Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 85 of 187
Found at i:24771085 original size:21 final size:21
Alignment explanation
Indices: 24771059--24771106 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
24771049 ATCTCTGAAT
*
24771059 AAATTGAATAAATTTTGAAGA
1 AAATTGAATAAATTCTGAAGA
* * *
24771080 ACATTGCATCAATTCTGAAGA
1 AAATTGAATAAATTCTGAAGA
24771101 AAATTG
1 AAATTG
24771107 TTCTTCAATC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (21 bp):
AAATTGAATAAATTCTGAAGA
Found at i:24775441 original size:3 final size:3
Alignment explanation
Indices: 24775433--24775477 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
24775423 TTTTTGCATA
* * * *
24775433 ATG ATG ATG GTG GTG GTG GTG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
24775478 CCATTTGCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:24778280 original size:18 final size:17
Alignment explanation
Indices: 24778229--24778280 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
24778219 GCAACCCAAT
*
24778229 TTTATTTTATTTTCTTA
1 TTTATTTTATTTTTTTA
**
24778246 TTTATTTTAATAATTTTA
1 TTTATTTT-ATTTTTTTA
24778264 TTTATCTTTATTTTTTT
1 TTTAT-TTTATTTTTTT
24778281 TGTTCTAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 8 0.29
18 17 0.61
19 3 0.11
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTTATTTTTTTA
Found at i:24791910 original size:15 final size:15
Alignment explanation
Indices: 24791890--24791918 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24791880 AAACAGGATA
24791890 TAAATGAGTAAATAG
1 TAAATGAGTAAATAG
24791905 TAAATGAGTAAATA
1 TAAATGAGTAAATA
24791919 ATAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (15 bp):
TAAATGAGTAAATAG
Found at i:24793877 original size:50 final size:49
Alignment explanation
Indices: 24793801--24793984 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 49
24793791 CTGTTCACCA
* * *
24793801 GGGAAGTAAGATTTGCTATTGTAGCTTCAATCTATTTAACTGCAATGTC
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* ** ** *
24793850 GGGTAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
1 GGG-AAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* * * *
24793900 AGAGAAGTAAGATTCGCTGTTTTAGCTTCAATCTATTTAACTGCAATATC
1 -GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
*
24793950 GGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTA
1 -GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTA
24793985 AAATTTTTAT
Statistics
Matches: 109, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
49 3 0.03
50 104 0.95
51 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (49 bp):
GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
Found at i:24793976 original size:100 final size:100
Alignment explanation
Indices: 24793798--24793983 Score: 309
Period size: 100 Copynumber: 1.9 Consensus size: 100
24793788 GATCTGTTCA
* * * *
24793798 CCAGGGAAGTAAGATTTGCTATTGTAGCTTCAATCTATTTAACTGCAATGTCGGGTAAGCAAGAT
1 CCAGAGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTTAACTGCAATATCGGGGAAGCAAGAT
24793863 TCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCG
66 TCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCG
* *
24793898 CCAGAGAAGTAAGATTCGCTGTTTTAGCTTCAATCTATTTAACTGCAATATCGGGGAAGCAAGAT
1 CCAGAGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTTAACTGCAATATCGGGGAAGCAAGAT
*
24793963 TCGTTGTTGTAGCTTCAATCT
66 TCGCTGTTGTAGCTTCAATCT
24793984 AAAATTTTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (100 bp):
CCAGAGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTTAACTGCAATATCGGGGAAGCAAGAT
TCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCG
Found at i:24805623 original size:43 final size:44
Alignment explanation
Indices: 24805524--24805630 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 44
24805514 GTGGAATAGA
24805524 TTATCT-TCTTGAAGTTGCAGTGGAGTAGATTAAAGACAACAATC
1 TTATCTCTC-TGAAGTTGCAGTGGAGTAGATTAAAGACAACAATC
* * * ***
24805568 CTATCTCGCTGAAGTTGCAGTGG-GTGGATTAAA-ACCTTAGATC
1 TTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGACAACA-ATC
24805611 TTATCTCTCTGAAGTTGCAG
1 TTATCTCTCTGAAGTTGCAG
24805631 AGAGCAGATC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 3 0.06
43 30 0.57
44 19 0.36
45 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGACAACAATC
Found at i:24808104 original size:115 final size:115
Alignment explanation
Indices: 24807902--24808149 Score: 496
Period size: 115 Copynumber: 2.2 Consensus size: 115
24807892 TAAAGGAATT
24807902 GTGCCCTAACGTATTGGGCCGCAATTTCTTAAATCTTGAATAAATGGATATTCTTTTAAATTTTT
1 GTGCCCTAACGTATTGGGCCGCAATTTCTTAAATCTTGAATAAATGGATATTCTTTTAAATTTTT
24807967 ATTACACTAGTATTTTGGCCTAATTCATTTTTGGGGAAAATTAGAATGTC
66 ATTACACTAGTATTTTGGCCTAATTCATTTTTGGGGAAAATTAGAATGTC
24808017 GTGCCCTAACGTATTGGGCCGCAATTTCTTAAATCTTGAATAAATGGATATTCTTTTAAATTTTT
1 GTGCCCTAACGTATTGGGCCGCAATTTCTTAAATCTTGAATAAATGGATATTCTTTTAAATTTTT
24808082 ATTACACTAGTATTTTGGCCTAATTCATTTTTGGGGAAAATTAGAATGTC
66 ATTACACTAGTATTTTGGCCTAATTCATTTTTGGGGAAAATTAGAATGTC
24808132 GTGCCCTAACGTATTGGG
1 GTGCCCTAACGTATTGGG
24808150 TATGGTATTT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 133 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (115 bp):
GTGCCCTAACGTATTGGGCCGCAATTTCTTAAATCTTGAATAAATGGATATTCTTTTAAATTTTT
ATTACACTAGTATTTTGGCCTAATTCATTTTTGGGGAAAATTAGAATGTC
Found at i:24818402 original size:26 final size:25
Alignment explanation
Indices: 24818348--24818402 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
24818338 AGTTTTTCCC
* *
24818348 TTTTGAAATAGGGAAAATGTCATCCT
1 TTTTGAAATAAGGAAAATATCAT-CT
24818374 TTTTGAAACTAAGGAATAATATCAT-T
1 TTTTGAAA-TAAGGAA-AATATCATCT
24818400 TTT
1 TTT
24818403 GTTATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 12 0.48
27 6 0.24
28 7 0.28
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (25 bp):
TTTTGAAATAAGGAAAATATCATCT
Found at i:24822749 original size:100 final size:100
Alignment explanation
Indices: 24822576--24822783 Score: 389
Period size: 100 Copynumber: 2.1 Consensus size: 100
24822566 TTCAGTTTTC
*
24822576 ACAAATTTCACTTCATGGCTTAGAGTTCCTTTTACATATCATAGAACCCTTTTTACTACTCTATA
1 ACAAACTTCACTTCATGGCTTAGAGTTCCTTTTACATATCATAGAACCCTTTTTACTACTCTATA
*
24822641 GCGGTTCGCATTGTAATAATGCATGTACCTTGACA
66 GCGGTTCGCATTGTAATAATGCAAGTACCTTGACA
*
24822676 ACAAACTTCACTTCATGGCTTAGAGTTCCTTTTACATATCATAGAACCCTTTTTACTACTCTGTA
1 ACAAACTTCACTTCATGGCTTAGAGTTCCTTTTACATATCATAGAACCCTTTTTACTACTCTATA
24822741 GCGGTTCGCATTGTAATAATGCAAGTACCTTGACA
66 GCGGTTCGCATTGTAATAATGCAAGTACCTTGACA
24822776 ACAAACTT
1 ACAAACTT
24822784 ACAGCGAACA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 105 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (100 bp):
ACAAACTTCACTTCATGGCTTAGAGTTCCTTTTACATATCATAGAACCCTTTTTACTACTCTATA
GCGGTTCGCATTGTAATAATGCAAGTACCTTGACA
Found at i:24824466 original size:21 final size:21
Alignment explanation
Indices: 24824440--24824483 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24824430 TTTTACCAAA
24824440 AATGTGTA-TTGGACTAAATTG
1 AATGTG-AGTTGGACTAAATTG
* *
24824461 AATGTGAGTTGTATTAAATTG
1 AATGTGAGTTGGACTAAATTG
24824482 AA
1 AA
24824484 CTAAATTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (21 bp):
AATGTGAGTTGGACTAAATTG
Found at i:24824908 original size:49 final size:48
Alignment explanation
Indices: 24824852--24825067 Score: 159
Period size: 49 Copynumber: 4.4 Consensus size: 48
24824842 ATTCTGTTAT
* * *
24824852 TTGGCTCTCTTGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCCGATAA
1 TTGGCTCTCATGAGCTTCCCGATAATGGCTC-TATGAGCTTCCCGATAA
*** * *
24824901 TTGGCTCTC-TAGAGCTTCTTAATAATTGGCTCTCATGAGCTTTCTGATAA
1 TTGGCTCTCAT-GAGCTTCCCGATAA-TGGCTCT-ATGAGCTTCCCGATAA
* * * * **
24824951 TAGGATCTCGTGAGCTTCCTGATTAATGGCTCTCCGAAGCTTCCCGAT-A
1 TTGGCTCTCATGAGCTTCCCGA-TAATGGCTCTATG-AGCTTCCCGATAA
* * * * *
24825000 TTGGCTCGCATGAGCTTCTCGATTATGGCTCTTATGAGCTTCTCGTTACA
1 TTGGCTCTCATGAGCTTCCCGATAATGGCTC-TATGAGCTTCCCGATA-A
*
24825050 -TGGCTCACATGAGCTTCC
1 TTGGCTCTCATGAGCTTCC
24825068 TGTTATAAGG
Statistics
Matches: 130, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
48 18 0.14
49 55 0.42
50 53 0.41
51 4 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (48 bp):
TTGGCTCTCATGAGCTTCCCGATAATGGCTCTATGAGCTTCCCGATAA
Found at i:24824915 original size:25 final size:26
Alignment explanation
Indices: 24824852--24825067 Score: 129
Period size: 25 Copynumber: 8.8 Consensus size: 26
24824842 ATTCTGTTAT
* *
24824852 TTGGCTCTCT-TGAGCTTCCCGTTTA
1 TTGGCTCTCTATGAGCTTCCCGATAA
*
24824877 -TGGCTC-GTATGAGCTTCCCGATAA
1 TTGGCTCTCTATGAGCTTCCCGATAA
***
24824901 TTGGCTCTCTA-GAGCTTCTTAATAA
1 TTGGCTCTCTATGAGCTTCCCGATAA
* *
24824926 TTGGCTCTC-ATGAGCTTTCTGATAA
1 TTGGCTCTCTATGAGCTTCCCGATAA
* * * *
24824951 TAGGATCTC-GTGAGCTTCCTGATTAA
1 TTGGCTCTCTATGAGCTTCCCGA-TAA
*
24824977 -TGGCTCTC--CGAAGCTTCCCGAT-A
1 TTGGCTCTCTATG-AGCTTCCCGATAA
* * *
24825000 TTGGCTCGC-ATGAGCTTCTCGATTA
1 TTGGCTCTCTATGAGCTTCCCGATAA
* *
24825025 -TGGCTCT-TATGAGCTTCTCGTTACA
1 TTGGCTCTCTATGAGCTTCCCGATA-A
*
24825050 -TGGCTCAC-ATGAGCTTCC
1 TTGGCTCTCTATGAGCTTCC
24825068 TGTTATAAGG
Statistics
Matches: 153, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
23 2 0.01
24 58 0.38
25 88 0.58
26 5 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
TTGGCTCTCTATGAGCTTCCCGATAA
Found at i:24824950 original size:50 final size:49
Alignment explanation
Indices: 24824818--24824969 Score: 128
Period size: 50 Copynumber: 3.1 Consensus size: 49
24824808 CGCAAGGGCA
* * * * *
24824818 TCCCATTAATTAGCTCTCATGAGCATTCTGTTATTTGGCTCTCTTGAGCT
1 TCCCAATAATTGGCTCTCATGAGCTTTCTGATAATTGGCTCTC-TGAGCT
** * * *
24824868 TCCCGTTTA-TGGCTCGT-ATGAGCTTCCCGATAATTGGCTCTCTAGAGCT
1 TCCCAATAATTGGCTC-TCATGAGCTTTCTGATAATTGGCTCTCT-GAGCT
** * *
24824917 TCTTAATAATTGGCTCTCATGAGCTTTCTGATAATAGGATCTCGTGAGCT
1 TCCCAATAATTGGCTCTCATGAGCTTTCTGATAATTGGCTCTC-TGAGCT
24824967 TCC
1 TCC
24824970 TGATTAATGG
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
48 1 0.01
49 35 0.44
50 42 0.53
51 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (49 bp):
TCCCAATAATTGGCTCTCATGAGCTTTCTGATAATTGGCTCTCTGAGCT
Found at i:24824981 original size:50 final size:49
Alignment explanation
