Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 63 of 79
Found at i:20755041 original size:15 final size:16
Alignment explanation
Indices: 20755021--20755050 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20755011 AAATATGCCA
20755021 TTCAACC-ATTTCCAT
1 TTCAACCAATTTCCAT
20755036 TTCAACCAATTTCCA
1 TTCAACCAATTTCCA
20755051 CACATTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (16 bp):
TTCAACCAATTTCCAT
Found at i:20756614 original size:46 final size:46
Alignment explanation
Indices: 20756547--20756639 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
20756537 CGGGTAAAAA
*
20756547 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGCAAAATAATG
1 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
20756593 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
1 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
20756639 T
1 T
20756640 ATATGATTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (46 bp):
TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
Found at i:20758312 original size:18 final size:18
Alignment explanation
Indices: 20758289--20758327 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
20758279 AAAAAGAATA
20758289 AGCATACAGTAAACTAAT
1 AGCATACAGTAAACTAAT
*
20758307 AGCATACGGTAAACTAAT
1 AGCATACAGTAAACTAAT
20758325 AGC
1 AGC
20758328 TTCTCTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (18 bp):
AGCATACAGTAAACTAAT
Found at i:20780053 original size:14 final size:14
Alignment explanation
Indices: 20780034--20780065 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
20780024 CTTTCTTTAT
20780034 TTTATGTGGAAAAC
1 TTTATGTGGAAAAC
20780048 TTTATGTGGAAAAC
1 TTTATGTGGAAAAC
20780062 TTTA
1 TTTA
20780066 AATTTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (14 bp):
TTTATGTGGAAAAC
Found at i:20782973 original size:27 final size:27
Alignment explanation
Indices: 20782954--20783236 Score: 273
Period size: 27 Copynumber: 10.5 Consensus size: 27
20782944 GTATAACAGA
20782954 CATTTTACCCTATGGGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * * * *
20782981 TATTGTACACTATAGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * *
20783008 CATTTTACCCTATAGAGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * *
20783035 TATTTTATCCTATGGGGGTATTTCATT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * *
20783062 CATTTTACCTTGTGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * *
20783089 TATTTTACCCTGTGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
*
20783116 TATTTTACCCTATGGGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
****
20783143 CATTTTACCCTGCAAGGGTATTTC-GAT
1 CATTTTACCCTATGGGGGTATTTCAG-T
* * * *
20783170 CATTTTATCCTGTAGAGGTATTTC-GAT
1 CATTTTACCCTATGGGGGTATTTCAG-T
** *
20783197 CATTTTACCCTATTAGGGTATTTTAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
20783224 CATTTTACCCTAT
1 CATTTTACCCTAT
20783237 TTTGGGGTTT
Statistics
Matches: 214, Mismatches: 40, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
26 1 0.00
27 212 0.99
28 1 0.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCAGT
Found at i:20783233 original size:81 final size:81
Alignment explanation
Indices: 20782954--20783234 Score: 364
Period size: 81 Copynumber: 3.5 Consensus size: 81
20782944 GTATAACAGA
* * * *
20782954 CATTTTACCCTATGGGGGTATTTCAGTTATTGTACACTATAGGGGTATTTCGGTCATTTTACCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTCGGTCATTTTACCCT
*
20783019 ATAGAGGTATTTCGGT
66 GTAGAGGTATTTCGGT
* * * * * *
20783035 TATTTTATCCTATGGGGGTATTTCATTCATTTTACCTTGTGGGGGTATTTCGGTTATTTTACCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTCGGTCATTTTACCCT
* *
20783100 GTGGGGGTATTTCGGT
66 GTAGAGGTATTTCGGT
* * * * *
20783116 TATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGCAAGGGTATTTCGATCATTTTATCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTCGGTCATTTTACCCT
*
20783181 GTAGAGGTATTTCGAT
66 GTAGAGGTATTTCGGT
** *
20783197 CATTTTACCCTATTAGGGTATTTTAGTCATTTTACCCT
1 CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCT
20783235 ATTTTGGGGT
Statistics
Matches: 171, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 171 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (81 bp):
CATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTGTAGGGGTATTTCGGTCATTTTACCCT
GTAGAGGTATTTCGGT
Found at i:20786056 original size:15 final size:12
Alignment explanation
Indices: 20786023--20786047 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20786013 GAATGATTGA
20786023 GGGATGATGAAT
1 GGGATGATGAAT
20786035 GGGATGATGAAT
1 GGGATGATGAAT
20786047 G
1 G
20786048 AAGGAATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (12 bp):
GGGATGATGAAT
Found at i:20787645 original size:19 final size:18
Alignment explanation
Indices: 20787621--20787665 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
20787611 ATGACTAATT
20787621 AATTTAATTCCATTT-TTAA
1 AATTTAATT--ATTTATTAA
20787640 AATTTAATTATTTAATTAA
1 AATTTAATTATTT-ATTAA
20787659 AATTTAA
1 AATTTAA
20787666 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
19 20 0.83
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTAATTATTTATTAA
Found at i:20787854 original size:21 final size:21
Alignment explanation
Indices: 20787828--20787868 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
20787818 GAGAGACCGA
20787828 TGACATTCCACTATAGTATTG
1 TGACATTCCACTATAGTATTG
20787849 TGACATTCCACTATAGTATT
1 TGACATTCCACTATAGTATT
20787869 CCACTATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (21 bp):
TGACATTCCACTATAGTATTG
Found at i:20787871 original size:13 final size:13
Alignment explanation
Indices: 20787853--20787881 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20787843 GTATTGTGAC
20787853 ATTCCACTATAGT
1 ATTCCACTATAGT
20787866 ATTCCACTATAGT
1 ATTCCACTATAGT
20787879 ATT
1 ATT
20787882 GTTCATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (13 bp):
ATTCCACTATAGT
Found at i:20790419 original size:13 final size:13
Alignment explanation
Indices: 20790376--20790429 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
20790366 AGGTTTATCG
* *
20790376 ATTTAGTTCATTT
1 ATTTATTTCTTTT
* *
20790389 GTTTATTTCTCATT
1 ATTTATTTCT-TTT
20790403 ATTTATTTCTTTT
1 ATTTATTTCTTTT
*
20790416 ATTTATTTATTTT
1 ATTTATTTCTTTT
20790429 A
1 A
20790430 ATTCATCTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
13 22 0.67
14 11 0.33
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (13 bp):
ATTTATTTCTTTT
Found at i:20799646 original size:14 final size:12
Alignment explanation
Indices: 20799615--20799646 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
20799605 GGTCGTGTGA
20799615 GCCACACAGACT
1 GCCACACAGACT
*
20799627 GCCACACAGGCT
1 GCCACACAGACT
20799639 GCCACACA
1 GCCACACA
20799647 ACCATGTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.44, G:0.19, T:0.06
Consensus pattern (12 bp):
GCCACACAGACT
Found at i:20800764 original size:14 final size:14
Alignment explanation
Indices: 20800740--20800786 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
20800730 CATTATTTTA
20800740 TTTTAATTTTAATTT
1 TTTTAA-TTTAATTT
20800755 TTTTAATTTAATTT
1 TTTTAATTTAATTT
* *
20800769 TTATATTTTAATATT
1 TTTTAATTTAAT-TT
20800784 TTT
1 TTT
20800787 GTTTGTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTTAATTT
Found at i:20800777 original size:20 final size:20
Alignment explanation
Indices: 20800735--20800777 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
20800725 TTAGCCATTA
* *
20800735 TTTTATTTTAATTTTAATTT
1 TTTTAATTTAATTTTAATAT
*
20800755 TTTTAATTTAATTTTTATAT
1 TTTTAATTTAATTTTAATAT
20800775 TTT
1 TTT
20800778 AATATTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTAATTTAATTTTAATAT
Found at i:20813897 original size:53 final size:53
Alignment explanation
Indices: 20813812--20813922 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
20813802 ATATGTTAAA
20813812 ATTCATGCACAATTAGCAACAAACTTACTGGAAATATGCAAAAATTAGAGATG
1 ATTCATGCACAATTAGCAACAAACTTACTGGAAATATGCAAAAATTAGAGATG
*
20813865 ATTCATGCACAATTAGCAACAAACTTATTGGAAATATGCAAAAATTAGAGATG
1 ATTCATGCACAATTAGCAACAAACTTACTGGAAATATGCAAAAATTAGAGATG
20813918 ATTCA
1 ATTCA
20813923 ATTCGAAATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.26
Consensus pattern (53 bp):
ATTCATGCACAATTAGCAACAAACTTACTGGAAATATGCAAAAATTAGAGATG
Found at i:20818481 original size:45 final size:45
Alignment explanation
Indices: 20818432--20818520 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
20818422 TGATACTCGG
*
20818432 TGGAATCAGCACATAGCAACCACCTTCATAATCAATAGTACCCGA
1 TGGAATCAGCACATAGCAACCACATTCATAATCAATAGTACCCGA
* *
20818477 TGGAATCAGCACATAGCAACCACATTTATAATCAATGGTACCCG
1 TGGAATCAGCACATAGCAACCACATTCATAATCAATAGTACCCG
20818521 GTACACGTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACATTCATAATCAATAGTACCCGA
Found at i:20823154 original size:45 final size:45
Alignment explanation
Indices: 20823105--20823194 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
20823095 CAATGATACT
* * *
20823105 TGGTGGAATCAGCACATAGCAACTACCTTCATAATCAATAGTACC
1 TGGTGGAATCAGCACACAACAACCACCTTCATAATCAATAGTACC
* * *
20823150 TGGTGGAATCAGCATACAACAACCACCTTTATAATCAATGGTACC
1 TGGTGGAATCAGCACACAACAACCACCTTCATAATCAATAGTACC
20823195 CGATACACGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (45 bp):
TGGTGGAATCAGCACACAACAACCACCTTCATAATCAATAGTACC
Found at i:20824861 original size:8 final size:8
Alignment explanation
Indices: 20824848--20824884 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
20824838 TATTTTTCCC
20824848 TTTATTAT
1 TTTATTAT
20824856 TTTATTA-
1 TTTATTAT
20824863 -TT-TTAT
1 TTTATTAT
20824869 TTTATTAT
1 TTTATTAT
20824877 TTTATTAT
1 TTTATTAT
20824885 CTTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 3 0.12
6 2 0.08
7 2 0.08
8 19 0.73
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTAT
Found at i:20824870 original size:13 final size:13
Alignment explanation
Indices: 20824852--20824882 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
20824842 TTTCCCTTTA
20824852 TTATTTTATTATT
1 TTATTTTATTATT
20824865 TTATTTTATTATT
1 TTATTTTATTATT
20824878 TTATT
1 TTATT
20824883 ATCTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:20824874 original size:21 final size:21
Alignment explanation
Indices: 20824848--20824906 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
20824838 TATTTTTCCC
*
20824848 TTTATTATTTTATTATTTTAT
1 TTTATTATTTTATTATTTTAA
*
20824869 TTTATTATTTTATTATCTTAA
1 TTTATTATTTTATTATTTTAA
* *
20824890 TTT-TTAATTAATTATTT
1 TTTATTATTTTATTATTT
20824907 ATTATACTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATTATTTTATTATTTTAA
Found at i:20829393 original size:42 final size:42
Alignment explanation
Indices: 20829324--20829434 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
20829314 ATAGGTAGAA
* * **
20829324 GACATGGGCATGTGCCCATGCCATGTGAGTCACACGGGTAAG
1 GACATGGGCATGTGTCCAGGCCATGTGAGTCACACGGACAAG
** * *
20829366 GACATGGGCATGTGTCCAGGCTGTGTGAGTCATATGGACAAG
1 GACATGGGCATGTGTCCAGGCCATGTGAGTCACACGGACAAG
20829408 GACATGGG-AGTGTGTCCAGGCCATGTG
1 GACATGGGCA-TGTGTCCAGGCCATGTG
20829435 GCATATAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 57 0.98
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.22
Consensus pattern (42 bp):
GACATGGGCATGTGTCCAGGCCATGTGAGTCACACGGACAAG
Found at i:20834879 original size:29 final size:29
Alignment explanation
Indices: 20834837--20834897 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
20834827 AGGAGGAACC
20834837 TATTTAGATCATAGATCGTGATGTTAAGG
1 TATTTAGATCATAGATCGTGATGTTAAGG
20834866 TATTTAGATCATAGATCGTGATGTTAAGG
1 TATTTAGATCATAGATCGTGATGTTAAGG
20834895 TAT
1 TAT
20834898 CACGAGACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (29 bp):
TATTTAGATCATAGATCGTGATGTTAAGG
Found at i:20847036 original size:15 final size:17
Alignment explanation
Indices: 20847011--20847044 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
