Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 334 of 433
Found at i:104485756 original size:80 final size:81
Alignment explanation
Indices: 104485579--104485764 Score: 202
Period size: 80 Copynumber: 2.3 Consensus size: 81
104485569 TCGAATGATG
104485579 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
104485643 TGTACGAGTTACTAAA
66 TGTACGAGCTACTAAA
* * * * * ** *
104485659 TCTGGACTAAGAT-CCGAAGGCATTTGTG-TGAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCC
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
104485721 TTTGTGCGAGCTACTATAA
64 TTTGTACGAGCTACTA-AA
* *
104485740 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
104485765 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
79 2 0.02
80 76 0.87
81 9 0.10
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGCTACTAAA
Found at i:104493701 original size:40 final size:40
Alignment explanation
Indices: 104493620--104493795 Score: 209
Period size: 40 Copynumber: 4.4 Consensus size: 40
104493610 TCGAATGATG
* * *
104493620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
104493659 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
104493699 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
104493739 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
104493780 -CCGGGCTATGTCCCGA
1 TCCGGACTAAGTCCCGA
104493796 GGTTTGAAGA
Statistics
Matches: 124, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 25 0.20
40 97 0.78
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:104497282 original size:13 final size:13
Alignment explanation
Indices: 104497264--104497289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104497254 AATTTTGAAA
104497264 CATGTCACACGTC
1 CATGTCACACGTC
104497277 CATGTCACACGTC
1 CATGTCACACGTC
104497290 ACTAAGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
CATGTCACACGTC
Found at i:104498569 original size:43 final size:43
Alignment explanation
Indices: 104498516--104498695 Score: 211
Period size: 43 Copynumber: 4.2 Consensus size: 43
104498506 ATGCCACTAT
*
104498516 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * * *
104498559 AGAACATGACCTTTAGTGGCG-TTTTCCCCATAAACACCGTTAA
1 AGAACATGACCTTTAGCGGCGCTTTT-CCCACAAACGCCGCTAA
* * * *
104498602 AGAACATGACCTTTAGCGGTGCTTTCCCCATAAACGCTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* **
104498645 AGAACATTACCTTTAGCAACGC-TTTCCCAACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCC-ACAAACGCCGCTAA
*
104498688 AGACCATG
1 AGAACATG
104498696 TCAAATTCAA
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
42 9 0.08
43 102 0.89
44 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
Found at i:104499568 original size:2 final size:2
Alignment explanation
Indices: 104499561--104499589 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
104499551 GTTAACAATA
104499561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104499590 ATTATCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104502273 original size:40 final size:40
Alignment explanation
Indices: 104502165--104502274 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
104502155 ATTGAATGAT
* * * * *
104502165 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
104502205 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
104502245 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
104502275 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:104502289 original size:40 final size:39
Alignment explanation
Indices: 104502165--104502314 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
104502155 ATTGAATGAT
* * * * * * *
104502165 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
104502205 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
104502245 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
104502285 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
104502315 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:104509896 original size:40 final size:40
Alignment explanation
Indices: 104509788--104509897 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
104509778 ATTGAATGAT
* * * * *
104509788 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
104509828 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
104509868 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
104509898 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:104509912 original size:40 final size:39
Alignment explanation
Indices: 104509788--104509937 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
104509778 ATTGAATGAT
* * * * * * *
104509788 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
104509828 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
104509868 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
104509908 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
104509938 GGCTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:104512928 original size:48 final size:48
Alignment explanation
Indices: 104512857--104513182 Score: 345
Period size: 48 Copynumber: 6.8 Consensus size: 48
104512847 GGGTACATGT
*
104512857 GAGCTAGTGTAAGACCATGTCTGGGAAATGGCATCAGCCTTAATATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTAATATGA
*
104512905 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCCA-CCTTAACATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-CAGCCTTAATATGA
* * * *
104512953 GAGCTAGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTCAATATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTAATATGA
* * * * * **
104513001 GAGCCAGTGTAAGATCATGTTTGGAACATGGCATC-GACATTGTTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CCTTAATATGA
* * *
104513049 GAACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATAT-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTAATATGA
* * * * * ** *
104513096 TGAGCCAGTGTAAGACCATGTTTGGAACATGGAATC-GACTTTGTTACGA
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CCTTAATATGA
* * *
104513145 GAGCTAGTGTAAGACCATGTTTAGGACATAGCATCAGC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
104513183 ATCTTACCCT
Statistics
Matches: 229, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
47 4 0.02
48 220 0.96
49 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTAATATGA
Found at i:104513020 original size:96 final size:96
Alignment explanation
Indices: 104512851--104513179 Score: 433
Period size: 96 Copynumber: 3.4 Consensus size: 96
104512841 ATGTTAGGGT
* * * * * *
104512851 ACATGTGAGCTAGTGTAAGACCATGTCTGGGAAATGGCATCAGCCTTAATATGAGAGCTAGTGTA
1 ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTA
* * * * *
104512916 AGACCATGTCTGGGACATGGCATCCACCTTA
66 AGACCATGTTTGGAACATGGCATCGACATTG
*
104512947 ACATGAGAGCTAGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTA
1 ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTA
*
104513012 AGATCATGTTTGGAACATGGCATCGACATTG
66 AGACCATGTTTGGAACATGGCATCGACATTG
** * *
104513043 TTATGAGAACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTA
1 ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTA
* *
104513108 AGACCATGTTTGGAACATGGAATCGACTTTG
66 AGACCATGTTTGGAACATGGCATCGACATTG
** * * * *
104513139 TTACGAGAGCTAGTGTAAGACCATGTTTAGGACATAGCATC
1 ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
104513180 AGCATCTTAC
Statistics
Matches: 207, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 207 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (96 bp):
ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTA
AGACCATGTTTGGAACATGGCATCGACATTG
Found at i:104516499 original size:37 final size:36
Alignment explanation
Indices: 104516449--104516535 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
104516439 TACGAAGTCT
*
104516449 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACATAGTCATCGGGTC
104516485 GTACCCGGACATAATCTCCACACATAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACATAGTCATCGGGTC
104516522 TCACCCGGAACATA
1 T-ACCCGG-ACATA
104516536 TTTCCAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACATAGTCATCGGGTC
Found at i:104516681 original size:49 final size:49
Alignment explanation
Indices: 104516610--104516759 Score: 273
Period size: 49 Copynumber: 3.0 Consensus size: 49
104516600 ACATATATAG
104516610 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
104516659 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
104516708 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATATACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATAT
104516758 AT
1 AT
104516760 TATTATGTAC
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 89 0.92
50 8 0.08
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:104518945 original size:39 final size:40
Alignment explanation
Indices: 104518767--104518949 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
104518757 CCGCACCAAG
* * * * * * * *
104518767 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
104518807 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
104518847 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
104518887 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
104518926 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
104518950 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:104527026 original size:39 final size:40
Alignment explanation
Indices: 104526848--104527030 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
104526838 CCGCACCAAG
* * * * * * * *
104526848 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
104526888 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
104526928 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
104526968 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
104527007 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
104527031 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:104533262 original size:27 final size:27
Alignment explanation
Indices: 104533209--104533262 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
104533199 GAGGTATATC
104533209 GGTAATTTTGCTCTTTAGGGGTAATTT
1 GGTAATTTTGCTCTTTAGGGGTAATTT
104533236 GGTAATTTTGCTCTTTAGGGGTAATTT
1 GGTAATTTTGCTCTTTAGGGGTAATTT
104533263 CGTGATCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.48
Consensus pattern (27 bp):
GGTAATTTTGCTCTTTAGGGGTAATTT
Found at i:104533969 original size:54 final size:54
Alignment explanation
Indices: 104533902--104534052 Score: 239
Period size: 54 Copynumber: 2.8 Consensus size: 54
104533892 TACCCTATAA
* * *
104533902 GGGTATTTCGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
104533956 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
104534010 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
104534053 CTGTAAATTG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:104534015 original size:81 final size:81
Alignment explanation