Indices: 24824830--24825040 Score: 157
Period size: 49 Copynumber: 4.3 Consensus size: 49
24824820 CCATTAATTA
* * * * *
24824830 GCTCTCATGAGCATTCTGTTATTTGGCTCTCTTGAGCTTCCCG-TTTATG
1 GCTCTCATGAGCTTTCTGATAATTGGCTCTC-TGAGCTTCCTGATTAATG
* * * *
24824879 GCTCGT-ATGAGCTTCCCGATAATTGGCTCTCTAGAGCTT-CTTAATAATTG
1 GCTC-TCATGAGCTTTCTGATAATTGGCTCTCT-GAGCTTCCTGATTAA-TG
* *
24824929 GCTCTCATGAGCTTTCTGATAATAGGATCTCGTGAGCTTCCTGATTAATG
1 GCTCTCATGAGCTTTCTGATAATTGGCTCTC-TGAGCTTCCTGATTAATG
* * * *
24824979 GCTCTC-CGAAGCTTCCCGAT-ATTGGCTCGCATGAGCTT-CTCGATT-ATG
1 GCTCTCATG-AGCTTTCTGATAATTGGCTCTC-TGAGCTTCCT-GATTAATG
*
24825027 GCTCTTATGAGCTT
1 GCTCTCATGAGCTT
24825041 CTCGTTACAT
Statistics
Matches: 128, Mismatches: 24, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
48 17 0.13
49 53 0.41
50 51 0.40
51 7 0.05
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (49 bp):
GCTCTCATGAGCTTTCTGATAATTGGCTCTCTGAGCTTCCTGATTAATG
Found at i:24825003 original size:99 final size:99
Alignment explanation
Indices: 24824824--24825040 Score: 235
Period size: 99 Copynumber: 2.2 Consensus size: 99
24824814 GGCATCCCAT
* * * * * * * * *
24824824 TAATTAGCTCTCATGAGCATTCTGTTATTTGGCTCTCTTGAGCTTCCCGTTTATGGCTCGTATGA
1 TAATTGGCTCTCATGAGCTTTCTGATAATAGGATCTCGTGAGCTTCCCGTTAATGGCTCGTACGA
* *
24824889 GCTTCCCGATAATTGGCTCTC-TAGAGCTTCTTAA
66 GCTTCCCGATAATTGGCTCGCAT-GAGCTTCTCAA
* *
24824923 TAATTGGCTCTCATGAGCTTTCTGATAATAGGATCTCGTGAGCTTCCTGATTAATGGCTC-TCCG
1 TAATTGGCTCTCATGAGCTTTCTGATAATAGGATCTCGTGAGCTTCCCG-TTAATGGCTCGTACG
*
24824987 AAGCTTCCCGAT-ATTGGCTCGCATGAGCTTCTCGA
65 -AGCTTCCCGATAATTGGCTCGCATGAGCTTCTCAA
* *
24825022 TTA-TGGCTCTTATGAGCTT
1 TAATTGGCTCTCATGAGCTT
24825041 CTCGTTACAT
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
98 15 0.15
99 63 0.64
100 21 0.21
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (99 bp):
TAATTGGCTCTCATGAGCTTTCTGATAATAGGATCTCGTGAGCTTCCCGTTAATGGCTCGTACGA
GCTTCCCGATAATTGGCTCGCATGAGCTTCTCAA
Found at i:24825072 original size:25 final size:25
Alignment explanation
Indices: 24825001--24825115 Score: 85
Period size: 25 Copynumber: 4.6 Consensus size: 25
24824991 TTCCCGATAT
*
24825001 TGGCTCGCATGAGCTTCTCGATT--A
1 TGGCTCACATGAGCTTCTCG-TTACA
**
24825025 TGGCTCTTATGAGCTTCTCGTTACA
1 TGGCTCACATGAGCTTCTCGTTACA
*
24825050 TGGCTCACATGAGCTTC-CTGTTATA
1 TGGCTCACATGAGCTTCTC-GTTACA
* * * * * *
24825075 AGGCTCAAAAGAGATACTCGTTTATA
1 TGGCTCACATGAGCTTCTCG-TTACA
24825101 T-GCTCACATGAGCTT
1 TGGCTCACATGAGCTT
24825116 TCCTGAATAT
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
23 2 0.03
24 19 0.27
25 44 0.62
26 6 0.08
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCTCGTTACA
Found at i:24839605 original size:3 final size:3
Alignment explanation
Indices: 24839597--24839632 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
24839587 GTTCAGGTCA
24839597 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24839633 CAATAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24839913 original size:41 final size:41
Alignment explanation
Indices: 24839826--24839943 Score: 164
Period size: 41 Copynumber: 2.8 Consensus size: 41
24839816 GAAAAACGCT
* * *
24839826 GCTAAAGAACATGATTTTTAGCGGCGCATTTTTCTAAGCACA
1 GCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTTAAGCACA
* * *
24839868 GCTAAAGAACATGATCTTTAGAGGCGTTTTTTTTAAGCGCC
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAGCACA
24839909 GCTAAAGAACATGATCTTTAGCGGCGTTTATTTTT
1 GCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTT
24839944 GTAAACGCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 39 0.57
42 29 0.43
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (41 bp):
GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAGCACA
Found at i:24845902 original size:16 final size:15
Alignment explanation
Indices: 24845865--24845894 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24845855 GAAATAGTTT
24845865 CAAAA-AATAAACTC
1 CAAAACAATAAACTC
24845879 CAAAACAATAAACTC
1 CAAAACAATAAACTC
24845894 C
1 C
24845895 CTAAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (15 bp):
CAAAACAATAAACTC
Found at i:24849027 original size:30 final size:30
Alignment explanation
Indices: 24848991--24849049 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
24848981 ATTTAAAGAG
*
24848991 ATTGCTTGCAAGTCAAGTTAAACAAAATAT
1 ATTGCTTACAAGTCAAGTTAAACAAAATAT
24849021 ATTGCTTACAAGTCAAGTTAAACAAAATA
1 ATTGCTTACAAGTCAAGTTAAACAAAATA
24849050 CATTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.29
Consensus pattern (30 bp):
ATTGCTTACAAGTCAAGTTAAACAAAATAT
Found at i:24858470 original size:21 final size:21
Alignment explanation
Indices: 24858444--24858494 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
24858434 TACGATTTAG
24858444 GGTTTAGGGGATAAGGGTTAT
1 GGTTTAGGGGATAAGGGTTAT
*
24858465 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTAT
24858486 GGTTTAGGG
1 GGTTTAGGG
24858495 TCTAGGTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (21 bp):
GGTTTAGGGGATAAGGGTTAT
Found at i:24859941 original size:22 final size:22
Alignment explanation
Indices: 24859914--24859960 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
24859904 GTCTTTCTAC
24859914 TTAGGTTTAATCAGTATAAAAT
1 TTAGGTTTAATCAGTATAAAAT
*
24859936 TTAGGTTTAATTAGTATAAAAT
1 TTAGGTTTAATCAGTATAAAAT
24859958 TTA
1 TTA
24859961 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (22 bp):
TTAGGTTTAATCAGTATAAAAT
Found at i:24867161 original size:21 final size:21
Alignment explanation
Indices: 24867132--24867179 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
24867122 CAACAACTTA
* * *
24867132 AAGCTGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
24867153 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
24867174 AAGCAG
1 AAGCAG
24867180 CGATAGAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.46, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:24867668 original size:42 final size:43
Alignment explanation
Indices: 24867596--24867691 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 43
24867586 CATACCAAAC
* *
24867596 AGTGGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTTTT
1 AGTGGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTT
*
24867639 AGTGGCGTTTTTG-AACAAGCGCCGCTAAAGAACATTACTTTT
1 AGTGGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTT
*
24867681 AGAGGCGTTTT
1 AGTGGCGTTTT
24867692 ATTCCAAAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 37 0.76
43 12 0.24
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
AGTGGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTT
Found at i:24867791 original size:42 final size:42
Alignment explanation
Indices: 24867612--24867990 Score: 424
Period size: 42 Copynumber: 9.0 Consensus size: 42
24867602 GTTTGTGAAA
* **
24867612 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
* *
24867655 -AAGCGCCGCTAAAGAACATTA-CTTTTAGAGGCGTTTTATTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
* * ** * *
24867697 AAAGCACCGCTAAAGAACATGAGATTTCGCGGTGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
*
24867740 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
24867782 TAAGCGCCGCTAAAGAACATGATCTTTCGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* ** * *
24867824 AAAGCGCTACTAAAGAACATGATCTTTAACGGCGTTTTTTTCG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
* * *
24867867 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* * * *
24867909 TAAGCGACGCTAAAGAAAATAATCTTTAGCGGCGTTTTTTCA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
24867951 TAAGCGTCACTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
24867991 TCTATAAGTA
Statistics
Matches: 292, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.00
42 192 0.66
43 95 0.33
44 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:24867887 original size:127 final size:127
Alignment explanation
Indices: 24867613--24867992 Score: 457
Period size: 127 Copynumber: 3.0 Consensus size: 127
24867603 TTTGTGAAAT
* ** *
24867613 AAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTTTTGAAC-AAGCGCCGCTAAAGAACATT
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCCTAAGCGCCGCTAAAGAACATA
* * ** ** * *
24867675 A-CTTTTAGAGGCGTTTTATTCCAAAGCACCGCTAAAGAACATGAGATTTCGCGGTGTTTTTTTC
63 ATC-TTTAGCGGCGTTTT-TTCCAAAGCGCTACTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
24867739 CT
126 CA
* *
24867741 AAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATAATC
* * *
24867806 TTTCGCGGCGTTTTTTCCAAAGCGCTACTAAAGAACATGATCTTTAACGGCGTTTTTTTCGA
66 TTTAGCGGCGTTTTTTCCAAAGCGCTACTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCA
* * * *
24867868 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCATAAGCGACGCTAAAGAAAATAATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATAATC
24867933 TTTAGCGGCGTTTTTT-CATAAGCG-TCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
66 TTTAGCGGCGTTTTTTCCA-AAGCGCT-ACTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
24867993 TATAAGTACC
Statistics
Matches: 221, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
126 3 0.01
127 152 0.69
128 64 0.29
129 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATAATC
TTTAGCGGCGTTTTTTCCAAAGCGCTACTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCA
Found at i:24867991 original size:85 final size:84
Alignment explanation
Indices: 24867611--24867998 Score: 405
Period size: 85 Copynumber: 4.6 Consensus size: 84
24867601 CGTTTGTGAA
* ** *
24867611 ATAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCG-TTTTTGAACAAGCGCCGCTAAAGAACA
1 ATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCATAAGCG-CGCTAAAGAACA
* *
24867673 TTA-CTTTTAGAGGCGTTTTATTCC
63 TGATC-TTTAGCGGCGTTTT-TT-C
* ** * * * *
24867697 A-AAGCACCGCTAAAGAACATGAGATTTCGCGGTGTTTTTTTCCTAAGTGCCGCTAAAGAACATG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAAGCG-CGCTAAAGAACATG
24867761 ATCTTTAGCGGCGTTTTTTC
65 ATCTTTAGCGGCGTTTTTTC
* * * *
24867781 CTAAGCGCCGCTAAAGAACATGATCTTTCGCGGCGTTTTTTCCA-AAGCGCTACTAAAGAACATG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAAGCGC-GCTAAAGAACATG
*
24867845 ATCTTTAACGGCGTTTTTTTC
65 ATCTTTAGCGGCG-TTTTTTC
* *
