Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 143 of 250
Found at i:46318678 original size:24 final size:24
Alignment explanation
Indices: 46318651--46318697 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
46318641 ATATGTTGAC
46318651 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
46318675 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
46318698 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:46318731 original size:24 final size:24
Alignment explanation
Indices: 46318661--46318723 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
46318651 ATTCAAATCA
* * * *
46318661 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
46318685 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
46318709 GCACACATAGTGCCA
1 GCACACATAGTGCCA
46318724 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:46326657 original size:24 final size:24
Alignment explanation
Indices: 46326630--46326676 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
46326620 ATATGTTGAC
46326630 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
46326654 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
46326677 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:46326710 original size:24 final size:24
Alignment explanation
Indices: 46326640--46326702 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
46326630 ATTCAAATCA
* * * *
46326640 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
46326664 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
46326688 GCACACATAGTGCCA
1 GCACACATAGTGCCA
46326703 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:46331334 original size:40 final size:40
Alignment explanation
Indices: 46331286--46331449 Score: 204
Period size: 40 Copynumber: 4.1 Consensus size: 40
46331276 CGGGATTTAA
*
46331286 CCGGATATAACAACTCTCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* *
46331326 CTGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46331366 CCGAATATAATC-GCTAGCATAAATGCCTTCGGGTCATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
46331406 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
46331446 CCGG
1 CCGG
46331450 TTATCATCTG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:46339589 original size:40 final size:40
Alignment explanation
Indices: 46339545--46339708 Score: 204
Period size: 40 Copynumber: 4.1 Consensus size: 40
46339535 CGGGATTTAA
*
46339545 CCGGATATAACAACTCGCACAAATGCCTTCGAGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* *
46339585 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGG
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
46339625 CCGGATATAATC-GCTAGCATAAATGCCTTCGGGTCATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46339665 CCGGATATAGCAACTTGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
46339705 CCGG
1 CCGG
46339709 TTATCATCCG
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:46341872 original size:38 final size:38
Alignment explanation
Indices: 46341807--46342033 Score: 283
Period size: 38 Copynumber: 5.9 Consensus size: 38
46341797 CACTCGATAC
* * * * *
46341807 ATATTCGGGTTAAGTCTCGCAGACTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAAT
* * *
46341845 ATATTCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAAT
* *
46341883 ATATCCGGGTTAAATCCTGCAGGCTTTGTGTTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAAT
*
46341921 ATATTCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAAT
* * * **
46341959 ATATCCGGGTTGAATCCCACAGGCTTAGTGCTGGTACC
1 ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAAT
*
46341997 ATATCCGAGCTTAAAGTCCCGCAGGCTTTGTGCTGGT
1 ATATCCG-GGTTAAA-TCCCGCAGGCTTTGTGCTGGT
46342034 GACTGGATTC
Statistics
Matches: 165, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 141 0.85
39 5 0.03
40 19 0.12
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAAT
Found at i:46345909 original size:29 final size:29
Alignment explanation
Indices: 46345848--46346040 Score: 131
Period size: 29 Copynumber: 6.7 Consensus size: 29
46345838 GATGGTTGTA
* ** * **
46345848 ACCATCCGTTTTCATGTTCGATGGTCGAA
1 ACCATCCCTTTTCATAATCGATGGCCGTC
46345877 ACCATCCCTTTTCATTAATCG-TGGCCGTC
1 ACCATCCCTTTTCA-TAATCGATGGCCGTC
* * * * *
46345906 ACCATCCTTTTTTATATTTGATGGTCGTC
1 ACCATCCCTTTTCATAATCGATGGCCGTC
* * * **
46345935 ACAATCCCTTTTCATAATCAATAGCC-AA
1 ACCATCCCTTTTCATAATCGATGGCCGTC
* * **
46345963 AGCTATCCCTTTTCATATTCGATGATCGTC
1 A-CCATCCCTTTTCATAATCGATGGCCGTC
* *
46345993 ACCATCCCTTTTCATAATCGATAGCCG-A
1 ACCATCCCTTTTCATAATCGATGGCCGTC
*
46346021 AGCTATCCCTTTTCATAATC
1 A-CCATCCCTTTTCATAATC
46346041 AATAGCCGAA
Statistics
Matches: 123, Mismatches: 36, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
28 6 0.05
29 112 0.91
30 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATCGATGGCCGTC
Found at i:46345981 original size:58 final size:58
Alignment explanation
Indices: 46345909--46346037 Score: 195
Period size: 58 Copynumber: 2.2 Consensus size: 58
46345899 GGCCGTCACC
* * * *
46345909 ATCCTTTTTTATATTTGATGGTCGTCACAATCCCTTTTCATAATCAATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATGATCGTCACAATCCCTTTTCATAATCAATAGCCAAAGCT
* * *
46345967 ATCCCTTTTCATATTCGATGATCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATGATCGTCACAATCCCTTTTCATAATCAATAGCCAAAGCT
46346025 ATCCCTTTTCATA
1 ATCCCTTTTCATA
46346038 ATCAATAGCC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 64 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (58 bp):
ATCCCTTTTCATATTCGATGATCGTCACAATCCCTTTTCATAATCAATAGCCAAAGCT
Found at i:46345993 original size:87 final size:87
Alignment explanation
Indices: 46345880--46346123 Score: 228
Period size: 87 Copynumber: 2.8 Consensus size: 87
46345870 GGTCGAAACC
* * * * * * * *
46345880 ATCCCTTTTCATTAATCGTGGCCGTCACCATCCTTTTTTATATTTGATGGTCGTCA-CAATCCCT
1 ATCCCTTTTCATTAATCGTGACCGTCACCATCCCTTTTCATAATCGATAGCCG-AAGCAATCCCT
46345944 TTTCATAATCAATAGCCAAAGCT
65 TTTCATAATCAATAGCCAAAGCT
* * *
46345967 ATCCCTTTTCA-TATTCGATGATCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCT
1 ATCCCTTTTCATTAATCG-TGACCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCAATCCCT
* *
46346031 TTTCATAATCAATAGCCGAAGTT
65 TTTCATAATCAATAGCCAAAGCT
* * * * * **
46346054 ATCCCTTTTCA-CAATCGAT-AGCCG-AAGCTATCCCTGTTCATAATCAATAGCCGAAGTTATCC
1 ATCCCTTTTCATTAATCG-TGA-CCGTCA-CCATCCCTTTTCATAATCGATAGCCGAAGCAATCC
46346116 CTTTTCAT
63 CTTTTCAT
46346124 TGGTCGATGA
Statistics
Matches: 132, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
86 8 0.06
87 124 0.94
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.35
Consensus pattern (87 bp):
ATCCCTTTTCATTAATCGTGACCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCAATCCCTT
TTCATAATCAATAGCCAAAGCT
Found at i:46346045 original size:29 final size:29
Alignment explanation
Indices: 46345938--46346123 Score: 232
Period size: 29 Copynumber: 6.4 Consensus size: 29
46345928 GGTCGTCACA
*
46345938 ATCCCTTTTCATAATCAATAGCCAAAGCT
1 ATCCCTTTTCATAATCAATAGCCGAAGCT
* * * * *
46345967 ATCCCTTTTCATATTCGAT-GATCGTCA-CC
1 ATCCCTTTTCATAATCAATAG-CCG-AAGCT
*
46345996 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCAATAGCCGAAGCT
*
46346025 ATCCCTTTTCATAATCAATAGCCGAAGTT
1 ATCCCTTTTCATAATCAATAGCCGAAGCT
* *
46346054 ATCCCTTTTCACAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCAATAGCCGAAGCT
* *
46346083 ATCCCTGTTCATAATCAATAGCCGAAGTT
1 ATCCCTTTTCATAATCAATAGCCGAAGCT
46346112 ATCCCTTTTCAT
1 ATCCCTTTTCAT
46346124 TGGTCGATGA
Statistics
Matches: 133, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.02
29 129 0.97
30 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (29 bp):
ATCCCTTTTCATAATCAATAGCCGAAGCT
Found at i:46360024 original size:40 final size:40
Alignment explanation
Indices: 46359882--46360115 Score: 250
Period size: 40 Copynumber: 5.8 Consensus size: 40
46359872 AACTTCACAC
* * *
46359882 AATGCCTTCGGGACATAA-CCAGATTTAACAACTCGC-CG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46359920 ACTGCCTTCGGGA-TTAAACCCGGATTTAATAACTCGCACACATACA
1 AATGCCTTCGGGACTT-AACCCGGATTTAATAACTCG----C--ACG
46359966 AATGCCTTCGGGAC-TAACCCGGATTTAATAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAAT-AACTCGCACG
*
46360006 AATGCCTTC-GGACTTAACCCGGATTTAGT-ACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46360044 AATGCCTTC-GGATCTTAATCCGGATATAATAACTCGCACG
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCGCACG
*
46360084 AATGCCTTCGGGACTTAA-CCGGATTTAGTAAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAAC
46360116 CACCACAGCA
Statistics
Matches: 168, Mismatches: 13, Indels: 29
0.80 0.06 0.14
Matches are distributed among these distances:
37 1 0.01
38 35 0.21
39 45 0.27
40 48 0.29
41 3 0.02
42 1 0.01
43 1 0.01
45 14 0.08
46 20 0.12
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46360086 original size:78 final size:78
Alignment explanation
Indices: 46359966--46360113 Score: 230
Period size: 78 Copynumber: 1.9 Consensus size: 78
46359956 CACACATACA
*
46359966 AATGCCTTCGGGACTAACCCGGATTTAATAAACTCGCACGAATGCCTTC-GGACTTAACCCGGAT
1 AATGCCTTCGGGACTAACCCGGATATAATAAACTCGCACGAATGCCTTCGGGACTTAA-CCGGAT
46360030 TTAGTACTCGCACG
65 TTAGTACTCGCACG
*
46360044 AATGCCTTC-GGATCTTAATCCGGATATAAT-AACTCGCACGAATGCCTTCGGGACTTAACCGGA
1 AATGCCTTCGGGA-C-TAACCCGGATATAATAAACTCGCACGAATGCCTTCGGGACTTAACCGGA
46360107 TTTAGTA
64 TTTAGTA
46360114 ACCACCACAG
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
77 3 0.05
78 41 0.63
79 21 0.32
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (78 bp):
AATGCCTTCGGGACTAACCCGGATATAATAAACTCGCACGAATGCCTTCGGGACTTAACCGGATT
TAGTACTCGCACG
Found at i:46362912 original size:74 final size:75
Alignment explanation
Indices: 46362816--46363094 Score: 314
Period size: 74 Copynumber: 3.7 Consensus size: 75
46362806 TCCTCGTTCA
* * * * * *
46362816 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAAC-TTTAA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAGGCCTTCGGGACTTAACGTTTAA
46362879 CAACTCGCACG
66 -AACTCGCACG
* * * *
46362890 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAGGCCTTCGGGACTTAA--C-G-T
46362955 TTAATAACTCGCACG
62 TTAA-AACTCGCACG
* ** **
46362970 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGA-TTTCCGGATAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAGGCCTTCGGGACTTAACGTTTA-
*
46363033 AATCTCGCACG
65 AAACTCGCACG
*
46363044 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAGGCCTTCGG
46363095 ATCTTAATCC
Statistics
Matches: 179, Mismatches: 18, Indels: 15
