50064288 TCACTATTATTATATTTTTATAG
1 TCACTATTATTATATTTTTATAG
*
50064311 TCACTTTTATTATATTTTTATAG
1 TCACTATTATTATATTTTTATAG
50064334 TC
1 TC
50064336 TAAAATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.58
Consensus pattern (23 bp):
TCACTATTATTATATTTTTATAG
Found at i:50065477 original size:49 final size:51
Alignment explanation
Indices: 50065420--50065596 Score: 198
Period size: 52 Copynumber: 3.5 Consensus size: 51
50065410 ACTAGTGACT
* *
50065420 CAAGTGTGGTACTATGTGAAAGCCACTTTGACAAG-AGATAGC-TTGGTTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGACAAGAAGATAGCTTTGGTCA
**
50065469 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGACAAG-AAGATAGCTTTGGTCA
* ** * * *
50065521 CAACTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCATT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGACAAGAAGATAGCTTTGGTC-A
* * *
50065572 CAAGGGTGGCACTATGTGCAGGCCA
1 CAAGTGTGGTACTATGTGAAGGCCA
50065597 ACGGGCATCC
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 32 0.29
50 2 0.02
51 38 0.34
52 40 0.36
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGACAAGAAGATAGCTTTGGTCA
Found at i:50065537 original size:52 final size:51
Alignment explanation
Indices: 50065424--50065557 Score: 200
Period size: 52 Copynumber: 2.6 Consensus size: 51
50065414 GTGACTCAAG
* ** * *
50065424 TGTGGTACTATGTGAAAGCCACTTTGACAAG--AGATAGCTTGGTTACAAG
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTGGTCACAAC
50065473 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAAC
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGC-TTGGTCACAAC
50065525 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAA
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAA
50065558 GGTAGCATTG
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
49 28 0.36
51 7 0.09
52 42 0.55
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (51 bp):
TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTGGTCACAAC
Found at i:50066109 original size:13 final size:13
Alignment explanation
Indices: 50066087--50066119 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50066077 AAGGGTTTTT
50066087 TTAT-TAAACTAA
1 TTATCTAAACTAA
50066099 TTATCTAAACTAA
1 TTATCTAAACTAA
*
50066112 TTAACTAA
1 TTATCTAA
50066120 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:50068630 original size:40 final size:40
Alignment explanation
Indices: 50068528--50068695 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
50068518 AAATTGAATG
* * * *
50068528 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
50068568 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
50068608 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTGGTAATT
* * * ** *
50068648 CTATCTGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
50068688 ATATCCGG
1 ATATCCGG
50068696 TTATATTCCG
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 3 0.03
40 98 0.95
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:50068665 original size:80 final size:80
Alignment explanation
Indices: 50068528--50068679 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
50068518 AAATTGAATG
* * *
50068528 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGCA
50068593 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * ** * *
50068608 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTATTCTATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGC
*
50068672 ATTTGTGC
65 AATTGTGC
50068680 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCGGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:50072253 original size:5 final size:5
Alignment explanation
Indices: 50072243--50072328 Score: 59
Period size: 6 Copynumber: 15.8 Consensus size: 5
50072233 TATGTCTTTC
* *
50072243 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
50072291 AAAAAT AAAAT AAAAT AAAAAT AAGAAT AAAAAT AAAA
1 -AAAAT AAAAT AAAAT -AAAAT AA-AAT -AAAAT AAAA
50072329 AATAGAAGGA
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.05
5 24 0.36
6 37 0.56
7 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:50072272 original size:6 final size:6
Alignment explanation
Indices: 50072263--50072329 Score: 84
Period size: 6 Copynumber: 11.5 Consensus size: 6
50072253 AATAAAATTG
* * *
50072263 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
50072309 AAATAA GAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA
50072330 ATAGAAGGAG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
5 10 0.19
6 43 0.81
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:50072275 original size:17 final size:17
Alignment explanation
Indices: 50072253--50072329 Score: 86
Period size: 18 Copynumber: 4.5 Consensus size: 17
50072243 AAAATAAAAT
* *
50072253 AATAAAATTGAAATGAA
1 AATAAAAATAAAATGAA
50072270 AATAAAAATCAAAA-GAAA
1 AATAAAAAT-AAAATG-AA
50072288 AATAAAAATAAAAT-AA
1 AATAAAAATAAAATGAA
*
50072304 AATAAAAATAAGAATAAA
1 AATAAAAATAA-AATGAA
50072322 AATAAAAA
1 AATAAAAA
50072330 ATAGAAGGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
16 13 0.25
17 16 0.30
18 24 0.45
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (17 bp):
AATAAAAATAAAATGAA