24867866 GA-AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-ATTTTTTCATAAGCGACGCTAAAGAAAAT
1 -ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAAGCG-CGCTAAAGAACAT
*
24867929 AATCTTTAGCGGCGTTTTTTC
64 GATCTTTAGCGGCGTTTTTTC
* *
24867950 ATAAGCGTCACTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTATAAG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-ATAAG
24867999 TACCGTAAAA
Statistics
Matches: 256, Mismatches: 33, Indels: 26
0.81 0.10 0.08
Matches are distributed among these distances:
83 2 0.01
84 74 0.29
85 135 0.53
86 44 0.17
87 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (84 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCATAAGCGCGCTAAAGAACATGA
TCTTTAGCGGCGTTTTTTC
Found at i:24869939 original size:17 final size:17
Alignment explanation
Indices: 24869919--24869954 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
24869909 GATTGTATTG
24869919 ATTTACATGTTGTACGC
1 ATTTACATGTTGTACGC
*
24869936 ATTTACATGTTGTATGC
1 ATTTACATGTTGTACGC
24869953 AT
1 AT
24869955 CAAGCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (17 bp):
ATTTACATGTTGTACGC
Found at i:24880348 original size:16 final size:16
Alignment explanation
Indices: 24880315--24880348 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24880305 TGAGAGTGTT
* *
24880315 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
24880331 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
24880347 AA
1 AA
24880349 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:24883176 original size:21 final size:21
Alignment explanation
Indices: 24883150--24883190 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24883140 AGACGAGCAA
* *
24883150 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
24883171 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
24883191 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:24885129 original size:16 final size:16
Alignment explanation
Indices: 24885096--24885129 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24885086 GGAGATTGTT
* *
24885096 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
24885112 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
24885128 AA
1 AA
24885130 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:24890323 original size:18 final size:18
Alignment explanation
Indices: 24890300--24890335 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24890290 TTTTTTATTC
*
24890300 TTTTTTTAAATAAAATTA
1 TTTTTTAAAATAAAATTA
*
24890318 TTTTTTAAAATGAAATTA
1 TTTTTTAAAATAAAATTA
24890336 GTGACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTTTAAAATAAAATTA
Found at i:24894876 original size:5 final size:5
Alignment explanation
Indices: 24894868--24894901 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
24894858 AGTTCAGCTC
* *
24894868 GGTTT GGTTT GGTTT GGTTT GGTTC GGTTC GGTT
1 GGTTT GGTTT GGTTT GGTTT GGTTT GGTTT GGTT
24894902 CGAGTAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.06, G:0.41, T:0.53
Consensus pattern (5 bp):
GGTTT
Found at i:24903021 original size:9 final size:9
Alignment explanation
Indices: 24903007--24903043 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
24902997 TATAGTTTGA
24903007 TATTCGAAT
1 TATTCGAAT
24903016 TATTCGAAT
1 TATTCGAAT
24903025 TATTC-AAGT
1 TATTCGAA-T
24903034 TATTCGAAT
1 TATTCGAAT
24903043 T
1 T
24903044 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:24906457 original size:42 final size:41
Alignment explanation
Indices: 24906382--24906492 Score: 136
Period size: 41 Copynumber: 2.7 Consensus size: 41
24906372 GTTTACAAAC
* * *
24906382 AAAAATGCCGATAAAGA--ATGGTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGATAAAGACCATGTTCTTTAGAGGCGCTTAG-A
*
24906422 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGA
1 AAAAACGCCGATAAAGACCATGTTCTTTAGAGGCGCTTAGA
* * *
24906463 GAAAACACCGTTAAAGACCATGTTCTTTAG
1 AAAAACGCCGATAAAGACCATGTTCTTTAG
24906493 CGGTGTACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 15 0.24
41 28 0.45
42 19 0.31
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGATAAAGACCATGTTCTTTAGAGGCGCTTAGA
Found at i:24906480 original size:41 final size:42
Alignment explanation
Indices: 24906403--24906492 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 42
24906393 TAAAGAATGG
* *
24906403 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGT
1 TCTTTAGAGGCGCTTAGAAAAAAACACCGCTAAAGACCATGT
* *
24906445 TCTTTAGAGGCGCTTAG-AGAAAACACCGTTAAAGACCATGT
1 TCTTTAGAGGCGCTTAGAAAAAAACACCGCTAAAGACCATGT
24906486 TCTTTAG
1 TCTTTAG
24906493 CGGTGTACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 28 0.64
42 16 0.36
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
TCTTTAGAGGCGCTTAGAAAAAAACACCGCTAAAGACCATGT
Found at i:24906970 original size:21 final size:21
Alignment explanation
Indices: 24906907--24906972 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
24906897 CTCTATTCTA
* * *
24906907 CTTCTCTCACTGCAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTG
*
24906928 CTTCCCTCGCTGCAGCCCCTG
1 CTTCCCTCGCTGCAGCCTCTG
*
24906949 CTTCCCTCGCTGCCGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTG
24906970 CTT
1 CTT
24906973 TAAGTTGTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.06, C:0.48, G:0.15, T:0.30
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTG
Found at i:24923465 original size:44 final size:43
Alignment explanation
Indices: 24923368--24923480 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 43
24923358 AAGAATTTCA
* *
24923368 AATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGATAGT
1 AATCTTATCTCCCTG-AATTACAGTGGAGCAGATTAAAGATAGT
* *
24923412 AATCCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACGA-AG-
1 AATCTTATCTCCCTGA-ATTACAGTGGAGCAGATT-AAA-GATAGT
* *
24923456 GATCTTATCTCTCTGAAGTTACAGT
1 AATCTTATCTCCCTGAA-TTACAGT
24923481 AGANNNNNNN
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
43 2 0.03
44 50 0.86
45 4 0.07
46 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAATTACAGTGGAGCAGATTAAAGATAGT
Found at i:24926810 original size:28 final size:28
Alignment explanation
Indices: 24926744--24926798 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
24926734 AATATATAGT
* *
24926744 ACTAATAATTATAAATTTTAGTGTTTTC
1 ACTAATATTTTTAAATTTTAGTGTTTTC
24926772 ACTAATATTTTTAAATTTTAGTGTTTT
1 ACTAATATTTTTAAATTTTAGTGTTTT
24926799 TATTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (28 bp):
ACTAATATTTTTAAATTTTAGTGTTTTC
Found at i:24927921 original size:23 final size:23
Alignment explanation
Indices: 24927878--24927921 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
24927868 CCTAAATTAT
* *
24927878 ACATATTTTACAATTACATAAGA
1 ACATATTTTAAAATTAAATAAGA
24927901 ACATA-TTTAAAATATAAATAA
1 ACATATTTTAAAAT-TAAATAA
24927922 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (23 bp):
ACATATTTTAAAATTAAATAAGA
Found at i:24937503 original size:16 final size:17
Alignment explanation
Indices: 24937482--24937513 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24937472 AAATATGCAA
24937482 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
24937498 TCACATAACTTCATAT
1 TCACATAACTTCATAT
24937514 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:24937733 original size:43 final size:43
Alignment explanation
Indices: 24937672--24937842 Score: 192
Period size: 43 Copynumber: 4.0 Consensus size: 43
24937662 AAGACTCGTA
*
24937672 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
*
24937715 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AATCAAATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATAT
* * * * *
24937756 CGATGCCAATGTCCTAGACATGGTCTTACACGTAAACACA-AGT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATA-T
*
24937799 CGATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATAT
24937842 C
1 C
24937843 GGAAATCCTA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
41 26 0.24
42 16 0.15
43 61 0.56
44 5 0.05
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:24937815 original size:84 final size:84
Alignment explanation
Indices: 24937674--24937831 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
24937664 GACTCGTACA
* * *
24937674 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGAC-GTGG
24937738 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
* * *
24937758 ATGCCAATGTCCTAGACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCAATGCC-ACTGTCCCAGACGTG
24937821 GTCTTACACGA
64 GTCTTACACGA
24937832 TAACACATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.94
85 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCAATGCCACTGTCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:24939414 original size:117 final size:114
Alignment explanation
Indices: 24939085--24939458 Score: 538
Period size: 113 Copynumber: 3.3 Consensus size: 114
24939075 GGCTGTTACA
* * * *
24939085 GAAGGCCCCTAAACGATGCCGTTGTATTTTATTTTTTGCAGCG-TTTATCCTAAAAATGCCGCTA
1 GAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGC-GCGTTTTTTCCTAAAAACGCCGCTA
* * *
24939149 AAAACACAGACCATTAGCGGCGCCAGACCAAAAATGCCACTAACGCCACC
65 AAAACACAGACCATTAGCGGCGCAAGACCAAAAACGCCACTAAGGCCACC
* *
24939199 GTA-GCCACTAAACGACGCCGTTGTATTTTATTTTTTGCG-GTGTTCTTCCTAAAAACGCCGCTA
1 GAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGCGT-TTTTTCCTAAAAACGCCGCTA
*
24939262 AAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACC
65 AAAACACAGACCATTAGCGGCGCAAGACCAAAAACGCCACTAAGGCCACC
* * * *
24939312 GAAGGCCACTAAACGACGCCATTGTATTTTATTTTTTGCGGCGTTTTTTTTTCTGAAAGCGCCGC
1 GAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGC-GCG--TTTTTTCCTAAAAACGCCGC
* *
24939377 TAAAAACACAGACCATTAGCGGCACAAGACAAAAAACGCCACTAAGGCCACC
63 TAAAAACACAGACCATTAGCGGCGCAAGACCAAAAACGCCACTAAGGCCACC
24939429 GAAGGCCACTAAACGACGCCGTTGTATTTT
1 GAAGGCCACTAAACGACGCCGTTGTATTTT
24939459 GCTAAAAACA
Statistics
Matches: 234, Mismatches: 19, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
111 1 0.00
112 1 0.00
113 100 0.43
114 36 0.15
115 1 0.00
116 1 0.00
117 93 0.40
118 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (114 bp):
GAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGCGTTTTTTCCTAAAAACGCCGCTAA