0.84 0.08 0.07
Matches are distributed among these distances:
74 93 0.52
75 20 0.11
76 1 0.01
77 1 0.01
78 2 0.01
79 3 0.02
80 59 0.33
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (75 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAGGCCTTCGGGACTTAACGTTTAA
AACTCGCACG
Found at i:46362929 original size:40 final size:40
Alignment explanation
Indices: 46362816--46363108 Score: 315
Period size: 40 Copynumber: 7.6 Consensus size: 40
46362806 TCCTCGTTCA
* * * * *
46362816 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46362855 AATGCCTTCGGGACATAA--C---TTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
46362890 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46362930 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46362970 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46363010 AAGGCCTTC-GGA-TT--TCCGGATATAAT--CTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46363044 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46363084 AAGGCCTTC-GGATCTTAATCCGGAT
1 AATGCCTTCGGGA-CTTAACCCGGAT
46363109 ATATTCACTT
Statistics
Matches: 218, Mismatches: 23, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
34 27 0.12
35 19 0.09
36 11 0.05
37 2 0.01
38 11 0.05
39 23 0.11
40 125 0.57
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46363095 original size:74 final size:76
Alignment explanation
Indices: 46362881--46363096 Score: 319
Period size: 74 Copynumber: 2.8 Consensus size: 76
46362871 AACTTTAACA
* * * * *
46362881 ACTCGCACGACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGA-TT
*
46362946 AACCCGGATTTAAT
64 -ACCCGGATATAAT
46362960 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGATT-
1 -ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGATTA
*
46363024 TCCGGATATAAT
65 CCCGGATATAAT
46363036 -CTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGAT
46363097 CTTAATCCGG
Statistics
Matches: 129, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
74 61 0.47
76 10 0.08
78 2 0.02
79 3 0.02
80 53 0.41
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (76 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGATTAC
CCGGATATAAT
Found at i:46363131 original size:114 final size:113
Alignment explanation
Indices: 46362918--46363135 Score: 307
Period size: 114 Copynumber: 1.9 Consensus size: 113
46362908 CCCGGATTTA
* *
46362918 ATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGA
1 ATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA
* *
46362983 CTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGATTTCCGGAT
66 CTTAACCCGGATATAGTATCTAGCACAAAGGCCTTCGGATTTCCGGAT
* *
46363031 ATAATCTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GG
1 ATAA-CTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGG
* *
46363095 ATCTTAATCCGGATATATTCA-CTTAGCACAAA-GCCTTCGGA
65 A-CTTAACCCGGATATAGT-ATC-TAGCACAAAGGCCTTCGGA
46363136 CTTAGCCCGG
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
113 7 0.08
114 77 0.83
115 9 0.10
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (113 bp):
ATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA
CTTAACCCGGATATAGTATCTAGCACAAAGGCCTTCGGATTTCCGGAT
Found at i:46363155 original size:40 final size:41
Alignment explanation
Indices: 46363079--46363155 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
46363069 TTAGTATCTC
* * *
46363079 GCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAACCCGGACACATTCACTTA
*
46363120 GCACAAA-GCCTTCGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTCGGATCTTAACCCGGACA-CATTCA
46363156 ATTAATCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 10 0.32
40 14 0.45
41 7 0.23
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAACCCGGACACATTCACTTA
Found at i:46366735 original size:43 final size:43
Alignment explanation
Indices: 46366687--46366783 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
46366677 GTGTGATTCG
*
46366687 TGTAAGACCATGCCTGGGACATTGGCATCGA-AGTGAGAAAACA
1 TGTAAGACCATGCCTGGGACAGTGGCATCGATA-TGAGAAAACA
* ** * * *
46366730 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATAGCA
1 TGTAAGACCATGCCTGGGACAGTGGCATCGATATGAGAAAACA
46366773 TGTAAGACCAT
1 TGTAAGACCAT
46366784 ATCCGAGATA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (43 bp):
TGTAAGACCATGCCTGGGACAGTGGCATCGATATGAGAAAACA
Found at i:46371146 original size:29 final size:29
Alignment explanation
Indices: 46371099--46371225 Score: 103
Period size: 29 Copynumber: 4.4 Consensus size: 29
46371089 CATATAACTG
* *
46371099 TCCCTTTTCATGTTTGATGGTCGAAACCA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
* **
46371128 -CCCTTTTTCATATTCGATGGTTGTCACCA
1 TCCC-TTTTCATATTCGATGGTCGAAACCA
* **
46371157 TCCCTTTTCATAGTCGATGGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
* * * * * * *
46371186 TCCATTTTTATAATCGATAGCCGAAGCTA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
46371215 TCCCTTTTCAT
1 TCCCTTTTCAT
46371226 TGGTCTATGA
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
28 3 0.04
29 72 0.92
30 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCGAAACCA
Found at i:46371164 original size:30 final size:30
Alignment explanation
Indices: 46371114--46371203 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 30
46371104 TTTCATGTTT
** *
46371114 GATGGTCGAAACCA-CCCTTTTTCATATTC
1 GATGGTCGTCACCATCCCTTTTTCATAATC
* *
46371143 GATGGTTGTCACCATCCC-TTTTCATAGTC
1 GATGGTCGTCACCATCCCTTTTTCATAATC
*
46371172 GATGGTCGTCACCATCCATTTTT-ATAATC
1 GATGGTCGTCACCATCCCTTTTTCATAATC
46371201 GAT
1 GAT
46371204 AGCCGAAGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 45 0.87
30 7 0.13
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (30 bp):
GATGGTCGTCACCATCCCTTTTTCATAATC
Found at i:46375171 original size:43 final size:43
Alignment explanation
Indices: 46375110--46375304 Score: 216
Period size: 43 Copynumber: 4.6 Consensus size: 43
46375100 AGTGCGCTAA
* *
46375110 ATAAACGCCGCTAAAGAACATGACTTTTAGCAACACTTTTCCC
1 ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCC
* *
46375153 ATAAACACCGCTAAAGAACATGACCTTTAGCGACACTTTTCCT
1 ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCC
* * * *
46375196 A-AAATTGCTGCTAAAGAACATGACCTTTAGCGGCGC-TTTCTCC
1 ATAAA-CGCCGCTAAAGAACATGACCTTTAGCGACACTTTTC-CC
* * * *
46375239 ATAAACGCCGCTAAATAACTTGACCTTTAGTGGCA-TTTTCCC
1 ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCC
* * *
46375281 AAAAATGCCACTAAAGAACATGAC
1 ATAAACGCCGCTAAAGAACATGAC
46375305 TCTTAGTGCT
Statistics
Matches: 127, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
42 28 0.22
43 96 0.76
44 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCC
Found at i:46375264 original size:86 final size:84
Alignment explanation
Indices: 46375116--46375351 Score: 246
Period size: 86 Copynumber: 2.8 Consensus size: 84
46375106 CTAAATAAAC
* * * * *
46375116 GCCGCTAAAGAACATGACTTTTAGCAACACTTT-TCCCATAAACACCGCTAAAGAACATGACCTT
1 GCCGCTAAAGAACATGACCTTTAGC-GCGCTTTCT-CCATAAACGCCGCTAAAGAACTTGACCTT
* *
46375180 TAGCGACACTTTTCCTAAAATT
64 TAGCGACA-TTTTCCCAAAAAT
* *
46375202 GCTGCTAAAGAACATGACCTTTAGCGGCGCTTTCTCCATAAACGCCGCTAAATAACTTGACCTTT
1 GCCGCTAAAGAACATGACCTTTAGC-GCGCTTTCTCCATAAACGCCGCTAAAGAACTTGACCTTT
* *
46375267 AGTGGCATTTTCCCAAAAAT
65 AGCGACATTTTCCCAAAAAT
* * * * * *
46375287 GCCACTAAAGAACATGA-CTCTTA--GTGCTCTCTCCACAAACGCTGCTAAAGAACTTGACTTTT
1 GCCGCTAAAGAACATGACCT-TTAGCGCGCTTTCTCCATAAACGCCGCTAAAGAACTTGACCTTT
46375349 AGC
65 AGC
46375352 AACGCCTTTC
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
82 35 0.28
84 2 0.02
85 29 0.23
86 60 0.47
87 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (84 bp):
GCCGCTAAAGAACATGACCTTTAGCGCGCTTTCTCCATAAACGCCGCTAAAGAACTTGACCTTTA
GCGACATTTTCCCAAAAAT
Found at i:46375341 original size:82 final size:84
Alignment explanation
Indices: 46375155--46375351 Score: 220
Period size: 82 Copynumber: 2.3 Consensus size: 84
46375145 CTTTTCCCAT
* * * * **
46375155 AAACACCGCTAAAGAACATGACCTTTAGCGACACTTTTCCTAAAATTGCTGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACTTGACCTTTAGCGACACTTTTCCCAAAAATGCCACTAAAGAACATGAC
* *
46375220 CTTTAGCGGCGCTTTCTCCAT
66 CTTTA--GGCGCTCTCTCCAC
* * *
46375241 AAACGCCGCTAAATAACTTGACCTTTAGTGGCA-TTTTCCCAAAAATGCCACTAAAGAACATGA-
1 AAACGCCGCTAAAGAACTTGACCTTTAGCGACACTTTTCCCAAAAATGCCACTAAAGAACATGAC
*
46375304 CTCTTA-GTGCTCTCTCCAC
66 CT-TTAGGCGCTCTCTCCAC
* *
46375323 AAACGCTGCTAAAGAACTTGACTTTTAGC
1 AAACGCCGCTAAAGAACTTGACCTTTAGC
46375352 AACGCCTTTC
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
82 35 0.37
84 2 0.02
85 29 0.31
86 28 0.30
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (84 bp):
AAACGCCGCTAAAGAACTTGACCTTTAGCGACACTTTTCCCAAAAATGCCACTAAAGAACATGAC
CTTTAGGCGCTCTCTCCAC
Found at i:46376102 original size:23 final size:23
Alignment explanation
Indices: 46376053--46376430 Score: 218
Period size: 23 Copynumber: 16.5 Consensus size: 23
46376043 TTTCAGCACC
* * * **
46376053 TAAACACTTCAATTTGCTGTACG
1 TAAACACTTCAATTTACAGCATT
* *
46376076 TAAAAACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* *
46376099 TAAAAACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
46376123 T-AACACCTCAATTTATAGCATT
1 TAAACACTTCAATTTACAGCATT
*
46376145 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
46376169 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* * * **
46376191 TATAC-TTCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
** * *
46376214 TAAACACTTCAATTTGTAGTACT
1 TAAACACTTCAATTTACAGCATT
**
46376237 TAAACACTTCAATTTACAATATT
1 TAAACACTTCAATTTACAGCATT
* *
46376260 TAAACACTTCAACTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* * **
46376283 CAAACACTTCACTTTGTAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
*
46376307 T-AACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
46376329 TAAGCACTTCAATTTGCTGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
46376353 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
46376375 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * **
46376397 AAAACATCTT-AATTTCCAGCAAC
1 TAAACA-CTTCAATTTACAGCATT
46376420 TAAACACTTCA
1 TAAACACTTCA
46376431 TTAGTGATGA
Statistics
Matches: 269, Mismatches: 68, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
22 30 0.11
23 227 0.84
24 12 0.04
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (23 bp):
TAAACACTTCAATTTACAGCATT
Found at i:46376180 original size:69 final size:68
Alignment explanation
Indices: 46376076--46376343 Score: 252