Found at i:50072278 original size:12 final size:11
Alignment explanation
Indices: 50072243--50072328 Score: 84
Period size: 12 Copynumber: 7.4 Consensus size: 11
50072233 TATGTCTTTC
50072243 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
50072256 AAAATTGAAAT
1 AAAATAAAAAT
50072267 GAAAATAAAAAT
1 -AAAATAAAAAT
*
50072279 CAAAAGAAAAAT
1 -AAAATAAAAAT
50072291 AAAA-ATAAAAT
1 AAAATA-AAAAT
50072302 AAAATAAAAAT
1 AAAATAAAAAT
50072313 AAGAATAAAAAT
1 AA-AATAAAAAT
50072325 AAAA
1 AAAA
50072329 AATAGAAGGA
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
10 1 0.02
11 25 0.40
12 32 0.51
13 5 0.08
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:50078125 original size:27 final size:28
Alignment explanation
Indices: 50078069--50078135 Score: 100
Period size: 27 Copynumber: 2.4 Consensus size: 28
50078059 AAATTTGTAC
*
50078069 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGAGAGTTTGATCATAT
*
50078097 AGCACTAAGTGTGAGAG-TTGATTATAT
1 AGCACTAAGTGTGAGAGTTTGATCATAT
*
50078124 AGCACTGAGTGT
1 AGCACTAAGTGT
50078136 ACGGACTCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGAGAGTTTGATCATAT
Found at i:50085838 original size:39 final size:39
Alignment explanation
Indices: 50085789--50086005 Score: 289
Period size: 40 Copynumber: 5.6 Consensus size: 39
50085779 AATGTTCGAG
50085789 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
50085828 TGATACCCGGGCTAAGCCCGAAGGCAATTGT--GAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
50085865 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
50085903 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
50085941 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
50085981 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
50086006 TGTTTTGAAC
Statistics
Matches: 159, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
36 14 0.09
37 30 0.19
38 36 0.23
39 39 0.25
40 40 0.25
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:50085923 original size:38 final size:39
Alignment explanation
Indices: 50085789--50085975 Score: 283
Period size: 39 Copynumber: 4.9 Consensus size: 39
50085779 AATGTTCGAG
*
50085789 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
50085828 TGATACCCGGGCTAAGCCCGAAGGCAATTGT--GAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
50085865 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
50085903 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
50085941 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
50085976 GGTTACCATA
Statistics
Matches: 136, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
36 14 0.10
37 30 0.22
38 36 0.26
39 39 0.29
40 17 0.12
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:50093280 original size:39 final size:39
Alignment explanation
Indices: 50093235--50093360 Score: 209
Period size: 39 Copynumber: 3.2 Consensus size: 39
50093225 CCGCTAAGAA
50093235 GCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAG
1 GCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAG
50093274 GCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAG
1 GCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAG
* * *
50093313 GCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAG
1 GCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAAG
50093353 GC-ATTGTG
1 GCAATTGTG
50093361 GGTTACCATA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
39 74 0.89
40 9 0.11
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAG
Found at i:50101404 original size:40 final size:40
Alignment explanation
Indices: 50101345--50101486 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
50101335 AAATTGAATG
* * *
50101345 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
50101385 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
50101425 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
50101465 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
50101487 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:50101510 original size:40 final size:39
Alignment explanation
Indices: 50101383--50101512 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
50101373 ATGCTGGAAA
* * *
50101383 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
50101424 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
50101462 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
50101503 TTATATCCGG
1 TTATATCCGG
50101513 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:50103362 original size:40 final size:40
Alignment explanation
Indices: 50103267--50103484 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
50103257 TGGATGATAA
*
50103267 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
50103308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
50103348 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50103388 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50103428 CCGGGCTATGTCCCGAAGGCA-TTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
50103467 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50103485 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 15 0.09
39 14 0.09