AAACACAGACCATTAGCGGCGCAAGACCAAAAACGCCACTAAGGCCACC
Found at i:24939496 original size:84 final size:84
Alignment explanation
Indices: 24939375--24939626 Score: 459
Period size: 84 Copynumber: 3.0 Consensus size: 84
24939365 TGAAAGCGCC
* * * **
24939375 GCTAAAAACACAGACCATTAGCGGCACAAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGGCCACTA
24939440 AACGACGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
24939459 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGGCCACTA
24939524 AACGACGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
24939543 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGGCCACTA
24939608 AACGACGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
24939627 ATTTTTTGTG
Statistics
Matches: 163, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 163 1.00
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.17
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGGCCACTA
AACGACGCCGTTGTATTTT
Found at i:24939713 original size:198 final size:198
Alignment explanation
Indices: 24939459--24939824 Score: 626
Period size: 198 Copynumber: 1.8 Consensus size: 198
24939449 GTTGTATTTT
* **
24939459 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
24939524 AACGACGCCGTTGTATTTTGCTAAAAACAC-AGACCATTAGCGGCGCTAGACCAAAAACGCCACT
66 AACGACGCCGTTGTATTTTGCTAAAAACACGA-ACCATTAGCGGCGCTAGACAAAAAACGCCACT
** *
24939588 AAGTTCACCGAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGTGGCGTTTTTTTTTAAAA
130 AAGGCCACCGAAGGCCACTAAACAACGCCGTTGTATTTTATTTTTTGTGGCGTTTTTTTTTAAAA
24939653 CGCC
195 CGCC
*
24939657 GCTAAAAACACAGACCATTAGCGGTGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
24939722 AACGATGCCGTTGTATTTTGCTAAAAACACGAACCATTAGCGGCGCTAGACAAAAAACGCCACTA
66 AACGACGCCGTTGTATTTTGCTAAAAACACGAACCATTAGCGGCGCTAGACAAAAAACGCCACTA
*
24939787 AGGCCACCGAAGGCCACTAAACAATGCCGTTGTATTTT
131 AGGCCACCGAAGGCCACTAAACAACGCCGTTGTATTTT
24939825 GCTAAAAACA
Statistics
Matches: 157, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
198 156 0.99
199 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (198 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACGACGCCGTTGTATTTTGCTAAAAACACGAACCATTAGCGGCGCTAGACAAAAAACGCCACTA
AGGCCACCGAAGGCCACTAAACAACGCCGTTGTATTTTATTTTTTGTGGCGTTTTTTTTTAAAAC
GCC
Found at i:24939765 original size:282 final size:284
Alignment explanation
Indices: 24939258--24939942 Score: 1166
Period size: 282 Copynumber: 2.4 Consensus size: 284
24939248 TAAAAACGCC
24939258 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
* *
24939323 AACGACGCCATTGTATTTTATTTTTTGCGGCGTTTTTTTTTCTGAAAGCGCCGCTAAAAACACAG
66 AACGACGCCGTTGTATTTTATTTTTTGCGGCG-TTTTTTTTCTGAAAACGCCGCTAAAAACACAG
24939388 ACCATTAGCGGCACAAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTG
130 ACCATTAGCGGCACAAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTG
* **
24939453 TATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGG
195 TATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGG
*
24939518 CCACTAAACGACGCCGTTGTATTTT
260 CCACTAAACAACGCCGTTGTATTTT
**
24939543 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGTTCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
24939608 AACGACGCCGTTGTATTTTATTTTTTGTGGCGTTTTTTTT-T-AAAACGCCGCTAAAAACACAGA
66 AACGACGCCGTTGTATTTTATTTTTTGCGGCGTTTTTTTTCTGAAAACGCCGCTAAAAACACAGA
** * *
24939671 CCATTAGCGGTGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTAAACGATGCCGTTGT
131 CCATTAGCGGCACAAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGT
24939736 ATTTTGCTAAAAACAC-GAACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGG
196 ATTTTGCTAAAAACACAG-ACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGG
*
24939800 CCACTAAACAATGCCGTTGTATTTT
260 CCACTAAACAACGCCGTTGTATTTT
24939825 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCA-CGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
* *
24939889 AACGACGCCGTTGTATTTTATTTTTTGCGGCG--TTTTTCCTGGAAACGCCGCTAA
66 AACGACGCCGTTGTATTTTATTTTTTGCGGCGTTTTTTTTCTGAAAACGCCGCTAA
24939943 TGCTTATTTT
Statistics
Matches: 378, Mismatches: 19, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
279 5 0.01
280 1 0.00
281 56 0.15
282 214 0.57
283 1 0.00
284 8 0.02
285 93 0.25
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (284 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACGACGCCGTTGTATTTTATTTTTTGCGGCGTTTTTTTTCTGAAAACGCCGCTAAAAACACAGA
CCATTAGCGGCACAAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGT
ATTTTGCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGC
CACTAAACAACGCCGTTGTATTTT
Found at i:24939779 original size:84 final size:84
Alignment explanation
Indices: 24939657--24939907 Score: 443
Period size: 84 Copynumber: 3.0 Consensus size: 84
24939647 TTAAAACGCC
*
24939657 GCTAAAAACACAGACCATTAGCGGTGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
24939722 AACGATGCCGTTGTATTTT
66 AACGATGCCGTTGTATTTT
24939741 GCTAAAAACAC-GAACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACT
1 GCTAAAAACACAG-ACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACT
*
24939805 AAACAATGCCGTTGTATTTT
65 AAACGATGCCGTTGTATTTT
*
24939825 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCA-CGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
24939889 AACGACGCCGTTGTATTTT
66 AACGATGCCGTTGTATTTT
24939908 ATTTTTTGCG
Statistics
Matches: 160, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
83 30 0.19
84 129 0.81
85 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACAAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACGATGCCGTTGTATTTT
Found at i:24939950 original size:40 final size:40
Alignment explanation
Indices: 24939906--24940005 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
24939896 CCGTTGTATT
24939906 TTATTTTTTGCGGCGTTTTTCCTGGAAACGCCGCTAATGC
1 TTATTTTTTGCGGCGTTTTTCCTGGAAACGCCGCTAATGC
* * ** *
24939946 TTATTTTTTGAGGCG-ATTTCCTTTAAGCGCCGCTAATGC
1 TTATTTTTTGCGGCGTTTTTCCTGGAAACGCCGCTAATGC
* **
24939985 TCGATTTTTACCGGCGTTTTT
1 T-TATTTTTTGCGGCGTTTTT
24940006 TGTATAAACG
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
39 21 0.44
40 24 0.50
41 3 0.06
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (40 bp):
TTATTTTTTGCGGCGTTTTTCCTGGAAACGCCGCTAATGC
Found at i:24939966 original size:39 final size:40
Alignment explanation
Indices: 24939906--24939985 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
24939896 CCGTTGTATT
* *
24939906 TTATTTTTTGCGGCGTTTTTCCTGGAAACGCCGCTAATGC
1 TTATTTTTTGAGGCGTATTTCCTGGAAACGCCGCTAATGC
** *
24939946 TTATTTTTTGAGGCG-ATTTCCTTTAAGCGCCGCTAATGC
1 TTATTTTTTGAGGCGTATTTCCTGGAAACGCCGCTAATGC
24939985 T
1 T
24939986 CGATTTTTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 21 0.60
40 14 0.40
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (40 bp):
TTATTTTTTGAGGCGTATTTCCTGGAAACGCCGCTAATGC
Found at i:24942444 original size:22 final size:22
Alignment explanation
Indices: 24942389--24942452 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
24942379 TTTTATATTT
*
24942389 ATTTAACCAAATATT-TTAATAA
1 ATTTAA-CAAATCTTATTAATAA
* *
24942411 A-TTAA-AATTCTTATTTATAA
1 ATTTAACAAATCTTATTAATAA
*
24942431 ATTTAACAAATCTTATGAATAA
1 ATTTAACAAATCTTATTAATAA
24942453 TAGAAATACG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 8 0.24
22 13 0.39
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTAACAAATCTTATTAATAA
Found at i:24951548 original size:2 final size:2
Alignment explanation
Indices: 24951541--24952319 Score: 1558
Period size: 2 Copynumber: 389.5 Consensus size: 2
24951531 GTAAACAGCC
24951541 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951583 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951625 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951667 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951709 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951751 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951793 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951835 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951877 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951919 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24951961 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24952003 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24952045 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24952087 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24952129 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24952171 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24952213 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24952255 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24952297 AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
24952320 ATGAGTGTAC
Statistics
Matches: 777, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 777 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24960209 original size:17 final size:18
Alignment explanation
Indices: 24960176--24960211 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24960166 TTTATAAAAT
24960176 ATAAAATATATTAATTTA
1 ATAAAATATATTAATTTA
*
24960194 ATAAAA-ATATTTATTTA
1 ATAAAATATATTAATTTA
24960211 A
1 A
24960212 ATTAGTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAAATATATTAATTTA
Found at i:24962004 original size:40 final size:40
Alignment explanation
Indices: 24961919--24962054 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
24961909 CGTTTGAATT
* * *
24961919 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAAATCAAGCATTAGTGGCGATTTTAC
* * *
24961959 AAAAACGCCGCTAAAGATCGAGCATTAGTGGCGAATTTT-G
1 AAAAACGCCGCTAAAAATCAAGCATTAGTGGCG-ATTTTAC
* * * *
24961999 GAAAACACCGCCAAAAAT-AAGCATTAGTGGCG-TTTTCC
1 AAAAACGCCGCTAAAAATCAAGCATTAGTGGCGATTTTAC
*
24962037 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCTAAAAA
24962055 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 4 0.05
38 4 0.05
39 23 0.29
40 43 0.55
41 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGTGGCGATTTTAC
Found at i:24962155 original size:41 final size:42
Alignment explanation
Indices: 24962094--24962279 Score: 211
Period size: 41 Copynumber: 4.5 Consensus size: 42
24962084 TTTTGGGGCA