Indices: 104533900--104534059 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
104533890 TCTACCCTAT
* * *
104533900 AAGGGTATTTCGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACAAACAAAAGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
*
104533965 GGTAATTTTGTAAACC
66 GGTAATTCTGTAAACC
* * ** * * *
104533981 AAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACAAACAAAAGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
104534046 GGTAATTCTGTAAA
66 GGTAATTCTGTAAA
104534060 TTGAAGGTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.39
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACAAACAAAAGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
GGTAATTCTGTAAACC
Found at i:104534059 original size:27 final size:27
Alignment explanation
Indices: 104533900--104534052 Score: 198
Period size: 27 Copynumber: 5.7 Consensus size: 27
104533890 TCTACCCTAT
* *
104533900 AAGGGTATTTCGGTAATTTTATAAACA
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
104533927 AAAGGTATTTTAGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* *
104533954 AGGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
104533981 AAGGGTATTTTAGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAACC
* *
104534008 AGGGGTATTTTGGTGATTTTATAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
104534035 AAGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
104534053 CTGTAAATTG
Statistics
Matches: 104, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAACC
Found at i:104534078 original size:81 final size:81
Alignment explanation
Indices: 104533910--104534079 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 81
104533900 AAGGGTATTT
* * *
104533910 CGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAAGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
***
104533975 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * ** * * *
104533991 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTG
1 CGGTAATTTTACAAACAAAAGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
**
104534056 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
104534072 CGGTAATT
1 CGGTAATT
104534080 CTGTAAACTG
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
81 68 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAAGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
TAAACCAAGGGTAAAA
Found at i:104534255 original size:27 final size:27
Alignment explanation
Indices: 104534047--104534233 Score: 252
Period size: 27 Copynumber: 6.9 Consensus size: 27
104534037 GGGTATTTTG
* * *
104534047 GTAATTCTGTAAATTGAAGGTAAAACG
1 GTAATTCTGTAAACTGAGGGTAAAACA
*
104534074 GTAATTCTGTAAACTGAGGGTAAAACG
1 GTAATTCTGTAAACTGAGGGTAAAACA
* *
104534101 GTAATTCTATAAA-TCGAGGGTAAAATA
1 GTAATTCTGTAAACT-GAGGGTAAAACA
*
104534128 GTAATTCTGTAAACTGAGGGGAAAACA
1 GTAATTCTGTAAACTGAGGGTAAAACA
* *
104534155 GTAATTCTGTAAA-TCGAGGATAAAATA
1 GTAATTCTGTAAACT-GAGGGTAAAACA
*
104534182 GTAATTCTGTAAACTGAGGGTAAAACG
1 GTAATTCTGTAAACTGAGGGTAAAACA
104534209 GTAATTCTGTAAACTGAGGGTAAAA
1 GTAATTCTGTAAACTGAGGGTAAAA
104534234 TGGTAATTTT
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 138 0.97
28 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAACTGAGGGTAAAACA
Found at i:104534255 original size:54 final size:54
Alignment explanation
Indices: 104534046--104534241 Score: 295
Period size: 54 Copynumber: 3.6 Consensus size: 54
104534036 AGGGTATTTT
* * **
104534046 GGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
104534100 GGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
104534154 AGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
104534208 GGTAATTCTGTAAA-CTGAGGGTAAAATGGTAATT
1 GGTAATTCTGTAAATC-GAGGGTAAAATAGTAATT
104534242 TTACAAGTCG
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 1 0.01
54 127 0.99
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:104537365 original size:28 final size:28
Alignment explanation
Indices: 104537329--104537386 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
104537319 TAGAGGTATA
104537329 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
104537357 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
104537385 TC
1 TC
104537387 ATGATCTACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.12, G:0.24, T:0.47
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:104538092 original size:54 final size:54
Alignment explanation
Indices: 104538025--104538175 Score: 239
Period size: 54 Copynumber: 2.8 Consensus size: 54
104538015 TACCCTATAA
* *
104538025 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
104538079 GGGTATTTTGGTAATTTTGTAGACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
104538133 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
104538176 CTGTAAATTG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:104538120 original size:81 final size:81
Alignment explanation
Indices: 104538023--104538180 Score: 226
Period size: 81 Copynumber: 2.0 Consensus size: 81
104538013 TCTACCCTAT
* * *
104538023 AAGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
*
104538088 GGTAATTTTGTAGACC
66 GGTAATTCTGTAGACC
* * * * * *
104538104 AAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
104538169 GGTAATTCTGTA
66 GGTAATTCTGTA
104538181 AATTGAAGGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
GGTAATTCTGTAGACC
Found at i:104538182 original size:27 final size:27
Alignment explanation
Indices: 104538023--104538175 Score: 198
Period size: 27 Copynumber: 5.7 Consensus size: 27
104538013 TCTACCCTAT
* *
104538023 AAGGGTATTTCGGTAATTTTATAAACA
1 AAGGGTATTTTGGTAATTTTATAAACC
* *
104538050 AAGGGTATTTTAGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
104538077 AGGGGTATTTTGGTAATTTTGTAGACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
104538104 AAGGGTATTTTAGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAACC
* *
104538131 AGGGGTATTTTGGTGATTTTATAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
104538158 AAGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
104538176 CTGTAAATTG
Statistics
Matches: 104, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAACC
Found at i:104538201 original size:81 final size:81
Alignment explanation
Indices: 104538033--104538202 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 81
104538023 AAGGGTATTT
* * *
104538033 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
* ***
104538098 TAGACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
104538114 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
**
104538179 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
104538195 CGGTAATT
1 CGGTAATT
104538203 CTGTAAACTG
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
81 68 0.97
82 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTG
TAAACCAAGGGTAAAA
Found at i:104538366 original size:27 final size:27
Alignment explanation
Indices: 104538169--104538364 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
104538159 AGGGTATTTT
* *
104538169 GGTAATTCTGTAAATTGAAGGTAAAAC
1 GGTAATTCTGTAAACTGAGGGTAAAAC
104538196 GGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAACTGAGGGTAAAAC
** *
104538223 GGTAA-TCAAATAAA-TCGAGGGTAAAAT
1 GGTAATTC-TGTAAACT-GAGGGTAAAAC
* *
104538250 AGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAACTGAGGGTAAAAC
* * *
104538277 AGTAATTCTGTAAA-TCGAGGATAAAAT
1 GGTAATTCTGTAAACT-GAGGGTAAAAC
*
104538304 AGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAACTGAGGGTAAAAC
* *
104538331 GGTAATTTTGTAAACTGAGGGTAAAAT
1 GGTAATTCTGTAAACTGAGGGTAAAAC
104538358 GGTAATT
1 GGTAATT
104538365 TTACAAGTCG
Statistics
Matches: 145, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.03
27 137 0.94
28 4 0.03
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
GGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:104538378 original size:54 final size:54
Alignment explanation
Indices: 104538169--104538364 Score: 261
Period size: 54 Copynumber: 3.6 Consensus size: 54
104538159 AGGGTATTTT
* * **
104538169 GGTAATTCTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
** *
104538223 GGTAA-TCAAATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTC-TGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
104538277 AGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
104538331 GGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATT
1 GGTAATTCTGTAAATC-GAGGGTAAAATAGTAATT
104538365 TTACAAGTCG
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.02
54 118 0.96
55 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (54 bp):
GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:104543546 original size:43 final size:43
Alignment explanation
Indices: 104543488--104543635 Score: 176
Period size: 43 Copynumber: 3.4 Consensus size: 43
104543478 TATCGAGATG
* *
104543488 TGATTACATCTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT-A
*
104543532 -GATTGCATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * * *
104543574 TGATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCG-A-TA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
*
104543615 CGTATTTACATGTAAGACCAT
1 TG-A-TTACATGTAAGACCAT
104543636 ATTTGCGATA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 84 0.93
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:104544673 original size:13 final size:13
Alignment explanation
Indices: 104544655--104544679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104544645 CGTGTGCGAC
104544655 ACACGGTCATGTT
1 ACACGGTCATGTT
104544668 ACACGGTCATGT
1 ACACGGTCATGT
104544680 ACCCCCTGGG
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:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:104557448 original size:40 final size:40
Alignment explanation
Indices: 104557365--104557530 Score: 135
Period size: 40 Copynumber: 4.2 Consensus size: 40
104557355 AAATTGAATA
* * * ** *
104557365 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * * *
104557405 ATATCCAGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
104557445 ATATCCGGGCT-AGA-CCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
104557483 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
104557523 ATATCCGG
1 ATATCCGG
104557531 TTATATTCCG
Statistics
Matches: 100, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
37 3 0.03
38 26 0.26
39 7 0.07
40 62 0.62
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:104565439 original size:40 final size:40
Alignment explanation
Indices: 104565356--104565522 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
104565346 AAATTGAATG
* * * ** *
104565356 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
104565396 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
104565436 ATATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
104565475 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