40 104 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50109318 original size:2 final size:2
Alignment explanation
Indices: 50109311--50109364 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
50109301 AGTATAGTTG
*
50109311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
50109353 AG AT AT AC AT AT
1 AT AT AT AT AT AT
50109365 TCGGCCATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:50110038 original size:29 final size:29
Alignment explanation
Indices: 50110003--50110076 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
50109993 GTTCTGAGAT
* *
50110003 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
50110032 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
50110061 GGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50110077 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:50114770 original size:24 final size:24
Alignment explanation
Indices: 50114743--50114819 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
50114733 AGGCTATCAT
50114743 GAGAAGATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
* *
50114767 GAGAGGAGTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
* *
50114791 GAGAGGATTTAGGAGCTGATTAGG
1 GAGAAGATTTAGGAGCTGATAAGG
50114815 GAGAA
1 GAGAA
50114820 CGGTGTTGGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.35, C:0.04, G:0.42, T:0.19
Consensus pattern (24 bp):
GAGAAGATTTAGGAGCTGATAAGG
Found at i:50116287 original size:27 final size:26
Alignment explanation
Indices: 50116247--50116357 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
50116237 AGGAAGCGTC
* *
50116247 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
50116274 CTGGTAGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
50116301 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
50116328 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
50116354 CTGG
1 CTGG
50116358 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 16 0.21
27 58 0.76
28 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:50119287 original size:18 final size:18
Alignment explanation
Indices: 50119260--50119300 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
50119250 GTGCCCCAAG
50119260 CCACACGGGCGTGGGAAT
1 CCACACGGGCGTGGGAAT
*
50119278 CCACATGGGCGTGGGAAT
1 CCACACGGGCGTGGGAAT
50119296 CCACA
1 CCACA
50119301 AGGCCCACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.29, G:0.34, T:0.12
Consensus pattern (18 bp):
CCACACGGGCGTGGGAAT
Found at i:50121588 original size:40 final size:40
Alignment explanation
Indices: 50121524--50121629 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
50121514 TACTAGCTCG
* * * *
50121524 TAGCCTGCGGGTCTCT-AGCCCGGATAGCATTCGAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAACA-GA
* *
50121564 -AGCTTGCGGGTCTTTAAGCCCGGATAACATTCCAACATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAACAGA
50121603 TAGCCTGCGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
50121630 CAATTCCTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 14 0.25
40 43 0.75
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAACAGA
Found at i:50129208 original size:40 final size:40
Alignment explanation
Indices: 50129135--50129235 Score: 143
Period size: 40 Copynumber: 2.5 Consensus size: 40
50129125 TACCAGCTCG
* * *
50129135 TAGCCTGCGGGTCTCT-AGCTCGGATAGCATTCTAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCA-GA
*
50129175 -AGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCAGA
50129214 TAGCCTGCGGGTCTTTAAGCCC
1 TAGCCTGCGGGTCTTTAAGCCC
50129236 AGGTACAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 15 0.27
40 40 0.73
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCAGA
Found at i:50133346 original size:29 final size:29
Alignment explanation
Indices: 50133313--50133473 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
50133303 GTGACGAGAT
50133313 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
50133342 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
50133371 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
50133400 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
50133429 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
50133458 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
50133474 AGCTCGAAGG
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 120 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:50133501 original size:87 final size:87
Alignment explanation
Indices: 50133309--50133493 Score: 219
Period size: 87 Copynumber: 2.1 Consensus size: 87
50133299 TATGGTGACG
* * * ** * *
50133309 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATG
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
* *
50133373 GCACTAAGTGTGCGTGCTGGAA
66 GCACTAAGTGTGCGAGCTCGAA
* * *
50133395 ATATAAGGCACTAAGTGTGCATGCTGGAAAAATATGACACTATGTGTGCAAGCTGGAAAAATACG
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
**
50133460 GCACTGGGTGTGCGAGCTCGAA
66 GCACTAAGTGTGCGAGCTCGAA
* *
50133482 GGGTATGGCACT
1 AGATATGGCACT
50133494 GTGTGTGCGG
Statistics
Matches: 80, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
86 3 0.04
87 77 0.96
