Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1928
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: 404355
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 3
Found at i:2868 original size:20 final size:20
Alignment explanation
Indices: 2831--2868 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2821 AAATCTCACC
*
2831 TGACCTAAATAGATTGGTGG
1 TGACCTAAATAGAATGGTGG
2851 TGACTCTAAATA-AATGGT
1 TGAC-CTAAATAGAATGGT
2869 CATTTCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (20 bp):
TGACCTAAATAGAATGGTGG
Found at i:3838 original size:148 final size:148
Alignment explanation
Indices: 3639--3948 Score: 365
Period size: 148 Copynumber: 2.1 Consensus size: 148
3629 TTATTACTAA
* * * * * *
3639 TCCTTTTTAAATCCTTTAGGGGTATTGGGATATTTTCATGTCAAAGGTATACCT-TATGGGCATT
1 TCCTTTTTTAGTCCTTTAGGGGTATCGGGATACTTTCACGTCAAAGGTATACCTATAGGGGCATT
* * * * *
3703 TTTATAATTTTATTAAAATCGAGTCCTAATTTATTATCAGGTT-ACTTCTATGCCAAGGGTACAT
66 GTCATAATTTT-TTAAAACCGAGTCCTAATTTATCA-CAGGTTCACCTCTATGCCAAGGGTACAT
*
3767 ATTAGGCATAGATTCGCTTT
129 ATTAGACATAGATTCGCTTT
* * *
3787 TCCTTTTTTAGTCCTTTAGGGTTGTCGGGGTACTTTCACGTCAAAGGTATACCTATAGGGGCATT
1 TCCTTTTTTAGTCCTTTAGGGGTATCGGGATACTTTCACGTCAAAGGTATACCTATAGGGGCATT
* * * * **
3852 GTCATAATTTTTTACAACCGAGTCCTAATTTGTCACCGGTTCACCTCTATGCCGAGGGTAGGTAT
66 GTCATAATTTTTTAAAACCGAGTCCTAATTTATCACAGGTTCACCTCTATGCCAAGGGTACATAT
* *
3917 TAGATATAGGTTCGCTTT
131 TAGACATAGATTCGCTTT
3935 T-CTTTTTTATGTCC
1 TCCTTTTTTA-GTCC
3949 CTTAAGATCT
Statistics
Matches: 136, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
147 13 0.10
148 105 0.77
149 18 0.13
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (148 bp):
TCCTTTTTTAGTCCTTTAGGGGTATCGGGATACTTTCACGTCAAAGGTATACCTATAGGGGCATT
GTCATAATTTTTTAAAACCGAGTCCTAATTTATCACAGGTTCACCTCTATGCCAAGGGTACATAT
TAGACATAGATTCGCTTT
Found at i:9048 original size:50 final size:50
Alignment explanation
Indices: 8966--9075 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
8956 TAGATGTGTT
* * *
8966 GATACATTGAGAAATGTATCAATACATCTGGGTAAAAAA-AAGAATGTATC
1 GATACATTAAAAAATGTATCAATACATCTGGGTAAAAAACAA-AATATATC
** * *
9016 GATACATTAAAAAATGTATTGATATATTTGGGTAAAAAACAAAATATATC
1 GATACATTAAAAAATGTATCAATACATCTGGGTAAAAAACAAAATATATC
9066 GATACATTAA
1 GATACATTAA
9076 CTGTTCATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 50 0.96
51 2 0.04
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (50 bp):
GATACATTAAAAAATGTATCAATACATCTGGGTAAAAAACAAAATATATC
Found at i:10868 original size:14 final size:14
Alignment explanation
Indices: 10849--10879 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10839 TTCATAAAAA
10849 CTTCATGAAATTAC
1 CTTCATGAAATTAC
10863 CTTCATGAAATTAC
1 CTTCATGAAATTAC
10877 CTT
1 CTT
10880 TCCTGAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (14 bp):
CTTCATGAAATTAC
Found at i:13391 original size:28 final size:28
Alignment explanation
Indices: 13317--13882 Score: 600
Period size: 27 Copynumber: 20.6 Consensus size: 28
13307 AATGGCATTT
*
13317 CTTTTCAAAGTCCACAACTTCGTGGCATC
1 CTTTT-AAAGTCCACAACTCCGTGGCATC
13346 CTTTT-AAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* *
13373 CTTTTAAAGTCTACCACTCCGTGGCA-C
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* *
13400 CTTTTTAAGTTCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* *
13428 CTTTT-AAGTCCATAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
**
13455 CTTTTAAAGTCCACAACTCCACGGCA-C
1 CTTTTAAAGTCCACAACTCCGTGGCATC
*
13482 CTTTTTAAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAAGTCCACAACTCCGTGGCATC
*
13511 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
*
13539 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* * *
13567 CTTTT-AAGTCTACAACTCCATGGTA-C
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* * *
13593 CCTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* *
13621 CTTTTAAAGTCCACCACTCTGTGGCA-C
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* * * *
13648 TTTTTTAAGTTCACAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
** *
13676 CTTTT-AAGTCCACAACTTTGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* * *
13703 CTTTT-AAGTCCACAACTTCATGCCATC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* * ** *
13730 CATTTCAAGTCCACAACTCCGTGGTGTT
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* * * *
13758 CTTTTAAAGTCAACAATTCTGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* *
13786 CTTTT-AAGTACACCACTCCGTGGCA-C
1 CTTTTAAAGTCCACAACTCCGTGGCATC
*
13812 TCTTTT-AAGTCTACAACTCCGTGGCATC
1 -CTTTTAAAGTCCACAACTCCGTGGCATC
* *
13840 CTTTT-AAGTCCACAACTTCGTGGTATC
1 CTTTTAAAGTCCACAACTCCGTGGCATC
* *
13867 CTTTTTAAGCCCACAA
1 CTTTTAAAGTCCACAA
13883 GTCAGTGGTA
Statistics
Matches: 456, Mismatches: 69, Indels: 25
0.83 0.13 0.05
Matches are distributed among these distances:
26 6 0.01
27 242 0.53
28 201 0.44
29 7 0.02
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.32
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCCGTGGCATC
Found at i:13428 original size:82 final size:82
Alignment explanation
Indices: 13324--13882 Score: 628
Period size: 82 Copynumber: 6.8 Consensus size: 82
13314 TTTCTTTTCA
* * * * * *
13324 AAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCTACCA
1 AAGTTCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAA
13389 CTCCGTGGCACCTTTTT
66 CTCCGTGGCACCTTTTT
* *
13406 AAGTTCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAAGTCCACAA
1 AAGTTCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAA
**
13471 CTCCACGGCACCTTTTT
66 CTCCGTGGCACCTTTTT
* * *
13488 AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCAC
1 -AAGTTCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCAC
*
13553 AACTCTGTGGCATCC-TTTT
64 AACTCCGTGGCA-CCTTTTT
* * * * *
13572 AAG-TCTACAACTCCATGGTACCCTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACC
1 AAGTTC-ACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACA
* *
13636 ACTCTGTGGCACTTTTTT
65 ACTCCGTGGCACCTTTTT
* *
13654 AAGTTCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTTGTGGCACCCTTTT-AAGTCCACAA
1 AAGTTCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAA
* * * * *
13718 CTTCATGCCATCCATTTC
66 CTCCGTGGCA-CCTTTTT
* ** * * * * *
13736 AAGTCCACAACTCCGTGGTGTTCTTTTAAAGTCAACAATTCTGTGGCACCCTTTT-AAGTACACC
1 AAGTTCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACA
13800 ACTCCGTGGCA-CTCTTTT
65 ACTCCGTGGCACCT-TTTT
* * * *
13818 AAG-TCTACAACTCCGTGGCATCCTTTTAAGTCCACAACT-TCGTGGTATCCTTTTTAAGCCCAC
1 AAGTTC-ACAACTCCGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCACCCTTTTAAAGTCCAC
13881 AA
64 AA
13883 GTCAGTGGTA
Statistics
Matches: 402, Mismatches: 63, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.00
81 39 0.10
82 227 0.56
83 87 0.22
84 46 0.11
85 2 0.00
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (82 bp):
AAGTTCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAA
CTCCGTGGCACCTTTTT
Found at i:13890 original size:28 final size:28
Alignment explanation
Indices: 13832--14254 Score: 321
Period size: 28 Copynumber: 14.4 Consensus size: 28
13822 CTACAACTCC
* * *
13832 GTGGCATCCTTT-TAAGTCCACAACTTC-