104565515 ATATCCGG
1 ATATCCGG
104565523 TTATATTCCG
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 31 0.30
40 68 0.65
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:104567445 original size:22 final size:22
Alignment explanation
Indices: 104567403--104567447 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
104567393 TTATTAACCC
*
104567403 AAATTAACTTGAATATAAATTA
1 AAATTAACTTAAATATAAATTA
*
104567425 AAATTAA-TTAAATTATGAATTA
1 AAATTAACTTAAA-TATAAATTA
104567447 A
1 A
104567448 TACACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATTAACTTAAATATAAATTA
Found at i:104567608 original size:12 final size:11
Alignment explanation
Indices: 104567582--104567616 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
104567572 GAAAAAAACC
104567582 AAATTAA-TAA
1 AAATTAATTAA
104567592 AAATTAATTATA
1 AAATTAATTA-A
104567604 AAATTAATTAA
1 AAATTAATTAA
104567615 AA
1 AA
104567617 TTCAACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.30
11 5 0.22
12 11 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATTAATTAA
Found at i:104568853 original size:43 final size:43
Alignment explanation
Indices: 104568759--104568859 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 43
104568749 CCGAGATGCG
* * * * *
104568759 ATTACATGTAAGAACATGTCTCGGACATTGGCATTGTATTGTG
1 ATTACGTGTAAGACCATGTCTCGGACATTGGCATCGTATTATA
104568802 ATTACGTGTAAGACCATGTCT-GGAACATTGGCATCGT-TATATA
1 ATTACGTGTAAGACCATGTCTCGG-ACATTGGCATCGTAT-TATA
*
104568845 ATTTCGTGTAAGACC
1 ATTACGTGTAAGACC
104568860 CTATCCGAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 3 0.06
43 47 0.94
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTCGGACATTGGCATCGTATTATA
Found at i:104571063 original size:48 final size:48
Alignment explanation
Indices: 104570991--104571212 Score: 247
Period size: 48 Copynumber: 4.6 Consensus size: 48
104570981 CAATTAAAGT
* * *
104570991 ACCAATGCCATGTCCTAGGCATGGTCTTACATGAATCCACATA-A-CATC
1 ACCAATGCCATGTCCCAGACATGGTCTTACA--AATGCACATATATCATC
* *
104571039 GCCAATGCCATGTCTCAGACATGGTCTTAC-AATGGCACATATATCATC
1 ACCAATGCCATGTCCCAGACATGGTCTTACAAAT-GCACATATATCATC
* * * * *
104571087 GCCGATGCCATGTCCCAGACATGGTATTACACAGGCACATATATCATC
1 ACCAATGCCATGTCCCAGACATGGTCTTACAAATGCACATATATCATC
* * *
104571135 ATCGATGCCATGTCCCAGACATGGT-TTACACA-GACACATATATCATC
1 ACCAATGCCATGTCCCAGACATGGTCTTACAAATG-CACATATATCATC
*
104571182 ATCAATGCCATGTCCCAGACATGGTCTTACA
1 ACCAATGCCATGTCCCAGACATGGTCTTACA
104571213 CGAAATCTCA
Statistics
Matches: 155, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
45 3 0.02
46 7 0.05
47 45 0.29
48 99 0.64
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (48 bp):
ACCAATGCCATGTCCCAGACATGGTCTTACAAATGCACATATATCATC
Found at i:104571182 original size:47 final size:48
Alignment explanation
Indices: 104571043--104571213 Score: 265
Period size: 48 Copynumber: 3.6 Consensus size: 48
104571033 AACATCGCCA
* **
104571043 ATGCCATGTCTCAGACATGGTCTTACA-ATGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-GGCACATATATCATCATCG
*
104571091 ATGCCATGTCCCAGACATGGTATTACACAGGCACATATATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCATCG
* *
104571139 ATGCCATGTCCCAGACATGGT-TTACACAGACACATATATCATCATCA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCATCG
104571186 ATGCCATGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
104571214 GAAATCTCAT
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 45 0.39
48 69 0.60
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCATCG
Found at i:104591793 original size:48 final size:48
Alignment explanation
Indices: 104591737--104591869 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 48
104591727 TAGGGTTATG
104591737 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-TGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCT-ATA
* * * * *
104591785 TGTGATCCCATGTAAGACGATATCTGTGATAAGGCATTGGCATCTATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATA
****
104591833 TGTGATTTGGTGTAAGACCATGTCTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
104591870 CTATATGAGA
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
48 69 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATA
Found at i:104591888 original size:42 final size:41
Alignment explanation
Indices: 104591822--104591954 Score: 110
Period size: 42 Copynumber: 3.1 Consensus size: 41
104591812 GATAAGGCAT
* * *
104591822 TGGCATCTATATGTGATTTGGTGTAAGACCATGTCTGGGACA
1 TGGCATCTATATGAGA-CTCGTGTAAGACCATGTCTGGGACA
104591864 TGGCATCTATATGAGACATCGTGTAAGACCATAG-CTGGG-CTA
1 TGGCATCTATATGAGAC-TCGTGTAAGACCAT-GTCTGGGAC-A
* * * * *
104591906 TCGACATCGATATATGA-TCTCATGTAAGACCATATCTGGGATA
1 T-GGCATC--TATATGAGACTCGTGTAAGACCATGTCTGGGACA
104591949 TGGCAT
1 TGGCAT
104591955 TGGAATCTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.01
42 39 0.53
43 26 0.35
44 1 0.01
45 7 0.09
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (41 bp):
TGGCATCTATATGAGACTCGTGTAAGACCATGTCTGGGACA
Found at i:104599855 original size:42 final size:42
Alignment explanation
Indices: 104599823--104599990 Score: 203
Period size: 42 Copynumber: 3.9 Consensus size: 42
104599813 TACACGGGAC
* * *
104599823 CTCACATCAATGCCATGTCCCAGATATAGTCTTACATGAAAT
1 CTCATATCAATGCCATATCCCAGATATGGTCTTACATGAAAT
104599865 CTCATATCAATGCCATATCCCAGATATGG-CATTACATGAAAT
1 CTCATATCAATGCCATATCCCAGATATGGTC-TTACATGAAAT
*
104599907 CTCATATCAATGCCATATCCTAGATATGGTCTTACATGAAAT
1 CTCATATCAATGCCATATCCCAGATATGGTCTTACATGAAAT
* * *
104599949 CACATACCGAGGCCGATGCCATATCCCAAATATGGTCTTACA
1 CTCATATC-A-----ATGCCATATCCCAGATATGGTCTTACA
104599991 CTGCCAATGC
Statistics
Matches: 110, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
41 1 0.01
42 82 0.75
43 2 0.02
48 25 0.23
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (42 bp):
CTCATATCAATGCCATATCCCAGATATGGTCTTACATGAAAT
Found at i:104600009 original size:33 final size:33
Alignment explanation
Indices: 104599964--104600026 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
104599954 ACCGAGGCCG
*
104599964 ATGCCATATCCCAAATATGGTCTTACACTGCCA
1 ATGCCATATCCCAAACATGGTCTTACACTGCCA
* *
104599997 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCATATCCCAAACATGGTCTTACACTG
104600027 GCTCTCATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (33 bp):
ATGCCATATCCCAAACATGGTCTTACACTGCCA
Found at i:104602490 original size:39 final size:39
Alignment explanation
Indices: 104602447--104602656 Score: 197
Period size: 39 Copynumber: 5.4 Consensus size: 39
104602437 TTAAATTATT
* * * *
104602447 AATGTTATTTGATTATACAAGTAATGTGATATATGTTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* ** *
104602486 AATGTCATGTGATTATGTGA-TATTGTGATATATGCTTG
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
**
104602524 AATGTTATGAAATTATACGAGTATTGTGATATATGCTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* ** *
104602563 AATATTATGTGATTATTTGAGTATTGTGATATATGCTTG
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* * * * * * *
104602602 TATGTTAGGTGACTATATGTGTAATATGATATATGCTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* *
104602641 AAAGTGAATGTGATTA
1 AATGT-TATGTGATTA
104602657 CCATCCAAAT
Statistics
Matches: 135, Mismatches: 34, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
38 30 0.22
39 98 0.73
40 7 0.05
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (39 bp):
AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
Found at i:104602552 original size:77 final size:78
Alignment explanation
Indices: 104602458--104602608 Score: 232
Period size: 77 Copynumber: 1.9 Consensus size: 78
104602448 ATGTTATTTG
* *
104602458 ATTATACAAGTAATGTGATATATGTTTAAATGTCATGTGATTATGTGA-TATTGTGATATATGCT
1 ATTATACAAGTAATGTGATATATGCTTAAATATCATGTGATTATGTGAGTATTGTGATATATGCT
104602522 TGAATGTTATGAA
66 TGAATGTTATGAA
* * * *
104602535 ATTATACGAGTATTGTGATATATGCTTAAATATTATGTGATTATTTGAGTATTGTGATATATGCT
1 ATTATACAAGTAATGTGATATATGCTTAAATATCATGTGATTATGTGAGTATTGTGATATATGCT
*
104602600 TGTATGTTA
66 TGAATGTTA
104602609 GGTGACTATA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
77 42 0.64
78 24 0.36
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (78 bp):
ATTATACAAGTAATGTGATATATGCTTAAATATCATGTGATTATGTGAGTATTGTGATATATGCT
TGAATGTTATGAA
Found at i:104602632 original size:78 final size:77
Alignment explanation
Indices: 104602460--104602642 Score: 231
Period size: 78 Copynumber: 2.4 Consensus size: 77
104602450 GTTATTTGAT
* * *
104602460 TATACAAGTAATGTGATATATGTTTAAATGTCATGTGATTATGTGATATTGTGATATATGCTTGA
1 TATACGAGTAATGTGATATATGCTTAAATATCATGTGATTATGTGATATTGTGATATATGCTTGA
* *
104602525 ATGTTATGAAAT
66 ATGTTAGGAAAC
* * *
104602537 TATACGAGTATTGTGATATATGCTTAAATATTATGTGATTATTTGAGTATTGTGATATATGCTTG
1 TATACGAGTAATGTGATATATGCTTAAATATCATGTGATTATGTGA-TATTGTGATATATGCTTG
* **
104602602 TATGTTAGGTGAC
65 AATGTTAGGAAAC
* * *
104602615 TATATGTGTAATATGATATATGCTTAAA
1 TATACGAGTAATGTGATATATGCTTAAA
104602643 AGTGAATGTG
Statistics
Matches: 90, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 40 0.44
78 50 0.56
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (77 bp):
TATACGAGTAATGTGATATATGCTTAAATATCATGTGATTATGTGATATTGTGATATATGCTTGA
ATGTTAGGAAAC
Found at i:104603305 original size:26 final size:26
Alignment explanation
Indices: 104603276--104603330 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
104603266 TGTTATCGAT
104603276 ACCCTATCACAAGTGTAACACCCCTA
1 ACCCTATCACAAGTGTAACACCCCTA
104603302 ACCCTATCACAAGTGTAACACCCCTA
1 ACCCTATCACAAGTGTAACACCCCTA
104603328 ACC
1 ACC
104603331 TGTATCCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.40, G:0.07, T:0.18
Consensus pattern (26 bp):
ACCCTATCACAAGTGTAACACCCCTA
Found at i:104612462 original size:40 final size:40
Alignment explanation
Indices: 104612417--104612546 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
104612407 CGGAATACAA
104612417 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
104612457 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
104612497 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
104612537 CCGGATATAA
1 CCGGATATAA
104612547 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:104615902 original size:40 final size:40
Alignment explanation
Indices: 104615847--104616056 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
104615837 AACATTGGAA
104615847 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
104615887 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
104615927 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
104615967 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
104616006 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
104616047 CTATATCCGG
1 ATATATCCGG
104616057 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:104624039 original size:40 final size:40
Alignment explanation
Indices: 104623984--104624193 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