*
24962094 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCCTG-CC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCTGACC
* * ** *
24962135 TTTAGCGGCTTTTTTAAAAAATTGCCGCTAATGCTTCTGACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCTGACC
* * * * *
24962177 TTTAGCGACGTTATTGATAAAGCGCCGGTAATGCTCGTG-CC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCTGACC
* *
24962218 TTTAGTGGCGTTTCTGAAAAAAGCGCCGCTAATG---CTGACC
1 TTTAGCGGCGTTTTTG-AAAAAGCGCCGCTAATGCTCCTGACC
24962258 TTTAGCGGCGTTTTTGAAAAAG
1 TTTAGCGGCGTTTTTGAAAAAG
24962280 TGTTGCTAAT
Statistics
Matches: 118, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 8 0.07
40 16 0.14
41 48 0.41
42 46 0.39
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCCTGACC
Found at i:24962238 original size:83 final size:81
Alignment explanation
Indices: 24962107--24962279 Score: 213
Period size: 83 Copynumber: 2.1 Consensus size: 81
24962097 AGCGGCATTT
* * **
24962107 TTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGGC-TTTTTTAAAAAATTGCCGCTAATGCTT
1 TTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGGCGTTTCTAAAAAAAGCGCCGCTAATG---
24962171 CTGACCTTTAGCGACGTTA
63 CTGACCTTTAGCGACGTTA
* * * * *
24962190 TTGATAAAGCGCCGGTAATGCTCGTGCCTTTAGTGGCGTTTCTGAAAAAAGCGCCGCTAATGCTG
1 TTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGGCGTTTCTAAAAAAAGCGCCGCTAATGCTG
* *
24962255 ACCTTTAGCGGCGTTT
66 ACCTTTAGCGACGTTA
24962271 TTGAAAAAG
1 TTGAAAAAG
24962280 TGTTGCTAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 25 0.32
83 33 0.42
84 20 0.26
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (81 bp):
TTGAAAAAGCGCCGCTAATGCTCCTGCCTTTAGCGGCGTTTCTAAAAAAAGCGCCGCTAATGCTG
ACCTTTAGCGACGTTA
Found at i:24963432 original size:10 final size:10
Alignment explanation
Indices: 24963417--24963444 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
24963407 TAATGCTTTT
24963417 ATATTTAAAA
1 ATATTTAAAA
24963427 ATATTTAAAA
1 ATATTTAAAA
24963437 ATATTTAA
1 ATATTTAA
24963445 TCTAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:24969951 original size:42 final size:43
Alignment explanation
Indices: 24969764--24970057 Score: 344
Period size: 42 Copynumber: 6.9 Consensus size: 43
24969754 TTTCTGTGAG
* * * **
24969764 AAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTTTGACAAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT-AGGAA
* * * * *
24969807 AAGCGTCGCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
* **
24969850 AAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTATAAAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTA-GGAA
*
24969894 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGTGTTTG-AGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
* * * *
24969936 AAGCGCCACTAAAGGTCTTGGTCTTTAGTGGCATTTGTCGG-A
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
* * *
24969978 AAGCGCTGTTAAAGGTCTTGGTCTTTAGCGGCATTTGT-GGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
*
24970020 AAGCGCCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGT
24970058 TTCTAAAAAC
Statistics
Matches: 215, Mismatches: 32, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 105 0.49
43 55 0.26
44 53 0.25
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGAA
Found at i:24970176 original size:22 final size:22
Alignment explanation
Indices: 24970148--24970190 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24970138 TAGCGGCGCT
*
24970148 AAAAAGCGCCACTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
24970170 AAAAAGCGCCACTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
24970191 GTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:24972756 original size:21 final size:21
Alignment explanation
Indices: 24972731--24972774 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
24972721 ATCTTCGAGG
24972731 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24972752 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24972773 AT
1 AT
24972775 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:24972780 original size:19 final size:19
Alignment explanation
Indices: 24972730--24972785 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
24972720 AATCTTCGAG
24972730 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24972749 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
24972770 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
24972786 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24972792 original size:22 final size:23
Alignment explanation
Indices: 24972743--24972808 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
24972733 ATGCAATCTT
*
24972743 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
24972764 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
24972786 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
24972809 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:24972818 original size:22 final size:23
Alignment explanation
Indices: 24972774--24972818 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24972764 AGATATGATA
*
24972774 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
24972797 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
24972819 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:24973016 original size:19 final size:21
Alignment explanation
Indices: 24972992--24973030 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
24972982 GTTTTCTTTT
*
24972992 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
24973011 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
24973031 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:24976395 original size:26 final size:26
Alignment explanation
Indices: 24976366--24976417 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
24976356 AAAATATAAT
*
24976366 AAAAAATGAACTCAAAGTCATGAGTG
1 AAAAAATAAACTCAAAGTCATGAGTG
24976392 AAAAAATAAACTCAAAGTCATGAGTG
1 AAAAAATAAACTCAAAGTCATGAGTG
24976418 CCATGGCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (26 bp):
AAAAAATAAACTCAAAGTCATGAGTG
Found at i:24978083 original size:15 final size:15
Alignment explanation
Indices: 24978063--24978097 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
24978053 AATCGCCCGT
24978063 GAAGACTACACCGAA
1 GAAGACTACACCGAA
24978078 GAAGACTACACCGAA
1 GAAGACTACACCGAA
24978093 GAAGA
1 GAAGA
24978098 ATGGGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.23, T:0.06
Consensus pattern (15 bp):
GAAGACTACACCGAA
Found at i:24998181 original size:24 final size:24
Alignment explanation
Indices: 24998138--24998187 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
24998128 TTTTTCTTCA
24998138 TTGCATTTGGAGTTCCAGAAGTGT
1 TTGCATTTGGAGTTCCAGAAGTGT
*
24998162 TTGCATTTAGGA-TTCTAGAAGTGT
1 TTGCATTT-GGAGTTCCAGAAGTGT
24998186 TT
1 TT
24998188 TTTTCTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.42
Consensus pattern (24 bp):
TTGCATTTGGAGTTCCAGAAGTGT
Found at i:24998824 original size:123 final size:123
Alignment explanation
Indices: 24998590--24998960 Score: 627
Period size: 123 Copynumber: 3.0 Consensus size: 123
24998580 TTTTTTTAAG
** *
24998590 AACACTTTTTTATCGCAACAACAATGGAGAATTAGCCCTAAAAACTAGTAAAGTCCAAACCAAAG
1 AACACTTTTAAATC-CAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAG
*
24998655 TCCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATAATTGCCCATA
65 TCCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATCATTGCCCATA
24998714 AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAGT
1 AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAGT
24998779 CCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATCATTGCCCATA
66 CCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATCATTGCCCATA
*
24998837 AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGCCCAAACCAAAGT
1 AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAGT
* * * * *
24998902 CCACAGATGGTAATCACAAATGATGTGACTA-AGAGACTTACGTATATCATTGCCCATA
66 CCACAAATGGTAATCACACATGATGTGACTAGA-AAACCTATGTATATCATTGCCCATA
24998960 A
1 A
24998961 TAAGTTTCGA
Statistics
Matches: 236, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
122 1 0.00
123 223 0.94
124 12 0.05
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.23
Consensus pattern (123 bp):
AACACTTTTAAATCCAACAACAATGGAGAATTAGCCCTAACAACTAGTAAAGTCCAAACCAAAGT
CCACAAATGGTAATCACACATGATGTGACTAGAAAACCTATGTATATCATTGCCCATA
Found at i:24999368 original size:24 final size:24
Alignment explanation
Indices: 24999341--24999390 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
24999331 AAAAGAATGA
24999341 GAAAAGACGAAAATTGTTATTTTG
1 GAAAAGACGAAAATTGTTATTTTG
24999365 GAAAAGACGAAAATTGTTATTTTG
1 GAAAAGACGAAAATTGTTATTTTG
24999389 GA
1 GA
24999391 TTTTTAGGTG
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:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (24 bp):
GAAAAGACGAAAATTGTTATTTTG
Found at i:25010050 original size:27 final size:27
Alignment explanation
Indices: 25010012--25010066 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
25010002 AGGGGTTAAA
25010012 TGTCCAAATTTCATCACTTACAATAAC
1 TGTCCAAATTTCATCACTTACAATAAC
25010039 TGTCCAAATTTCATCACTTACAATAAC
1 TGTCCAAATTTCATCACTTACAATAAC
25010066 T
1 T
25010067 TTCTCATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (27 bp):
TGTCCAAATTTCATCACTTACAATAAC
Found at i:25011107 original size:185 final size:187
Alignment explanation
Indices: 25010749--25011145 Score: 576
Period size: 185 Copynumber: 2.2 Consensus size: 187
25010739 CATACTACTG
** *
25010749 CTGTAAAAGCTTTTAGTCTTTGAC---T--TTTAGAACTGGTAAACCTGTCTTTTATGTTCATCA
1 CTGTAAAAGCTTTTAGTCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATATTCATCA
* * *
25010809 TCTCTTGATAATATCAGATTTAGATCATCCTAGCAGTGTCATTGAACACCGCAAAAATCCCTAAG
66 TCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGCAAAAATCCCTAAG
* *
25010874 CCTGTTATGCCACATTATTCATGTGCTATTAGGTCATCCTACCAGTGTCATTGAACA
131 CCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAACA
* * *
25010931 CTGTAAAAGCTTTTAGTCTTCGACTTTTAGTTTAGAACTGGTAGACCTACCTTTTATATTCATTA
1 CTGTAAAAGCTTTTAGTCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATATTCATCA
* *