Period size: 69 Copynumber: 3.9 Consensus size: 68
46376066 TTGCTGTACG
* * * * * * *
46376076 TAAAAACTTCAATTTACAACA-TTTAAAAACTTCAATTTGCAGCACTTTAACACCTCAATTTATA
1 TAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACA-TTTAACACCTCAATTTACA
46376140 GCATT
64 GCATT
* ** *
46376145 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTATACTTCTCAATTTCCA
1 TAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATTTA-ACACCTCAATTTACA
**
46376209 GCAAC
64 GCATT
* * * * * * *
46376214 TAAACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAATATTTAAACACTTCAACTTACAA
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTT-AACACCTCAATTTACAG
46376279 CATT
65 CATT
* * * *
46376283 CAAACACTTCACTTTGTAGCACTTTAACACTTCAATTTACAACATTTAAGCACTTCAATTT
1 TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAA-CACCTCAATTT
46376344 GCTGCACTTT
Statistics
Matches: 161, Mismatches: 32, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
68 7 0.04
69 149 0.93
70 5 0.03
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (68 bp):
TAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAACACCTCAATTTACAGC
ATT
Found at i:46379926 original size:40 final size:40
Alignment explanation
Indices: 46379867--46380011 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
46379857 CTCGCACAAG
* * * * * *
46379867 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
46379907 GCCTTCCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
46379947 GCCTT-CAGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCCGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
46379988 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCCGGACTTAGCCCGGATAT
46380012 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.65
41 26 0.30
42 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:46382825 original size:47 final size:47
Alignment explanation
Indices: 46382756--46382979 Score: 201
Period size: 47 Copynumber: 4.8 Consensus size: 47
46382746 GGTAAGGTAC
46382756 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGT
* * * *
46382803 CGATGCCATGTACCAGACATGGTCTTACATTAACT-ATCATCTCGTAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-AAGT
* * *
46382851 CGATGCATGTCCCAAACAT-GTCTTACACTAGCTC-TCGTCTCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA-GT
* * * * * * *
46382897 CAATGCATTGTCCCAGACATGGTCTTACAATGGCTCTTATAATGT--GGC
1 CGATGCA-TGTCCCAGACATGGTCTTACACTAGCTC--ATCATCTCAAGT
*
46382945 CGATGCATGTCCTAGACAT-GTCTTACACTAGCTCA
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTCA
46382980 CAAACAAATG
Statistics
Matches: 145, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 40 0.28
47 71 0.49
48 29 0.20
51 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAAGT
Found at i:46382923 original size:94 final size:93
Alignment explanation
Indices: 46382755--46382979 Score: 249
Period size: 94 Copynumber: 2.4 Consensus size: 93
46382745 GGGTAAGGTA
* *
46382755 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTACCAGA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCAAGCCAATGCCATGTACCAGA
* *
46382820 CATGGTCTTACATTAACTATCAT-CTCGTAG
64 CATGGTCTTACAATAACTATCATAAT-GTAG
* * * *
46382850 TCGATGCATGTCCCAAACATGTCTTACACTAGCTC-TCGTCTCAATGCCAATG-CATTGTCCCAG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCAT-ATCTCAA-GCCAATGCCA-TGTACCAG
** * * *
46382913 ACATGGTCTTACAATGGCTCTTATAATGTGG
63 ACATGGTCTTACAATAACTATCATAATGTAG
*
46382944 CCGATGCATGTCCTAGACATGTCTTACACTAGCTCA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
46382980 CAAACAAATG
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
92 1 0.01
93 23 0.21
94 79 0.72
95 6 0.06
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (93 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCAAGCCAATGCCATGTACCAGACA
TGGTCTTACAATAACTATCATAATGTAG
Found at i:46390366 original size:63 final size:63
Alignment explanation
Indices: 46390267--46390393 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
46390257 AGGTACCTGT
*
46390267 ACCATTCACCACAGGGTTATACTTTCTTCATTAGCTTAAGAACATAACAATCACCGTTGAACC
1 ACCATTCACCACACGGTTATACTTTCTTCATTAGCTTAAGAACATAACAATCACCGTTGAACC
*
46390330 ACCATTCACCACACGGTTATACTTTCTTCATTAGCTTAAGAACATAACATTCACCGTTGAACC
1 ACCATTCACCACACGGTTATACTTTCTTCATTAGCTTAAGAACATAACAATCACCGTTGAACC
46390393 A
1 A
46390394 TTTGGAACAC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (63 bp):
ACCATTCACCACACGGTTATACTTTCTTCATTAGCTTAAGAACATAACAATCACCGTTGAACC
Found at i:46390512 original size:47 final size:48
Alignment explanation
Indices: 46390443--46390667 Score: 257
Period size: 47 Copynumber: 4.8 Consensus size: 48
46390433 TGTAAGGTAC
*
46390443 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
46390490 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
* * * * *
46390537 TGATGCCATGTACCAGACATGGTCTTACATTGACT-ATCATCTCGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGT
* * *
46390585 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GT
* * * *
46390631 CAATG-CATTGTCCCAAACATAGTCTTACACTAGCTCA
1 CGATGCCA-TGTCCCAGACATGGTCTTACACTGGCTCA
46390668 CATAATGTGG
Statistics
Matches: 155, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 26 0.17
47 106 0.68
48 22 0.14
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
Found at i:46390656 original size:94 final size:93
Alignment explanation
Indices: 46390487--46390713 Score: 230
Period size: 94 Copynumber: 2.4 Consensus size: 93
46390477 TCATATCTCA
* ***
46390487 AGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTTGATGCCATGTACCA
1 AGTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCAAGCCAATGCCATGTACCA
* * * *
46390552 GACATGGTCTTACA-TTGACT-ATCAT-CTCGT
64 AACATAGTCTTACACTAG-CTCA-CATAAT-GT
* *
46390582 AGTCGATGCATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTCAATGCCAATG-CATTGTCCC
1 AGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCAT-ATCTCAA-GCCAATGCCA-TGTACC
46390645 AAACATAGTCTTACACTAGCTCACATAATGT
63 AAACATAGTCTTACACTAGCTCACATAATGT
* * *
46390676 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCA
1 AGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
46390714 CAAACAAAAG
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
92 1 0.01
93 22 0.20
94 77 0.69
95 12 0.11
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (93 bp):
AGTCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCAAGCCAATGCCATGTACCAAA
CATAGTCTTACACTAGCTCACATAATGT
Found at i:46390714 original size:46 final size:44
Alignment explanation
Indices: 46390585--46390715 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 44
46390575 ATCTCGTAGT
* * *
46390585 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTCAC--ATCAATGC
*
46390631 CAATGCATTGTCCCAAACATAGTCTTACACTAGCTCACAT-AATGTGGC
1 CGATGCA-TGTCCCAAACAT-GTCTTACACTAGCTCACATCAA--T-GC
46390679 CGATGCATGTCCCAAACATGTCTTACACTAGCTCACA
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTCACA
46390716 AACAAAAGAC
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
45 2 0.03
46 25 0.33
47 24 0.32
48 24 0.32
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCTCACATCAATGC
Found at i:46396633 original size:21 final size:21
Alignment explanation
Indices: 46396608--46396649 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46396598 AATTTGGTAG
46396608 GTGGCATTCTGTACGGAGCTA
1 GTGGCATTCTGTACGGAGCTA
46396629 GTGGCATTCTGTACGGAGCTA
1 GTGGCATTCTGTACGGAGCTA
46396650 TGGATATCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (21 bp):
GTGGCATTCTGTACGGAGCTA
Found at i:46406523 original size:56 final size:56
Alignment explanation
Indices: 46406437--46406612 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
46406427 ACAAGGGATG
* *
46406437 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGAAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
46406493 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
46406549 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
46406605 ATGGGCAA
1 ATGGGCAA
46406613 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:46407829 original size:40 final size:40
Alignment explanation
Indices: 46407745--46407969 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
46407735 TCGAATGATG
* * * *
46407745 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
46407785 TCCGGACTAAGAT-CCGAAGACATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46407825 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46407864 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46407904 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
46407945 -CCGGGCTATGTCCCGAAGCCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46407970 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46407991 original size:119 final size:119
Alignment explanation
Indices: 46407745--46408002 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
46407735 TCGAATGATG
* *
46407745 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGACATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGACATTT
* * * **
46407810 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCAAGATACTAATACCGGGCTAAGCCCGAAGCCATTGGAACGAGTTACTAAA
* * * ** *
46407864 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGACAT
* * * *
46407927 TTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGCCATTTGAACGAG-TAGCTATA
64 TTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGCCATTGGAACGAGTTA-CTAAA
* *
46407984 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
46408003 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGACATTT
GTGCAAGATACTAATACCGGGCTAAGCCCGAAGCCATTGGAACGAGTTACTAAA
Found at i:46411477 original size:24 final size:24
Alignment explanation
Indices: 46411450--46411495 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46411440 TTATAATATG
* * *
46411450 AAAATGACTATTTTGCCCCTAGCT
1 AAAATGACCATTATACCCCTAGCT
46411474 AAAATGACCATTATACCCCTAG
1 AAAATGACCATTATACCCCTAG
46411496 GGTTTATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGCT
Found at i:46411580 original size:11 final size:11
Alignment explanation
Indices: 46411544--46411599 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46411534 CATGGTATGT
46411544 ATGATATGCAC
1 ATGATATGCAC
* *
46411555 ATGACATG--T
1 ATGATATGCAC
46411564 ATGATATGCAC
1 ATGATATGCAC
*
46411575 ATGATATG--T
1 ATGATATGCAC
46411584 ATGATATGCAC
1 ATGATATGCAC
46411595 ATGAT
1 ATGAT
46411600 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:46411599 original size:20 final size:20
Alignment explanation