104623974 AACATTGGAA
104623984 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
104624024 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
104624064 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
104624104 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
104624143 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
104624184 CTATATCCGG
1 ATATATCCGG
104624194 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:104635579 original size:40 final size:41
Alignment explanation
Indices: 104635535--104635633 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
104635525 TCGATTGTTC
* * **
104635535 TCGGGACATAGCCCGG-TTATAGTGA-TTTGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAACGCCT
104635575 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAACGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAACGCCT
*
104635616 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
104635634 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAACGCCT
Found at i:104636154 original size:29 final size:29
Alignment explanation
Indices: 104636117--104636396 Score: 420
Period size: 29 Copynumber: 9.7 Consensus size: 29
104636107 TGTTGAAAAA
* *
104636117 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
104636146 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
104636175 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
104636204 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
104636233 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
104636262 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
104636291 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
104636320 CTCGCACACATAGTGCCTCGATTACTGGT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* * *
104636349 CTCGCACACATAGTG-CTCGGTTAACGGAAT
1 CTCGCACACACAGTGCCTCGATT-ACTG-AT
*
104636379 -TTGCACACACAGTGCCTC
1 CTCGCACACACAGTGCCTC
104636397 TAATCATTCG
Statistics
Matches: 235, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
28 6 0.03
29 225 0.96
30 4 0.02
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCGATTACTGAT
Found at i:104642590 original size:30 final size:30
Alignment explanation
Indices: 104642554--104642684 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
104642544 GACAAGATTG
* * * * *
104642554 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
104642584 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
104642612 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104642642 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104642671 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104642685 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:104642645 original size:58 final size:58
Alignment explanation
Indices: 104642554--104642684 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
104642544 GACAAGATTG
* * * * * *
104642554 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
104642612 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
104642671 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104642685 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:104650375 original size:30 final size:30
Alignment explanation
Indices: 104650339--104650469 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
104650329 GACAAGATTG
* * * * *
104650339 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
104650369 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
104650397 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104650427 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104650456 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104650470 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:104650430 original size:58 final size:58
Alignment explanation
Indices: 104650339--104650469 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
104650329 GACAAGATTG
* * * * * *
104650339 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
104650397 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
104650456 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104650470 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:104666657 original size:20 final size:20
Alignment explanation
Indices: 104666632--104666669 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104666622 GTTTATTCGC
*
104666632 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
104666652 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
104666670 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:104668312 original size:28 final size:27
Alignment explanation
Indices: 104668280--104668347 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
104668270 GCGTAGATCA
104668280 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGC-AAATTAC
104668308 CGAAATTACCCCTAAAGAGCAAATTAC
1 CGAAATTACCCCTAAAGAGCAAATTAC
*
104668335 CGATA-TACCCCTA
1 CGAAATTACCCCTA
104668348 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 11 0.28
28 20 0.51
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCCTAAAGAGCAAATTAC
Found at i:104671997 original size:28 final size:27
Alignment explanation
Indices: 104671965--104672032 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
104671955 GCGTAGATCA
104671965 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGC-AAATTAC
104671993 CGAAATTACCCCTAAAGAGCAAATTAC
1 CGAAATTACCCCTAAAGAGCAAATTAC
*
104672020 CGATA-TACCCCTA
1 CGAAATTACCCCTA
104672033 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 11 0.28
28 20 0.51
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (27 bp):
CGAAATTACCCCTAAAGAGCAAATTAC
Found at i:104675573 original size:48 final size:48
Alignment explanation
Indices: 104675515--104676105 Score: 986
Period size: 48 Copynumber: 12.3 Consensus size: 48
104675505 ATATACACAC
* *
104675515 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
104675563 ATCTCATACATATTTCACATTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
104675611 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
104675659 ATCTCATACATATTTCACATTAGCCATTC-GCGTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGC-TTTACCACATATACAT
* *
104675707 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
104675755 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
104675803 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
104675851 ATCTCATACATATTTCACATTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
104675899 ATCTCATACATATTTCACATTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
104675947 ATCTCATATATTTTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
104675995 ATCTCATATATTTTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
104676043 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
104676091 ATCTCATATATATTT
1 ATCTCATACATATTT
104676106 ATCTTGTACA
Statistics
Matches: 525, Mismatches: 16, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 2 0.00
48 521 0.99
49 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:104677196 original size:2 final size:2
Alignment explanation
Indices: 104677189--104677217 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
104677179 TTAATCGTTA
104677189 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104677218 CAGCATTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104680463 original size:46 final size:46
Alignment explanation
Indices: 104680413--104680588 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
104680403 TGGTTGAGCA
104680413 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
104680459 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
104680504 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
104680552 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104680589 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:104680569 original size:93 final size:93
Alignment explanation
Indices: 104680410--104680581 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
104680400 GGATGGTTGA
* *
104680410 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104680475 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
104680503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104680568 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
104680582 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:104691842 original size:40 final size:40
Alignment explanation
Indices: 104691783--104691924 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
104691773 AAATTGAATG
* * *
104691783 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
104691823 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
104691863 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
104691903 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
104691925 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:104691925 original size:40 final size:39
Alignment explanation
Indices: 104691822--104691950 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
104691812 TGCTGGAAAT
* * *
104691822 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
104691862 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
104691902 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
104691942 TATATCCGG
1 TATATCCGG
104691951 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:104693357 original size:40 final size:40
Alignment explanation
Indices: 104693312--104693475 Score: 258
Period size: 40 Copynumber: 4.1 Consensus size: 40
104693302 GTGTTACAAA
* * * *
104693312 CCGGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
104693352 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
104693392 CCGGATATGGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
104693432 CCGGATATAGTAACTCGCACAAATGCATTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
104693472 CCGG
1 CCGG
104693476 TTATCATCCA
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 115 0.99
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:104699282 original size:42 final size:43
Alignment explanation
Indices: 104699193--104699336 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
104699183 AAGACCACAC
*
104699193 CTGGGACGTTGGCATCG-ACTTATGATTTACGTGTAAGACAATGT
1 CTGGGACATTGGCATCGTA-TT-TGATTTACGTGTAAGACAATGT
* * **
104699237 CTGGGACATTGGCATCGTATTTGATTT-TGTGTAAGTCCTTGT
1 CTGGGACATTGGCATCGTATTTGATTTACGTGTAAGACAATGT
* * * * * *
104699279 CTGGGACAGTGGCATCGATATTT-AATTACATGTAAGGCCACGT
1 CTGGGACATTGGCATCG-TATTTGATTTACGTGTAAGACAATGT
*
104699322 CTGGGACGTTGGCAT
1 CTGGGACATTGGCAT
104699337 TGTAAGAGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 30 0.36
43 34 0.41
44 18 0.22
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
CTGGGACATTGGCATCGTATTTGATTTACGTGTAAGACAATGT
Found at i:104708927 original size:81 final size:81
Alignment explanation
Indices: 104708800--104708966 Score: 307