20847001 AATAATTTAA
20847011 ATTTCTTTTT-AAAATT
1 ATTTCTTTTTAAAAATT
20847027 ATTT-TTTTTAAAAATT
1 ATTTCTTTTTAAAAATT
20847043 AT
1 AT
20847045 GAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTCTTTTTAAAAATT
Found at i:20847061 original size:21 final size:21
Alignment explanation
Indices: 20847035--20847077 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20847025 TTATTTTTTT
* * *
20847035 TAAAAATTATGAAAAAATATA
1 TAAAAATCATAAAAAAAAATA
20847056 TAAAAATCATAAAAAAAAATA
1 TAAAAATCATAAAAAAAAATA
20847077 T
1 T
20847078 TTTGTTACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAAAATCATAAAAAAAAATA
Found at i:20859204 original size:45 final size:45
Alignment explanation
Indices: 20859143--20859289 Score: 195
Period size: 45 Copynumber: 3.2 Consensus size: 45
20859133 GGGTGCCACG
*
20859143 GTGTCTTTCAAACATGGTCTTTTTTATTCTAGACTTGATGCCATA
1 GTGTCTTTCAACCATGGTCTTTTTTATTCTAGACTTGATGCCATA
*
20859188 GTGTCTTTCAACCATGGTCTTTTTTATTCTGGACTTGATGCCATA
1 GTGTCTTTCAACCATGGTCTTTTTTATTCTAGACTTGATGCCATA
* * * * ** * *
20859233 GTGTTTTTCAACCATGGTCTTATTCATTTTTCATCATGTTGCCATA
1 GTGTCTTTCAACCATGGTCTTTTTTATTCTAGA-CTTGATGCCATA
20859279 GTGTCTTTCAA
1 GTGTCTTTCAA
20859290 TTATGGTTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 70 0.78
46 20 0.22
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.46
Consensus pattern (45 bp):
GTGTCTTTCAACCATGGTCTTTTTTATTCTAGACTTGATGCCATA
Found at i:20859296 original size:91 final size:91
Alignment explanation
Indices: 20859178--20859390 Score: 245
Period size: 91 Copynumber: 2.3 Consensus size: 91
20859168 ATTCTAGACT
* * *
20859178 TGATGCCATAGTGTCTTTCAACCATGGTCTTT-TT-TATTCTGGACTTGATGCCATAGTGTTTTT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTTATTATATTCT-GACGTGATGCCATAGTGTATTT
*
20859241 CAACCATGGTCTTATTCATTTTTCA-TCA
65 CAACCATGGTCTTATTC--GTTTCATTCA
* * * * * *
20859269 TGTTGCCATAGTGTCTTTCAATTATGGT-TTTATTCATTTTCTGTCGTGTTGTCATAGTGTATTT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTTATT-ATATTCTGACGTGATGCCATAGTGTATTT
* *
20859333 CAACTATGGTCTTATTCGTTTGATTCA
65 CAACCATGGTCTTATTCGTTTCATTCA
*
20859360 TGATGCCATAGTGTCTTTCAGCTATGGTCTT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTT
20859391 ACTCAATAGA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
90 7 0.07
91 55 0.54
92 35 0.34
93 5 0.05
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.47
Consensus pattern (91 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTTATTATATTCTGACGTGATGCCATAGTGTATTTC
AACCATGGTCTTATTCGTTTCATTCA
Found at i:20859385 original size:45 final size:45
Alignment explanation
Indices: 20859178--20859578 Score: 244
Period size: 45 Copynumber: 8.9 Consensus size: 45
20859168 ATTCTAGACT
* * * *
20859178 TGATGCCATAGTGTCTTTCAACCATGGTCTTTTTTATTCTGGA--CT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATT-T-GATTCA
* * *
20859223 TGATGCCATAGTGTTTTTCAACCATGGTCTTATTCATTT-TTCATCA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTGAT--TCA
* * * ** *
20859269 TGTTGCCATAGTGTCTTTCAATTATGGTTTTATTCATTTTCTGTCG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTGAT-TCA
* * * *
20859315 TGTTGTCATAGTGTATTTCAACTATGGTCTTATTCGTTTGATTCA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTGATTCA
* * * * * *
20859360 TGATGCCATAGTGTCTTTCAGCTATGGTCTTACTCAATAGAATCG
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTGATTCA
* *** * * * * * * *
20859405 TGATTCCATAACATCGTTCAGCTATAGTTTTACTCGA-TAGAATCA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTGATTCA
** * *
20859450 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCATTT-ATGGT-A
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTGAT--TCA
* *
20859495 TGGTGCCATAGTGTCTTTCAACTATGGTCTTATTTATTTCCGA-T-A
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT--GATTCA
* * * *
20859540 T-AGTGTCGTAGTGTCTTTCTACTATGGTCTTAATCATTT
1 TGA-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
20859579 CCTTCAAGAA
Statistics
Matches: 285, Mismatches: 58, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
44 3 0.01
45 206 0.72
46 74 0.26
47 1 0.00
48 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (45 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTGATTCA
Found at i:20862383 original size:28 final size:28
Alignment explanation
Indices: 20862328--20862384 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
20862318 CAGTATTAGT
* * *
20862328 ACAGTGTGGGCCTTAGCCCATTATAGTA
1 ACAGTGTGGACCTTAGCCCAATACAGTA
*
20862356 ACAGTGTGGACCTTAGGCCAATACAGTA
1 ACAGTGTGGACCTTAGCCCAATACAGTA
20862384 A
1 A
20862385 TTAGTACAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (28 bp):
ACAGTGTGGACCTTAGCCCAATACAGTA
Found at i:20862566 original size:26 final size:26
Alignment explanation
Indices: 20862494--20862570 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
20862484 ACACTAATAT
* *
20862494 CGCAGCAAAGCTGCCAGTAATAATAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* *
20862520 TGCAGCAAAGCTACCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
20862546 CGTAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
20862571 TATATGGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:20862595 original size:52 final size:51
Alignment explanation
Indices: 20862497--20862596 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 51
20862487 CTAATATCGC
* * *
20862497 AGCAAAGCTGCCAGTAATAATAATGCAGCAAAGCTACCAGTAACAGTAACGT
1 AGCAAAGCTGCCAGTAACAATAATG-AGAAAAGCCACCAGTAACAGTAACGT
20862549 AGCAAAGCTGCCAGTAACAGTATATATG-GAAAAGCCACCAGT-ACAGTA
1 AGCAAAGCTGCCAGTAACA--ATA-ATGAGAAAAGCCACCAGTAACAGTA
20862597 TACTTCCCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
52 24 0.57
53 12 0.29
54 3 0.07
55 3 0.07
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (51 bp):
AGCAAAGCTGCCAGTAACAATAATGAGAAAAGCCACCAGTAACAGTAACGT
Found at i:20863218 original size:14 final size:15
Alignment explanation
Indices: 20863199--20863230 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
20863189 GTGGTTATAG
20863199 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
20863213 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
20863228 TTA
1 TTA
20863231 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:20865487 original size:27 final size:27
Alignment explanation
Indices: 20865429--20865945 Score: 502
Period size: 27 Copynumber: 19.1 Consensus size: 27
20865419 TATAACAGTC
* * * * *
20865429 ATTTTAACCTTCGGGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * * *
20865456 TTTTTACCCTACGAGGGTCTTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
20865483 ATTTTACCCTAT--AGGGCTATTTCGATA
1 ATTTTACCCT-TCGAGGG-TATTTCGATA
* * *
20865510 ATTTTAACCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
20865537 ATTTTACCCTTCCAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
20865564 ATTTTACCCTAT-GGGGGTATTTC-AGTA
1 ATTTTACCCT-TCGAGGGTATTTCGA-TA
* *
20865591 ACTTTACCCTTCGAGAGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
20865618 ATTTTACCCTATAG-GGGTATTTCGATA
1 ATTTTACCCT-TCGAGGGTATTTCGATA
*
20865645 ATTTCACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
20865672 ATTTTACCCTATGGA-GGTATTTC-AGTA
1 ATTTTACCCT-TCGAGGGTATTTCGA-TA
20865699 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
20865726 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
** *
20865753 ATTTTACACAAT-GGGGGTATTTC-AGTA
1 ATTTTAC-CCTTCGAGGGTATTTCGA-TA
* *
20865780 ATTTTACCCTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
** *
20865807 ATTTTACCCTTAAAGGGCATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
20865834 ATTTCACCCAAT--AGGGTTATTTCGGTA
1 ATTTTACCC-TTCGAGGG-TATTTCGATA
* * *
20865861 ATTTTGCCCTTCAAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
20865888 ATTTTACCCTTCGAGGGCATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
20865915 ATTTAACCCTATC-AGGGTATTTC-AGTA
1 ATTTTACCCT-TCGAGGGTATTTCGA-TA
20865942 ATTT
1 ATTT
20865946 GTGGCCCATT
Statistics
Matches: 407, Mismatches: 59, Indels: 48
0.79 0.11 0.09
Matches are distributed among these distances:
26 21 0.05
27 365 0.90
28 21 0.05
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:20871438 original size:28 final size:28
Alignment explanation
Indices: 20871407--20871462 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
20871397 GTATTAGTAC
* *
20871407 AGTGTGGTCCTTAGCCCATTACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
20871435 AGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
20871463 CAATACAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:20872856 original size:42 final size:41
Alignment explanation
Indices: 20872804--20872947 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 41
20872794 TTCTGATATA
*
20872804 TGTTATCGTGTAAGACCATGTCTGGGACGTTAGCACCG-ACTT
1 TGTTA-CGTGTAAGACCATGTCTGGGACATTAGCACCGTA-TT
* * *
20872846 GTGTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
1 -TGTTACGTGTAAGACCATGTCTGGGACATTAGCACCGTATT
* * * * * * *
20872888 TGTTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATG
1 TGTTACGTGTAAGACCATGTCTGGGACATTAGCACCG-TATT
*
20872930 TGATTACATGTAAGACCA
1 TG-TTACGTGTAAGACCA
20872948 CGTCCAGGAC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 32 0.38
42 35 0.41
43 18 0.21
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
TGTTACGTGTAAGACCATGTCTGGGACATTAGCACCGTATT
Found at i:20872915 original size:41 final size:42
Alignment explanation
Indices: 20872804--20872947 Score: 141
Period size: 41 Copynumber: 3.4 Consensus size: 42
20872794 TTCTGATATA
* * *
20872804 TGTTATCGTGTAAGACCATGTCTGGGACGTTAGCACCGACTTG
1 TGTT-TCGTGTAAGACCATGTCTGGGACATTGGCATCGACTTG
* *
20872847 TGTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTA-TT-
1 TGTTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-ACTTG
* * *
20872888 TGTTTCGTGTAAGACCCTATCTGGGACAGTGGCATCGA-TATG
1 TGTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGACT-TG
* *
20872930 TGATTACATGTAAGACCA
1 TG-TTTCGTGTAAGACCA
20872948 CGTCCAGGAC
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
40 2 0.02
41 33 0.39
42 32 0.38
43 17 0.20
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGACTTG
Found at i:20874909 original size:26 final size:26
Alignment explanation
Indices: 20874879--20874962 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 26
20874869 GCCAACACAC
*
20874879 CAATATCACAGTAAAGCTGCCAGTAA
1 CAATATCGCAGTAAAGCTGCCAGTAA
* * * *
20874905 TAATAACGCAGCAAAGCTGCTAGTAA
1 CAATATCGCAGTAAAGCTGCCAGTAA
*
20874931 CAGTAAT-GCAGTAAAGCTGCCAGTAA
1 CAAT-ATCGCAGTAAAGCTGCCAGTAA
20874957 CAATAT
1 CAATAT
20874963 ATGTGGCAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
25 2 0.04
26 43 0.93
27 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (26 bp):
CAATATCGCAGTAAAGCTGCCAGTAA
Found at i:20875171 original size:27 final size:26
Alignment explanation
Indices: 20875141--20875387 Score: 223
Period size: 27 Copynumber: 9.2 Consensus size: 26
20875131 TATAACAGTC
*
20875141 ATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTT-GAGGGTATTTTGGTA
* * *
20875168 ATTTTATCCTAT-AGGGGTATTTCGATA
1 ATTTTACCCT-TGA-GGGTATTTTGGTA
* *
20875195 ATTTTACCCTATGGGGGTATTTCGGTA
1 ATTTTACCCT-TGAGGGTATTTTGGTA
**
20875222 ATTTTACCCTTTGAGGGTATTTCAGTA
1 ATTTTACCC-TTGAGGGTATTTTGGTA
* * *
20875249 ATTTTACCCTTTAAGGGTATTTCGATA
1 ATTTTACCC-TTGAGGGTATTTTGGTA
* *
20875276 ATTTCACCCTATG-GGGTTATTTCGGTA
1 ATTTTACCCT-TGAGGG-TATTTTGGTA
20875303 ATTTTACCCTTTGAGGGTATTTTGGTA
1 ATTTTACCC-TTGAGGGTATTTTGGTA
*
20875330 ATTTTACCCTTCGAGGGCATTTCT-GTA
1 ATTTTACCCTT-GAGGGTATTT-TGGTA
*
20875357 ATTTTACCCTATGGGGGTATTTTGGT-
1 ATTTTACCCT-TGAGGGTATTTTGGTA
20875383 ATTTT
1 ATTTT
20875388 GTGGCCCATT
Statistics
Matches: 188, Mismatches: 20, Indels: 25
0.81 0.09 0.11
Matches are distributed among these distances:
26 13 0.07
27 167 0.89
28 8 0.04