1 GTGGCATCCTTTCAAAGCCCACAA-GTCA
* **
13859 GTGGTATCCTTTTTAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * *
13887 GTGGTACCCTTCCGAAGCCCACACAAGTCG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* *
13917 GTGGCAACCCAATTCAAAGCCCACAAGTCA
1 GTGGC-ATCC-TTTCAAAGCCCACAAGTCA
* * *
13947 ATGGCATCCTTCTCAAAGCCTACATAAATCA
1 GTGGCATCCTT-TCAAAGCC--CACAAGTCA
* *
13978 GTGGCATCCCTCCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
14006 GTGGCATCCTTCCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
14034 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
14062 GTGGCATCCTTCTTAAAGCCCATAAGTTA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* *
14091 ATGGCATCCTTCTCAAAGCCCACACAAGTCG
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCA
** *
14122 GTGGCAACTGTTTTTAAAGCCCACAAGTCA
1 GTGGC-A-TCCTTTCAAAGCCCACAAGTCA
* *
14152 GTGGCACCCTTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
14180 GTGCCATACCCTTTCCAAGCCTACACAAGTCG
1 GTGGCAT--CCTTTCAAAGCC--CACAAGTCA
* *
14212 GTGGCAACTCTCTTCAAAGCCCACATAAGTTA
1 GTGGCATC-CT-TTCAAAGCCCAC--AAGTCA
14244 GTGGCA-CCTTT
1 GTGGCATCCTTT
14255 TTTTTAAAAG
Statistics
Matches: 321, Mismatches: 53, Indels: 42
0.77 0.13 0.10
Matches are distributed among these distances:
27 13 0.04
28 118 0.37
29 46 0.14
30 63 0.20
31 37 0.12
32 41 0.13
33 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:14141 original size:32 final size:32
Alignment explanation
Indices: 13901--14295 Score: 189
Period size: 28 Copynumber: 13.1 Consensus size: 32
13891 TACCCTTCCG
* * **
13901 AAGCCCACACAAGTCGGTGGCAACCCAATTCA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
* * *
13933 AAG-CC-CACAAGTCAATGGCATC-CTTCTCA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
* * * ** *
13962 AAGCCTACATAAATCAGTGGC-A-TCCCTCCA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
* *
13992 AAG-CC-CACAAGTCAGTGGC-A-TCCTTCCA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
*
14020 AAG-CC-CACAAGTCAGTGGC-A-TCCTTTCA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
*
14048 AAG-CC-CACAAGTCAGTGGCATC-CTTCTT-A
1 AAGCCCACACAAGTCAGTGGCAACTCTT-TTCA
* * * * *
14077 AAG-CC-CATAAGTTAATGGCATC-CTTCTCA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
* * *
14106 AAGCCCACACAAGTCGGTGGCAACTGTTTTTA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
*
14138 AAG-CC-CACAAGTCAGTGGC-AC-CCTTTCA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
* * * *
14166 AAG-CC-CATAAGTCAGTGCCATAC-CCTTTCC
1 AAGCCCACACAAGTCAGTGGCA-ACTCTTTTCA
* * *
14196 AAGCCTACACAAGTCGGTGGCAACTCTCTTCA
1 AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
* * * * *
14228 AAGCCCACATAAGTTAGTGGCACCTTTTTTTTAA
1 AAGCCCACACAAGTCAGTGGCAAC--TCTTTTCA
* *
14262 AAGCCCACGCAAGTC-GATGGCAACCCTTTTCA
1 AAGCCCACACAAGTCAG-TGGCAACTCTTTTCA
14294 AA
1 AA
14296 TCACCAATTT
Statistics
Matches: 282, Mismatches: 63, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
28 88 0.31
29 39 0.14
30 49 0.17
31 30 0.11
32 52 0.18
33 1 0.00
34 23 0.08
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (32 bp):
AAGCCCACACAAGTCAGTGGCAACTCTTTTCA
Found at i:14155 original size:90 final size:90
Alignment explanation
Indices: 13975--14253 Score: 324
Period size: 90 Copynumber: 3.2 Consensus size: 90
13965 CCTACATAAA
* * *
13975 TCAGTGGCATCCCTC-CAAAGCCCACAAGTCAGTGGCATCCTTC-CAAAG-CC-CACAAGTCAGT
1 TCAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCGGT
*
14036 GGC-A-TCCTTTCAAAGCCCACAAG
66 GGCAACTCTTTTCAAAGCCCACAAG
* * *
14059 TCAGTGGCATCCTTCTTAAAGCCCATAAGTTAATGGCATCCTTCTCAAAGCCCACACAAGTCGGT