Indices: 46411533--46411599 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
46411523 ATTTTGATAA
*
46411533 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
46411553 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
46411573 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46411593 ACATGAT
1 ACATGAT
46411600 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46411717 original size:46 final size:47
Alignment explanation
Indices: 46411650--46411745 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
46411640 AGGAAGTGAA
46411650 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
46411696 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
46411743 AAA
1 AAA
46411746 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 23 0.48
47 25 0.52
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:46411728 original size:24 final size:24
Alignment explanation
Indices: 46411649--46411766 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
46411639 GAGGAAGTGA
46411649 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
46411673 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
46411696 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
46411719 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
46411743 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46411767 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
23 46 0.52
24 31 0.35
25 11 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:46411993 original size:31 final size:31
Alignment explanation
Indices: 46411958--46412018 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
46411948 AGTTTTCAGT
*
46411958 AAAGGCTTCAGCCTAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* **
46411989 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCAGCCCAGTAATATGAAATATG
46412019 CAATATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:46416620 original size:47 final size:47
Alignment explanation
Indices: 46416566--46416897 Score: 450
Period size: 47 Copynumber: 7.1 Consensus size: 47
46416556 TTAGGATTTT
** * *
46416566 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
46416613 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
46416660 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * **
46416707 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCTTAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
46416754 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * **
46416801 ATGAGATGAATGAGAACATGTATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * * * * * *
46416848 ATGTGACAAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
46416895 ATG
1 ATG
46416898 CGAAATGTGT
Statistics
Matches: 254, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 251 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:46416666 original size:22 final size:22
Alignment explanation
Indices: 46416639--46416713 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
46416629 CATGCATATG
46416639 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
46416661 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
46416686 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
46416708 TGTGAT
1 TGTGAT
46416714 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:46416927 original size:46 final size:46
Alignment explanation
Indices: 46416871--46416989 Score: 211
Period size: 46 Copynumber: 2.6 Consensus size: 46
46416861 GGAAGTGTAT
*
46416871 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
46416917 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
46416963 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
46416990 TGAGAGATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:46423364 original size:20 final size:20
Alignment explanation
Indices: 46423335--46423381 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
46423325 ATTTTGATAA
* *
46423335 ACATGGTATGTATGATTTGC
1 ACATGATATGTATGATATGC
*
46423355 GCATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46423375 ACATGAT
1 ACATGAT
46423382 GTAATCATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46423499 original size:46 final size:47
Alignment explanation
Indices: 46423432--46423527 Score: 140
Period size: 47 Copynumber: 2.1 Consensus size: 47
46423422 AGGAAGTGAA
*
46423432 AAAGGGCTTACGCCTCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* * * *
46423478 AAAGGGCTTATGCCCCAGTTATTAAAAGGGGTTTTTCCCCAGTTATT
1 AAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
46423525 AAA
1 AAA
46423528 AGAGGCTAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 21 0.48
47 23 0.52
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAGGGCTTACGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:46423529 original size:24 final size:23
Alignment explanation
Indices: 46423432--46423527 Score: 138
Period size: 23 Copynumber: 4.1 Consensus size: 23
46423422 AGGAAGTGAA
* *
46423432 AAAGGGCTTACGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
46423455 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
46423478 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
46423501 AAAAGGGGTTTTTCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
46423525 AAA
1 AAA
46423528 AGAGGCTAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
23 47 0.70
24 20 0.30
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:46423777 original size:31 final size:31
Alignment explanation
Indices: 46423742--46423805 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46423732 TGTTTACAGT
*
46423742 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
46423773 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
46423804 AA
1 AA
46423806 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:46426497 original size:13 final size:13
Alignment explanation
Indices: 46426479--46426503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46426469 CATTTACAAG
46426479 CCAAATACACATA
1 CCAAATACACATA
46426492 CCAAATACACAT
1 CCAAATACACAT
46426504 GGATTCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (13 bp):
CCAAATACACATA
Found at i:46428436 original size:22 final size:22
Alignment explanation
Indices: 46428411--46428480 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
46428401 CCTAATGTAG
46428411 CTAAGTTTCTGCTACATGTTCC
1 CTAAGTTTCTGCTACATGTTCC
* * * **
46428433 CTAA-TTTTTCCCTATAT-TGTAG
1 CTAAGTTTCT-GCTACATGT-TCC
*
46428455 CTATGTTTCTGCTACATGTTCC
1 CTAAGTTTCTGCTACATGTTCC
46428477 CTAA
1 CTAA
46428481 TTTTTCCCTA
Statistics
Matches: 32, Mismatches: 12, Indels: 8
0.62 0.23 0.15
Matches are distributed among these distances:
21 5 0.16
22 22 0.69
23 5 0.16
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.44
Consensus pattern (22 bp):
CTAAGTTTCTGCTACATGTTCC
Found at i:46428463 original size:44 final size:44
Alignment explanation
Indices: 46428406--46428493 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
46428396 GTAACCCTAA
46428406 TGTAGCTAAGTTTCTGCTACATGTTCCCTAATTTTTCCCTATAT
1 TGTAGCTAAGTTTCTGCTACATGTTCCCTAATTTTTCCCTATAT
*
46428450 TGTAGCTATGTTTCTGCTACATGTTCCCTAATTTTTCCCTATAT
1 TGTAGCTAAGTTTCTGCTACATGTTCCCTAATTTTTCCCTATAT
46428494 AAACCCTTCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (44 bp):
TGTAGCTAAGTTTCTGCTACATGTTCCCTAATTTTTCCCTATAT
Found at i:46435501 original size:40 final size:40
Alignment explanation
Indices: 46435441--46435658 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
46435431 TGGATGATAA
* * *
46435441 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
46435481 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46435521 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
46435561 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
46435601 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46435641 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46435659 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46443720 original size:40 final size:40
Alignment explanation
Indices: 46443660--46443917 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
46443650 TGGATGATAA
* * * *
46443660 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
46443700 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46443740 TCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
46443780 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
46443820 CCGGGCTAAGTCCCGAATGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
46443860 CTGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
46443900 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46443918 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.08
40 178 0.92
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:46454073 original size:25 final size:24
Alignment explanation
Indices: 46454045--46454108 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 24
46454035 TAATTTCCTC
*
46454045 TTAATTTTTAATTTCTTTCAATTA
1 TTAATTTTTAATTTCATTCAATTA
*
46454069 GTTAATTTTTCAA-TTCATTGAATTA
1 -TTAATTTTT-AATTTCATTCAATTA
46454094 TTAATAATTTTAATT
1 TTAAT--TTTTAATT
46454109 AAATTTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (24 bp):
TTAATTTTTAATTTCATTCAATTA
Found at i:46469628 original size:22 final size:22
Alignment explanation
Indices: 46469600--46469641 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46469590 AGCTTATCGT
46469600 TTCAGCTAG-TATGAGCTTACTG
1 TTCAGCTAGATA-GAGCTTACTG
*
46469622 TTCAGCTCGATAGAGCTTAC
1 TTCAGCTAGATAGAGCTTAC
46469642 CATTTTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (22 bp):
TTCAGCTAGATAGAGCTTACTG
Found at i:46469657 original size:23 final size:23
Alignment explanation
Indices: 46469565--46469663 Score: 69
Period size: 23 Copynumber: 4.3 Consensus size: 23
46469555 TCAGCTCGTA
* * * *
46469565 AGAGCTTACTATTTTAACTCATT
1 AGAGCTTACCATTTCAGCTCAAT
* * * *
46469588 GGAGCTTATCGTTTCAGCT-AGT
1 AGAGCTTACCATTTCAGCTCAAT
*
46469610 ATGAGCTTA-C-TGTTCAGCTCGAT
1 A-GAGCTTACCAT-TTCAGCTCAAT
*
46469633 AGAGCTTACCATTTTAGCTCAAT
1 AGAGCTTACCATTTCAGCTCAAT
46469656 AGAGCTTA
1 AGAGCTTA
46469664 TTGTTCATCA
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.02
22 17 0.29
23 40 0.68
24 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (23 bp):
AGAGCTTACCATTTCAGCTCAAT
Found at i:46472798 original size:28 final size:28
Alignment explanation
Indices: 46472751--46472867 Score: 76
Period size: 28 Copynumber: 4.1 Consensus size: 28
46472741 AGTGTGCAAA
* *