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTGAGGGTATTTTGGTA
Found at i:20875249 original size:81 final size:80
Alignment explanation
Indices: 20875141--20875387 Score: 354
Period size: 81 Copynumber: 3.1 Consensus size: 80
20875131 TATAACAGTC
* *
20875141 ATTTTACCCTTCGAGGGTATTTTAGTAATTTTATCCTATAGGGGTATTTCGATAATTTTACCCTA
1 ATTTTACCCTTTGAGGGTATTTTAGTAATTTTACCCT-TAGGGGTATTTCGATAATTTTACCCTA
20875206 TGGGGGTATTTCGGTA
65 TGGGGGTATTTCGGTA
* * *
20875222 ATTTTACCCTTTGAGGGTATTTCAGTAATTTTACCCTTTAAGGGTATTTCGATAATTTCACCCTA
1 ATTTTACCCTTTGAGGGTATTTTAGTAATTTTACCC-TTAGGGGTATTTCGATAATTTTACCCTA
*
20875287 TGGGGTTATTTCGGTA
65 TGGGGGTATTTCGGTA
* * *
20875303 ATTTTACCCTTTGAGGGTATTTTGGTAATTTTACCCTTCGAGGGCATTTCTG-TAATTTTACCCT
1 ATTTTACCCTTTGAGGGTATTTTAGTAATTTTACCCTTAG-GGGTATTTC-GATAATTTTACCCT
*
20875367 ATGGGGGTATTTTGGT-
64 ATGGGGGTATTTCGGTA
20875383 ATTTT
1 ATTTT
20875388 GTGGCCCATT
Statistics
Matches: 149, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
80 7 0.05
81 140 0.94
82 2 0.01
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.45
Consensus pattern (80 bp):
ATTTTACCCTTTGAGGGTATTTTAGTAATTTTACCCTTAGGGGTATTTCGATAATTTTACCCTAT
GGGGGTATTTCGGTA
Found at i:20883415 original size:46 final size:46
Alignment explanation
Indices: 20883300--20883467 Score: 171
Period size: 46 Copynumber: 3.7 Consensus size: 46
20883290 GATCGGAGGG
* * * * * * *
20883300 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCT-CGACTTGAT
1 TGCCATAGTGTCTTTAAACTATGGTCTTATTCATTTTCCGTCATG-T
* * *
20883346 T-CCATAATGTCTTTCAACCATGGTCTTATTCATTTTCC-TCCATGT
1 TGCCATAGTGTCTTTAAACTATGGTCTTATTCATTTTCCGT-CATGT
* * *
20883391 TGCCATAGTTTCTTTAAATTATGGTCTTATTCATTTTCCGTCGTGT
1 TGCCATAGTGTCTTTAAACTATGGTCTTATTCATTTTCCGTCATGT
*
20883437 TGCCATAGTGTCTTTCAACTATGGTCTTATT
1 TGCCATAGTGTCTTTAAACTATGGTCTTATT
20883468 TGTTTGATTC
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 33 0.32
46 69 0.67
47 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (46 bp):
TGCCATAGTGTCTTTAAACTATGGTCTTATTCATTTTCCGTCATGT
Found at i:20883530 original size:45 final size:45
Alignment explanation
Indices: 20883437--20883649 Score: 219
Period size: 45 Copynumber: 4.7 Consensus size: 45
20883427 TCCGTCGTGT
** * * * * * * *
20883437 TGCCATAGTGTCTTTCAACTATGGTCTTATTTGTTTGATTCGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATAGTGA
** * * *
20883482 TGCCATGGCATCTTTCAGCTATGGTCTTACTCGATAGAATAATAA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATAGTGA
* * * *
20883527 TGCCATAACGTCTTTCAGATATGGTCTTGCTCAATAGAATTGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATAGTGA
* * *
20883572 TGCCATAACGTCTTTTAGCTACGGTCTTACTCGATAGAATCGTGA
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATAGTGA
* *
20883617 TGCCATAACGTCTTTCGGCTATGATCTTACTCG
1 TGCCATAACGTCTTTCAGCTATGGTCTTACTCG
20883650 TTTCTAGTAT
Statistics
Matches: 137, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 137 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (45 bp):
TGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATAGTGA
Found at i:20892866 original size:26 final size:28
Alignment explanation
Indices: 20892837--20892907 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
20892827 TCTTATCCCT
20892837 ATTTTACCCCTAG-T-AAAATTTTGACA
1 ATTTTACCCCTAGATAAAAATTTTGACA
* *
20892863 ATTTTA-CCCTCGATAAAAATTTTGACG
1 ATTTTACCCCTAGATAAAAATTTTGACA
*
20892890 ATTTTA-CCCTTGATAAAA
1 ATTTTACCCCTAGATAAAA
20892908 TTTCGAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 5 0.12
26 7 0.17
27 28 0.70
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.38
Consensus pattern (28 bp):
ATTTTACCCCTAGATAAAAATTTTGACA
Found at i:20892893 original size:27 final size:27
Alignment explanation
Indices: 20892851--20892907 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
20892841 TACCCCTAGT
20892851 AAAATTTTGACAATTTTACCCTCGATA
1 AAAATTTTGACAATTTTACCCTCGATA
* *
20892878 AAAATTTTGACGATTTTACCCTTGATA
1 AAAATTTTGACAATTTTACCCTCGATA
20892905 AAA
1 AAA
20892908 TTTCGAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (27 bp):
AAAATTTTGACAATTTTACCCTCGATA
Found at i:20893075 original size:6 final size:6
Alignment explanation
Indices: 20893059--20893103 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
20893049 TGCAAATGGA
* *
20893059 CCATTT TCATTT CCATTT CCATTT CCATTC CCATTT CCATTT CCA
1 CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT CCATTT CCA
20893104 GTTTTGGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.47
Consensus pattern (6 bp):
CCATTT
Found at i:20897817 original size:103 final size:103
Alignment explanation
Indices: 20897694--20897956 Score: 526
Period size: 103 Copynumber: 2.6 Consensus size: 103
20897684 TTAATTAATA
20897694 AACATAACTTTTTTTTCCTAATTCCATAGAAATGATCCACCCCAATAATTTATTTGAAAAAAACA
1 AACATAACTTTTTTTTCCTAATTCCATAGAAATGATCCACCCCAATAATTTATTTGAAAAAAACA
20897759 TAAAATAATAATTTATTTCGTTATGCAATGAAAAAAAC
66 TAAAATAATAATTTATTTCGTTATGCAATGAAAAAAAC
20897797 AACATAACTTTTTTTTCCTAATTCCATAGAAATGATCCACCCCAATAATTTATTTGAAAAAAACA
1 AACATAACTTTTTTTTCCTAATTCCATAGAAATGATCCACCCCAATAATTTATTTGAAAAAAACA
20897862 TAAAATAATAATTTATTTCGTTATGCAATGAAAAAAAC
66 TAAAATAATAATTTATTTCGTTATGCAATGAAAAAAAC
20897900 AACATAACTTTTTTTTCCTAATTCCATAGAAATGATCCACCCCAATAATTTATTTGA
1 AACATAACTTTTTTTTCCTAATTCCATAGAAATGATCCACCCCAATAATTTATTTGA
20897957 GTGGCTAACA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 160 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (103 bp):
AACATAACTTTTTTTTCCTAATTCCATAGAAATGATCCACCCCAATAATTTATTTGAAAAAAACA
TAAAATAATAATTTATTTCGTTATGCAATGAAAAAAAC
Found at i:20903917 original size:20 final size:20
Alignment explanation
Indices: 20903888--20903930 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
20903878 TTACAATACC
* *
20903888 TTATTTAATTATATAAAATA
1 TTATTCAATTACATAAAATA
*
20903908 TTATTCAATTACATAAATTA
1 TTATTCAATTACATAAAATA
20903928 TTA
1 TTA
20903931 CAAGTTTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTCAATTACATAAAATA
Found at i:20904229 original size:26 final size:26
Alignment explanation
Indices: 20904197--20904250 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
20904187 CGAATCTTAA
20904197 TATTATATAAAAGAAAATTTGTATAT
1 TATTATATAAAAGAAAATTTGTATAT
*
20904223 TATTATATAAAAGAAAATTTGTTTAT
1 TATTATATAAAAGAAAATTTGTATAT
20904249 TA
1 TA
20904251 GAAATAGCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (26 bp):
TATTATATAAAAGAAAATTTGTATAT
Found at i:20906179 original size:23 final size:23
Alignment explanation
Indices: 20906149--20906202 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
20906139 AACTAATCCT
*
20906149 CTCTCAAATTTCTT-CACAATTTC
1 CTCTCAAATTCCTTCCA-AATTTC
20906172 CTCTCAAATTCCTTCCAAATTTC
1 CTCTCAAATTCCTTCCAAATTTC
20906195 C-CTCAAAT
1 CTCTCAAAT
20906203 CCATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 7 0.24
23 20 0.69
24 2 0.07
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (23 bp):
CTCTCAAATTCCTTCCAAATTTC
Found at i:20906289 original size:12 final size:11
Alignment explanation
Indices: 20906257--20906298 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
20906247 CTTAAATCCC
20906257 TTTTTTTAAA-
1 TTTTTTTAAAT
**
20906267 TAATTTTAAAT
1 TTTTTTTAAAT
*
20906278 TTTTTTTAAAA
1 TTTTTTTAAAT
20906289 TTTTTTTAAA
1 TTTTTTTAAA
20906299 CCGTAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:20908367 original size:21 final size:21
Alignment explanation
Indices: 20908341--20915582 Score: 8874
Period size: 21 Copynumber: 344.3 Consensus size: 21
20908331 AACCCTTAAC
*
20908341 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20908362 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20908383 AAAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20908404 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20908425 AAAAATCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* * *
20908446 AAAAACCGTAAACATTAACCT
1 AAAAACCCTAAACCTTAACTT
*
20908467 AAAAACCCTAAACCCTAACTT
1 AAAAACCCTAAACCTTAACTT
**
20908488 AAAAACAATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
* * * *
20908510 AAAAATCCTAACCCTTAAATC
1 AAAAACCCTAAACCTTAACTT
20908531 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20908552 AATAACCCTAAACCTTAACAT
1 AAAAACCCTAAACCTTAACTT
*
20908573 AAAAACCACAAAACCTTAACTT
1 AAAAACC-CTAAACCTTAACTT
* * *
20908595 AAAAATCTTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20908616 AAAAACTCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20908637 AAAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20908658 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20908679 AAAAACTCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20908700 AAAAACCCTAAACATTAACCT
1 AAAAACCCTAAACCTTAACTT
* *
20908721 AAAAACCCTAAACCCTAACTA
1 AAAAACCCTAAACCTTAACTT
***
20908742 AAAAATAATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
* * *
20908764 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20908785 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20908806 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
20908827 AAAAACCAC-AAACCCTTAACTT
1 AAAAACC-CTAAA-CCTTAACTT
*
20908849 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20908870 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20908891 AAAAACCATATACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20908912 AAAAACCCTAAACGTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20908933 AAAAACCTTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20908954 AAAAACCATAAACCCATAACTT
1 AAAAACCCTAAA-CCTTAACTT
*
20908976 -AAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20908996 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20909017 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909038 AATAACCATAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909059 AAAAACCTTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909080 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20909101 AAAAAACCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20909122 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20909143 AATAACCCTAGACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20909164 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20909185 AAAAACCC-AAACCCTACACTT
1 AAAAACCCTAAACCTTA-ACTT
* * *
20909206 CAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20909227 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20909248 AATAACCCTAGACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20909269 AAAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20909290 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20909311 AAAAACCATAACCCATAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909332 AAAAACCTTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20909353 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909374 AAAAA-CCTAACCCTTTAAATT
1 AAAAACCCTAAACC-TTAACTT
20909395 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909416 AATAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
20909437 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909458 AATAACCCT-AACCTTCAAATT
1 AAAAACCCTAAACCTT-AACTT
*
20909479 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909500 AAAAACCTTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * * *
20909521 ACAAATCATAAACCCATAACTT
1 AAAAACCCTAAA-CCTTAACTT
* *
20909543 AAAAACGCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909564 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20909585 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909606 AATAACCCTAAACCTTAACAT
1 AAAAACCCTAAACCTTAACTT
* *
20909627 AAAAACCATAAACCATTATCTT
1 AAAAACCCTAAACC-TTAACTT
*
20909649 AAAAACCTTAAAACC----C-T
1 AAAAACCCT-AAACCTTAACTT
*
20909666 --AAACCCTAAACCCTTAAATT
1 AAAAACCCTAAA-CCTTAACTT
* *
20909686 -AAAACCCT--CCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20909704 AAAAACCCTCTAAACCTTAACTT