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (87 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
GCACTAAGTGTGCGAGCTCGAA
Found at i:50141472 original size:29 final size:29
Alignment explanation
Indices: 50141417--50141576 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
50141407 GTGGGGGAAG
50141417 ATGGCACTAAGTGTGCGTGCTGG--ATAT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
*
50141444 ATGGCACTAAGTGTGTGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
50141473 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
* * *
50141502 AAGGCACTAAGTGTGCATGCTGGAAAAAT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
* * ** *
50141531 ATGACACTATGTGTGCAAGCTGGAAAAAT
1 ATGGCACTAAGTGTGCGTGCTGGAAATAT
* **
50141560 ACGGCACTGGGTGTGCG
1 ATGGCACTAAGTGTGCG
50141577 AGCTCGAAGG
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
27 22 0.19
29 95 0.81
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGTGCTGGAAATAT
Found at i:50141595 original size:87 final size:85
Alignment explanation
Indices: 50141417--50141596 Score: 189
Period size: 87 Copynumber: 2.1 Consensus size: 85
50141407 GTGGGGGAAG
* * * *** * *
50141417 ATGGCACTAAGTGTGCGTGCTGGATATATGGCACTAAGTGTGTGTGCTGGAAATATATGGCACTA
1 ATGGCACTAAGTGTGCATGCTGGAAATATGACACTAAGTGTGCAAGCTGGAAAAATACGGCACTA
* * *
50141482 AGTGTGCGTGCTGGAAATAT
66 AGTGTGCGAGCTCGAAAGAT
* *
50141502 AAGGCACTAAGTGTGCATGCTGGAAAAATATGACACTATGTGTGCAAGCTGGAAAAATACGGCAC
1 ATGGCACTAAGTGTGCATGCTGG--AAATATGACACTAAGTGTGCAAGCTGGAAAAATACGGCAC
** * *
50141567 TGGGTGTGCGAGCTCGAAGGGT
64 TAAGTGTGCGAGCTCGAAAGAT
50141589 ATGGCACT
1 ATGGCACT
50141597 GTGTGTGCGG
Statistics
Matches: 75, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
85 21 0.28
87 54 0.72
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (85 bp):
ATGGCACTAAGTGTGCATGCTGGAAATATGACACTAAGTGTGCAAGCTGGAAAAATACGGCACTA
AGTGTGCGAGCTCGAAAGAT
Found at i:50143109 original size:28 final size:27
Alignment explanation
Indices: 50143046--50143115 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
50143036 ATAGTGAGTC
50143046 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
50143073 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50143101 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50143116 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50150896 original size:28 final size:27
Alignment explanation
Indices: 50150833--50150902 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
50150823 ATAGTGAGTC
50150833 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
50150860 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50150888 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50150903 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50153737 original size:44 final size:44
Alignment explanation
Indices: 50153684--50153797 Score: 176
Period size: 44 Copynumber: 2.6 Consensus size: 44
50153674 TCCGTATTTC
*
50153684 GCCTGCTAGGCTCGAGGCCCGAATAATATCTGACCGGCATTATA
1 GCCTGCTAGGCTCGAGGCCCGAATAATATCTCACCGGCATTATA
* *
50153728 GCCTGCTAGG-TCAAAGGCCCGAATAATATCTCACCGGCATTATC
1 GCCTGCTAGGCTC-GAGGCCCGAATAATATCTCACCGGCATTATA
50153772 GCCTGCTAGGCTCGAAGGCCCGAATA
1 GCCTGCTAGGCTCG-AGGCCCGAATA
50153798 GTACTGTACA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
43 2 0.03
44 48 0.76
45 13 0.21
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAGGCCCGAATAATATCTCACCGGCATTATA
Found at i:50161729 original size:45 final size:45
Alignment explanation
Indices: 50161631--50161803 Score: 260
Period size: 45 Copynumber: 3.9 Consensus size: 45
50161621 CCGAATTCAA
* * ** *
50161631 TCACTGGCATT-TCGCCTGCTAGGCTC-AAGGTTCTAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
50161674 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
50161719 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
50161764 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
50161804 GTACTGTACA
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 9 0.08
44 14 0.12
45 97 0.81
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:50173899 original size:22 final size:21
Alignment explanation
Indices: 50173854--50173908 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
50173844 GGATAGCCAA
* *
50173854 TATAAAGATTTTATATTAATT
1 TATAAAGATTTTATAGTAAAT
*
50173875 TATAAAGGTTATTATAGTAAAT
1 TATAAAGATT-TTATAGTAAAT
*
50173897 TATGAAATATTT
1 TAT-AAAGATTT
50173909 GGCATTATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 9 0.33
22 13 0.48
23 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
TATAAAGATTTTATAGTAAAT
Found at i:50188488 original size:37 final size:37
Alignment explanation
Indices: 50188438--50188560 Score: 237
Period size: 37 Copynumber: 3.3 Consensus size: 37
50188428 TTATTACGAA
*
50188438 GTCTTACCCGGACATAATCTCTACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
50188475 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
50188512 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
50188549 GTCTTACCCGGA
1 GTCTTACCCGGA
50188561 ATATATTTCC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:50188676 original size:48 final size:48