46472751 ACATCCAGAAATGGCTCTTAATGAGTGA-
1 ACATCCAG-GATGGCACTTAATGAGTGAG
* * * *
46472779 ATTATCGAGGATGGCACTTAGTGTGTGAG
1 A-CATCCAGGATGGCACTTAATGAGTGAG
* * *
46472808 ACATCCAGGATGGCACTTAGTGTGTGAT
1 ACATCCAGGATGGCACTTAATGAGTGAG
* * * *
46472836 ACATCC-GTGAAGGCACTAAATGTGTGAA
1 ACATCCAG-GATGGCACTTAATGAGTGAG
46472864 ACAT
1 ACAT
46472868 TGAGAAGAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
27 1 0.01
28 66 0.90
29 6 0.08
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (28 bp):
ACATCCAGGATGGCACTTAATGAGTGAG
Found at i:46472812 original size:57 final size:57
Alignment explanation
Indices: 46472700--46472826 Score: 159
Period size: 57 Copynumber: 2.2 Consensus size: 57
46472690 GTTGATTTTG
* * *
46472700 AGAAATGGCACTTAGTGTGTGAGTTACTGAGGATGGCACTTAGTGTGCAAAACATCC
1 AGAAATGGCACTTAATGAGTGAATTACTGAGGATGGCACTTAGTGTGCAAAACATCC
* ** *
46472757 AGAAATGGCTCTTAATGAGTGAATTA-TCGAGGATGGCACTTAGTGTGTGAGACATCC
1 AGAAATGGCACTTAATGAGTGAATTACT-GAGGATGGCACTTAGTGTGCAAAACATCC
*
46472814 AG-GATGGCACTTA
1 AGAAATGGCACTTA
46472827 GTGTGTGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
56 10 0.17
57 50 0.83
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (57 bp):
AGAAATGGCACTTAATGAGTGAATTACTGAGGATGGCACTTAGTGTGCAAAACATCC
Found at i:46476273 original size:57 final size:57
Alignment explanation
Indices: 46476184--46476297 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
46476174 GTCAATTTTG
* * * * *
46476184 AGAAATGGCACTTAGTGTGCGAGTTATTGAGGATGGCACTTAGTGTGCGAAACATCC
1 AGAAATGGCACATAGTGAGCGAATTATCGAGGATGACACTTAGTGTGCGAAACATCC
* * *
46476241 AGAAATGGCTCATAGTGAGTGAATTATCGAGGATGACACTTAGTGTGCGATACATCC
1 AGAAATGGCACATAGTGAGCGAATTATCGAGGATGACACTTAGTGTGCGAAACATCC
46476298 GTGAAGGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (57 bp):
AGAAATGGCACATAGTGAGCGAATTATCGAGGATGACACTTAGTGTGCGAAACATCC
Found at i:46488377 original size:28 final size:28
Alignment explanation
Indices: 46488344--46488442 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
46488334 TATAGTAAGT
* *
46488344 CCGCACACTTAGTGTTATATAATCGAAC
1 CCGCACACTTAGTGCTATACAATCGAAC
* * *
46488372 TCGCACACTTAGTGCTAT-CAACCTTAAC
1 CCGCACACTTAGTGCTATACAATC-GAAC
* *
46488400 CCGCACACTTAGTGCTATACATTTGAAC
1 CCGCACACTTAGTGCTATACAATCGAAC
46488428 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
46488443 CAATTTCATG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 3 0.05
28 54 0.92
29 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCGAAC
Found at i:46488901 original size:12 final size:12
Alignment explanation
Indices: 46488884--46488909 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46488874 TGGGCATACT
46488884 TATGTATATATA
1 TATGTATATATA
46488896 TATGTATATATA
1 TATGTATATATA
46488908 TA
1 TA
46488910 CTTCCGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:46492327 original size:14 final size:14
Alignment explanation
Indices: 46492308--46492338 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46492298 TGAACTTGGA
46492308 CTCAACTCAACGAG
1 CTCAACTCAACGAG
46492322 CTCAACTCAACGAG
1 CTCAACTCAACGAG
46492336 CTC
1 CTC
46492339 GGGCGTTCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.39, G:0.13, T:0.16
Consensus pattern (14 bp):
CTCAACTCAACGAG
Found at i:46492471 original size:46 final size:46
Alignment explanation
Indices: 46492322--46492480 Score: 164
Period size: 46 Copynumber: 3.4 Consensus size: 46
46492312 ACTCAACGAG
* * * *
46492322 CTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTTAACTCGGA
1 CTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGA
* * * * *
46492368 CTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--TTCA-CGAACTCGGA
1 CTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGTGAACTCGGA
46492415 CTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGA
1 CTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGA
46492461 CTCAACTCAACGAGTTCGGA
1 CTCAACTCAACGAGTTCGGA
46492481 TGCTCAACCA
Statistics
Matches: 90, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 46 0.51
47 27 0.30
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGA
Found at i:46492499 original size:46 final size:45
Alignment explanation
Indices: 46492406--46492491 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
46492396 TACATTTCAC
* *
46492406 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
46492452 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
46492492 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:46498665 original size:28 final size:28
Alignment explanation
Indices: 46498632--46498732 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 28
46498622 TATAGTAAGT
* * *
46498632 CCGCACACTTAGTGTTATATAA-TCGAA
1 CCGCACACTTAGTGCTATACAACTTGAA
46498659 CTCGCACACTTAGTGCTATACAACTTGAA
1 C-CGCACACTTAGTGCTATACAACTTGAA
* *
46498688 CCAACACACTTAGTGCTATACAATTTGAA
1 CC-GCACACTTAGTGCTATACAACTTGAA
46498717 CCCGCACACTTAGTGC
1 -CCGCACACTTAGTGC
46498733 CAATTTCATG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 20 0.31
29 41 0.64
30 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAACTTGAA
Found at i:46499197 original size:12 final size:12
Alignment explanation
Indices: 46499180--46499205 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46499170 TGGGCATACT
46499180 TATGTATATATA
1 TATGTATATATA
46499192 TATGTATATATA
1 TATGTATATATA
46499204 TA
1 TA
46499206 CTTCCGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:46505387 original size:42 final size:43
Alignment explanation
Indices: 46505281--46505429 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
46505271 TGATATGTGT
* * * * *
46505281 TTTCTTGTAGGACCATGTCTGGGACATTGGCATCGACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATCGACATCGAATTATGA
*
46505324 TTTACGTGTAAGACCATGTCTGGGACATCGACGTCGAATT-TGA
1 TTT-CGTGTAAGACCATGTCTGGGACATCGACATCGAATTATGA
* * *
46505367 TTTCGTGTAAGACCCTGTCTGGGATAGT-GGCATCGATATT-TGA
1 TTTCGTGTAAGACCATGTCTGGGACA-TCGACATCGA-ATTATGA
* *
46505410 TTACATGTAAGACCATGTCT
1 TTTCGTGTAAGACCATGTCT
46505430 AGGATGTTGG
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
42 27 0.30
43 33 0.37
44 30 0.33
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
TTTCGTGTAAGACCATGTCTGGGACATCGACATCGAATTATGA
Found at i:46505442 original size:43 final size:43
Alignment explanation
Indices: 46505286--46505429 Score: 166
Period size: 42 Copynumber: 3.3 Consensus size: 43
46505276 TGTGTTTTCT
* *
46505286 TGTAGGACCATGTCTGGGACATTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGA-TTACG
* * * *
46505330 TGTAAGACCATGTCTGGGACATCGACGTCGA-ATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTACG
* * * *
46505372 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTACG
46505415 TGTAAGACCATGTCT
1 TGTAAGACCATGTCT
46505430 AGGATGTTGG
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
42 29 0.35
43 27 0.33
44 27 0.33
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTACG
Found at i:46507132 original size:13 final size:13
Alignment explanation
Indices: 46507114--46507146 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
46507104 CTTGAAGTTT
46507114 ATCAACGCTTCAC
1 ATCAACGCTTCAC
46507127 ATCAACGCTTCAC
1 ATCAACGCTTCAC
46507140 ATCAACG
1 ATCAACG
46507147 TTCTGATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.21
Consensus pattern (13 bp):
ATCAACGCTTCAC
Found at i:46508265 original size:38 final size:38
Alignment explanation
Indices: 46508222--46508298 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
46508212 TTTCAAATTA
46508222 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* ** *
46508260 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
46508298 A
1 A
46508299 ATGAATCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:46508378 original size:48 final size:48
Alignment explanation
Indices: 46508272--46508448 Score: 248
Period size: 48 Copynumber: 3.7 Consensus size: 48
46508262 ATGTTTAACT
* * * *
46508272 GTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACC
1 GTGGTATATCCACTTAGCACCACGTTACACGTATCAATATGTGTAATC
* * *
46508319 GTGGAAAATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATC
1 GTGGTATATCCACTTAGCACCACGTTACACGTATCAATATGTGTAATC
* * *
46508367 GTGGTATATCCACTTAGCACTATGTTTCACGTATCAATATGTGTAATC
1 GTGGTATATCCACTTAGCACCACGTTACACGTATCAATATGTGTAATC
*
46508415 GTGGCATATCCACTTAGCACCACGTTACACGTAT
1 GTGGTATATCCACTTAGCACCACGTTACACGTAT
46508449 AACCGTGGTA
Statistics
Matches: 114, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
47 25 0.22
48 89 0.78
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
GTGGTATATCCACTTAGCACCACGTTACACGTATCAATATGTGTAATC
Found at i:46511094 original size:15 final size:15
Alignment explanation
Indices: 46511048--46511094 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
46511038 GAAAACCGAG
*
46511048 TAAAGAAATCCAAGA
1 TAAAGAAATCCAAAA
* * *
46511063 TAGAGAAACCCAGAA
1 TAAAGAAATCCAAAA
46511078 TAAAGAAATCCAAAA
1 TAAAGAAATCCAAAA
46511093 TA
1 TA
46511095 CGATACTATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.60, C:0.15, G:0.13, T:0.13
Consensus pattern (15 bp):
TAAAGAAATCCAAAA
Found at i:46514193 original size:48 final size:48
Alignment explanation
Indices: 46514031--46514219 Score: 224
Period size: 48 Copynumber: 4.0 Consensus size: 48
46514021 ACCACGTTAC
* * * * * *
46514031 ATGTTTAATAGTGGTATATCCACTTAGCACCATGTTA-ATGAATCGAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
* * * * *
46514078 ATATGTAACCATGGCATATCCACTTAGCACCACGTTACATGTATC-A-
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
* *
46514124 ATGTGTAATCGTGGTATATCCACTTAGCAGCACGGTACACGTATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
*
46514172 ATGTGTAATCGTGGTATATCCACTTAGCACCACATTACACGTAT-AAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
46514219 A
1 A
46514220 GTGGTATATC
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
46 38 0.31
47 36 0.30
48 47 0.39
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (48 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTATCAAT
Found at i:46514201 original size:94 final size:93
Alignment explanation
Indices: 46514031--46514215 Score: 235
Period size: 94 Copynumber: 2.0 Consensus size: 93
46514021 ACCACGTTAC
* * * * *
46514031 ATGTTTAATAGTGGTATATCCACTTAGCACCATGTTAATGAATCGATATATGTAACCATGGCATA
1 ATGTGTAATAGTGGTATATCCACTTAGCACCACGGTAACGAATCAATATATGTAACCATGGCATA
* *
46514096 TCCACTTAGCACCACGTTACATGTATCA
66 TCCACTTAGCACCACATTACACGTATCA
* * * * * * *