1 AAAAA-CC-CTAAACCTTAACTT
* *
20909727 AAAAATCGTAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
*
20909749 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909770 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20909791 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20909812 AATAACCCTAAACTTTAAATT
1 AAAAACCCTAAACCTTAACTT
20909833 AAAAACCCT-AACCATTAACTT
1 AAAAACCCTAAACC-TTAACTT
* * *
20909854 AAAAACCTTAAACTTTAACTC
1 AAAAACCCTAAACCTTAACTT
* * *
20909875 AAAAACCATAAACCCATAACAT
1 AAAAACCCTAAA-CCTTAACTT
*
20909897 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909918 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20909939 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20909960 AATAACCCTGAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * * *
20909981 CAAAATCTTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20910002 AAAAACCCT-ACCCTTTAAATT
1 AAAAACCCTAAACC-TTAACTT
*
20910023 AAAAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910044 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910065 AAAAACCATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
*
20910087 AAAAACCC-AAACCCTACACTT
1 AAAAACCCTAAACCTTA-ACTT
* * *
20910108 AAAAACCCTAACCCATAAATT
1 AAAAACCCTAAACCTTAACTT
*
20910129 AAAAACCTTAAACCTTAA-TT
1 AAAAACCCTAAACCTTAACTT
* *
20910149 CAATAACCCT--AGCTTAA--T
1 -AAAAACCCTAAACCTTAACTT
* *
20910167 ---AACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20910185 AAAAACACTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20910206 AATAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910227 AGAAACCATAAACCCTTAGCTT
1 AAAAACCCTAAA-CCTTAACTT
*
20910249 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910270 AAAAACACTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910291 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910312 AATAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20910333 AAAAACACTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20910354 AATAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910375 AGAAACCATAAACCCTTAGCTT
1 AAAAACCCTAAA-CCTTAACTT
*
20910397 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910418 AAAAACACTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910439 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910460 AATAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20910481 AAAAACACTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20910502 AATAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910523 AGAAACCATAAACCCTTAGCTT
1 AAAAACCCTAAA-CCTTAACTT
*
20910545 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910566 AAAAACACTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910587 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910608 AATAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20910629 AAAAACACTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20910650 AATAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910671 AGAAACCATAAACCCTTAGCTT
1 AAAAACCCTAAA-CCTTAACTT
*
20910693 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910714 AAAAACACTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910735 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910756 AATAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20910777 AAAAACACTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20910798 AATAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910819 AGAAACCATAAACCCTTAGCTT
1 AAAAACCCTAAA-CCTTAACTT
*
20910841 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910862 AAAAACACTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20910883 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20910904 AATAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20910925 AAAAACACTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20910946 AATAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20910967 AGAAACCATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
*
20910989 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20911010 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20911031 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20911052 AATAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911073 -AAAACCTCAAAACCTTAACTT
1 AAAAACC-CTAAACCTTAACTT
* *
20911094 AAAAATCATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
* *
20911116 AAAAAACCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
20911137 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20911158 AATAACCCT-AACCATTAAATT
1 AAAAACCCTAAACC-TTAACTT
*
20911179 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20911200 AAAAACCTTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20911221 AAAAATCATAAACCCATAACTT
1 AAAAACCCTAAA-CCTTAACTT
* *
20911243 AAAAACCCTAACCCTTAACAT
1 AAAAACCCTAAACCTTAACTT
* *
20911264 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20911285 AAAAATCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911306 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911327 AAAAACCGTAAACCATTAACTT
1 AAAAACCCTAAACC-TTAACTT
* *
20911349 AAAAACCCTAAACCATAAACCCT
1 AAAAACCCTAAACC-TTAA-CTT
*
20911372 --AAACCCTAAACCCTTAAATT
1 AAAAACCCTAAA-CCTTAACTT
* *
20911392 -AAAACCTTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911412 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
***
20911433 AAAAATTATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
* *
20911455 AAAACCCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
20911476 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911497 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911518 AAAAACCGTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20911539 AAAAACCATAAACCCATAACTT
1 AAAAACCCTAAA-CCTTAACTT
* ** *
20911561 AAACATACTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911582 -AAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20911602 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20911623 AAAAATCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20911644 AAAAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911665 AAAAACCGTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20911686 AAAAACCATAAACCCATAACTT
1 AAAAACCCTAAA-CCTTAACTT
* ** *
20911708 AAACATACTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911729 -AAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20911749 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20911770 AAAAATCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20911791 AAAAACCCTAAATCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911812 AAAAACCGTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20911833 AAAAACCATAAACCCATAACTT
1 AAAAACCCTAAA-CCTTAACTT
* ** *
20911855 AAACATACTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911876 -AAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20911896 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20911917 AAAAACCATAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20911938 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20911959 AAAAACCGTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20911980 AAAAACCATAAACCCATAACTT
1 AAAAACCCTAAA-CCTTAACTT
** *
20912002 AAAAATACTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912023 -AAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20912043 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912064 AAAAATCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912085 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20912106 AATAACCGTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912127 AAAAACCATAAACCATTAACTT
1 AAAAACCCTAAACC-TTAACTT
20912149 AAAAACCCT-AACGCTTAACTT
1 AAAAACCCTAAAC-CTTAACTT
*
20912170 AAAAACCCTAACCCTTAAAC-T
1 AAAAACCCTAAACCTT-AACTT
*
20912191 AAAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20912212 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912233 AAATATCC-AAACCCTTAAATT
1 AAAAACCCTAAA-CCTTAACTT
* *
20912254 AAAAACCCTAAACATTAACCT
1 AAAAACCCTAAACCTTAACTT
*
20912275 -AAAACCCTAAA-CTCTAACTG
1 AAAAACCCTAAACCT-TAACTT
**
20912295 AAAAACAATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
* * * *
20912317 AAAAATCCTAACCCTTAAATC
1 AAAAACCCTAAACCTTAACTT
20912338 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20912359 AATAACCGTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912380 AAAAACCATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
20912402 AAAAACCCT-AACACTTAACTT
1 AAAAACCCTAAAC-CTTAACTT
* *
20912423 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912444 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912465 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912486 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912507 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912528 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912549 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912570 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912591 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912612 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912633 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912654 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912675 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912696 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912717 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912738 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912759 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912780 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912801 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912822 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912843 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912864 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912885 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912906 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912927 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20912948 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20912969 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20912990 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913011 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913032 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913053 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913074 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913095 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913116 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913137 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913158 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913179 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913200 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913221 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913242 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913263 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913284 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913305 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913326 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913347 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913368 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913389 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913410 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913431 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913452 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913473 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913494 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913515 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913536 