Period size: 81 Copynumber: 2.1 Consensus size: 81
104708790 TGTTGTGTCT
* *
104708800 ATAAATGCTTGAAGATTTAATTGGGATTTGTTTAATATGATGATAACCATAACTTAGGTGAGAAT
1 ATAAATGCTTGAAGATTTAATTGGGATTTGTTTAATAAGATGATAACCATAACTTAAGTGAGAAT
104708865 TGGTAAGATGGGCTTG
66 TGGTAAGATGGGCTTG
*
104708881 ATAAATGCTTGAAGATTTAATTGGGATTTGTTTAATAAGATGATAACCATGACTTAAGTGAGAAT
1 ATAAATGCTTGAAGATTTAATTGGGATTTGTTTAATAAGATGATAACCATAACTTAAGTGAGAAT
104708946 TGGTAAGATGGGCTTG
66 TGGTAAGATGGGCTTG
104708962 ATAAA
1 ATAAA
104708967 GTATGGTGTC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (81 bp):
ATAAATGCTTGAAGATTTAATTGGGATTTGTTTAATAAGATGATAACCATAACTTAAGTGAGAAT
TGGTAAGATGGGCTTG
Found at i:104713565 original size:32 final size:32
Alignment explanation
Indices: 104713524--104713586 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
104713514 TAGGTCACAG
*
104713524 CCAATAACAGAATCAATTGGACCT-AGCCCAAA
1 CCAATAACAGAA-CAAGTGGACCTAAGCCCAAA
*
104713556 CCAATAACAGAACAAGTGGGCCTAAGCCCAA
1 CCAATAACAGAACAAGTGGACCTAAGCCCAA
104713587 TATAGTGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.43, C:0.29, G:0.16, T:0.13
Consensus pattern (32 bp):
CCAATAACAGAACAAGTGGACCTAAGCCCAAA
Found at i:104714418 original size:27 final size:28
Alignment explanation
Indices: 104714383--104714623 Score: 264
Period size: 27 Copynumber: 8.8 Consensus size: 28
104714373 TTTACCCAAC
* *
104714383 AGGGATATTTCGATAATTTTACACTAC-A
1 AGGG-TATTTCGATAATTTTACAATACTG
*
104714411 AGGGTATTTCGATATTTTTACAA-ACTG
1 AGGGTATTTCGATAATTTTACAATACTG
* *
104714438 GGGGTATTTCGGTAATTTTTACAAT-CTG
1 AGGGTATTTCGATAA-TTTTACAATACTG
* * * *
104714466 GGGGTATTTTGGTAATTTTACAAT-TTG
1 AGGGTATTTCGATAATTTTACAATACTG
104714493 AGGGTATTTCGATAATTTTACAA-ACTG
1 AGGGTATTTCGATAATTTTACAATACTG
*
104714520 GGGGTATTTCGATAATTTTACAAT-CTG
1 AGGGTATTTCGATAATTTTACAATACTG
* *
104714547 GGGGTATTTCGATAATTTTACAA-ATTG
1 AGGGTATTTCGATAATTTTACAATACTG
* *
104714574 AGGGTATTTCGGTAATTTTACAATTC-G
1 AGGGTATTTCGATAATTTTACAATACTG
* *
104714601 AGGGTATTTCAATAATGTTACAA
1 AGGGTATTTCGATAATTTTACAA
104714624 AACGAGGTCT
Statistics
Matches: 185, Mismatches: 21, Indels: 15
0.84 0.10 0.07
Matches are distributed among these distances:
26 2 0.01
27 154 0.83
28 29 0.16
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (28 bp):
AGGGTATTTCGATAATTTTACAATACTG
Found at i:104714582 original size:81 final size:81
Alignment explanation
Indices: 104714388--104714623 Score: 314
Period size: 81 Copynumber: 2.9 Consensus size: 81
104714378 CCAACAGGGA
* ** * *
104714388 TATTTCGATAATTTTAC-ACTACAAGGGTATTTCGATATTTTTACAAACTGGGGGTATTTCGGTA
1 TATTTCGATAATTTTACAAAT-TGAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCGATA
104714452 ATTTTTACAATCTGGGGG
65 A-TTTTACAATCTGGGGG
* * *
104714470 TATTTTGGTAATTTTACAATTTGAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCGATAA
1 TATTTCGATAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCGATAA
104714535 TTTTACAATCTGGGGG
66 TTTTACAATCTGGGGG
* * * *
104714551 TATTTCGATAATTTTACAAATTGAGGGTATTTCGGTAATTTTAC-AATTCGAGGGTATTTCAATA
1 TATTTCGATAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAACT-GGGGGTATTTCGATA
*
104714615 ATGTTACAA
65 ATTTTACAA
104714624 AACGAGGTCT
Statistics
Matches: 137, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.02
81 77 0.56
82 55 0.40
83 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (81 bp):
TATTTCGATAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCGATAA
TTTTACAATCTGGGGG
Found at i:104716405 original size:21 final size:20
Alignment explanation
Indices: 104716379--104716417 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
104716369 TGATTTACTC
104716379 CTCCAACAACCCATTCAAATT
1 CTCCAA-AACCCATTCAAATT
*
104716400 CTCCAAGACCCATTCAAA
1 CTCCAAAACCCATTCAAA
104716418 CTTAAAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.21
Consensus pattern (20 bp):
CTCCAAAACCCATTCAAATT
Found at i:104718222 original size:32 final size:32
Alignment explanation
Indices: 104718186--104718286 Score: 103
Period size: 32 Copynumber: 3.2 Consensus size: 32
104718176 ATGCGGCTCT
* *
104718186 AAGCCTTCAGTAGCGGTATTATAATTGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
** **
104718218 AAGCCATCAGTAACTATATTATTTTTGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
* * * *
104718250 TAGCCATCAGCAACGGTAATATAATCGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
*
104718282 TAGCC
1 AAGCC
104718287 TTGGGTAAAT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTATTATAATTGGCACA
Found at i:104718343 original size:27 final size:27
Alignment explanation
Indices: 104718313--104718369 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
104718303 GACATAGAGT
* * *
104718313 CATTAATAAGTATGTTAGGCACATAGC
1 CATTAATAAATACGTTAGGCACAAAGC
* *
104718340 CATTGATAAATACGTTTGGCACAAAGC
1 CATTAATAAATACGTTAGGCACAAAGC
104718367 CAT
1 CAT
104718370 AGTCAAGATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
CATTAATAAATACGTTAGGCACAAAGC
Found at i:104718804 original size:27 final size:27
Alignment explanation
Indices: 104718774--104718835 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
104718764 CAAAACAGTC
* * * **
104718774 ATTTTACCCTATAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTAGTTCGACA
*
104718801 ATTTTACACTACAAGTGTAGTTCGACA
1 ATTTTACACTACAAGGGTAGTTCGACA
104718828 ATTTTACA
1 ATTTTACA
104718836 AACTGGGGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTAGTTCGACA
Found at i:104718857 original size:27 final size:26
Alignment explanation
Indices: 104718827--104719057 Score: 196
Period size: 27 Copynumber: 8.6 Consensus size: 26
104718817 GTAGTTCGAC
104718827 AATTTTACAAACTGGGGGTATTTTGGT
1 AATTTTACAAA-TGGGGGTATTTTGGT
* **
104718854 AATTTTA-AATTCTGGGGGTATTTCAGT
1 AATTTTACAA--ATGGGGGTATTTTGGT
** *
104718881 AATTTTACAAATTAGGGTATTCTGGT
1 AATTTTACAAATGGGGGTATTTTGGT
* * * *
104718907 AATTTTACAAATCAGAGGTATTTCGAT
1 AATTTTACAAAT-GGGGGTATTTTGGT
***
104718934 AATTTTACAATATGGGGGTATTTCAAT
1 AATTTTACAA-ATGGGGGTATTTTGGT
*
104718961 -ATTTTACATATCGGGGGTATTTTGGT
1 AATTTTACAAAT-GGGGGTATTTTGGT
* *
104718987 AATTTTACAATTTGAGGGTATTTTGGT
1 AATTTTACAA-ATGGGGGTATTTTGGT
* * *
104719014 AATTTTACAATTTGAGGGTATTTTAGT
1 AATTTTACAA-ATGGGGGTATTTTGGT
104719041 AATTTTACAAACTGGGG
1 AATTTTACAAA-TGGGG
104719058 TCTTAATGAC
Statistics
Matches: 167, Mismatches: 28, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
25 2 0.01
26 43 0.26
27 117 0.70
28 5 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (26 bp):
AATTTTACAAATGGGGGTATTTTGGT
Found at i:104718927 original size:53 final size:53
Alignment explanation
Indices: 104718827--104719051 Score: 206
Period size: 53 Copynumber: 4.2 Consensus size: 53
104718817 GTAGTTCGAC
* * *
104718827 AATTTTACAAACTGGGGGTATTTTGGTAATTTTA-AATTCTGGGGGTATTTCAGT
1 AATTTTACAAA-TGAGGGTATTTTGGTAATTTTACAAATC-GGAGGTATTTCAGT
* * *
104718881 AATTTTACAAATTAGGGTATTCTGGTAATTTTACAAATCAGAGGTATTTC-GAT
1 AATTTTACAAATGAGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCAG-T
* *** * * **
104718934 AATTTTACAATATGGGGGTATTTCAAT-ATTTTACATATCGGGGGTATTTTGGT
1 AATTTTACAA-ATGAGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCAGT
* ** *
104718987 AATTTTACAATTTGAGGGTATTTTGGTAATTTTAC-AATTTGAGGGTATTTTAGT
1 AATTTTACAA-ATGAGGGTATTTTGGTAATTTTACAAATCGGA-GGTATTTCAGT
104719041 AATTTTACAAA
1 AATTTTACAAA
104719052 CTGGGGTCTT
Statistics
Matches: 138, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
52 1 0.01
53 84 0.61
54 53 0.38
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (53 bp):
AATTTTACAAATGAGGGTATTTTGGTAATTTTACAAATCGGAGGTATTTCAGT
Found at i:104719034 original size:107 final size:107
Alignment explanation
Indices: 104718787--104719057 Score: 300
Period size: 107 Copynumber: 2.5 Consensus size: 107
104718777 TTACCCTATA
* * * * * * **
104718787 AGGGTATTTCGGTAATTTTACACTACAAGTGTAGTTCGACAATTTTACAAACTGGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAATATAAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCA
*
104718852 GTAATTTTAAATTCTGGGGGTATTTCAGTAATTTTACAAATT
66 ATAATTTTAAATTCTGGGGGTATTTCAGTAATTTTACAAATT
* *
104718894 AGGGTATTCTGGTAATTTTACAA-ATCAGAGGTATTTCGATAATTTTACAATA-TGGGGGTATTT
1 AGGGTATTTTGGTAATTTTACAATATAAG-GGTATTTCGATAATTTTACAA-ACTGGGGGTATTT
* ** *
104718957 CAAT-ATTTTACATATC-GGGGGTATTTTGGTAATTTTACAATTT
64 CAATAATTTTAAAT-TCTGGGGGTATTTCAGTAATTTTACAAATT
* * *
104719000 GAGGGTATTTTGGTAATTTTACAATTTGAGGGTATTT-TAGTAATTTTACAAACTGGGG
1 -AGGGTATTTTGGTAATTTTACAATATAAGGGTATTTCGA-TAATTTTACAAACTGGGG
104719058 TCTTAATGAC
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
106 37 0.27
107 97 0.70
108 4 0.03
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (107 bp):
AGGGTATTTTGGTAATTTTACAATATAAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCA
ATAATTTTAAATTCTGGGGGTATTTCAGTAATTTTACAAATT
Found at i:104719058 original size:80 final size:79
Alignment explanation
Indices: 104718827--104719058 Score: 279
Period size: 80 Copynumber: 2.9 Consensus size: 79
104718817 GTAGTTCGAC
*
104718827 AATTTTACAAACTGGGGGTATTTTGGTAATTTTA-AATTCTGGGGGTATTTCAGTAATTTTACAA
1 AATTTTACAAA-TGAGGGTATTTTGGTAATTTTACAATT-TGGGGGTATTTCAGTAATTTTACAA
* *
104718891 ATTAGGGTATTCTGGT
64 ACTGGGGTATTCTGGT
* * * * *
104718907 AATTTTACAAATCAGAGGTATTTCGATAATTTTACAATATGGGGGTATTTCAAT-ATTTTACATA
1 AATTTTACAAATGAG-GGTATTTTGGTAATTTTACAATTTGGGGGTATTTCAGTAATTTTACA-A
* * *
104718971 TCGGGGGTATTTTGGT
64 ACTGGGGTATTCTGGT
* * *
104718987 AATTTTACAATTTGAGGGTATTTTGGTAATTTTACAATTTGAGGGTATTTTAGTAATTTTACAAA
1 AATTTTACAA-ATGAGGGTATTTTGGTAATTTTACAATTTGGGGGTATTTCAGTAATTTTACAAA
104719052 CTGGGGT
65 CTGGGGT
104719059 CTTAATGACC
Statistics
Matches: 126, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
79 10 0.08
80 102 0.81
81 14 0.11
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (79 bp):
AATTTTACAAATGAGGGTATTTTGGTAATTTTACAATTTGGGGGTATTTCAGTAATTTTACAAAC
TGGGGTATTCTGGT
Found at i:104723914 original size:27 final size:27
Alignment explanation
Indices: 104723878--104723929 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
104723868 TTTATGCACG
*
104723878 AGGGGCAAAATAGTCATTTAACTCCTT
1 AGGGGCAAAATAGTAATTTAACTCCTT
* *
104723905 AGGGGCAAAATTGTAATTTTACTCC
1 AGGGGCAAAATAGTAATTTAACTCC
104723930 ACAAGGGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (27 bp):
AGGGGCAAAATAGTAATTTAACTCCTT
Found at i:104723974 original size:27 final size:27
Alignment explanation
Indices: 104723917--104724276 Score: 490
Period size: 27 Copynumber: 13.4 Consensus size: 27
104723907 GGGCAAAATT
* * *
104723917 GTAATTTTACTCC-ACAAGGGTATCTCG
1 GTAATTCTAC-CCTACAGGGGTATTTCG
* *
104723944 GTATTTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
104723971 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
104723998 GTAATTTTATCCTACAGGGGCATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