46514124 ATGTGTAATCGTGGTATATCCACTTAGCAGCACGGTACACGTATCAATATGTGTAATCGTGGTAT
1 ATGTGTAATAGTGGTATATCCACTTAGCACCACGGTA-ACGAATCAATATATGTAACCATGGCAT
46514189 ATCCACTTAGCACCACATTACACGTAT
65 ATCCACTTAGCACCACATTACACGTAT
46514216 AATAGTGGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
93 32 0.42
94 45 0.58
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (93 bp):
ATGTGTAATAGTGGTATATCCACTTAGCACCACGGTAACGAATCAATATATGTAACCATGGCATA
TCCACTTAGCACCACATTACACGTATCA
Found at i:46518539 original size:67 final size:67
Alignment explanation
Indices: 46518431--46518563 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
46518421 AGCATATATT
* **
46518431 ACAGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCTC
1 ACAGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATAAGGTTCACGGGAGTGTGCTCTC
46518496 TC
66 TC
*
46518498 ACAGGGGATTTAGCCTGGACTGGTAATCCTGCTGTGAGAAATAAGGTTCACGGGAGTGTGCTCTC
1 ACAGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATAAGGTTCACGGGAGTGTGCTCTC
46518563 T
66 T
46518564 GAAATGGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (67 bp):
ACAGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATAAGGTTCACGGGAGTGTGCTCTC
TC
Found at i:46518711 original size:20 final size:22
Alignment explanation
Indices: 46518686--46518725 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
46518676 AAATGGTAAG
46518686 AACTTGAAAT-CA-AGAAATAA
1 AACTTGAAATACATAGAAATAA
46518706 AACTTGAAATACATAGAAAT
1 AACTTGAAATACATAGAAAT
46518726 GATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (22 bp):
AACTTGAAATACATAGAAATAA
Found at i:46519538 original size:4 final size:4
Alignment explanation
Indices: 46519531--46519556 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
46519521 TACAAAAAAA
46519531 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
46519557 GTGATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:46519833 original size:25 final size:25
Alignment explanation
Indices: 46519798--46519862 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
46519788 GGGGCCTTAG
46519798 CACGTTAGTACTCTCTGAA-TATTAC
1 CACGTTAGTACTCTCT-AATTATTAC
* *
46519823 CACGTTCGTACTCTCTAATTATTAG
1 CACGTTAGTACTCTCTAATTATTAC
* *
46519848 CACATTAGTTCTCTC
1 CACGTTAGTACTCTC
46519863 CGTTTAGCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (25 bp):
CACGTTAGTACTCTCTAATTATTAC
Found at i:46524643 original size:68 final size:64
Alignment explanation
Indices: 46524533--46524717 Score: 178
Period size: 68 Copynumber: 2.8 Consensus size: 64
46524523 ATACAGATAG
** * * *
46524533 TATGTAGCTAGGTCACATGTATGGTGA-TGAGTGCACATCATGTGTACAAGAGAACTACAAGACA
1 TATGTAGCTAGGTCACATGGGTGAT-ACTGAGTGTACACCATGTGTACAAGAGAACTAC--GACA
46524597 TTA
63 -TA
* **
46524600 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGGGA
1 T-ATGTAGCTAGGTCACATGGGTGATACTGA-GTGTACACCATGT-GTACAAGAGAACTACGACA
46524663 TA
63 TA
* * * *
46524665 TATGTAGCTAGGTCATATGGGTGGTACTGAGTGTTCACCATGTGTAGAAGAGA
1 TATGTAGCTAGGTCACATGGGTGATACTGAGTGTACACCATGTGTACAAGAGA
46524718 GCCGAACTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
63 1 0.01
64 44 0.44
65 4 0.04
66 2 0.02
67 3 0.03
68 45 0.45
69 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGATACTGAGTGTACACCATGTGTACAAGAGAACTACGACATA
Found at i:46526694 original size:23 final size:25
Alignment explanation
Indices: 46526668--46526718 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
46526658 CCAGCACACC
46526668 AATATCGCAGCAAAGCTGCCAGAAAT
1 AATA-CGCAGCAAAGCTGCCAGAAAT
* *
46526694 AATGATGCAGCATAGCTGCCAGAAA
1 AAT-ACGCAGCAAAGCTGCCAGAAA
46526719 CAGTAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (25 bp):
AATACGCAGCAAAGCTGCCAGAAAT
Found at i:46526749 original size:27 final size:27
Alignment explanation
Indices: 46526703--46526798 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 27
46526693 TAATGATGCA
** *
46526703 GCATAGCTGCCAGAAACAGTAAATGTG
1 GCATAGCCACCAGTAACAGTAAATGTG
* * *
46526730 GCAAAGCCACCAGTATCAGTAATTGTG
1 GCATAGCCACCAGTAACAGTAAATGTG
*
46526757 GCATAGCCACCAGTAACAGTGAATGTG
1 GCATAGCCACCAGTAACAGTAAATGTG
* *
46526784 ACATAGTCACCAGTA
1 GCATAGCCACCAGTA
46526799 CAGAACTTCC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
GCATAGCCACCAGTAACAGTAAATGTG
Found at i:46526969 original size:27 final size:26
Alignment explanation
Indices: 46526939--46527003 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
46526929 GGGCATAATC
*
46526939 GTCATTTCACCATACAGGGGTATTACG
1 GTCATTT-ACCATACAGGGGCATTACG
*
46526966 GTCACTTTACCCTACAGGGGCATTACG
1 GTCA-TTTACCATACAGGGGCATTACG
*
46526993 ATCATTCTACC
1 GTCATT-TACC
46527004 TATTAAGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.06
27 28 0.85
28 3 0.09
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (26 bp):
GTCATTTACCATACAGGGGCATTACG
Found at i:46527086 original size:27 final size:27
Alignment explanation
Indices: 46527056--46527269 Score: 159
Period size: 27 Copynumber: 7.9 Consensus size: 27
46527046 GGTAAATCTA
*
46527056 CAAACCAAGGGTATTTTAGCAATTTTG
1 CAAACCAAGGGTATTTTAGTAATTTTG
*
46527083 CAAACCAATGGTATTTCTA-TAATTTTTG
1 CAAACCAAGGGTATTT-TAGTAA-TTTTG
* *
46527111 -AAAGTCAAGGGTATTTTTGTAATTTTG
1 CAAA-CCAAGGGTATTTTAGTAATTTTG
* * * *
46527138 TAAATCAGGGGTATTTCTA-TAATTTTC
1 CAAACCAAGGGTATTT-TAGTAATTTTG
* * *
46527165 CAAATCAAGGGTATTTTGGTAATTTTT
1 CAAACCAAGGGTATTTTAGTAATTTTG
* * * **
46527192 CAAATCAGGGGTA-TTTCGATAATTTCA
1 CAAACCAAGGGTATTTTAG-TAATTTTG
* *
46527219 CAAACCAAGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTTAGTAATTTTG
* *
46527246 CAAA-CTAGGGTTTTTTCAGTAATT
1 CAAACCAAGGGTATTTT-AGTAATT
46527270 CTACCCTCGG
Statistics
Matches: 154, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
26 15 0.10
27 111 0.72
28 28 0.18
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
CAAACCAAGGGTATTTTAGTAATTTTG
Found at i:46527151 original size:55 final size:54
Alignment explanation
Indices: 46527054--46527244 Score: 231
Period size: 54 Copynumber: 3.5 Consensus size: 54
46527044 TTGGTAAATC
* * * * * **
46527054 TACAAACCAAGGGTATTTTAGCAATTTTGCAAACCAATGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTGTAAATCAGGGGTATTTCTATAATTT
** *
46527108 TTGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTCTATAATTT
1 TACAAA-TCAAGGGTATTTTGGTAATTTTGTAAATCAGGGGTATTTCTATAATTT
* *
46527163 TCCAAATCAAGGGTATTTTGGTAATTTT-TCAAATCAGGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTGT-AAATCAGGGGTATTTCTATAATTT
* *
46527217 CACAAACCAAGGGTATTTTGGTAATTTT
1 TACAAATCAAGGGTATTTTGGTAATTTT
46527245 ACAAACTAGG
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 73 0.61
55 45 0.38
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTTGGTAATTTTGTAAATCAGGGGTATTTCTATAATTT
Found at i:46527269 original size:54 final size:53
Alignment explanation
Indices: 46527056--46527269 Score: 184
Period size: 54 Copynumber: 4.0 Consensus size: 53
46527046 GGTAAATCTA
* * * * ** *
46527056 CAAACCAAGGGTATTTTAGCAATTTTGCAAACCAATGGTATTTCTA-TAATTTTT
1 CAAACCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTC-AGTAA-TTTC
* * * **
46527110 GAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTCTA-TAATTTTC
1 CAAA-CCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTC-AGTAA-TTTC
* *
46527165 CAAATCAAGGGTATTTTGGTAATTTTTCAAATCAGGGGTATTTC-GATAATTTC
1 CAAACCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAG-TAATTTC
* *
46527218 ACAAACCAAGGGTATTTTGGTAATTTTACAAA-CTAGGGTTTTTTCAGTAATT
1 -CAAACCAAGGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTCAGTAATT
46527270 CTACCCTCGG
Statistics
Matches: 137, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
53 5 0.04
54 86 0.63
55 46 0.34
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (53 bp):
CAAACCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTCAGTAATTTC
Found at i:46529471 original size:67 final size:67
Alignment explanation
Indices: 46529363--46529491 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 67
46529353 ATATGTTACA
* * * * *
46529363 GGGATTTAGCCTGGAATGGTAATCCTGCTGTAAGAAATGAGGTTCGCAGGAGTGTGCTCTCTCAT
1 GGGATTTAGCCTGGAATGGTAACCCTACTATAAGAAATGAGGTTCACAGGAATGTGCTCTCTCAT
46529428 AG
66 AG
*
46529430 GGGATTTAGCCTGGACA-GGTAACCCTACTATAAGAAATGAGGTTCACGGGAATGTGCTCTCT
1 GGGATTTAGCCTGGA-ATGGTAACCCTACTATAAGAAATGAGGTTCACAGGAATGTGCTCTCT
46529492 GAAATGGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 54 0.98
68 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (67 bp):
GGGATTTAGCCTGGAATGGTAACCCTACTATAAGAAATGAGGTTCACAGGAATGTGCTCTCTCAT
AG
Found at i:46529637 original size:20 final size:22
Alignment explanation
Indices: 46529612--46529651 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
46529602 ATATGGTAAG
46529612 AACTTGAAAT-CA-AGAAATAA
1 AACTTGAAATACATAGAAATAA
46529632 AACTTGAAATACATAGAAAT
1 AACTTGAAATACATAGAAAT
46529652 GATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (22 bp):
AACTTGAAATACATAGAAATAA
Found at i:46530766 original size:46 final size:46
Alignment explanation
Indices: 46530636--46530801 Score: 142
Period size: 46 Copynumber: 3.6 Consensus size: 46
46530626 TGTGAGCTAG
* ** *
46530636 TGTAAGACATGTCTGGGACATGCATCGGCCA-C-A-TTATGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCTTCGG-CATCGAGACAT-A-AGCCAA
* * * * *
46530682 TGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGA-ATGCTAA
1 TGTAAGA-CATGTCTGGGACAT-GCTTCGGCATCGAGAC-ATAAGCCAA
* * *
46530730 TGTAAGATATGTCTGGGACATGCTTCGGCCTCGAGACATAAGCCAG
1 TGTAAGACATGTCTGGGACATGCTTCGGCATCGAGACATAAGCCAA
46530776 TGTAAGACATGTCTGGGACATGCTTC
1 TGTAAGACATGTCTGGGACATGCTTC
46530802 AACTACGAGA
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 49 0.51
47 27 0.28
48 17 0.18
49 2 0.02
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCTTCGGCATCGAGACATAAGCCAA
Found at i:46548649 original size:40 final size:40
Alignment explanation
Indices: 46548554--46548772 Score: 248
Period size: 40 Copynumber: 5.5 Consensus size: 40
46548544 TGGATGATAA
* *
46548554 CCGGGCTAAGTCCCGAAGGCATTT-TCCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGT--GCAAGTTACTA-TAT
* *
46548595 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
*
46548635 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * *
46548675 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * * *
46548715 CCGGGCTATGTCTCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATAT
* *
46548755 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46548773 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
39 14 0.09