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913557 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913578 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913599 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913620 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913641 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913662 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913683 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913704 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913725 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913746 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913767 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913788 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913809 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913830 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913851 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913872 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913893 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913914 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913935 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20913956 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20913977 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20913998 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914019 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914040 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914061 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914082 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914103 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914124 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914145 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914166 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914187 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914208 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914229 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914250 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914271 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914292 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914313 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914334 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914355 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914376 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914397 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914418 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914439 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914460 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914481 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914502 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914523 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914544 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914565 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914586 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914607 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914628 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914649 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914670 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914691 AAAAACCTTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20914712 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914733 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20914754 AAAAACCTTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
** *
20914775 AAAAACCCTACCCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
**
20914796 -AAAACCCTAAATTTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914816 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20914837 AAAAACCATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
*
20914859 AAAAACCC-AAACCCTACACTT
1 AAAAACCCTAAACCTTA-ACTT
* * * *
20914880 AAAAACCTTAACCCCTAAATT
1 AAAAACCCTAAACCTTAACTT
20914901 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20914922 AATAACCCTAGACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
* *
20914943 TAAAACCCTAAACCCTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20914964 AAAAACCCTAACCCTTCACTT
1 AAAAACCCTAAACCTTAACTT
20914985 AAAAACCCT-AACTCTTAACTT
1 AAAAACCCTAAAC-CTTAACTT
*
20915006 AAAAACCCTAAACCTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20915027 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20915048 AAAAACCCTAACCCTTAAATT
1 AAAAACCCTAAACCTTAACTT
20915069 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20915090 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20915111 AAAAACCATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
20915133 AAAAACCCT-AACACTTAACTT
1 AAAAACCCTAAAC-CTTAACTT
*
20915154 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
20915175 AAAAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20915196 AATAACCCTAAACTTTAAATT
1 AAAAACCCTAAACCTTAACTT
*
20915217 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20915238 -AAAACCCTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20915258 AAAAACCATAAACCCATAACTT
1 AAAAACCCTAAA-CCTTAACTT
*
20915280 AAAAACCCT-AACCTTAACTA
1 AAAAACCCTAAACCTTAACTT
*
20915300 AAAAACCCTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20915321 AAAAACACTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20915342 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* * *
20915363 AATAACCCT-ACCCTTTAAATT
1 AAAAACCCTAAACC-TTAACTT
*
20915384 AAAAACCCTAAACTTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20915405 AATAACCCTAAACCTTAAGTT
1 AAAAACCCTAAACCTTAACTT
*
20915426 AATAACCCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
*
20915447 AAAAACCATAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
* *
20915469 AAAAACCTTAACCCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* **
20915490 AAAAACCCTAACCCTTAAAGT
1 AAAAACCCTAAACCTTAACTT
*
20915511 AAAAACTCTAAACCTTAACTT
1 AAAAACCCTAAACCTTAACTT
* *
20915532 AATAACCCTAAAACTTTAACTT
1 AAAAACCCT-AAACCTTAACTT
*
20915554 AAAAATCCTAAACCCTTAACTT
1 AAAAACCCTAAA-CCTTAACTT
20915576 AAAAACC
1 AAAAACC
20915583 TTAAGGTTTT
Statistics
Matches: 6155, Mismatches: 963, Indels: 205
0.84 0.13 0.03
Matches are distributed among these distances:
14 9 0.00
15 8 0.00
16 5 0.00
17 1 0.00
18 12 0.00
19 11 0.00
20 201 0.03
21 5294 0.86
22 592 0.10
23 22 0.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAACCCTAAACCTTAACTT
Found at i:20911367 original size:7 final size:7
Alignment explanation
Indices: 20911351--20911385 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
20911341 ATTAACTTAA
20911351 AAACCCT
1 AAACCCT
*
20911358 AAACCAT
1 AAACCCT
20911365 AAACCCT
1 AAACCCT
20911372 AAACCCT
1 AAACCCT
20911379 AAACCCT
1 AAACCCT
20911386 TAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:20918823 original size:125 final size:124
Alignment explanation
Indices: 20918652--20918915 Score: 465
Period size: 125 Copynumber: 2.1 Consensus size: 124
20918642 CCCAAACATG
* * * *
20918652 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGAGCGTCCACGAGGGCACGACTTCACAAATTCTTCTCAAATAGCATCCTGC
*
20918717 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTT-TTCCAGGAC
20918777 CTACTGTAGCAAAAGAGCGTCCACGAGGGCACGACTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGAGCGTCCACGAGGGCACGACTTCACAAATTCTTCTCAAATAGCATCCTGC
*
20918842 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGAC
20918901 CTACTGTAGCAAAAG
1 CTACTGTAGCAAAAG
20918916 TGCATACATG
Statistics
Matches: 133, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
124 23 0.17
125 110 0.83
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (124 bp):
CTACTGTAGCAAAAGAGCGTCCACGAGGGCACGACTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGAC
Found at i:20918972 original size:9 final size:9
Alignment explanation
Indices: 20918958--20918994 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
20918948 TTTTTTCTCC
20918958 AAAACCCTA
1 AAAACCCTA
20918967 AAAACCCTA
1 AAAACCCTA
20918976 AAAACCCT-
1 AAAACCCTA
20918984 -AAACCCTA
1 AAAACCCTA
20918992 AAA
1 AAA
20918995 TCCAAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
9 19 0.73
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAACCCTA
Found at i:20918978 original size:8 final size:8
Alignment explanation
Indices: 20918958--20919004 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 8
20918948 TTTTTTCTCC
20918958 AAAACCCT
1 AAAACCCT
20918966 AAAAACCCT
1 -AAAACCCT
20918975 AAAAACCCT
1 -AAAACCCT
20918984 -AAACCCT
1 AAAACCCT
* *
20918991 AAAATCCA
1 AAAACCCT
20918999 AAAACC
1 AAAACC
20919005 TAACGTAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.21
8 10 0.29
9 17 0.50
ACGTcount: A:0.55, C:0.34, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAACCCT
Found at i:20918989 original size:16 final size:17
Alignment explanation
Indices: 20918958--20918994 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
20918948 TTTTTTCTCC
20918958 AAAACCCTAAAAACCCTA
1 AAAACCCT-AAAACCCTA
20918976 AAAACCCT-AAACCCTA
1 AAAACCCTAAAACCCTA
20918992 AAA
1 AAA
20918995 TCCAAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAACCCTAAAACCCTA
Found at i:20919003 original size:16 final size:16
Alignment explanation
Indices: 20918966--20919004 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20918956 CCAAAACCCT
20918966 AAAAACCCTAAAAACC
1 AAAAACCCTAAAAACC
** *
20918982 CTAAACCCTAAAATCC
1 AAAAACCCTAAAAACC
20918998 AAAAACC
1 AAAAACC
20919005 TAACGTAGGA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAAACCCTAAAAACC
Found at i:20946315 original size:3 final size:3
Alignment explanation
Indices: 20946307--20946338 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
20946297 CATACATACA
*
20946307 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20946339 ATTATAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:20952197 original size:40 final size:40
Alignment explanation
Indices: 20952148--20952287 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
20952138 AACACACCAG
* *
20952148 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
20952188 TTTGACACCCAGTGTCTCATCGGCTAAACCAAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
20952226 -TTGGCACCTAGTGCCTCATCGAATATATCCGAAATAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCCGAAGTAATAA
*
20952266 TTTGACACCCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
20952288 AATCGAAGTA
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
37 20 0.25
38 8 0.10
39 2 0.03
40 31 0.39
41 18 0.23
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Found at i:20952468 original size:15 final size:15
Alignment explanation
Indices: 20952419--20952470 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
20952409 CAATTCAAAT
*
20952419 AATCAATATATATTC
1 AATCAATATAAATTC
*
20952434 AATATATATATACCAATTC
1 AAT-CA-ATATA--AATTC
20952453 AATCAATATAAATTC
1 AATCAATATAAATTC
20952468 AAT
1 AAT
20952471 AAATTCATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 10 0.33
18 1 0.03
19 7 0.23
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AATCAATATAAATTC
Found at i:20952493 original size:24 final size:24
Alignment explanation
Indices: 20952448--20952494 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
20952438 TATATATACC
20952448 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
20952472 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
20952495 CTATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:20953182 original size:11 final size:10
Alignment explanation
Indices: 20953166--20953239 Score: 51
Period size: 11 Copynumber: 6.8 Consensus size: 10
20953156 CCCTTTCTCC
20953166 TTTTCTTTCCT