25010996 TCTCATGATAATATCATATTTAGATCATCCTACCAGTGACATTG-A-A-CGCTAAAAATCCCTGA
66 TCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGC-AAAAATCCCTAA
* * *
25011058 TCTTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAGCA
130 GCCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAACA
*
25011116 CTGTAAAAGCTTTTAGCCTTTGACTTTTAG
1 CTGTAAAAGCTTTTAGTCTTTGACTTTTAG
25011146 AAATGGTAAA
Statistics
Matches: 191, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
182 23 0.12
184 3 0.02
185 94 0.49
186 1 0.01
187 70 0.37
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (187 bp):
CTGTAAAAGCTTTTAGTCTTTGACTTTTAGTTTAGAACTGGTAAACCTACCTTTTATATTCATCA
TCTCATGATAATATCAGATTTAGATCATCCTACCAGTGACATTGAACACCGCAAAAATCCCTAAG
CCTGTTATGCCACATTATTCACGCGCTATTAGGTCATCCTACCAGTGTCATTGAACA
Found at i:25015934 original size:94 final size:89
Alignment explanation
Indices: 25015792--25016084 Score: 246
Period size: 94 Copynumber: 3.3 Consensus size: 89
25015782 GACTTAAAAT
* * * *
25015792 GCTAGCAATGGCTCTGCTATTGACTTAGCTAGTAGTACCCTCGAAGGGTGTGTGTCGTTTTAACT
1 GCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAATACCCTCGAAGGGTGTGTGT--TGTT---T
25015857 TAATGAAATTTGGCTAAGTGCCTTTGAAG
61 TAATGAAATTTGGCTAAGTGCCTTTGAAG
* *
25015886 GCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAATATCCGT-GGAGGGTGTGTGTTGTTTTAAT
1 GCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAATA-CCCTCGAAGGGTGTGTGTTGTTTTAAT
25015950 GAAATTTGGCTAAGTGCC-TT-ATA-
65 GAAATTTGGCTAAGTGCCTTTGA-AG
** * * ** *
25015973 G-TAG---TGGCTTTGCTATT-AGCTTAGCTAGCAGTGCCCTCGAAGGGTGCATG-TGTTTTAAC
1 GCTAGCAATGGCCCTGCTATTGA-CTTAGCTAGCAATACCCTCGAAGGGTGTGTGTTGTTTTAAT
* * **
25016032 GAAATTTGTCTAACTGCCTTAAAAG
65 GAAATTTGGCTAAGTGCCTTTGAAG
* * * * *
25016057 GATAGTATTGGCACTGCTATTAACTTAG
1 GCTAGCAATGGCCCTGCTATTGACTTAG
25016085 GGCCACTTCT
Statistics
Matches: 167, Mismatches: 20, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
82 28 0.17
83 34 0.20
84 2 0.01
85 3 0.02
86 3 0.02
87 2 0.01
88 19 0.11
89 24 0.14
92 3 0.02
94 46 0.28
95 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (89 bp):
GCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAATACCCTCGAAGGGTGTGTGTTGTTTTAATG
AAATTTGGCTAAGTGCCTTTGAAG
Found at i:25016138 original size:13 final size:13
Alignment explanation
Indices: 25016099--25016164 Score: 96
Period size: 13 Copynumber: 5.1 Consensus size: 13
25016089 ACTTCTTCAT
25016099 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
25016112 TGCTCTGGAAAAG
1 TGCTTTTGAAAAG
*
25016125 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
25016138 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
25016151 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
25016164 T
1 T
25016165 TTGATTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:25026688 original size:41 final size:41
Alignment explanation
Indices: 25026631--25026834 Score: 293
Period size: 41 Copynumber: 5.0 Consensus size: 41
25026621 GCATATTCGG
* *
25026631 ATCACCGGTACTTAGCCTGCTAGGTTTATAACCTGATTAAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * * *
25026672 ATCACCGGTACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
25026713 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * * *
25026754 ATCATCGACACTTAGCCTGCTAGGCTTATAGA-CTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATA-ACCTGATTCAT
*
25026795 ATCACCGGCACTTAGCCTGCTAGGTGTATAACCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
25026835 ATTCACCAAT
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 143 0.99
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:25026730 original size:82 final size:82
Alignment explanation
Indices: 25026625--25026841 Score: 346
Period size: 82 Copynumber: 2.6 Consensus size: 82
25026615 AATTTAGCAT
* * **
25026625 ATTCGGATCACCGGTACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGTACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGACACTTAGCCT
*
25026690 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGACTG
* *
25026707 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCATCGACACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGACACTTAGCCT
25026772 GCTAGGCTTATAGACTG
66 GCTAGGCTTATAGACTG
*
25026789 ATTCAGATCACCGGCACTTAGCCTGCTAGGTGTATAACCTGATTCAAT-TCACC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-AATATCACC
25026842 AATTCTAAAC
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
82 122 0.98
83 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (82 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGACACTTAGCCT
GCTAGGCTTATAGACTG
Found at i:25029540 original size:39 final size:39
Alignment explanation
Indices: 25029485--25029591 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
25029475 TTTTAGGTGA
* *
25029485 TCAATTATTTTCTAGAAGTGAATTGTAAGGTTCA-TCAGT
1 TCAATCATTTTCTAGAATTGAATTGTAAGGTTCATTCA-T
* * * *
25029524 TCAATCATTTTTTAGAATTGAATTAGAAAGGTTGATTTAT
1 TCAATCATTTTCTAGAATTGAATT-GTAAGGTTCATTCAT
25029564 TCAATCATTTTCTAGAATTGAATTGTAA
1 TCAATCATTTTCTAGAATTGAATTGTAA
25029592 AGTTGATCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 24 0.41
40 32 0.55
41 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (39 bp):
TCAATCATTTTCTAGAATTGAATTGTAAGGTTCATTCAT
Found at i:25031183 original size:23 final size:23
Alignment explanation
Indices: 25031135--25031185 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
25031125 TTCAATTAGC
* **
25031135 AAATATATTTTTAAAAACTACAA
1 AAATATATTATTAAAAAAAACAA
25031158 AAATATATTATTAAAAAAAACTAA
1 AAATATATTATTAAAAAAAAC-AA
25031182 AAAT
1 AAAT
25031186 CACATGCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATATATTATTAAAAAAAACAA
Found at i:25031613 original size:45 final size:44
Alignment explanation
Indices: 25031533--25031637 Score: 114
Period size: 45 Copynumber: 2.5 Consensus size: 44
25031523 TTAAGTCCTC
*
25031533 AAATTATTAT--TTT-AAAAAAAATTAATTTAGAATTTTT-TAA
1 AAATTATTATAATTTAAAAAAAAATAAATTTAGAATTTTTATAA
*
25031573 AAATTATTATAATTTAAAAAAAACATAAACTTTTGAATTTTTATAA
1 AAATTATTATAATTTAAAAAAAA-ATAAA-TTTAGAATTTTTATAA
*
25031619 ATATT-TTGA-AATTTAAAAA
1 AAATTATT-ATAATTTAAAAA
25031638 TTATTTTGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
40 10 0.18
42 3 0.05
43 7 0.13
44 4 0.07
45 23 0.42
46 8 0.15
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (44 bp):
AAATTATTATAATTTAAAAAAAAATAAATTTAGAATTTTTATAA
Found at i:25031627 original size:19 final size:20
Alignment explanation
Indices: 25031603--25031650 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
25031593 AAACATAAAC
*
25031603 TTTTGAATTTTTATAAA-TA
1 TTTTGAATTTTTAAAAATTA
*
25031622 TTTTGAA-ATTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
25031641 TTTTGAATTT
1 TTTTGAATTT
25031651 CTTTTTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.29
19 16 0.67
20 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:25045302 original size:19 final size:20
Alignment explanation
Indices: 25045258--25045307 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
25045248 CCTTATATAT
25045258 TTTTTATAATATTTTTACTGA
1 TTTTTATAATATTTTTA-TGA
* *
25045279 TTTTTATAGTATTTTT-TTA
1 TTTTTATAATATTTTTATGA
25045298 TTTTTATAAT
1 TTTTTATAAT
25045308 TTTGGAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
21 15 0.58
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTTATAATATTTTTATGA
Found at i:25048213 original size:31 final size:31
Alignment explanation
Indices: 25048178--25048239 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
25048168 TGATCAATCA
25048178 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
1 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
*
25048209 TATGTTTTGTGTCATTAAGTTTTTCGAGTCT
1 TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
25048240 ATTATGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.55
Consensus pattern (31 bp):
TATGTTTTGTGTCATTAAGTTTTTCAAGTCT
Found at i:25048230 original size:15 final size:15
Alignment explanation
Indices: 25048181--25048231 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
25048171 TCAATCATAT
25048181 GTTTTGTGTCATTAA
1 GTTTTGTGTCATTAA
*
25048196 GTTTT-TCAAGTC-TTAT
1 GTTTTGT---GTCATTAA
25048212 GTTTTGTGTCATTAA
1 GTTTTGTGTCATTAA
25048227 GTTTT
1 GTTTT
25048232 TCGAGTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 8 0.28
17 4 0.14
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.57
Consensus pattern (15 bp):
GTTTTGTGTCATTAA
Found at i:25048232 original size:16 final size:16
Alignment explanation
Indices: 25048182--25048232 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
25048172 CAATCATATG
25048182 TTTTGTGTCATTAAGT
1 TTTTGTGTCATTAAGT
** *
25048198 TTTTCAAGTC-TTATG-
1 TTTT-GTGTCATTAAGT
25048213 TTTTGTGTCATTAAGT
1 TTTTGTGTCATTAAGT
25048229 TTTT
1 TTTT
25048233 CGAGTCTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
14 3 0.12
15 8 0.31
16 12 0.46
17 3 0.12
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (16 bp):
TTTTGTGTCATTAAGT
Found at i:25052632 original size:21 final size:21
Alignment explanation
Indices: 25052598--25052638 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25052588 TCTGAAAAGA
25052598 CGAAATTATATTATTGTATTCT
1 CGAAATTATATTATT-TATTCT
25052620 CGAAATT-TATTATTTATTC
1 CGAAATTATATTATTTATTC
25052639 CAATAATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (21 bp):
CGAAATTATATTATTTATTCT
Found at i:25059041 original size:114 final size:112
Alignment explanation
Indices: 25058564--25059180 Score: 718
Period size: 113 Copynumber: 5.5 Consensus size: 112
25058554 GTAAAAAATG
* * * * * * *
25058564 TTAACCAAAACGCATCGTTTGGTCTTGAGGTATGTTAGTATTTGTGGCGTTTATGAAAAACGTCG
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCG
* * * ** * *
25058629 CTATAGCATATTATCAGCGGCGTTTTGCACGAAACGCCGCAAAAAATG
66 CTATAGCATAGTATTAGCGGCGCTTTATA-GAAACGCCGCAAAATATC
** * * * *
25058677 TTAACCAAAACGCATTGTTTGGTCTTGAGGTATATTAGAACTGGTGGCGCTAACTAAAAACGCCG
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCG
* * * * * *
25058742 CTATAGGATAGTATTAGCGGCGTTTTGTACAAAACGTCGCAAAATATG
66 CTATAGCATAGTATTAGCGGCGCTTTATA-GAAACGCCGCAAAATATC
* * * *
25058790 TTAACCAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTCCAAAAAAAGCCG
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCG
* * *
25058855 CTATAGGATAGTATTAGCGGCG-TTTTTATGAAACGCCGCAACATATC
66 CTATAGCATAGTATTAGCGGCGCTTTATA-GAAACGCCGCAAAATATC
* * * *
25058902 TTAACCAAAACGCAGCGTTTGGTCTTTAGGTATATTAGAGTTAGTGGCGCTTAGGGACAAACGCC
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA-CGAAAAACGCC
*
25058967 GCTATAGCATAGTATTAGCGGCGCTTTATAGAAAACGCCGCAAAGTATC
65 GCTATAGCATAGTATTAGCGGCGCTTTATAG-AAACGCCGCAAAATATC
* * *
25059016 TTAACCAAAACGCAGCGTTTAGTCTTCAGGTATATTAGAATTAGTGGCGCTTATTGAAAAACGCC
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTA-CGAAAAACGCC
* *
25059081 GCTAAAGCAGAGTATTAGCGGCGCTGTGTA-AGAAACGCCG-AAAAGTATC
65 GCTATAGCATAGTATTAGCGGCGCT-T-TATAGAAACGCCGCAAAA-TATC
* * *
25059130 TTAACCAAAACGCAGCGTTTGGTCTTGATGTCTATTAGAATTAGTAGCGCT
1 TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
25059181 CATGTAAAAG
Statistics
Matches: 440, Mismatches: 58, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
112 68 0.15
113 207 0.47
114 160 0.36
115 3 0.01
116 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (112 bp):
TTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAAAAACGCCG
CTATAGCATAGTATTAGCGGCGCTTTATAGAAACGCCGCAAAATATC
Found at i:25061551 original size:89 final size:89
Alignment explanation
Indices: 25061400--25061602 Score: 370
Period size: 89 Copynumber: 2.3 Consensus size: 89
25061390 TTTTGAAAAA
*
25061400 CACATTACTTGGTATTCTGTTTTGGCACAACACTTACGCAAATGACTTTGTGGATTACTTGGTAT
1 CACATTACTTGGTATTCTGTTTTGGCACAACACTTAAGCAAATGACTTTGTGGATTACTTGGTAT
25061465 TCTGTTTTGGTAGGATTGTTTTGG
66 TCTGTTTTGGTAGGATTGTTTTGG
* * *
25061489 CACATTACTTGGTAATCTGTTTTGGCACAACAGTTAAGCAAATGGCTTTGTGGATTACTTGGTAT
1 CACATTACTTGGTATTCTGTTTTGGCACAACACTTAAGCAAATGACTTTGTGGATTACTTGGTAT
25061554 TCTGTTTTGGTAGGATTGTTTTGG
66 TCTGTTTTGGTAGGATTGTTTTGG
25061578 CACATTACTTGGTATTCTGTTTTGG
1 CACATTACTTGGTATTCTGTTTTGG
25061603 TACTCTGTTT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 109 1.00
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (89 bp):
CACATTACTTGGTATTCTGTTTTGGCACAACACTTAAGCAAATGACTTTGTGGATTACTTGGTAT
TCTGTTTTGGTAGGATTGTTTTGG
Found at i:25061604 original size:13 final size:13
Alignment explanation
Indices: 25061586--25061616 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25061576 GGCACATTAC
*
25061586 TTGGTATTCTGTT
1 TTGGTACTCTGTT
25061599 TTGGTACTCTGTT
1 TTGGTACTCTGTT
25061612 TTGGT
1 TTGGT
25061617 CGGGTTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.10, G:0.26, T:0.58
Consensus pattern (13 bp):
TTGGTACTCTGTT
Found at i:25061839 original size:21 final size:21
Alignment explanation
Indices: 25061815--25061868 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
25061805 GAGGCCGCAA
*
25061815 CGAGGGAAGCAGAGGTTACAG
1 CGAGAGAAGCAGAGGTTACAG
*
25061836 CGAGAGAAGCAGAGGTTGCAG
1 CGAGAGAAGCAGAGGTTACAG
*
25061857 CGAGAAAAGCAG
1 CGAGAGAAGCAG
25061869 CAAGAGAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.41, T:0.07
Consensus pattern (21 bp):
CGAGAGAAGCAGAGGTTACAG
Found at i:25061880 original size:33 final size:33
Alignment explanation
Indices: 25061833--25061901 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
25061823 GCAGAGGTTA
* *
25061833 CAGCGAGAGAAGCAGAGGTTGCAGCGAGAAAAG
1 CAGCAAGAGAAGCAGAGGCTGCAGCGAGAAAAG
* *
25061866 CAGCAAGAGAAGCAGAGGCTGCAGCTAGAGAAG
1 CAGCAAGAGAAGCAGAGGCTGCAGCGAGAAAAG
25061899 CAG
1 CAG
25061902 AGGTTCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.38, T:0.06
Consensus pattern (33 bp):
CAGCAAGAGAAGCAGAGGCTGCAGCGAGAAAAG
Found at i:25061895 original size:21 final size:21
Alignment explanation
Indices: 25061865--25061904 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25061855 AGCGAGAAAA
25061865 GCAGCAAGAGAAGCAGAGGCT
1 GCAGCAAGAGAAGCAGAGGCT
*
25061886 GCAGCTAGAGAAGCAGAGG
1 GCAGCAAGAGAAGCAGAGG
25061905 TTCAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.40, T:0.05
Consensus pattern (21 bp):
GCAGCAAGAGAAGCAGAGGCT
Found at i:25062343 original size:43 final size:44
Alignment explanation
Indices: 25062290--25062396 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 44
25062280 CGTTTTCTGT
* * *
25062290 AAAAGTGCCGCTAAAAG-TCATGTTC-TATAGCGGCGTTTGTGAA
1 AAAAGCGCCGCTAAAAGAACAT-TTCTTATAGCGACGTTTGTGAA
* *
25062333 AAAAGCGCCGCT-AAAGAACATTTCTTTTCGCGACGTTTGTGAA
1 AAAAGCGCCGCTAAAAGAACATTTCTTATAGCGACGTTTGTGAA
**
25062376 TCAAGCGCCGCT-AAAGAACAT
1 AAAAGCGCCGCTAAAAGAACAT
25062397 GATCTTTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 7 0.13
43 48 0.87
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (44 bp):
AAAAGCGCCGCTAAAAGAACATTTCTTATAGCGACGTTTGTGAA
Found at i:25062437 original size:42 final size:42
Alignment explanation
Indices: 25062378--25062619 Score: 337
Period size: 42 Copynumber: 5.7 Consensus size: 42
25062368 TTTGTGAATC
25062378 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
*
25062420 AAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTT-ATT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-TTTTTTCATT
* *
25062462 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTGCATT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
* * * *
25062504 AAGCGCCGCTAAAGAACATGATCTTTAACGGCGTTTCTCTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
*
25062546 AAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTT--TCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGC-T-TTTTTCAT-T
* *
25062589 AAGCGCCACTAAAGAACATGACCTTTAGCGG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGG
25062620 TGTTTTTTTT
Statistics
Matches: 180, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
41 4 0.02
42 137 0.76
43 35 0.19
44 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTTTCATT
Found at i:25062527 original size:126 final size:127
Alignment explanation
Indices: 25062335--25062625 Score: 408
Period size: 126 Copynumber: 2.3 Consensus size: 127
25062325 TTTGTGAAAA
* * *
25062335 AAGCGCCGCTAAAGAACAT-TTCTTTTCGCGACGTTTGTGAATCAAGCGCCGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTT-TGAATCAAGCGCCGCTAAAGAACATGA
* * * *
25062399 TCTTTAGCGGCTTTTTTCATTAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGT-TTTTTAT-T
64 TCTTTAACGGCGTTTCTCATTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTT-TCT
* *
25062462 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTGCATTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTGAATCAAGCGCCGCTAAAGAACATGATC
* *
25062527 TTTAACGGCGTTTCTCTTTAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCT
66 TTTAACGGCGTTTCTCATTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCT
* * *
25062589 AAGCGCCACTAAAGAACATGACCTTTAGCGGTGTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
25062626 TTTTGGTAAA
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
126 75 0.51
127 70 0.48
128 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTGAATCAAGCGCCGCTAAAGAACATGATC
TTTAACGGCGTTTCTCATTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCT
Found at i:25064623 original size:12 final size:12
Alignment explanation
Indices: 25064606--25064642 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
25064596 TTTATTACAT
25064606 ATAATAGTAATA
1 ATAATAGTAATA
*
25064618 ATAATAGTAATT
1 ATAATAGTAATA
25064630 ATAATAGTAATA
1 ATAATAGTAATA
25064642 A
1 A
25064643 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGTAATA
Found at i:25065837 original size:19 final size:18
Alignment explanation
Indices: 25065803--25065843 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
25065793 AATGACAAAT
* *
25065803 ATGATAAATGAATATGAG
1 ATGAGAAATGAATATGAA
25065821 ATGAGAAATGAAATATGAA
1 ATGAGAAATG-AATATGAA
25065840 ATGA
1 ATGA
25065844 TGAATTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:25067324 original size:49 final size:49
Alignment explanation
Indices: 25067252--25067345 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
25067242 TCGAGAGGGA
25067252 ATAAATAGTGATAAGAGTGTAGACAATGGAA-AACCAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGAA-CAAGTTTAGCAATGT
*
25067301 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGAACAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAATGGAAGAACAAGTTTAGCA
25067346 TTGCATAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
49 41 0.95
50 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAATGGAAGAACAAGTTTAGCAATGT
Found at i:25069451 original size:7 final size:7
Alignment explanation
Indices: 25069430--25069467 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
25069420 GAGAATTTTA
25069430 TTATATT
1 TTATATT
25069437 TTAT-TT
1 TTATATT
25069443 TTATATT
1 TTATATT
*
25069450 TTAAATT
1 TTATATT
*
25069457 TTATAGT
1 TTATATT
25069464 TTAT
1 TTAT
25069468 CCAATTATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTATATT
Found at i:25074634 original size:28 final size:28
Alignment explanation
Indices: 25074603--25074661 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
25074593 TCGAGTCACT
*
25074603 TTTAAAAAAAATCTTTAACCCTTCAATC
1 TTTAAAAAAAATCTTTAAACCTTCAATC
*** * *
25074631 TTTATCCAATATCTTTAAATCTTCAATC
1 TTTAAAAAAAATCTTTAAACCTTCAATC
25074659 TTT
1 TTT
25074662 CAATCAAGCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (28 bp):
TTTAAAAAAAATCTTTAAACCTTCAATC
Found at i:25080380 original size:18 final size:18
Alignment explanation
Indices: 25080359--25080397 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25080349 GATTGAGAGT
* *
25080359 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
25080377 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
25080395 GAA
1 GAA
25080398 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:25088183 original size:21 final size:21
Alignment explanation
Indices: 25088159--25088214 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
25088149 CATTGTTTCT
25088159 AATCTCACTGCTACAGTACCC
1 AATCTCACTGCTACAGTACCC
25088180 AATCTCACTGCTACAGTACCC
1 AATCTCACTGCTACAGTACCC
*
25088201 AATCTCACCGCTAC
1 AATCTCACTGCTAC
25088215 CGTAATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.39, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACTGCTACAGTACCC
Found at i:25100976 original size:39 final size:39
Alignment explanation