40 117 0.75
41 24 0.15
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:46551587 original size:29 final size:30
Alignment explanation
Indices: 46551529--46551585 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46551519 GGCTTATAAG
*
46551529 TATTTACAAAAAGAGGCATCTAATTTTTAA
1 TATTTACAAAAAGAGGCAACTAATTTTTAA
46551559 TATTTACAAAAAGA-GCAACTGAATTTT
1 TATTTACAAAAAGAGGCAACT-AATTTT
46551586 AAAAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACTAATTTTTAA
Found at i:46566953 original size:22 final size:22
Alignment explanation
Indices: 46566926--46566969 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46566916 CAAACATGAT
*
46566926 CAAAATTAATCAAAATTTATTA
1 CAAAATTAATCAAAATTCATTA
* *
46566948 CAAAATTATTTAAAATTCATTA
1 CAAAATTAATCAAAATTCATTA
46566970 TGTTAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
CAAAATTAATCAAAATTCATTA
Found at i:46567254 original size:33 final size:32
Alignment explanation
Indices: 46567212--46567282 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
46567202 TGAGTGAGCA
* *
46567212 CACATGCCTAAATTGCCCTTGCCCGTGTGGGCC
1 CACACGCCTAAATTGCCCTAGCCCGTGT-GGCC
* * *
46567245 CACACGCCTAACTTGGCCTAGCCCGTGTGGTC
1 CACACGCCTAAATTGCCCTAGCCCGTGTGGCC
46567277 CACACG
1 CACACG
46567283 ACCACATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 9 0.27
33 24 0.73
ACGTcount: A:0.17, C:0.38, G:0.24, T:0.21
Consensus pattern (32 bp):
CACACGCCTAAATTGCCCTAGCCCGTGTGGCC
Found at i:46572189 original size:37 final size:37
Alignment explanation
Indices: 46572130--46572238 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
46572120 AGCTCAGACG
* *
46572130 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
46572167 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
46572204 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
46572239 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:46572508 original size:48 final size:48
Alignment explanation
Indices: 46572384--46572568 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
46572374 GCACATCGCC
*
46572384 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
46572434 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
46572482 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
46572530 TACACATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
46572569 TGCATGTTCA
Statistics
Matches: 127, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
48 83 0.65
49 2 0.02
50 42 0.33
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:46572573 original size:98 final size:97
Alignment explanation
Indices: 46572384--46572567 Score: 309
Period size: 98 Copynumber: 1.9 Consensus size: 97
46572374 GCACATCGCC
* *
46572384 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACACATTTCACATT
46572449 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
46572482 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACACATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
46572545 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
46572568 ATGCATGTTC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 35 0.43
98 46 0.56
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:46572658 original size:22 final size:22
Alignment explanation
Indices: 46572631--46572749 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
46572621 GCTCACATTC
46572631 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
46572653 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
*
46572677 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
* *
46572700 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
*
46572724 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
46572747 ATC
1 ATC
46572750 TCATATATAC
Statistics
Matches: 72, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
22 23 0.32
23 14 0.19
24 14 0.19
25 21 0.29
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:46572681 original size:25 final size:25
Alignment explanation
Indices: 46572606--46572731 Score: 83
Period size: 25 Copynumber: 5.3 Consensus size: 25
46572596 ATTTGGCCTT
* *
46572606 ATCACACATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* *
46572631 ATCACAT-T-GGCCA--TTCAGCCTT-
1 ATCACATATATG-CATGTTCA-CATTC
46572653 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
46572678 ATCACAT-T-GGCCA--TTCGGCCTT-
1 ATCACATATATG-CATGTTC-ACATTC
46572700 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
46572725 ATCACAT
1 ATCACAT
46572732 TGGCCATTCG
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 20 0.27
23 14 0.19
24 14 0.19
25 27 0.36
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:46572768 original size:47 final size:47
Alignment explanation
Indices: 46572538--46572757 Score: 350
Period size: 47 Copynumber: 4.7 Consensus size: 47
46572528 CATACACATT
* * * *
46572538 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
46572585 CCACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
46572632 TCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
46572679 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
46572726 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
46572758 ACACATTCAC
Statistics
Matches: 158, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 158 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:46581361 original size:12 final size:12
Alignment explanation
Indices: 46581340--46581369 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46581330 TTGTGTCTGG
46581340 CACACGACCAAC
1 CACACGACCAAC
*
46581352 CACACTACCAAC
1 CACACGACCAAC
46581364 CACACG
1 CACACG
46581370 CCCGGTGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.50, G:0.07, T:0.03
Consensus pattern (12 bp):
CACACGACCAAC
Found at i:46583787 original size:17 final size:20
Alignment explanation
Indices: 46583765--46583802 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
46583755 TCCCTACTTC
46583765 AATAATT-AAT-TAGG-TAA
1 AATAATTGAATCTAGGCTAA
46583782 AATAATTGAATCTAGGCTAA
1 AATAATTGAATCTAGGCTAA
46583802 A
1 A
46583803 TGTAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 4 0.22
20 4 0.22
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (20 bp):
AATAATTGAATCTAGGCTAA
Found at i:46591153 original size:26 final size:26
Alignment explanation
Indices: 46591124--46591174 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
46591114 TTATACTAAT
*
46591124 TACTGGCAGTTTTGCTGCGATACTGC
1 TACTGGCAGTTTTACTGCGATACTGC
46591150 TACTGGCAGTTTTACTGCGATACTG
1 TACTGGCAGTTTTACTGCGATACTG
46591175 ATATTGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (26 bp):
TACTGGCAGTTTTACTGCGATACTGC
Found at i:46594869 original size:13 final size:13
Alignment explanation
Indices: 46594851--46594881 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
46594841 TATTACAGAC
46594851 GTTTTGTTGAAGG
1 GTTTTGTTGAAGG
46594864 GTTTTGTTGAAGG
1 GTTTTGTTGAAGG
46594877 GTTTT
1 GTTTT
46594882 CTTTGATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.35, T:0.52
Consensus pattern (13 bp):
GTTTTGTTGAAGG
Found at i:46605528 original size:11 final size:11
Alignment explanation
Indices: 46605512--46605547 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
46605502 ATCCTCCACC
46605512 GTCGAGTCACT
1 GTCGAGTCACT
46605523 GTCGAGTCACT
1 GTCGAGTCACT
46605534 GTCGAGTCACT
1 GTCGAGTCACT
46605545 GTC
1 GTC
46605548 TTGTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (11 bp):
GTCGAGTCACT
Found at i:46605763 original size:20 final size:19
Alignment explanation
Indices: 46605732--46605779 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
46605722 GACCATTAAG
*
46605732 TTTATTTCTTTATTTTTATA
1 TTTATTT-TTTATGTTTATA
*
46605752 TTTAGTTTTTTATGTTTATT
1 TTTA-TTTTTTATGTTTATA
46605772 TTTATTTT
1 TTTATTTT
46605780 CTTAGACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 18 0.72
21 3 0.12
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTATTTTTTATGTTTATA
Found at i:46607311 original size:49 final size:49
Alignment explanation
Indices: 46607250--46607440 Score: 229
Period size: 50 Copynumber: 3.8 Consensus size: 49
46607240 AAAGTTATTT
* *
46607250 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC
* * ** **
46607299 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATAT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCC
* * * * *
46607349 GATACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCC
*
46607400 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
46607441 TCACAATAGA
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 37 0.31
50 43 0.36
51 38 0.32
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC
Found at i:46607427 original size:101 final size:99
Alignment explanation
Indices: 46607252--46607441 Score: 281
Period size: 101 Copynumber: 1.9 Consensus size: 99
46607242 AGTTATTTGG
* *
46607252 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTG
46607317 CACTTAGTACTACACACATGACCTAACCATATGA
66 CACTTAGTACTACACACATGACCTAACCATATGA
* * * * * *
46607351 TACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCC
1 TACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCC
*
46607416 TGCACTTAGTACTACACACGTGACCT
64 TGCACTTAGTACTACACACATGACCT
46607442 CACAATAGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 33 0.41
100 3 0.04
101 44 0.55
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTG
CACTTAGTACTACACACATGACCTAACCATATGA
Found at i:46612493 original size:49 final size:49
Alignment explanation
Indices: 46612410--46612654 Score: 256
Period size: 49 Copynumber: 4.9 Consensus size: 49
46612400 TAGCCAAAGC
* * * * *
46612410 TATCTGGTACGCATAGTAGCCTACAGTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
* * *
46612459 TATCCGGCACACATAGTAGCCTACACTTAATACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACC-AAT
* * * * *
46612509 CATCCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGA-CCAA-T
* * * **
46612560 TATCGGGTACGCATAGTAGCCTTCACTTAGTACTACACATTTGACCAAT
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
* * * * *
46612609 TATTCGGTACACGTAGTAACCTGCACTTAGTGCTACACACGTGACC
1 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACC
46612655 TCACAATAGA
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 77 0.48
50 45 0.28
51 37 0.23
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCAAT
Found at i:46612596 original size:101 final size:98
Alignment explanation
Indices: 46612423--46612654 Score: 275
Period size: 100 Copynumber: 2.3 Consensus size: 98