1 TCAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCGGT
* *
14124 GGCAACTGTTTTTAAAGCCCACAAG
66 GGCAACTCTTTTCAAAGCCCACAAG
* * * *
14149 TCAGTGGCACCCTT-TCAAAGCCCATAAGTCAGTGCCATACCCTT-TCCAAGCCTACACAAGTCG
1 TCAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT--CCTTCTCAAAGCCCACACAAGTCG
*
14212 GTGGCAACTCTCTTCAAAGCCCACATAAG
64 GTGGCAACTCTTTTCAAAGCCCAC--AAG
*
14241 TTAGTGGCA-CCTT
1 TCAGTGGCATCCTT
14254 TTTTTTAAAA
Statistics
Matches: 165, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
84 14 0.08
85 24 0.15
86 5 0.03
87 2 0.01
88 13 0.08
89 21 0.13
90 67 0.41
91 8 0.05
92 11 0.07
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (90 bp):
TCAGTGGCATCCTTCTCAAAGCCCATAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTCGGT
GGCAACTCTTTTCAAAGCCCACAAG
Found at i:14178 original size:118 final size:114
Alignment explanation
Indices: 13873--14182 Score: 361
Period size: 118 Copynumber: 2.6 Consensus size: 114
13863 TATCCTTTTT
* * * * *
13873 AAGCCCACAAGTCAGTGGTACCCTTCCGAAGCCCACACAAGTCGGTGGCAACCCAATTCAAAGCC
1 AAGCCCACAAGTCAGTGGCATCCTTCCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCAAAGCC
* *
13938 CACAAGTCAATGGCATCCTTCTCAAAGCCTACATAAATCAGTGGCATCCCTCCA
62 CACAAGTCAGTGGCATCCTTCTCAAAGCC-ACATAAATCAATGGCATCCCTCCA
*
13992 AAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
1 AAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
* * * *
14057 AGTCAGTGGCATCCTTCTTAAAGCC-CATAAGTTAATGGCATCCTTCTCA
66 AGTCAGTGGCATCCTTCTCAAAGCCACATAAATCAATGGCATCCCTC-CA
* ** **
14106 AAGCCCACACAAGTCGGTGGCAACTGTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
1 AAG-CC-CACAAGTCAGTGGC-A-TCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
*
14171 CATAAGTCAGTG
62 CACAAGTCAGTG
14183 CCATACCCTT
Statistics
Matches: 167, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
113 17 0.10
114 5 0.03
115 38 0.23
116 16 0.10
117 14 0.08
118 49 0.29
119 28 0.17
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (114 bp):
AAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
AGTCAGTGGCATCCTTCTCAAAGCCACATAAATCAATGGCATCCCTCCA
Found at i:14207 original size:60 final size:56
Alignment explanation
Indices: 13873--14254 Score: 309
Period size: 60 Copynumber: 6.5 Consensus size: 56
13863 TATCCTTTTT
* * * * * *
13873 AAGCCCACAAGTCAGTGGTACCCTTCCGAAGCCCACACAAGTCGGTGGCAACCCAATTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTTCA
* * * *
13933 AAGCCCACAAGTCAATGGCATCCTTCTCAAAGCCTACATAAATCAGTGGCATCCC-TCCA
1 AAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCC--CACAAGTCAGTGGCA-CCCTTTCA
* *
13992 AAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * * * *
14048 AAGCCCACAAGTCAGTGGCATCCTTCTTAAAGCCCATAAGTTAATGGCATCCTTCTCA
1 AAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCACCCTT-TCA
* ** *
14106 AAGCCCACACAAGTCGGTGGCAACTGTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCA
1 AAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
* * * * *
14166 AAGCCCATAAGTCAGTGCCATACCCTTTCCAAGCCTACACAAGTCGGTGGCAACTCTCTTCA
1 AAGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCC--CACAAGTCAGTGGC-ACCCT-TTCA
*
14228 AAGCCCACATAAGTTAGTGGCA-CCTTT
1 AAGCCCAC--AAGTCAGTGGCATCCTTT
14255 TTTTTAAAAG
Statistics
Matches: 265, Mismatches: 39, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
55 2 0.01
56 42 0.16
57 24 0.09
58 32 0.12
59 31 0.12
60 57 0.22
61 53 0.20
62 14 0.05
64 10 0.04
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.21
Consensus pattern (56 bp):
AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