104724025 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
104724052 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
104724079 GTAATTCAACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
104724106 GTAATTCTACCCTACA-GGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* **
104724132 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
104724159 GAAATTCTACCCTACAAGAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
104724186 GTAATTCTATCGTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
104724213 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
104724240 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
104724267 GTAATTCTAC
1 GTAATTCTAC
104724277 AACTTATCCA
Statistics
Matches: 299, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 27 0.09
27 272 0.91
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:104729358 original size:27 final size:26
Alignment explanation
Indices: 104729310--104729369 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
104729300 GCGAGGCTGC
*
104729310 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
104729337 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
104729363 CAGATAT
1 CAGATAT
104729370 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:104729373 original size:2 final size:2
Alignment explanation
Indices: 104729366--104729391 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104729356 ACCAGAACAG
104729366 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
104729392 GTGGCGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104729472 original size:27 final size:26
Alignment explanation
Indices: 104729424--104729475 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
104729414 GCGAGGCTAC
*
104729424 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
104729450 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
104729476 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:104730145 original size:27 final size:27
Alignment explanation
Indices: 104730115--104730447 Score: 244
Period size: 27 Copynumber: 12.4 Consensus size: 27
104730105 GGGGAAAAAT
*
104730115 GGTAATTTTACTCC-ATAAGGGTATCTC
1 GGTAATTTTAC-CCTATAAGGGTATTTC
*
104730142 GGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTATAAGGGTATTTC
*
104730169 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTATAAGGGTATTTC
* * * *
104730196 AGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTTTACCCTATAAGGGTATTTC
* * *
104730223 GGTAATTCTACCCTA-CAGGGTATTCC
1 GGTAATTTTACCCTATAAGGGTATTTC
** * * * *
104730249 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTATAAGGGTATTTC
* * * *
104730276 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTATAAGGGTATTTC
* * * *
104730303 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTATAAGGGTATTTC
* * * *
104730330 AGAAATTCTACCCTACAAGGGT-TATTC
1 GGTAATTTTACCCTATAAGGGTAT-TTC
* * * *
104730357 GGTAA-TTTATCGTACAGGGGTATTTC
1 GGTAATTTTACCCTATAAGGGTATTTC
* * *
104730383 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTATAAGGGTATTTC
* * * *
104730410 GGTAATTCTACCTTACAAGGGTATTAC
1 GGTAATTTTACCCTATAAGGGTATTTC
*
104730437 AGTAATTTTAC
1 GGTAATTTTAC
104730448 AACTTATCCA
Statistics
Matches: 259, Mismatches: 40, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
26 48 0.19
27 208 0.80
28 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTATAAGGGTATTTC
Found at i:104730290 original size:107 final size:107
Alignment explanation
Indices: 104730148--104730443 Score: 389
Period size: 107 Copynumber: 2.8 Consensus size: 107
104730138 TCTCGGTAAT
* * * * *
104730148 TTTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCCTATA
1 TTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA
* * *
104730213 GGGGTATTTCGGTAATTCTACCCTAC-AGGG-TATTCCAATAA
66 AGGGTATTTCAGAAATTCTACCCTACAAGGGTTATT-CAATAA
* *
104730254 TTCTACCCTACAGGGGTATTTTGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAC
1 TT-TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAC
* **
104730319 AAGGGTATTTTAGAAATTCTACCCTACAAGGGTTATTCGGTAA
65 AAGGGTATTTCAGAAATTCTACCCTACAAGGGTTATTCAATAA
* * * *
104730362 TTTATCGTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACA
1 TTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA
* *
104730427 AGGGTATTACAGTAATT
66 AGGGTATTTCAGAAATT
104730444 TTACAACTTA
Statistics
Matches: 165, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
106 2 0.01
107 149 0.90
108 10 0.06
109 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (107 bp):
TTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA
AGGGTATTTCAGAAATTCTACCCTACAAGGGTTATTCAATAA
Found at i:104730444 original size:80 final size:80
Alignment explanation
Indices: 104730133--104730443 Score: 401
Period size: 80 Copynumber: 3.9 Consensus size: 80
104730123 TACTCCATAA
* * * *
104730133 GGGTATCTCGGTAATTTTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTA-TTCAG
*
104730198 TAATTCTATCCTATAG
65 TAATTCTATCCTACAG
* * * **
104730214 GGGTATTTCGGTAATTCTACCCTAC-AGGGTATTCCAATAATTCTACCCTACAGGGGTATTTTGA
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTCAG-
*
104730278 TAATTCTACCCTACAG
65 TAATTCTATCCTACAG
* * * *
104730294 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTAGAAATTCTACCCTACAAGGGTTATTCGG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGG-TATTCAG
*
104730359 TAATT-TATCGTACAG
65 TAATTCTATCCTACAG
* * *
104730374 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTACAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATT-CAG
104730439 TAATT
65 TAATT
104730444 TTACAACTTA
Statistics
Matches: 198, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
79 7 0.04
80 132 0.67
81 54 0.27
82 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (80 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTCAGT
AATTCTATCCTACAG
Found at i:104738555 original size:43 final size:43
Alignment explanation
Indices: 104738488--104738573 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
104738478 ATCACATGTA
* * * *
104738488 TCGCATCCATTATGAACTCGAACCATTTAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGC
* *
104738531 TCGCATCCATAATGATCTCAAACCACTCAACGAGCTTGGATGC
1 TCGCATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGC
104738574 CACATATATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGC
Found at i:104741288 original size:12 final size:12
Alignment explanation
Indices: 104741271--104741300 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
104741261 ACGAACGAGC
104741271 TAAAAGTGACAT
1 TAAAAGTGACAT
104741283 TAAAAGTGACAT
1 TAAAAGTGACAT
104741295 TAAAAG
1 TAAAAG
104741301 AACTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (12 bp):
TAAAAGTGACAT
Found at i:104745974 original size:13 final size:13
Alignment explanation
Indices: 104745958--104745996 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
104745948 CGTATTTTTT
104745958 AAAATTAATTATA
1 AAAATTAATTATA
104745971 AAAATTAATTAT-
1 AAAATTAATTATA
*
104745983 AAAATTAAATATA
1 AAAATTAATTATA
104745996 A
1 A
104745997 TGATTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTAATTATA
Found at i:104745986 original size:12 final size:12
Alignment explanation
Indices: 104745957--104745996 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
104745947 ACGTATTTTT
104745957 TAAAATTAATTA
1 TAAAATTAATTA
104745969 TAAAAATTAATTA
1 T-AAAATTAATTA
*
104745982 TAAAATTAAATA
1 TAAAATTAATTA
104745994 TAA
1 TAA
104745997 TGATTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATTAATTA
Found at i:104746007 original size:25 final size:25
Alignment explanation
Indices: 104745952--104746007 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
104745942 AATAAACGTA
*
104745952 TTTTT-TAAAATTAATTATAAAAAT
1 TTTTTATAAAATTAAATATAAAAAT
** **
104745976 TAATTATAAAATTAAATATAATGAT
1 TTTTTATAAAATTAAATATAAAAAT
104746001 TTTTTAT
1 TTTTTAT
104746008 CAACAAAAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTTTATAAAATTAAATATAAAAAT
Found at i:104746241 original size:18 final size:18
Alignment explanation
Indices: 104746218--104746252 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104746208 TATATAATTA
104746218 AAATAATATTATAATGTG
1 AAATAATATTATAATGTG
*
104746236 AAATAATTTTATAATGT
1 AAATAATATTATAATGT
104746253 AACATAGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
AAATAATATTATAATGTG
Found at i:104750225 original size:48 final size:48
Alignment explanation
Indices: 104750154--104750746 Score: 943
Period size: 48 Copynumber: 12.3 Consensus size: 48
104750144 TGTACAAGAT
* * *
104750154 AAATATATATGAGATATGTATATGCGGTAAAGCCAAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
104750202 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
104750250 AAAAATATATGAGATATGTATATGTGGCAAAGCCGAATGGCTATTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
104750298 AAAAATATATGAGATATGTATATGTGGCAAAGCCGAATGGCTACTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
104750346 AAATATATATGAGATATGTATATGTGGTAAAGCCGAGTGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
104750394 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
104750442 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
104750490 AAATATGTATGAGAAATATATATATGTGGTAAAGCAGAATGGCTAATGTG
1 AAATATGTATGAG--ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
104750540 AAATATGTATGAGATATGTCTATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
104750588 AAATATGTATGAGATATGTATATATGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
104750636 AAATATGTATGAGATATGTATTTGTGGTAAAACCAAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
104750684 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
104750732 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
104750747 GTGTGTATAT
Statistics
Matches: 508, Mismatches: 35, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
48 462 0.91
50 46 0.09
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:104752296 original size:40 final size:40
Alignment explanation
Indices: 104752241--104752515 Score: 346
Period size: 40 Copynumber: 6.9 Consensus size: 40
104752231 TTGAGAGTTA
* *
104752241 TATAGCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
104752281 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
*
104752321 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
* *
104752361 TATATCCGGGCTAAGTCCCGAAGAGAATTCGTGCT-AGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGA-TGT
* *
104752401 TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT-A-GT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
* * *
104752439 AATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AGTGA
1 --TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGA-TGT
* * *
104752481 TATATCCAGGCTAA-ACCTCGAAG-GCATTCATGCTG
1 TATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTG
104752516 GAGTTATGAG
Statistics