46612413 CTGGTACGCA
* * * *
46612423 TAGTAGCCTACAGTTAGTACTACACATGCGACCAATTATCCGGCACACATAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGCACACATAGTAGCCTACACTTA
46612488 ATACTACACACGTGACCTAACCATCCGATACACG
66 ATACTACACACGTGACC-AACCATCCGATACACG
* * * * *
46612522 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTTCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGCACACATAGTAGCCTACACT
* ** ** * *
46612587 TAGTACTACACATTTGACCAATTATTCGGTACACG
64 TAATACTACACACGTGACCAACCATCCGATACACG
* *
46612622 TAGTAACCTGCACTTAGTGCTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
46612655 TCACAATAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 28 0.25
100 44 0.39
101 40 0.36
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGCACACATAGTAGCCTACACTTA
ATACTACACACGTGACCAACCATCCGATACACG
Found at i:46620388 original size:40 final size:40
Alignment explanation
Indices: 46620342--46620565 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
46620332 CTTGCGCAAG
* * * *
46620342 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
46620382 ACCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
46620422 GCCTTCGGGTTTTAGCCC-GATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
46620461 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * * *
46620501 GCCTTCGGATCTTAGTCTGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* *
46620542 GTCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
46620566 CATTCGAATA
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
39 38 0.25
40 87 0.56
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:46620466 original size:79 final size:79
Alignment explanation
Indices: 46620306--46620565 Score: 265
Period size: 79 Copynumber: 3.3 Consensus size: 79
46620296 CTCAAGTAAT
* * * * * * * *
46620306 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCC-GATATAGT
* *
46620369 CACTAGCATAAATAC
65 CACTAGCACAAATGC
* * *
46620384 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGATATAAT
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGATATAGT
*
46620448 CGCTAGCACAAATGC
65 CACTAGCACAAATGC
* * * ** *
46620463 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACGAATGCCTTCGGATCTTAGTCTGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAG-CCCGATATAGT
* *
46620528 CACCTAGCACAAAAGT
65 CA-CTAGCACAAATGC
46620544 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
46620566 CATTCGAATA
Statistics
Matches: 150, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
78 13 0.09
79 77 0.51
80 28 0.19
81 32 0.21
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGATATAGTC
ACTAGCACAAATGC
Found at i:46620526 original size:119 final size:121
Alignment explanation
Indices: 46620342--46620565 Score: 285
Period size: 119 Copynumber: 1.9 Consensus size: 121
46620332 CTTGCGCAAG
* * *
46620342 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATACCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATACCTTCGGGACTTAGCCCGGATATA
* * **
46620407 GTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCC-GATATAATCGCTAGCACAAAT
66 GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
* * * * *
46620461 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACGAATGCCTTC-GGATCTTAGTCTGGTTA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATACCTTCGGGA-CTTAGCCCGGATA
*
46620524 TAGTCACCTAGCACAAAAGTCTTCGGGACTTAGCCCGGATAT
64 TAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
46620566 CATTCGAATA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
118 4 0.05
119 54 0.61
120 25 0.28
121 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (121 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATACCTTCGGGACTTAGCCCGGATATA
GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
Found at i:46628579 original size:40 final size:40
Alignment explanation
Indices: 46628533--46628754 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
46628523 CTTGCGCAAG
* * *
46628533 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
46628573 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
46628613 GCCTTCGGGTTTTAG-CCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
46628652 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
46628692 GCCTTCGGATCTTAGTCC-GTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
46628732 GCCTTCGGGACTTAGCCC-GATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
46628755 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
39 45 0.29
40 110 0.71
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:46628645 original size:79 final size:80
Alignment explanation
Indices: 46628497--46628754 Score: 276
Period size: 79 Copynumber: 3.3 Consensus size: 80
46628487 CTCAAGTAAT
* * * * * * * *
46628497 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
46628560 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
46628575 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAG-CCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
46628638 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
46628654 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCC-GTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
46628718 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
46628734 CTTCGGGACTTAGCCC-GATAT
1 CTTCGGGACTTAGCCCGGATAT
46628755 CATTCGAATA
Statistics
Matches: 151, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
78 13 0.09
79 92 0.61
80 46 0.30
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:46628725 original size:119 final size:118
Alignment explanation
Indices: 46628497--46628754 Score: 299
Period size: 119 Copynumber: 2.2 Consensus size: 118
46628487 CTCAAGTAAT
* * * *
46628497 CTTCGGGATTTAGCCGGATATAACTACTTGCGCAAGGCCTTCGGGTCTTAGCCCGGATGTGGTCA
1 CTTCGGGATTTAGCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTCA
* * *
46628562 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCCCTAGCACAAAAGC
* * *
46628615 CTTCGGGTTTTAGCCGGATATAA-TCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CTTCGGGATTTAGCCGGATATAACT-ACTAGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATAGT
* * * *
46628678 CAACTCGCACGAATGCCTTC-GGATCTTAGTCC-GTTATAGTCACCTAGCACAAAAGC
64 C-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTC-CCTAGCACAAAAGC
* *
46628734 CTTCGGGACTTAGCCCGATAT
1 CTTCGGGATTTAGCCGGATAT
46628755 CATTCGAATA
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
117 1 0.01
118 39 0.33
119 78 0.66
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTCA
CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCCCTAGCACAAAAGC
Found at i:46643538 original size:27 final size:27
Alignment explanation
Indices: 46643500--46643843 Score: 350
Period size: 27 Copynumber: 12.8 Consensus size: 27
46643490 AATCGATAAC
* *
46643500 ATGACTGTTTTGCCTTTATGTGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* * * *
46643527 ATGACTGTTTTGCCCTAAT-TGATTAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* *
46643553 ATGACTATTTTGCCCTAAT-TGATAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* * *
46643579 ATAACTATTTTTCCCTTATGTGCTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* *** *
46643606 ATGACTGTTTTTATCTTATATGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
*
46643633 ATGACTATTTTGCCCTTATATGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
46643660 ATGACTATTTTGCCCTTATGTGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* ***
46643687 ATGACTATTTTTCCCTTATGTAAAAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
**
46643714 ATGACTATTTTGCCCTTATGTGAAAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* * * * *
46643741 ATAATTGTTTTGGCCTTAAGTGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
* * *
46643768 ACGACTGTTTTGCCCTTATGTGGAAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
** * *
46643795 ATGACTATTTCACCTTTATATGGTAAA
1 ATGACTATTTTGCCCTTATGTGGTAAA
*
46643822 TTGACTATTTTGCCCTTATGTG
1 ATGACTATTTTGCCCTTATGTG
46643844 ATATATGATT
Statistics
Matches: 264, Mismatches: 52, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 45 0.17
27 219 0.83
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (27 bp):
ATGACTATTTTGCCCTTATGTGGTAAA
Found at i:46648652 original size:27 final size:27
Alignment explanation
Indices: 46648622--46648752 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
46648612 ATTACCAAAG
*
46648622 TACCCTCAATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTATAGAATTACT-GTTT
*
46648649 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTATAGAATTACT-GTTT
*
46648676 TACACTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
46648703 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
46648730 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
46648753 AAAATACCCT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
27 92 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:46648753 original size:27 final size:27
Alignment explanation
Indices: 46648622--46648778 Score: 147
Period size: 27 Copynumber: 5.8 Consensus size: 27
46648612 ATTACCAAAG
* * *
46648622 TACCCTCAATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
*
46648649 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
* * *
46648676 TACACTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
46648703 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* ***
46648730 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACTATTT
* *
46648757 TACCCTCGGTTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
46648779 CAAAATACCC
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
27 114 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:46648777 original size:81 final size:81
Alignment explanation
Indices: 46648630--46648778 Score: 178
Period size: 81 Copynumber: 1.8 Consensus size: 81
46648620 AGTACCCTCA
* * ** * *
46648630 ATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTATCGTTTTACACTCGATTTATAGAAT
1 ATTTATAGAATTATCATTTTACCCTCGATTTACAAAATTATCGTAATACACTCGATTTACAAAAT
46648695 TACTGTTTTACCCTTG
66 TACTGTTTTACCCTTG
* *
46648711 ATTTATAGAATTA-CTATTTTACCCTCGATTTACAAAATTA-C-TAAAATACCCTCGGTTTACAA
1 ATTTATAGAATTATC-ATTTTACCCTCGATTTACAAAATTATCGT--AATACACTCGATTTACAA
46648773 AATTAC
63 AATTAC
46648779 CAAAATACCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
79 1 0.02
80 2 0.04
81 54 0.95
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (81 bp):
ATTTATAGAATTATCATTTTACCCTCGATTTACAAAATTATCGTAATACACTCGATTTACAAAAT
TACTGTTTTACCCTTG
Done.