1 TTTTCTTT-CT
20953177 TTTTCTTTCT
1 TTTTCTTTCT
20953187 TTTTCCTTT-T
1 TTTT-CTTTCT
20953197 TGTTTCGTTTCT
1 T-TTTC-TTTCT
* *
20953209 ATCTTGTTTCT
1 -TTTTCTTTCT
*
20953220 TTTACTATTTCT
1 TTT--TCTTTCT
20953232 TTTTCTTT
1 TTTTCTTT
20953240 TATTTTGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
10 15 0.29
11 23 0.45
12 12 0.24
13 1 0.02
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:20959120 original size:40 final size:40
Alignment explanation
Indices: 20959076--20959209 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
20959066 CCAGTTTGGA
*
20959076 ACCCAGTGCCTCATCGGATAATTCGAAGTAATAATTTGAC
1 ACCCAGTGCCTCATCGGATAATACGAAGTAATAATTTGAC
* * * * *
20959116 ACCCAGTGTCTCATTGGCTAA-ACCAAGGT-A-AA-TTGGC
1 ACCCAGTGCCTCATCGGATAATACGAA-GTAATAATTTGAC
* * *
20959153 ACCTAGTGCCTCATTGGATATATCCGAAGTAATAATTTGAC
1 ACCCAGTGCCTCATCGGATA-ATACGAAGTAATAATTTGAC
*
20959194 ACCCAGTGTCTCATCG
1 ACCCAGTGCCTCATCG
20959210 ACCCGAAGTC
Statistics
Matches: 73, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
37 21 0.29
38 5 0.07
39 8 0.11
40 22 0.30
41 17 0.23
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (40 bp):
ACCCAGTGCCTCATCGGATAATACGAAGTAATAATTTGAC
Found at i:20960103 original size:11 final size:11
Alignment explanation
Indices: 20960079--20960154 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
20960069 GCCCTTTCTC
*
20960079 CTTTTTT-TTC
1 CTTTTTTCTTT
20960089 CTTTTTTCTTT
1 CTTTTTTCTTT
*
20960100 CTTTTTCCTTT
1 CTTTTTTCTTT
*
20960111 C-TGTTTCGTTT
1 CTTTTTTC-TTT
* * *
20960122 CTATCTTGTTT
1 CTTTTTTCTTT
*
20960133 CTTTTATTATTT
1 CTTTT-TTCTTT
20960145 C-TTTTTCTTT
1 CTTTTTTCTTT
20960155 TATTTTGTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
10 16 0.32
11 26 0.52
12 8 0.16
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:20978146 original size:138 final size:138
Alignment explanation
Indices: 20977898--20978160 Score: 526
Period size: 138 Copynumber: 1.9 Consensus size: 138
20977888 GGAATTGGGG
20977898 TTTCCATTTTTTGGTTTTCTGGAAGTAGGGTTTTTATTCTTTTCAGCAAACGAGGTTGTCGTTTT
1 TTTCCATTTTTTGGTTTTCTGGAAGTAGGGTTTTTATTCTTTTCAGCAAACGAGGTTGTCGTTTT
20977963 CAGGGTTTTTTTGGATGACTGTGGCAATTCTCCCTCCAATTTTAAAGTGGGGGGGGGGGGGGGGT
66 CAGGGTTTTTTTGGATGACTGTGGCAATTCTCCCTCCAATTTTAAAGTGGGGGGGGGGGGGGGGT
20978028 TTTTTTTT
131 TTTTTTTT
20978036 TTTCCATTTTTTGGTTTTCTGGAAGTAGGGTTTTTATTCTTTTCAGCAAACGAGGTTGTCGTTTT
1 TTTCCATTTTTTGGTTTTCTGGAAGTAGGGTTTTTATTCTTTTCAGCAAACGAGGTTGTCGTTTT
20978101 CAGGGTTTTTTTGGATGACTGTGGCAATTCTCCCTCCAATTTTAAAGTGGGGGGGGGGGG
66 CAGGGTTTTTTTGGATGACTGTGGCAATTCTCCCTCCAATTTTAAAGTGGGGGGGGGGGG
20978161 ATGGTTATTT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 125 1.00
ACGTcount: A:0.15, C:0.13, G:0.29, T:0.43
Consensus pattern (138 bp):
TTTCCATTTTTTGGTTTTCTGGAAGTAGGGTTTTTATTCTTTTCAGCAAACGAGGTTGTCGTTTT
CAGGGTTTTTTTGGATGACTGTGGCAATTCTCCCTCCAATTTTAAAGTGGGGGGGGGGGGGGGGT
TTTTTTTT
Found at i:20988920 original size:15 final size:15
Alignment explanation
Indices: 20988902--20988950 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
20988892 AAATTTTAAC
20988902 AAATAAAAATATATA
1 AAATAAAAATATATA
20988917 AAATAACTAAATAT-TA
1 AAATAA--AAATATATA
*
20988933 AATTAAAAATAATATA
1 AAATAAAAAT-ATATA
20988949 AA
1 AA
20988951 TATATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.14
15 8 0.28
16 11 0.38
17 6 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAAAATATATA
Found at i:20988949 original size:27 final size:25
Alignment explanation
Indices: 20988914--20988972 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
20988904 ATAAAAATAT
* *
20988914 ATAAAATAACTAAATATTAAATTAAAA
1 ATAATATAAATAAATATT--ATTAAAA
* *
20988941 ATAATATAAATATATATTTTTAAAA
1 ATAATATAAATAAATATTATTAAAA
20988966 ATAATAT
1 ATAATAT
20988973 GGATAAGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 13 0.46
27 15 0.54
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAAATAAATATTATTAAAA
Found at i:20988950 original size:23 final size:25
Alignment explanation
Indices: 20988916--20988972 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
20988906 AAAAATATAT
*
20988916 AAAATAA-CTAAATAT-TA-AATTA
1 AAAATAATATAAATATATATAATTA
**
20988938 AAAATAATATAAATATATATTTTTA
1 AAAATAATATAAATATATATAATTA
20988963 AAAATAATAT
1 AAAATAATAT
20988973 GGATAAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.24
23 7 0.24
24 2 0.07
25 13 0.45
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AAAATAATATAAATATATATAATTA
Found at i:20992871 original size:20 final size:20
Alignment explanation
Indices: 20992846--20992886 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20992836 ATAATTTTTT
20992846 TAAAAAATAAC-TTAAAAAAA
1 TAAAAAA-AACATTAAAAAAA
*
20992866 TAAAAAAAACATTTAAAAAA
1 TAAAAAAAACATTAAAAAAA
20992886 T
1 T
20992887 CAACAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAAAAAAACATTAAAAAAA
Found at i:20999643 original size:13 final size:13
Alignment explanation
Indices: 20999625--20999651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20999615 TGTTGTTCAA
20999625 GGATATTACCATT
1 GGATATTACCATT
20999638 GGATATTACCATT
1 GGATATTACCATT
20999651 G
1 G
20999652 CTTAAAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (13 bp):
GGATATTACCATT
Found at i:21001506 original size:24 final size:25
Alignment explanation
Indices: 21001471--21001518 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
21001461 TTATGAAATT
21001471 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
21001495 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
21001519 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:21001714 original size:16 final size:16
Alignment explanation
Indices: 21001693--21001734 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
21001683 TTATTAAATT
*
21001693 ATATATTTTAATTATA
1 ATATATTTTAATAATA
21001709 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
21001724 AT-TATGTTTAA
1 ATATAT-TTTAA
21001735 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:21001719 original size:15 final size:15
Alignment explanation
Indices: 21001684--21001725 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21001674 TTAAGAATTT
*
21001684 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21001698 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21001712 TATTTAATAATAAT
1 TATTTAATTATAAT
21001726 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21002272 original size:20 final size:21
Alignment explanation
Indices: 21002249--21002291 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
21002239 AATTTAAAAA
21002249 TAAAAAATAAAAAAATAT-TT
1 TAAAAAATAAAAAAATATATT
**
21002269 TAAAATTTAAAAAAATATATT
1 TAAAAAATAAAAAAATATATT
21002290 TA
1 TA
21002292 TTATATACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAAAATAAAAAAATATATT
Found at i:21008963 original size:17 final size:17
Alignment explanation
Indices: 21008928--21008960 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21008918 TTAAGACAAG
*
21008928 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
21008945 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
21008961 ATAATACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:21014189 original size:20 final size:19
Alignment explanation
Indices: 21014166--21014204 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21014156 TCTTATTTAT
*
21014166 TTCTTATTTATTTCCTTTTC
1 TTCTTATTT-TTCCCTTTTC
*
21014186 TTCTTCTTTTTCCCTTTTC
1 TTCTTATTTTTCCCTTTTC
21014205 ACGTTCTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTATTTTTCCCTTTTC
Found at i:21016360 original size:30 final size:31
Alignment explanation
Indices: 21016315--21016374 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21016305 GGAGGTGAGA
*
21016315 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
21016346 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
21016375 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:21016671 original size:9 final size:9
Alignment explanation
Indices: 21016654--21016684 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21016644 TCGAGTTGAT
21016654 TCGAATAAC
1 TCGAATAAC
*
21016663 TCGATTAAC
1 TCGAATAAC
21016672 TCGAATAAC
1 TCGAATAAC
21016681 TCGA
1 TCGA
21016685 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:21033594 original size:14 final size:14
Alignment explanation
Indices: 21033569--21033606 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
21033559 GATTGTTGTT
*
21033569 AGAAGTGTGCTAATG
1 AGAAG-GTGCTAATA
21033584 AGAAGGTGCTAATA
1 AGAAGGTGCTAATA
21033598 AGAAGGTGC
1 AGAAGGTGC
21033607 ATGTCTAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (14 bp):
AGAAGGTGCTAATA
Found at i:21034205 original size:20 final size:18
Alignment explanation
Indices: 21034158--21034206 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
21034148 CAAGATAAAC
21034158 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
21034175 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
21034195 ATTAAATTAATA
1 ATTAAATTAATA
21034207 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:21040057 original size:2 final size:2
Alignment explanation
Indices: 21040050--21040074 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21040040 AAAATTAAAA
21040050 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 A
21040075 AAATTGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21043164 original size:24 final size:24
Alignment explanation
Indices: 21043038--21043238 Score: 137
Period size: 24 Copynumber: 8.5 Consensus size: 24
21043028 TTAAGCTTAA
* *
21043038 TATTATTCTTAAATTTATCAT-CAA
1 TATTATT-TTAAATTTATCATGTAT
* * *
21043062 TATTATTTT-AATTTGTAATATAT
1 TATTATTTTAAATTTATCATGTAT
* *
21043085 TATTATTTTAAAATTATCAT-TAC
1 TATTATTTTAAATTTATCATGTAT
* *
21043108 CATTA-CTTAAATTTATCATGTATT
1 TATTATTTTAAATTTATCATGTA-T
* *
21043132 TGTTA-TTTAAATTCATCATGTAT
1 TATTATTTTAAATTTATCATGTAT
*
21043155 TATTATTTTAAGTTTTAT-ATGTAT
1 TATTATTTTAA-ATTTATCATGTAT
* * *
21043179 TATTATTCTAAGTTT-TCATGTGT
1 TATTATTTTAAATTTATCATGTAT
* * * *
21043202 AATTGCTTTTTTAATTTATCATATAT
1 TATT--ATTTTAAATTTATCATGTAT
21043228 TATTATTTTAA
1 TATTATTTTAA
21043239 TTTCATCTAT
Statistics
Matches: 135, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
22 21 0.16
23 36 0.27
24 58 0.43
25 11 0.08
26 9 0.07
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTTTAAATTTATCATGTAT
Found at i:21043252 original size:24 final size:25
Alignment explanation
Indices: 21043117--21043252 Score: 71
Period size: 24 Copynumber: 5.7 Consensus size: 25
21043107 CCATTACTTA
*
21043117 AATTT-ATC-ATGTATTTGTTA-TTT
1 AATTTCATCTATGTA-TTATTATTTT
*
21043140 AAATTCATC-ATGTATTATTATTTT
1 AATTTCATCTATGTATTATTATTTT
* *
21043164 AAGTTT--TATATGTATTATTATTCT
1 AA-TTTCATCTATGTATTATTATTTT
* *
21043188 AAGTTT--TCATGTGTAATTGCTT-TTTT
1 AA-TTTCATC-TATGT-ATT-ATTATTTT
*
21043214 AATTT-ATC-ATATATTATTATTTT
1 AATTTCATCTATGTATTATTATTTT
21043237 AATTTCATCTAT-TATT
1 AATTTCATCTATGTATT
21043253 TATATAGTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
22 2 0.02
23 22 0.24
24 43 0.48
25 11 0.12
26 10 0.11
27 2 0.02
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (25 bp):
AATTTCATCTATGTATTATTATTTT
Found at i:21048522 original size:41 final size:41
Alignment explanation
Indices: 21048477--21048597 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 41
21048467 ACCAACACTT
* * *
21048477 AGCCTGCTAGACATATAGTCTGAAATGTTTTACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATTA
* * * *
21048518 AGCCTCCTAAACGTAAAGTCTGATATTGTTTCACCGGTATTA
1 AGCCTGCTAGACGTAAAGTCTGA-AATGTTTCACCGGCATTA
*
21048560 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACTGGCA
1 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCA
21048598 ATAAACCTCA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 31 0.46
42 36 0.54
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATTA
Found at i:21053349 original size:12 final size:12
Alignment explanation
Indices: 21053332--21053358 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21053322 GATGATGACA
21053332 AAAGTAGATCAC
1 AAAGTAGATCAC
21053344 AAAGTAGATCAC
1 AAAGTAGATCAC
21053356 AAA
1 AAA
21053359 TATTTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (12 bp):
AAAGTAGATCAC
Found at i:21054405 original size:13 final size:13
Alignment explanation
Indices: 21054387--21054411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21054377 ACCCATCGAT
21054387 ATTTAATAATATA
1 ATTTAATAATATA
21054400 ATTTAATAATAT
1 ATTTAATAATAT
21054412 GATCAGACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAATAATATA
Found at i:21064341 original size:39 final size:39
Alignment explanation
Indices: 21064283--21064554 Score: 382
Period size: 39 Copynumber: 6.9 Consensus size: 39
21064273 AACATGTATT
* *
21064283 TGAGTATTATGATAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
21064322 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
21064361 TGAGTATTATGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
21064400 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * **
21064439 TGAGTATTATGATATATGCTTAAATGTTATGTGAAAATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * * * *
21064478 TGAGTGTTGTGGTATATGCTTAAATCTTACGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
** * * *
21064517 TGCTTAATGTGATATATGCTTAAATGTTAACGTGATTA
1 TGAGTATTGTGATATATGCTTGAATGTT-ATGTGATTA
21064555 CCATGTAAAT
Statistics
Matches: 211, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 202 0.96
40 9 0.04
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:21064543 original size:17 final size:17
Alignment explanation
Indices: 21064508--21064539 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21064498 TAAATCTTAC
21064508 GTGATTATATGCTTAAT
1 GTGATTATATGCTTAAT
21064525 GTGA-TATATGCTTAA
1 GTGATTATATGCTTAA
21064540 ATGTTAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
GTGATTATATGCTTAAT
Found at i:21067775 original size:36 final size:36
Alignment explanation
Indices: 21067734--21067817 Score: 134
Period size: 35 Copynumber: 2.4 Consensus size: 36
21067724 TTTTTTATGG
21067734 ATTTTTTTAAAAAACTACAATTCCACAAAACAAGAT
1 ATTTTTTTAAAAAACTACAATTCCACAAAACAAGAT
*
21067770 ATTTTTTT-AAAAACTACAATTCCACAAAACACGAT
1 ATTTTTTTAAAAAACTACAATTCCACAAAACAAGAT
* *
21067805 GTTTTTCTAAAAA
1 ATTTTTTTAAAAA
21067818 CTAAGGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 32 0.73
36 12 0.27
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (36 bp):
ATTTTTTTAAAAAACTACAATTCCACAAAACAAGAT
Found at i:21077381 original size:12 final size:11
Alignment explanation
Indices: 21077344--21077386 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
21077334 CTTAATTGTT
21077344 AAATTTTTTTG
1 AAATTTTTTTG
* *
21077355 AGATTTTTCT-
1 AAATTTTTTTG
21077365 AAATTTTTTTG
1 AAATTTTTTTG
21077376 ACAATTTTTTT
1 A-AATTTTTTT
21077387 ATATTCTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 8 0.31
11 9 0.35
12 9 0.35
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (11 bp):
AAATTTTTTTG
Found at i:21077382 original size:22 final size:21
Alignment explanation
Indices: 21077343--21077384 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21077333 TCTTAATTGT
*
21077343 TAAATTTTTTTGAGATTTTTC
1 TAAATTTTTTTGAAATTTTTC
21077364 TAAATTTTTTTGACAATTTTT
1 TAAATTTTTTTGA-AATTTTT
21077385 TTATATTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (21 bp):
TAAATTTTTTTGAAATTTTTC
Found at i:21077966 original size:24 final size:22
Alignment explanation
Indices: 21077939--21078012 Score: 53
Period size: 24 Copynumber: 3.3 Consensus size: 22
21077929 TTAAAAATTA
21077939 AATTATAATTATTTTTAAATGTGT
1 AATTATAATTATTTTT-AATGT-T
* * ** *
21077963 AATTGTCACAATTTTT-AT-TA
1 AATTATAATTATTTTTAATGTT
21077983 AATTATAATTATTTTTAGATGTAT
1 AATTATAATTATTTTTA-ATGT-T
21078007 AATTAT
1 AATTAT
21078013 CAAAACTTCT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
20 12 0.33
21 1 0.03
22 4 0.11
23 1 0.03
24 18 0.50
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (22 bp):
AATTATAATTATTTTTAATGTT
Found at i:21080139 original size:40 final size:41
Alignment explanation
Indices: 21080083--21080216 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 41
21080073 GACACTTTTG
* * *
21080083 TGCAATTCAGGGGTATCAAAGTACAAAGAGGGGCACATATA
1 TGCAATTTAGGGGTATCAAAGTACAAACAAGGGCACATATA
* * *
21080124 TGCAA-TTAGGGGTATCGAAGTACAAACAATGGCACATATC
1 TGCAATTTAGGGGTATCAAAGTACAAACAAGGGCACATATA
* * * *
21080164 TGCAATTTAGGGGTACCAGAGTACAAACAAGGGCACGTATG
1 TGCAATTTAGGGGTATCAAAGTACAAACAAGGGCACATATA
21080205 TGCAATTTAGGG
1 TGCAATTTAGGG
21080217 AATAATTAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 34 0.43
41 46 0.57
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
TGCAATTTAGGGGTATCAAAGTACAAACAAGGGCACATATA
Found at i:21097270 original size:30 final size:30
Alignment explanation
Indices: 21097197--21097275 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
21097187 TTCGACAACT
* * * *
21097197 GAAGCCATCCCCTTCCATAGTTCGACTGCA
1 GAAGCTATCCCTTTCCATAGTTCAACAGCA
* *
21097227 GAAGGTATTCCTTTCCATAGTTCAACAGTC-
1 GAAGCTATCCCTTTCCATAGTTCAACAG-CA
*
21097257 GAAGCTATCCCTTTTCATA
1 GAAGCTATCCCTTTCCATA
21097276 ATTTTGATGG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (30 bp):
GAAGCTATCCCTTTCCATAGTTCAACAGCA
Found at i:21097303 original size:32 final size:31
Alignment explanation
Indices: 21097261--21097339 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 31
21097251 ACAGTCGAAG
*
21097261 CTATCCCTTTTCATAATTTTGATGGTTGTCA
1 CTATCCCTTTTCATAATTTTAATGGTTGTCA
*
21097292 CTATCCCCTTTT-AT--TGTTAATGGTTGTCA
1 CTAT-CCCTTTTCATAATTTTAATGGTTGTCA
*
21097321 CCATCCCTTTTCATAATTT
1 CTATCCCTTTTCATAATTT
21097340 GATAATCGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 7 0.17
29 18 0.45
31 8 0.20
32 7 0.17
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (31 bp):
CTATCCCTTTTCATAATTTTAATGGTTGTCA
Found at i:21097336 original size:60 final size:60
Alignment explanation
Indices: 21097263--21097466 Score: 170
Period size: 60 Copynumber: 3.4 Consensus size: 60
21097253 AGTCGAAGCT
*
21097263 ATCCCTTTTCATAATTTTGATGGTTGTCACTATCCCCTTTTATTGTTAATGGTTGTCACC
1 ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCCTTTTATTGTTAATGGTTGTCACC
** * * * *
21097323 ATCCCTTTTCATAA-TTTGATAATCG-GAGCTAT--CCTTTTCA-TGATTAGATAGCTG-AAGCC
1 ATCCCTTTTCATAATTTTGATGGTCGTCA-CTATCCCCTTTT-ATTG-TTA-ATGGTTGTCA-CC
* * * * * ** *
21097382 ATCCCTTTTCGTAATTTTGATGGTCGTCACCATCCCATTTCATTGTTGATGGTCATCGCC
1 ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCCTTTTATTGTTAATGGTTGTCACC
*
21097442 ATCCCTTTTCATAA-TTTGATAGTCG
1 ATCCCTTTTCATAATTTTGATGGTCG
21097467 AAGCTATCCC
Statistics
Matches: 110, Mismatches: 23, Indels: 23
0.71 0.15 0.15
Matches are distributed among these distances:
57 8 0.07
58 6 0.05
59 42 0.38
60 44 0.40
61 4 0.04
62 6 0.05
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCCTTTTATTGTTAATGGTTGTCACC
Found at i:21097391 original size:30 final size:31
Alignment explanation
Indices: 21097321--21097514 Score: 133
Period size: 30 Copynumber: 6.5 Consensus size: 31
21097311 ATGGTTGTCA
* *
21097321 CCATCCCTTTTCATAATTTGATA-ATCGGAG
1 CCATCCCTTTTCATAATTTGATAGGTCGAAG
* * * *
21097351 CTAT-CCTTTTCATGATTAGATAGCT-GAAG
1 CCATCCCTTTTCATAATTTGATAGGTCGAAG
* *
21097380 CCATCCCTTTTCGTAATTTTGAT-GGTCGTCA-
1 CCATCCCTTTTCATAA-TTTGATAGGTCG-AAG
* *
21097411 CCATCCCATTTCAT--TGTTGAT-GGTC-ATCG
1 CCATCCCTTTTCATAAT-TTGATAGGTCGA-AG
21097440 CCATCCCTTTTCATAATTTGATA-GTCGAAG
1 CCATCCCTTTTCATAATTTGATAGGTCGAAG
* * * *
21097470 CTATCCCTTTTCATGAA-TCGACA-GTTGAAG
1 CCATCCCTTTTCAT-AATTTGATAGGTCGAAG
21097500 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
21097515 GTTCGATGGC
Statistics
Matches: 129, Mismatches: 22, Indels: 27
0.72 0.12 0.15
Matches are distributed among these distances:
28 1 0.01
29 45 0.35
30 60 0.47
31 22 0.17
32 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (31 bp):
CCATCCCTTTTCATAATTTGATAGGTCGAAG
Found at i:21097443 original size:29 final size:29
Alignment explanation
Indices: 21097398--21097453 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
21097388 TTTCGTAATT
*
21097398 TTGATGGTCGTCACCATCCCATTTCATTG
1 TTGATGGTCATCACCATCCCATTTCATTG
* *
21097427 TTGATGGTCATCGCCATCCCTTTTCAT
1 TTGATGGTCATCACCATCCCATTTCAT
21097454 AATTTGATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (29 bp):
TTGATGGTCATCACCATCCCATTTCATTG
Found at i:21097503 original size:60 final size:58
Alignment explanation
Indices: 21097321--21097514 Score: 169
Period size: 60 Copynumber: 3.3 Consensus size: 58
21097311 ATGGTTGTCA
* *
21097321 CCATCCCTTTTCATAATTTGATAATCGGAGCTAT-CCTTTTCATGATTAGATAGCTGAAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATGA-TAGA-AGCTGAAG
* * * * * * * * * *
21097380 CCATCCCTTTTCGTAATTTTGATGGTCGTCA-CCATCCCATTTCATTG-TTGATGGTCATCG
1 CCATCCCTTTTCATAA-TTTGATAGTCG-AAGCTATCCCTTTTCA-TGATAGAAGCTGA-AG
* *
21097440 CCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATGAATCGACAGTTGAAG
1 CCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATG-ATAGA-AGCTGAAG
21097500 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
21097515 GTTCGATGGC
Statistics
Matches: 105, Mismatches: 21, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
58 3 0.03
59 39 0.37
60 50 0.48
61 11 0.10
62 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (58 bp):
CCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATGATAGAAGCTGAAG
Found at i:21097523 original size:119 final size:119
Alignment explanation
Indices: 21097251--21097514 Score: 366
Period size: 119 Copynumber: 2.2 Consensus size: 119
21097241 CCATAGTTCA
* * * * * *
21097251 ACAGTCGAAGCTATCCCTTTTCATAATTTTGATGGTTGTCACTATCCCCTTTTATTGTTAATGGT
1 ACAGTTGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACCATCCCATTTCATTGTTAATGGT
** * *
21097316 TGTCACCATCCCTTTTCATAATTTGATAATCGGAGCTATCCTTTTCATGATTAG
66 CATCACCATCCCTTTTCATAATTTGATAATCGAAGCTATCCTTTTCATGAATAG
* * * *
21097370 ATAGCTGAAGCCATCCCTTTTCGTAATTTTGATGGTCGTCACCATCCCATTTCATTGTTGATGGT
1 ACAGTTGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACCATCCCATTTCATTGTTAATGGT
* * *
21097435 CATCGCCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATGAATCG
66 CATCACCATCCCTTTTCATAATTTGATAATCGAAGCTAT-CCTTTTCATGAATAG
21097490 ACAGTTGAAGCCATCCCTTTTCATA
1 ACAGTTGAAGCCATCCCTTTTCATA
21097515 GTTCGATGGC
Statistics
Matches: 124, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
119 89 0.72
120 35 0.28
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (119 bp):
ACAGTTGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACCATCCCATTTCATTGTTAATGGT
CATCACCATCCCTTTTCATAATTTGATAATCGAAGCTATCCTTTTCATGAATAG
Found at i:21100330 original size:41 final size:41
Alignment explanation
Indices: 21100272--21100406 Score: 164
Period size: 41 Copynumber: 3.3 Consensus size: 41
21100262 AAGCGCACTG
* * * *
21100272 ATGTGCAATTCAAGGGTACTGAAGTACAAAAAAGGGCATGT
1 ATGTGCAATTCAGGGGTACTGAAGTACAAACAGGGGCATAT
* *
21100313 ATGTGTAATTCAGGGGTA-TCGAAGTACAAACAGGGGCACAT
1 ATGTGCAATTCAGGGGTACT-GAAGTACAAACAGGGGCATAT
* * *
21100354 ATGTACAATTTAGGGGTACCGAAGTACAAACAGGGGCATAT
1 ATGTGCAATTCAGGGGTACTGAAGTACAAACAGGGGCATAT
*
21100395 ATGTGTAATTCA
1 ATGTGCAATTCA
21100407 AGGAATAATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.01
41 77 0.99
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (41 bp):
ATGTGCAATTCAGGGGTACTGAAGTACAAACAGGGGCATAT
Found at i:21100346 original size:20 final size:19
Alignment explanation
Indices: 21100323--21100389 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
21100313 ATGTGTAATT
21100323 CAGGGGTATCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
* *
21100343 CAGGGGCAC-ATATGTACAATT
1 CAGGGGTACGA-A-GTACAA-A
*