Matches: 212, Mismatches: 16, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
38 1 0.00
39 12 0.06
40 198 0.93
42 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
Found at i:104752607 original size:29 final size:27
Alignment explanation
Indices: 104752532--104752622 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
104752522 TGAGGCATTG
* *
104752532 TGTGTGCAAGTTTTTCAACTGAGCACTA
1 TGTGTGCGAGTTTTT-AATTGAGCACTA
**
104752560 TGTGTGCGAGATTGGTAATTGAGGCACTA
1 TGTGTGCGAG-TTTTTAATTGA-GCACTA
* *
104752589 TGTGTGCGAGTTCTTTAATCGAGCGCTA
1 TGTGTGCGAGTT-TTTAATTGAGCACTA
104752617 TGTGTG
1 TGTGTG
104752623 TGAAATCAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
28 27 0.52
29 25 0.48
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (27 bp):
TGTGTGCGAGTTTTTAATTGAGCACTA
Found at i:104761849 original size:93 final size:93
Alignment explanation
Indices: 104761737--104761908 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
104761727 CGCCCATAAG
* *
104761737 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
104761802 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
104761830 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
104761895 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
104761909 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:104761905 original size:46 final size:46
Alignment explanation
Indices: 104761730--104761905 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
104761720 TGTAACCCGC
* * *
104761730 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
104761776 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
104761826 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
104761869 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
104761906 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:104765101 original size:2 final size:2
Alignment explanation
Indices: 104765094--104765124 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104765084 GTTAATGCTG
104765094 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104765125 TAACGATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104765708 original size:40 final size:40
Alignment explanation
Indices: 104765663--104765829 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
104765653 CGGAATATAA
104765663 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
104765703 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
104765743 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
104765783 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
104765822 CCGGATAT
1 CCGGATAT
104765830 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:104773620 original size:40 final size:40
Alignment explanation
Indices: 104773575--104773742 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
104773565 CGGAATATAA
104773575 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
104773615 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
104773655 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
104773695 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
104773735 CCGGATAT
1 CCGGATAT
104773743 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:104786723 original size:52 final size:52
Alignment explanation
Indices: 104786645--104786750 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
104786635 AATGTGATAT
*
104786645 TATAGACCAAGGAAAACAAGATTTGGGCTTAGAACGAGGTTGAACAAGGTCG
1 TATAGACCAAGAAAAACAAGATTTGGGCTTAGAACGAGGTTGAACAAGGTCG
104786697 TATAGACCAAGAAAAACAAGATTTGGGCTTAGAACGAGGTTGAACAAGGTCG
1 TATAGACCAAGAAAAACAAGATTTGGGCTTAGAACGAGGTTGAACAAGGTCG
104786749 TA
1 TA
104786751 CTCGAAACCG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (52 bp):
TATAGACCAAGAAAAACAAGATTTGGGCTTAGAACGAGGTTGAACAAGGTCG
Found at i:104790791 original size:30 final size:30
Alignment explanation
Indices: 104790731--104790793 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
104790721 TATGATATGG
* *
104790731 TATCTTGGATTTCTGTACCTTGGATATCTT
1 TATCTTGGATTCCTCTACCTTGGATATCTT
* * *
104790761 TATCTTGGATTCCTCTGCCTTTGATTTCTT
1 TATCTTGGATTCCTCTACCTTGGATATCTT
104790791 TAT
1 TAT
104790794 TCTAGTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (30 bp):
TATCTTGGATTCCTCTACCTTGGATATCTT
Found at i:104793832 original size:28 final size:29
Alignment explanation
Indices: 104793790--104793904 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
104793780 TACCTGTATC
* * *
104793790 TGGCCTATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
104793818 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* * *
104793847 TGGCCAATTTGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
104793876 TGGCCCATTAGG-CCTAGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
104793904 T
1 T
104793905 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 28 0.39
29 43 0.60
30 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:104793886 original size:58 final size:57
Alignment explanation
Indices: 104793781--104793889 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
104793771 AATTTCACAT
* * *
104793781 ACCTGTATCTGGCCTATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCAATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
** *
104793838 ACCTGTATATGGCCAATTTGGCCCAAATCACATTTATATGGCCCATTAGGCC
1 ACCTGTATATGGCCAATTAAGCCC-AATCACATTCATATGGCCCATTAGGCC
104793890 TAGTCACATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 20 0.44
58 25 0.56
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (57 bp):
ACCTGTATATGGCCAATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:104794149 original size:15 final size:15
Alignment explanation
Indices: 104794131--104794164 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
104794121 CTTTTTGGTA
* *
104794131 TTTTGGCTTTTCTGC
1 TTTTGGCATTTCGGC
104794146 TTTTGGCATTTCGGC
1 TTTTGGCATTTCGGC
104794161 TTTT
1 TTTT
104794165 ACCGATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.18, G:0.21, T:0.59
Consensus pattern (15 bp):
TTTTGGCATTTCGGC
Found at i:104801804 original size:21 final size:21
Alignment explanation
Indices: 104801765--104801804 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104801755 CACTATACAT
**
104801765 AGGGGCACACGCCTGTGTGAA
1 AGGGGCACACGCCCATGTGAA
104801786 AGGGGCACACGCCCATGTG
1 AGGGGCACACGCCCATGTG
104801805 GCCAATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGAA
Found at i:104803003 original size:47 final size:48
Alignment explanation
Indices: 104802932--104803158 Score: 193
Period size: 47 Copynumber: 4.9 Consensus size: 48
104802922 GGGAAGGTGT
* * * * *
104802932 CGATGCCATGTCCTAGGCACGGTCTTATACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGC
* **
104802979 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTTGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TCAAGC
* * * *
104803027 CGAT-ACATGTCCCGGACAT-GTCTTACACTGGCTTA-CGTCTCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GC
* * * * * *
104803073 CGTTG-CATGTCCCAGACAT-ATCTTACACTAGC-CCTCGTCTCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGC
*
104803119 CGATGCCATATCCCAGACATGGTCTTACACTGGCTC-TCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
104803159 AATGTGGCCG
Statistics
Matches: 144, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.01
46 59 0.41
47 61 0.42
48 21 0.15
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGC
Found at i:104803082 original size:46 final size:46
Alignment explanation
Indices: 104802971--104803153 Score: 158
Period size: 46 Copynumber: 3.9 Consensus size: 46
104802961 CTGGCTCATA
* * *
104802971 TCTCAA-GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA
1 TCTCAAGGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TCG
** * *
104803018 TCTTGTA-GCCGAT-ACATGTCCCGGACATGTCTTACACTGGCTTACG
1 TC-TCAAGGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTT-CG
* * * *
104803064 TCTCAAGGCCGTTG-CATGTCCCAGACATATCTTACACTAGCCCTCG
1 TCTCAAGGCCGATGCCATGTCCCAGACATGTCTTACACT-GGCTTCG
* * *
104803110 TCTCGATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCT
1 TCTCAAGGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT
104803154 CTCATAATGT
Statistics
Matches: 108, Mismatches: 21, Indels: 14
0.76 0.15 0.10
Matches are distributed among these distances:
45 3 0.03
46 56 0.52
47 33 0.31
48 16 0.15
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
TCTCAAGGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTCG
Found at i:104806184 original size:42 final size:42
Alignment explanation
Indices: 104806086--104806231 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 42
104806076 ATGCCAACGT
* * * * *
104806086 CCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTC
1 CCAGACATGGTCTTACACGAAATCAAATA-CGATACCAATGTC
* *
104806129 CCAGATAGGGTCTTACACGAAATCAAATACGATACCAATGTC
1 CCAGACATGGTCTTACACGAAATCAAATACGATACCAATGTC
* **
104806171 CCAGACATGGTCTTACACATAAATCATAAGT-CGATACCAACATC
1 CCAGACATGGTCTTACAC-GAAATCA-AA-TACGATACCAATGTC
* *
104806215 CTAGACGTGGTCTTACA
1 CCAGACATGGTCTTACA
104806232 TGATAACAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 27 0.31
43 30 0.35
44 28 0.33
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGAAATCAAATACGATACCAATGTC
Found at i:104807563 original size:18 final size:18
Alignment explanation
Indices: 104807540--104807575 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
104807530 ATTTCTCCTA
*
104807540 GTTAAGGACAAGGTTTTT
1 GTTAAGGACAAGATTTTT
*
104807558 GTTAAGGATAAGATTTTT
1 GTTAAGGACAAGATTTTT
104807576 CTCTTTGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.42
Consensus pattern (18 bp):
GTTAAGGACAAGATTTTT
Found at i:104813791 original size:43 final size:42
Alignment explanation
Indices: 104813702--104813852 Score: 146
Period size: 43 Copynumber: 3.6 Consensus size: 42
104813692 TCTGGTACTG
* *
104813702 TAGTACATCATCAGATAAACCAAAGAA-AATATTCTGG--CACA
1 TAGTGCATCATCAGATAAACCAAAGAATTATA-T-TGGCACACA
*
104813743 TAGTGCATTATCAGATAAACCAAAGAATGTATATTGGCACACA
1 TAGTGCATCATCAGATAAACCAAAGAAT-TATATTGGCACACA
** * * * * *
104813786 TAGTGCATCATTGGACAAGCCGAAGCAATTACATTGGCATACA
1 TAGTGCATCATCAGATAAACCAAAG-AATTATATTGGCACACA
*
104813829 CAGTGCATCATCAGATAAACCAAA
1 TAGTGCATCATCAGATAAACCAAA
104813853 TTAATCATGT
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 28 0.32
42 1 0.01
43 56 0.64
44 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.23
Consensus pattern (42 bp):
TAGTGCATCATCAGATAAACCAAAGAATTATATTGGCACACA
Found at i:104813980 original size:42 final size:42
Alignment explanation
Indices: 104813891--104814020 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
104813881 TCGATGTACA
* * * * **
104813891 GAAGTAAATATACTATCATGTAAGTGCATTATCGAACAAGCT
1 GAAGCAAATATACTAACACGTAAGTGCATCATCGAACAAATT
* * * *
104813933 AAAGCAATTATACTAATA-GATAAGTGCATCATCGAAAAAATT