Alignment explanation
Indices: 50188605--50189065 Score: 888
Period size: 48 Copynumber: 9.6 Consensus size: 48
50188595 TGTTACAACA
* *
50188605 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
50188653 TTCACATTAGCCATTCTGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50188701 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50188749 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50188797 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50188845 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50188893 TTCACATTAGCCATTCGGCTTTACCACATATACATA-CACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50188940 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50188988 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50189036 TTCACATTAGCCATTCGGCTTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
50189066 ATTACACTTT
Statistics
Matches: 408, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
47 47 0.12
48 361 0.88
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:50190591 original size:13 final size:13
Alignment explanation
Indices: 50190573--50190597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50190563 CACTAAATTT
50190573 TCATGGATTCAAA
1 TCATGGATTCAAA
50190586 TCATGGATTCAA
1 TCATGGATTCAA
50190598 TATACCATTA
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):
TCATGGATTCAAA
Found at i:50192785 original size:40 final size:40
Alignment explanation
Indices: 50192741--50192923 Score: 307
Period size: 40 Copynumber: 4.6 Consensus size: 40
50192731 CCAGCATGAT
* * * *
50192741 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
50192781 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
50192821 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
50192861 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
50192901 TGCTCTTC-GAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
50192924 TAACCACAAG
Statistics
Matches: 137, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
38 7 0.05
39 8 0.06
40 122 0.89
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:50192966 original size:40 final size:40
Alignment explanation
Indices: 50192912--50193040 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
50192902 GCTCTTCGAA
*
50192912 CTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGT
1 CTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGT
* * * *
50192951 CTTAACCCGGGTATAACAACTCA-CACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAACCAC-AAGCACAAATGCCTTCGGGT
** * * *
50192991 CTTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGA
1 CTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGT
50193031 CTTAGCCCGG
1 CTTAGCCCGG
50193041 GTATCATTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
39 5 0.07
40 68 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
CTTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGT
Found at i:50193960 original size:37 final size:37
Alignment explanation
Indices: 50193910--50194031 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
50193900 TATTACGAAT
*
50193910 TCTTACCCGGACATAATCTCTACACGTAGTCATCGGG
1 TCTTACCCGGACATAATCTCCACACGTAGTCATCGGG
*
50193947 TCTTACACGGACATAATCTCCACACGTAGTCATCGGG
1 TCTTACCCGGACATAATCTCCACACGTAGTCATCGGG
50193984 TCTTACCCGGACATAATCTCCACACGTAGTCATCGGG
1 TCTTACCCGGACATAATCTCCACACGTAGTCATCGGG
50194021 TCTTACCCGGA
1 TCTTACCCGGA
50194032 ATATATTTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
TCTTACCCGGACATAATCTCCACACGTAGTCATCGGG
Found at i:50194147 original size:48 final size:48
Alignment explanation
Indices: 50194076--50194681 Score: 1140
Period size: 48 Copynumber: 12.6 Consensus size: 48
50194066 TGTTACAACA
* *
50194076 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
50194124 TTCACATTAGCCATTCTGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
50194172 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50194220 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50194268 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
50194316 TTCACATTAGCCATTCTGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50194364 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
50194412 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50194460 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
50194508 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
50194556 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50194604 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
50194652 TTCACATTAGCCATTCGGCTTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
50194682 ATTACACTTT
Statistics
Matches: 546, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 546 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:50196208 original size:13 final size:13
Alignment explanation
Indices: 50196190--50196214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50196180 CACTAAATTT
50196190 TCATGGATTCAAA
1 TCATGGATTCAAA
50196203 TCATGGATTCAA
1 TCATGGATTCAA
50196215 TATACCATTA
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):
TCATGGATTCAAA
Done.