Indices: 25100922--25101001 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
25100912 TACAATGTCA
25100922 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
1 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
*
25100961 TTGCTTCTTTTATTTCAGTGTTAAAATAGAGTATCTTCC
1 TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
25101000 TT
1 TT
25101002 ATTTGTGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (39 bp):
TTGCTTCTTTTATTTCAGTGTTAAAACAGAGTATCTTCC
Found at i:25105283 original size:28 final size:26
Alignment explanation
Indices: 25105230--25105283 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
25105220 TTAAGTAAAC
** *
25105230 ATATTATAATATATATGTTAACTTTA
1 ATATTATAATATATATAATAAATTTA
25105256 ATATTATAATATATATAAAATAAATTTA
1 ATATTATAATATATAT--AATAAATTTA
25105284 CACATGTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.70
28 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
ATATTATAATATATATAATAAATTTA
Found at i:25106506 original size:20 final size:20
Alignment explanation
Indices: 25106464--25106517 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
25106454 AAATCATTGT
* *
25106464 AAAATTAATTGAACTAATAA
1 AAAAATAATTGAATTAATAA
* *
25106484 AAAAATAATTGAATTGATTA
1 AAAAATAATTGAATTAATAA
* *
25106504 AAAACTATTTGAAT
1 AAAAATAATTGAAT
25106518 AGGATTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAAATAATTGAATTAATAA
Found at i:25107353 original size:19 final size:19
Alignment explanation
Indices: 25107305--25107353 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
25107295 ATGCAATTCA
* *
25107305 AAAT-ATCATAAAAATTAT
1 AAATAATCATTAAAACTAT
* *
25107323 AAAAAATTATTAAAACTAT
1 AAATAATCATTAAAACTAT
25107342 AAATAATCATTA
1 AAATAATCATTA
25107354 TTAATAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAATCATTAAAACTAT
Found at i:25107361 original size:25 final size:25
Alignment explanation
Indices: 25107328--25107377 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
25107318 ATTATAAAAA
* *
25107328 ATTATTAAAACTATAAATAATCATT
1 ATTAATAAAACTATAAATAACCATT
*
25107353 ATTAATAAAATTATAAATAACCATT
1 ATTAATAAAACTATAAATAACCATT
25107378 TTTCTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTAATAAAACTATAAATAACCATT
Found at i:25109506 original size:43 final size:43
Alignment explanation
Indices: 25109390--25109541 Score: 116
Period size: 43 Copynumber: 3.5 Consensus size: 43
25109380 TATGTAATAT
*
25109390 CATGTAAGACCACGTCTGGGAC-GTTGGCATCGATT-TGA-GATTTA
1 CATGTAAGACCACGTCTGGGACAG-AGGCATCG-TTAT-ATGA-TTA
** * * * * **
25109434 TGTGTAAGACCATGTTTGAGATATTGGCATCG-TATATGATTTA
1 CATGTAAGACCACGTCTGGGACAGAGGCATCGTTATATGA-TTA
* *
25109477 CGTGTAAGACC-CTGTCTGGGACAGAGGCATCGTTATTTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGAGGCATCGTTATATGATTA
25109520 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCACGTCTGGGAC
25109542 GCTGATATTG
Statistics
Matches: 86, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.02
43 53 0.62
44 31 0.36
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAGAGGCATCGTTATATGATTA
Found at i:25112458 original size:7 final size:7
Alignment explanation
Indices: 25112446--25112470 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25112436 ATTTATATAA
25112446 ATGAAAT
1 ATGAAAT
25112453 ATGAAAT
1 ATGAAAT
25112460 ATGAAAT
1 ATGAAAT
25112467 ATGA
1 ATGA
25112471 TGATTGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
ATGAAAT
Found at i:25116264 original size:97 final size:97
Alignment explanation
Indices: 25116098--25116488 Score: 766
Period size: 97 Copynumber: 4.0 Consensus size: 97
25116088 GGCTGGAAAA
25116098 ACAAATTGAGATG-CTCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAA
1 ACAAATTGAGATGAC-CAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAA
25116162 TTAACCTGTTAATGAGGATTTATGTAGACATAC
65 TTAACCTGTTAATGAGGATTTATGTAGACATAC
25116195 ACAAATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAAT
1 ACAAATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAAT
25116260 TAACCTGTTAATGAGGATTTATGTAGACATAC
66 TAACCTGTTAATGAGGATTTATGTAGACATAC
25116292 ACAAATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAAT
1 ACAAATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAAT
25116357 TAACCTGTTAATGAGGATTTATGTAGACATAC
66 TAACCTGTTAATGAGGATTTATGTAGACATAC
25116389 ACAAATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAAT
1 ACAAATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAAT
25116454 TAACCTGTTAATGAGGATTTATGTAGACATAC
66 TAACCTGTTAATGAGGATTTATGTAGACATAC
25116486 ACA
1 ACA
25116489 CTTCAGGAAA
Statistics
Matches: 293, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
97 292 1.00
98 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (97 bp):
ACAAATTGAGATGACCAATAATTTCTGTGATTATGGGCATTCTCACAAGTTGTTTCTTTTTAAAT
TAACCTGTTAATGAGGATTTATGTAGACATAC
Found at i:25130315 original size:37 final size:37
Alignment explanation
Indices: 25130251--25130345 Score: 147
Period size: 37 Copynumber: 2.6 Consensus size: 37
25130241 AGTACACAAG
* *
25130251 TAATCCAACCGA-AACACGCCAACTGCTCATAAGAGT
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
25130287 TAATCCACCCGATAACACGTCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
25130324 TAATCCAACCGATAACACGCCA
1 TAATCCAACCGATAACACGCCA
25130346 CGACAGTAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 11 0.21
37 41 0.79
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.17
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
Found at i:25132785 original size:16 final size:16
Alignment explanation
Indices: 25132764--25132795 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25132754 TTATGTGTTT
*
25132764 AAATAATATAATATAA
1 AAATAACATAATATAA
25132780 AAATAACATAATATAA
1 AAATAACATAATATAA
25132796 TATACTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAACATAATATAA
Found at i:25139006 original size:25 final size:26
Alignment explanation
Indices: 25138955--25139018 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
25138945 GGACTCTCTG
* *
25138955 AAGCTAGTGTAAGCAGCATCGAACT-
1 AAGCTAGTGTTAGCAACATCGAACTA
* * *
25138980 AAGCTAGTGTTAGCAACCTTGATCTA
1 AAGCTAGTGTTAGCAACATCGAACTA
25139006 AAGCTAGTGTTAG
1 AAGCTAGTGTTAG
25139019 TAGCCCGGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (26 bp):
AAGCTAGTGTTAGCAACATCGAACTA
Found at i:25153497 original size:17 final size:18
Alignment explanation
Indices: 25153470--25153505 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
25153460 GTTGTTGATA
25153470 TATTATCTTATTTTATTT
1 TATTATCTTATTTTATTT
25153488 TATT-TCTTATTTTATTT
1 TATTATCTTATTTTATTT
25153505 T
1 T
25153506 CTATCTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTATCTTATTTTATTT
Found at i:25154727 original size:18 final size:19
Alignment explanation
Indices: 25154704--25154741 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
25154694 TAGACTATTT
*
25154704 TTAATTAATGGTT-TTTTC
1 TTAATTAATGATTATTTTC
25154722 TTAATTAATGATTATTTTC
1 TTAATTAATGATTATTTTC
25154741 T
1 T
25154742 GGGAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (19 bp):
TTAATTAATGATTATTTTC
Found at i:25169528 original size:109 final size:109
Alignment explanation
Indices: 25169334--25169649 Score: 546
Period size: 109 Copynumber: 2.9 Consensus size: 109
25169324 AAAATTCAAG
* * *
25169334 AGGATATTTAGCAATTTGG-CTAAACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCTATTTGGTC-GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
25169398 ATTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTTAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTTAAA
25169443 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
* *
25169508 TTTTCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTTAAA
*
25169552 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
25169617 TTTCCAAATGCAAAATATTGCCTTA-TTTTGAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTTGAAA
25169650 TATTTCCCTT
Statistics
Matches: 197, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
108 8 0.04
109 188 0.95
110 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (109 bp):
AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTTGAAAAGTTTTTAAA
Found at i:25169958 original size:16 final size:15
Alignment explanation
Indices: 25169940--25169999 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
25169930 AATATGAAAA
25169940 TATATAAATTATAAG
1 TATATAAATTATAAG
*
25169955 -ATATAAAAATATAAG
1 TATAT-AAATTATAAG
* * *
25169970 TATTTACATATATATG
1 TATATAAAT-TATAAG
*
25169986 TATATAGATTATAA
1 TATATAAATTATAA
25170000 AATACAAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
14 4 0.12
15 15 0.44
16 15 0.44
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (15 bp):
TATATAAATTATAAG
Found at i:25170225 original size:3 final size:3
Alignment explanation
Indices: 25170217--25170258 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
25170207 TATAAAAACG
*
25170217 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25170259 GGACTAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:25171482 original size:20 final size:21
Alignment explanation
Indices: 25171445--25171484 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25171435 ATTTGACATA
* *
25171445 TAAAAAATTAATTAATATTTT
1 TAAAAAATAAAATAATATTTT
25171466 TAAAAAATAAAAT-ATATTT
1 TAAAAAATAAAATAATATTT
25171485 AGCATAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAAATAAAATAATATTTT
Found at i:25175537 original size:28 final size:28
Alignment explanation
Indices: 25175495--25175552 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
25175485 TTTTGAAGAA
* *
25175495 AAAAATATGTCTTGTAAAATGCGCTTTC
1 AAAAATATGTATTGTAAAACGCGCTTTC
25175523 AAAAATATGTATTGTAAAACGCGCTTTC
1 AAAAATATGTATTGTAAAACGCGCTTTC
25175551 AA
1 AA
25175553 TCAATAGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (28 bp):
AAAAATATGTATTGTAAAACGCGCTTTC
Found at i:25178152 original size:3 final size:3
Alignment explanation
Indices: 25178144--25178176 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
25178134 TTTTTAATCC
25178144 ATT ATT ATT ATT ATT ATT -TT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25178177 ATTCTAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Done.