1 GAAGCAAATATACTAACACG-TAAGTGCATCATCGAACAAATT
* *
104813975 GAAGCAAATATACTGACACGTAAGTGCATCATCGACCAAATT
1 GAAGCAAATATACTAACACGTAAGTGCATCATCGAACAAATT
104814017 GAAG
1 GAAG
104814021 TATAAACTTG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 1 0.01
42 69 0.97
43 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (42 bp):
GAAGCAAATATACTAACACGTAAGTGCATCATCGAACAAATT
Found at i:104814099 original size:21 final size:21
Alignment explanation
Indices: 104814073--104814112 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
104814063 ATCACATAGT
104814073 TCAATTCAA-ATTCCATCATTC
1 TCAATT-AACATTCCATCATTC
*
104814094 TCAATTAACATTTCATCAT
1 TCAATTAACATTCCATCAT
104814113 ATAATATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAATTAACATTCCATCATTC
Found at i:104814145 original size:99 final size:100
Alignment explanation
Indices: 104814036--104814228 Score: 313
Period size: 101 Copynumber: 1.9 Consensus size: 100
104814026 ACTTGTATAT
*
104814036 TTAATAGAGTAACCAGTTTCCAAATTCAT-CACATAGTTC-AATTCAAATTCCATCATTCTCAA-
1 TTAATAGAGTAACCAGTTTCCAAATTCATACACATAGTTCAAATTCAAATCCCATC--TCTCAAT
104814098 TTAACATTTCATCAT-ATAATATAACATAATATATTAG
64 TTAACA-TTCATCATCATAATATAACATAATATATTAG
104814135 TTAATAGAGTAACCAGTTTCCAAATTCATCACACATAGTTCAAATTCAAATCCCATCTCTCAATT
1 TTAATAGAGTAACCAGTTTCCAAATTCAT-ACACATAGTTCAAATTCAAATCCCATCTCTCAATT
104814200 TAACATTCATCATCATAATATAACATAAT
65 TAACATTCATCATCATAATATAACATAAT
104814229 TAAACTCAAT
Statistics
Matches: 88, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
99 29 0.33
100 14 0.16
101 31 0.35
102 14 0.16
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (100 bp):
TTAATAGAGTAACCAGTTTCCAAATTCATACACATAGTTCAAATTCAAATCCCATCTCTCAATTT
AACATTCATCATCATAATATAACATAATATATTAG
Found at i:104820464 original size:40 final size:40
Alignment explanation
Indices: 104820382--104820563 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
104820372 CCGCACCAAG
* * * * * * *
104820382 GCCTACGGGACTTAACCCGGATATCACGATTTG-ACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAATT
*
104820421 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AATT
* * *
104820461 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAATT
* ** *
104820501 GCCTTCGGGTCTTAACCCGGATATAA-ATTTTGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAATT
* *
104820540 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
104820564 CATTCAATTT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 57 0.48
40 60 0.50
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAATT
Found at i:104820481 original size:79 final size:80
Alignment explanation
Indices: 104820382--104820565 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 80
104820372 CCGCACCAAG
* * * * * *
104820382 GCCTACGGGACTTAACCCGGATATCA-CGATTTG-ACAAATGCCTTCGGGTCTTAGCCCGGATTT
1 GCCTTCGGGACTTAGCCCGGATATCAGCGACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAT
104820445 AACAACTTGCACGAA-T
66 AA-AACTTGCA-GAATT
* * *
104820461 GCCTTCGGGTCTTAGCCCGGATAT-AGCTACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATATCAGCGACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAT
** *
104820525 AAATTTTGCATAATT
66 AAAACTTGCAGAATT
* *
104820540 GTCTTCGGGGCTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
104820566 TTCAATTTCT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
78 3 0.03
79 54 0.62
80 30 0.34
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATATCAGCGACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAT
AAAACTTGCAGAATT
Found at i:104824259 original size:40 final size:40
Alignment explanation
Indices: 104824132--104824261 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
104824122 ATGCTGGAAA
* *
104824132 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
104824172 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
104824212 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
104824252 TTATATCCGG
1 TTATATCCGG
104824262 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:104832270 original size:40 final size:40
Alignment explanation
Indices: 104832105--104832272 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
104832095 AAATTGAATG
* * * ***
104832105 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGGTT
* * * *
104832145 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * *
104832185 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
*
104832225 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGGTT
104832265 ATATCCGG
1 ATATCCGG
104832273 TTGTATTCCG
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
Found at i:104836707 original size:532 final size:532
Alignment explanation
Indices: 104835697--104837679 Score: 3263
Period size: 532 Copynumber: 3.7 Consensus size: 532
104835687 TCAGGCCATA
104835697 TAATTATTTTCTATTTATTTGAACGATGAATAAATAAATAAAGTTCATTTCACATTTCACTATTA
1 TAATTATTTTCTATTTATTTGAACGATGAATAAATAAATAAAGTTCATTTCACATTTCACTATTA
* *
104835762 AGTTTTTTGTATTTTTTGTCTTTCATATTTTGAATGCATAATGAAATTGTGACAAGCAAATATTA
66 TGTTTTTTGTATTTTTTGTCTTTCATATTTTGCATGCATAATGAAATTGTGACAAGCAAATATTA
* * *
104835827 ACTCATTGATTGTCTAAGTTCAAACTAAAGATAAATGGCATTGTAAGAACGTTTACTTTGAGAGA
131 ACTCATTGATTGTCTAAGTTCAAACTAAAGATAAGTGGCATTGTAAGAACGTTTACATTGCGAGA
104835892 AAGACAACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAAGAATCGAAGTGAGC
196 AAGACAACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAAGAATCGAAGTGAGC
* **
104835957 ATTTCATTCAAATATTGAGAAGGATTATTATGTCGTCTGTAATTCCAATTAGGGAGATGGCTAGT
261 ATTTCATTCAAATACTGAGAAGGATTATTATGTCGTCTACAATTCCAATTAGGGAGATGGCTAGT
* *
104836022 CTTGGCTATCGGAGTAGTTGACTCCACGGGTAGAGACATAGATGTATTCATTGGTAGAATGATGC
326 CTTGGCTATCAGAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATGC
*
104836087 ATTGGATTAGACCCAAGATGAGTTAATTCTAAATCCGTTTATGAATTAATTCAATTGTGACGTTC
391 ATTGGACTAGACCCAAGATGAGTTAATTCTAAATCCGTTTATGAATTAATTCAATTGTGACGTTC
* * * *
104836152 ATGTTGTGATTTATATAAATCCTAAGTTAGTAACTGAACATGTTGTTCGAAAATGTGTCCATATT
456 ATGTTGTGATTTATCTAAATCCTAAGTTAGTAACTGAGCATGTTGTTGGGAAATGTGTCCATATT
104836217 GTAGTAAACATG
521 GTAGTAAACATG
*
104836229 TAATTGTTTTCTATTTATTTGAACGATGAATAAATAAATAAAGTTCATTTCACATTTCACTATTA
1 TAATTATTTTCTATTTATTTGAACGATGAATAAATAAATAAAGTTCATTTCACATTTCACTATTA
104836294 TGTTTTTTGTATTTTTTGTCTTTCATATTTTGCATGCATAATGAAATTGTGACAAGCAAATATTA
66 TGTTTTTTGTATTTTTTGTCTTTCATATTTTGCATGCATAATGAAATTGTGACAAGCAAATATTA
*
104836359 ACTCATTGATTGTCTAAGTTCAAACTGAAGATAA-TGGGCATTGTAAGAACGTTTACATTGCGAG
131 ACTCATTGATTGTCTAAGTTCAAACTAAAGATAAGT-GGCATTGTAAGAACGTTTACATTGCGAG
* *
104836423 AAAGACAACTTACTTCAGTAGATAATCTAAATAAGTCCGTAATCCTGTAAAAGAATCGAAGTGAG
195 AAAGACAACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAAGAATCGAAGTGAG
* * *
104836488 CATTTCATTCAAATATTGAGAAGGATTATTATGTCGTCTACAATTCCAAGTAGAGAGATGGCTAG
260 CATTTCATTCAAATACTGAGAAGGATTATTATGTCGTCTACAATTCCAATTAGGGAGATGGCTAG
* * **
104836553 TCTTGGCTGTCGGAGTAGTTGACTCCATTAGTAGAGACATAGATGTATTCATTGGTAGAATGATG
325 TCTTGGCTATCAGAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATG
* * * * *
104836618 CATTAGACTAGACTCAAGATGAGTTAATTCTGAATCTGTCTATGAATTAATTCAATTGTGACGTT
390 CATTGGACTAGACCCAAGATGAGTTAATTCTAAATCCGTTTATGAATTAATTCAATTGTGACGTT
* *
104836683 TATGTTGCGATTTATCTAAATCCTAAGTTAGTAACTGAGCATGTTGTTGGGAAATGTGTCCATAT
455 CATGTTGTGATTTATCTAAATCCTAAGTTAGTAACTGAGCATGTTGTTGGGAAATGTGTCCATAT
104836748 TGTAGTAAACATG
520 TGTAGTAAACATG
* *
104836761 TAATTATTTTCTATTTATTTGAATGATGAATAAATGAATAAAGTTCATTTCACATTTCACTATTA
1 TAATTATTTTCTATTTATTTGAACGATGAATAAATAAATAAAGTTCATTTCACATTTCACTATTA
*
104836826 TGTTTTTTGTATTTTTTGTCTTTCATATTTTGCATACATAATGAAATTGTGACAAGCAAATATTA
66 TGTTTTTTGTATTTTTTGTCTTTCATATTTTGCATGCATAATGAAATTGTGACAAGCAAATATTA
* *
104836891 ACTCATTGATTGTCTAAGTTCAAACTGAAGATAAGTGGCATTGTAAGAACGTTTACATTGCAAGA
131 ACTCATTGATTGTCTAAGTTCAAACTAAAGATAAGTGGCATTGTAAGAACGTTTACATTGCGAGA
* *
104836956 AAGACAACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCTTAAAAGAATCGAAGTAAGC
196 AAGACAACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAAGAATCGAAGTGAGC
104837021 ATTTCATTCAAATACTG-GAAGGATTATTATGTCGTCTACAATTCCAATTAGGGAGATGGCTAGT
261 ATTTCATTCAAATACTGAGAAGGATTATTATGTCGTCTACAATTCCAATTAGGGAGATGGCTAGT
* * * * * *
104837085 CTTGGCTGTTAGAGCAGATGACTCCACGGGTAGAGACATAGATGTATTCATTGGTAAAATGATGC
326 CTTGGCTATCAGAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATGC
*
104837150 ATTGGACTAGACCCAAGATGAGTTAATTCCAAATCCGTTTATGAATTAATTCAATTGTGACGTTC
391 ATTGGACTAGACCCAAGATGAGTTAATTCTAAATCCGTTTATGAATTAATTCAATTGTGACGTTC
104837215 ATGTTGTGATTTATCTAAATCCTAAGTTAGTAACTGAGCATGTTGTTGGGAAATGTGTCCATATT
456 ATGTTGTGATTTATCTAAATCCTAAGTTAGTAACTGAGCATGTTGTTGGGAAATGTGTCCATATT
104837280 GTAGTAAACATG
521 GTAGTAAACATG
* * * *
104837292 TCACTGTTTTCTATTTATTTGAACGATGAATAAATAAATAAAGTTAATTTCACATTTCACTATTA
1 TAATTATTTTCTATTTATTTGAACGATGAATAAATAAATAAAGTTCATTTCACATTTCACTATTA
* ** * * * *
104837357 TGGTTTTCATATTTTTTGTATTTTATATTGTGCATGCATAGTGAAATTGTGACAAGCAAATATTA
66 TGTTTTTTGTATTTTTTGTCTTTCATATTTTGCATGCATAATGAAATTGTGACAAGCAAATATTA
* *
104837422 ACTCATTGATTGTCTAAGTTCAAACTAAAGGTAAGTGGCATTGTAAGAATGTTTACATTGCGAGA
131 ACTCATTGATTGTCTAAGTTCAAACTAAAGATAAGTGGCATTGTAAGAACGTTTACATTGCGAGA
* * * * *
104837487 AAGACAACTTATTTCAGTAGACAATCTAAATGAGTCTGTAATCCCGTAAAAGAATCAAAGTGAGT
196 AAGACAACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAAGAATCGAAGTGAGC
* * * * *
104837552 ATTTGATTCAAATACTGAGAAGGATTCTTATTTCGTCTACAATTCCAATTGGGGAGATGACTAGT
261 ATTTCATTCAAATACTGAGAAGGATTATTATGTCGTCTACAATTCCAATTAGGGAGATGGCTAGT
* *
104837617 CTTGGCTATTAGAGCT-GCTT-ACTCCACGAGTAGAGACATAGATGTATTAATTGGTAGAATGAT
326 CTTGGCTATCAGAG-TAG-TTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGAT
104837680 ACTATAACAA
Statistics
Matches: 1354, Mismatches: 92, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
531 488 0.36
532 864 0.64
533 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (532 bp):
TAATTATTTTCTATTTATTTGAACGATGAATAAATAAATAAAGTTCATTTCACATTTCACTATTA
TGTTTTTTGTATTTTTTGTCTTTCATATTTTGCATGCATAATGAAATTGTGACAAGCAAATATTA
ACTCATTGATTGTCTAAGTTCAAACTAAAGATAAGTGGCATTGTAAGAACGTTTACATTGCGAGA
AAGACAACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAAGAATCGAAGTGAGC
ATTTCATTCAAATACTGAGAAGGATTATTATGTCGTCTACAATTCCAATTAGGGAGATGGCTAGT
CTTGGCTATCAGAGTAGTTGACTCCACGAGTAGAGACATAGATGTATTCATTGGTAGAATGATGC
ATTGGACTAGACCCAAGATGAGTTAATTCTAAATCCGTTTATGAATTAATTCAATTGTGACGTTC
ATGTTGTGATTTATCTAAATCCTAAGTTAGTAACTGAGCATGTTGTTGGGAAATGTGTCCATATT
GTAGTAAACATG
Found at i:104838400 original size:20 final size:20
Alignment explanation
Indices: 104838375--104838415 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
104838365 ACTAAAATGC
104838375 AAAGTTGTAAAATTTTATGA
1 AAAGTTGTAAAATTTTATGA
* * *
104838395 AAAGTTTTGAATTTTTATGA
1 AAAGTTGTAAAATTTTATGA
104838415 A
1 A
104838416 TGCATGTGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
AAAGTTGTAAAATTTTATGA
Done.