21100364 TAGGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
21100384 CAGGGG
1 CAGGGG
21100390 CATATATGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 18 0.50
21 12 0.33
22 2 0.06
23 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.16
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:21100874 original size:27 final size:27
Alignment explanation
Indices: 21100844--21100904 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
21100834 TTTTATAAAT
21100844 AAGTCCCTAAATGACATTTTCATCAAA
1 AAGTCCCTAAATGACATTTTCATCAAA
* *
21100871 AAGTCCCTAAGTGGCATTTTCATCAAA
1 AAGTCCCTAAATGACATTTTCATCAAA
21100898 AA-TCCCT
1 AAGTCCCT
21100905 TTACAAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (27 bp):
AAGTCCCTAAATGACATTTTCATCAAA
Found at i:21101665 original size:20 final size:21
Alignment explanation
Indices: 21101642--21101682 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
21101632 TCAACTTTAC
21101642 CATTT-CCTATTCAAAACAAT
1 CATTTACCTATTCAAAACAAT
21101662 CATTTAACCTATTCAAAACAA
1 CATTT-ACCTATTCAAAACAA
21101683 GATCAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (21 bp):
CATTTACCTATTCAAAACAAT
Found at i:21108198 original size:53 final size:53
Alignment explanation
Indices: 21108136--21108243 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
21108126 TTTTACTATT
*
21108136 CTAATTATCACTAGAATTCAAATTCGTAAAATACGTTAGAAAAGCTTCACAAC
1 CTAATTATCACCAGAATTCAAATTCGTAAAATACGTTAGAAAAGCTTCACAAC
*
21108189 CTAATTATCACCAGAATTCAAATTCGTAACATACGTTAGAAAAGCTTCACAAC
1 CTAATTATCACCAGAATTCAAATTCGTAAAATACGTTAGAAAAGCTTCACAAC
21108242 CT
1 CT
21108244 TGATTAAGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (53 bp):
CTAATTATCACCAGAATTCAAATTCGTAAAATACGTTAGAAAAGCTTCACAAC
Found at i:21112657 original size:13 final size:13
Alignment explanation
Indices: 21112639--21112663 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21112629 CGATCACTCA
21112639 TTCTTTTTCTTTC
1 TTCTTTTTCTTTC
21112652 TTCTTTTTCTTT
1 TTCTTTTTCTTT
21112664 TAATTGCATG
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTTTCTTTC
Found at i:21127837 original size:5 final size:5
Alignment explanation
Indices: 21127827--21127851 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21127817 ACTACACTTC
21127827 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
21127852 GAATAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:21131773 original size:62 final size:61
Alignment explanation
Indices: 21131703--21131891 Score: 246
Period size: 62 Copynumber: 3.1 Consensus size: 61
21131693 TAAATTGTAT
*
21131703 TAATAATTATGTTAAAATATGATTAAATTATTTATTATGATTTTTATT-AATTCATATTCTAA
1 TAATAATTATGTTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATT-ATATT-TAA
* * *
21131765 TAATAATTATATTAAGAT-TGTTATTAAATTA--TA-TATTA-TTTTATTAAATTGTATTTAA
1 TAATAATTATGTTAAAATATG--ATTAAATTATTTATTATTATTTTTATTAAATTATATTTAA
*
21131823 TAATAATTATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATATTTAA
1 TAATAATTATGTTAAAATATGATTAAATTATTT-ATTATTATTTTTATTAAATTATATTTAA
21131885 TAATAAT
1 TAATAAT
21131892 CTTATTAAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
57 9 0.08
58 19 0.17
59 14 0.13
60 9 0.08
61 8 0.07
62 42 0.38
63 9 0.08
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (61 bp):
TAATAATTATGTTAAAATATGATTAAATTATTTATTATTATTTTTATTAAATTATATTTAA
Found at i:21131855 original size:120 final size:115
Alignment explanation
Indices: 21131647--21131899 Score: 350
Period size: 120 Copynumber: 2.2 Consensus size: 115
21131637 GTAACTAAAA
* * *
21131647 TAATAATAATTATATTCAGAATGCTATTAAGTTTTATATATTTTATTAAATTGTATTAATAATTA
1 TAATAATAATTATATTAAGAATGCTATTAAATTATATATATTTTATTAAATTGTATTAATAATTA
21131712 TGTTAAAATATGATTAAATTATTT-ATTATGATTTTTATT-AATTCATATT
66 TGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATT-ATATT
* *
21131761 CTAATAATAATTATATTAAGATTGTTATTAAATTATATATTATTTTATTAAATTGTATTTAATAA
1 -TAATAATAATTATATTAAGAATGCTATTAAATTATATA-TATTTTATTAAATTGTA--T--TAA
* *
21131826 TAATTATGTTAAAATATGATTAAATTATTTAATTTTTATTTTTATTAAATTATATT
60 TAATTATGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATATT
21131882 TAATAATAATCT-TATTAA
1 TAATAATAAT-TATATTAA
21131900 AATTTAATAA
Statistics
Matches: 123, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
115 33 0.27
116 17 0.14
118 1 0.01
120 49 0.40
121 19 0.15
122 4 0.03
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (115 bp):
TAATAATAATTATATTAAGAATGCTATTAAATTATATATATTTTATTAAATTGTATTAATAATTA
TGTTAAAATATGATTAAATTATTTAATTATGATTTTTATTAAATTATATT
Found at i:21134330 original size:16 final size:15
Alignment explanation
Indices: 21134303--21134365 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 15
21134293 TTACTAATTG
21134303 CAGTTCTATTCCATTA
1 CAGTT-TATTCCATTA
21134319 CAGCTTTATTCCATT-
1 CAG-TTTATTCCATTA
* *
21134334 CAATTTCTATTTCATTA
1 C-AGTT-TATTCCATTA
21134351 CAGTCTTATTCCATT
1 CAGT-TTATTCCATT
21134366 CACCCCAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
15 3 0.08
16 31 0.82
17 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.48
Consensus pattern (15 bp):
CAGTTTATTCCATTA
Found at i:21134350 original size:32 final size:32
Alignment explanation
Indices: 21134306--21134367 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
21134296 CTAATTGCAG
21134306 TTCTATTCCATTACAG-CTTTATTCCATTCAAT
1 TTCTATTCCATTACAGTC-TTATTCCATTCAAT
*
21134338 TTCTATTTCATTACAGTCTTATTCCATTCA
1 TTCTATTCCATTACAGTCTTATTCCATTCA
21134368 CCCCAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.48
Consensus pattern (32 bp):
TTCTATTCCATTACAGTCTTATTCCATTCAAT
Found at i:21138009 original size:62 final size:61
Alignment explanation
Indices: 21137943--21138066 Score: 149
Period size: 61 Copynumber: 2.0 Consensus size: 61
21137933 AAATGTAAAT
* ** * *
21137943 AAATTCAACAACTTTAGCCCTCAATATTTACAAAATTTATCATTTTAGTTCAAATTCCAAAA
1 AAATT-AACAAATTTAGCAATCAACATTTACAAAATTTATCAATTTAGTTCAAATTCCAAAA
* * * * *
21138005 AAATTAATAAATTTATCAATCAACATTTACAAAATTTTTCAATTTAGTTCTAATTCTAAAA
1 AAATTAACAAATTTAGCAATCAACATTTACAAAATTTATCAATTTAGTTCAAATTCCAAAA
21138066 A
1 A
21138067 TTTTAAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
61 47 0.90
62 5 0.10
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.38
Consensus pattern (61 bp):
AAATTAACAAATTTAGCAATCAACATTTACAAAATTTATCAATTTAGTTCAAATTCCAAAA
Found at i:21140419 original size:4 final size:4
Alignment explanation
Indices: 21140410--21140462 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
21140400 GGTGAAGAAA
21140410 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
21140458 ATGT A
1 ATGT A
21140463 AATGTTGGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:21145718 original size:51 final size:51
Alignment explanation
Indices: 21145637--21145800 Score: 303
Period size: 51 Copynumber: 3.2 Consensus size: 51
21145627 TTATCAATTG
21145637 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
*
21145688 TCACATGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
*
21145739 TCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTACCACTTA
1 TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
21145789 TCACTTGTCACT
1 TCACTTGTCACT
21145801 GATCAGAAGT
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
50 25 0.23
51 85 0.77
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
TCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTA
Found at i:21151086 original size:51 final size:50
Alignment explanation
Indices: 21151025--21151143 Score: 193
Period size: 51 Copynumber: 2.4 Consensus size: 50
21151015 TCACATTTAT
* * *
21151025 CACTTGTCACTTGTCATTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCT-AAGCTAC
21151076 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
*
21151126 CACTTATTACTTGTCACT
1 CACTTATCACTTGTCACT
21151144 AATCAGAAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 24 0.38
51 40 0.62
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (50 bp):
CACTTATCACTTGTCACTTGTCACCGATCAGATAAGTGTAGCTAAGCTAC
Found at i:21153607 original size:32 final size:34
Alignment explanation
Indices: 21153553--21153660 Score: 88
Period size: 33 Copynumber: 3.3 Consensus size: 34
21153543 ACACTAGGCA
21153553 AGTA-CAGTCTGGGCC-TATGCCCAATTCA-A-TAAC
1 AGTATCAGT-TGGGCCTTA-GCCCAATT-ATAGTAAC
*
21153586 AGT-TCAGTTGGGCCTTAGCCC-ATTATAGTATC
1 AGTATCAGTTGGGCCTTAGCCCAATTATAGTAAC
* *
21153618 AGTATCAG-TGTGGCCTTAGCCC-ATTACAGTGAC
1 AGTATCAGTTG-GGCCTTAGCCCAATTATAGTAAC
*
21153651 AGTAACAGTT
1 AGTATCAGTT
21153661 CAGACATGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
30 1 0.02
31 4 0.06
32 18 0.29
33 39 0.62
34 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (34 bp):
AGTATCAGTTGGGCCTTAGCCCAATTATAGTAAC
Found at i:21153654 original size:33 final size:32
Alignment explanation
Indices: 21153584--21153660 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
21153574 CAATTCAATA
*
21153584 ACAGT-TCAGTTGGGCCTTAGCCCATTATAGT
1 ACAGTATCAGTTGGGCCTTAGCCCATTACAGT
21153615 ATCAGTATCAG-TGTGGCCTTAGCCCATTACAGT
1 A-CAGTATCAGTTG-GGCCTTAGCCCATTACAGT
*
21153648 GACAGTAACAGTT
1 -ACAGTATCAGTT
21153661 CAGACATGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 1 0.03
32 6 0.15
33 30 0.77
34 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (32 bp):
ACAGTATCAGTTGGGCCTTAGCCCATTACAGT
Found at i:21158558 original size:25 final size:25
Alignment explanation
Indices: 21158530--21158594 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
21158520 TTGGCTTTGA
* *
21158530 TAGTATATCCTAAAACTGCTATAGG
1 TAGTATATACTAAAACTACTATAGG
* **
21158555 TAGTATATACTAAGACTACTATATA
1 TAGTATATACTAAAACTACTATAGG
21158580 TAG-ACTATACTAAAA
1 TAGTA-TATACTAAAA
21158595 ACACTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (25 bp):
TAGTATATACTAAAACTACTATAGG
Found at i:21163414 original size:24 final size:24
Alignment explanation
Indices: 21163383--21163436 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
21163373 GACTTTGAAA
21163383 AATTATTAAACATTGTATACAAAT
1 AATTATTAAACATTGTATACAAAT
21163407 AATTATTAAACATTGTATACAAAT
1 AATTATTAAACATTGTATACAAAT
21163431 AATTAT
1 AATTAT
21163437 GGGTTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
AATTATTAAACATTGTATACAAAT
Found at i:21164433 original size:100 final size:100
Alignment explanation
Indices: 21164258--21164454 Score: 376
Period size: 100 Copynumber: 2.0 Consensus size: 100
21164248 ATATTCCCAT
*
21164258 ATGGAGTGTAGGGTTGGACAGAGATGGTGTGAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
1 ATGGAGTGTAGGGTTGGACAGAGATGGTGTAAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
*
21164323 TATCTGTTACTGCTACTGATACTGTGATGGGCCAC
66 TATCTATTACTGCTACTGATACTGTGATGGGCCAC
21164358 ATGGAGTGTAGGGTTGGACAGAGATGGTGTAAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
1 ATGGAGTGTAGGGTTGGACAGAGATGGTGTAAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
21164423 TATCTATTACTGCTACTGATACTGTGATGGGC
66 TATCTATTACTGCTACTGATACTGTGATGGGC
21164455 TAAAGCCCTA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (100 bp):
ATGGAGTGTAGGGTTGGACAGAGATGGTGTAAAGAGGCTAGATGGGTAGGATTTTCGTGACTGCA
TATCTATTACTGCTACTGATACTGTGATGGGCCAC
Found at i:21165520 original size:2 final size:2
Alignment explanation
Indices: 21165515--21165550 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
21165505 TTATATAAAA
21165515 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
21165551 AAGATTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:21166800 original size:17 final size:16
Alignment explanation
Indices: 21166760--21166802 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
21166750 GTAAATTATT
21166760 TTGGACTTTATTTTTGC
1 TTGGA-TTTATTTTTGC
* *
21166777 TTTGATTTGATTTTTGG
1 TTGGATTT-ATTTTTGC
21166794 TTGGATTTA
1 TTGGATTTA
21166803 GTATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.14, C:0.05, G:0.21, T:0.60
Consensus pattern (16 bp):
TTGGATTTATTTTTGC
Done.