Found at i:14426 original size:48 final size:47
Alignment explanation
Indices: 14323--14435 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 47
14313 TTCAAGTCTG
* * * *
14323 ATATCGCTGGCATTGAATCAGCAGATTGGCACCTTTTTTTTGGCCCA
1 ATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTGACCCA
*
14370 ATGTCGCTGGCCTTGAATCAGCACATTGGTCTA-CTTTTCCTTT-ACCCA
1 ATATCGCTGGCCTTGAATCAGCACATTGG-C-ACCTTTT-CTTTGACCCA
14418 ATATCGCTGGCCTTGAAT
1 ATATCGCTGGCCTTGAAT
14436 TGGCACTTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 26 0.46
48 27 0.47
49 4 0.07
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (47 bp):
ATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCTTTGACCCA
Found at i:15144 original size:20 final size:20
Alignment explanation
Indices: 15119--15212 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
15109 TTTTGGCCAG
* **
15119 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATGCTTCA
* *
15139 ATGTATCGATACATGCCTGA
1 ATGTATCGATACATGCTTCA
* * *
15159 TTGTATCGATATATTCTTCA
1 ATGTATCGATACATGCTTCA
*
15179 ATGTATCGATACATG-TATGA
1 ATGTATCGATACATGCT-TCA
15199 ATGTATCGATACAT
1 ATGTATCGATACAT
15213 TCTGTCTTTT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
19 1 0.02
20 58 0.98
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATGCTTCA
Found at i:15164 original size:40 final size:40
Alignment explanation
Indices: 15119--15215 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
15109 TTTTGGCCAG
* *
15119 ATGTATCGATATATTTTTCAATGTATCGATACATGCCTGA
1 ATGTATCGATATATTCTTCAATGTATCGATACATGCATGA
* *
15159 TTGTATCGATATATTCTTCAATGTATCGATACATGTATGA
1 ATGTATCGATATATTCTTCAATGTATCGATACATGCATGA
*
15199 ATGTATCGATACATTCT
1 ATGTATCGATATATTCT
15216 GTCTTTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (40 bp):
ATGTATCGATATATTCTTCAATGTATCGATACATGCATGA
Found at i:21610 original size:37 final size:37
Alignment explanation
Indices: 21567--21647 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
21557 CATTCACATA
* * * *
21567 ATTTCATGCACATCTGCATTATTCGATAGCATTCATT
1 ATTTCATGCACATCTGCACTATTAGATAACATTCATC
21604 ATTTCATGCACATCTGCACTATTAGATAACATTCATC
1 ATTTCATGCACATCTGCACTATTAGATAACATTCATC
21641 ATTTCAT
1 ATTTCAT
21648 ATGCATCTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.40
Consensus pattern (37 bp):
ATTTCATGCACATCTGCACTATTAGATAACATTCATC
Found at i:22617 original size:76 final size:75
Alignment explanation
Indices: 22398--22688 Score: 308
Period size: 75 Copynumber: 3.9 Consensus size: 75
22388 GTTATCCTCC
* *
22398 AGCTTATGTTTAGTTTGTTTTCGTTGTTGATAAAATTGTAAAAACAACATATTCCCCATCATGTT
1 AGCTTATTTTTAGTTTGTTTTAGTTGTTGATAAAATTGTAAAAACAACATATTCCCCATCATGTT
*
22463 CTTTTTCTTG
66 CTTCTTCTTG
* * * *
22473 AGCTTATTTTCAGTTTGTTTCAATTGTTGATAAAATTGTAAAAACAACATATAT-CCCATCATGC
1 AGCTTATTTTTAGTTTGTTTTAGTTGTTGATAAAATTGTAAAAACAACATAT-TCCCCATCATGT
22537 TCTTCTTCTTCG
65 TCTTCTTCTT-G
* * * *
22549 -GCTTATTTTTAATTTGTTTTAGTTATTGATAAAAATTGTAAAAACAATATCTTCCCCATCATGT
1 AGCTTATTTTTAGTTTGTTTTAGTTGTTGAT-AAAATTGTAAAAACAACATATTCCCCATCATGT
*
22613 TCTTCTTC--A
65 TCTTCTTCTTG
* * * * * * * * *
22622 AGC-TGTTATCA-ATT-TTTTGGTTTTTGATAAACATTTTAGAAATAACATATTCCCCATCATGT
1 AGCTTATTTTTAGTTTGTTTTAGTTGTTGATAAA-ATTGTAAAAACAACATATTCCCCATCATGT
22684 TCTTC
65 TCTTC
22689 CTTTTAAGGC
Statistics
Matches: 183, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
70 3 0.02
71 42 0.23
72 2 0.01
73 5 0.03
74 2 0.01
75 91 0.50
76 38 0.21
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (75 bp):
AGCTTATTTTTAGTTTGTTTTAGTTGTTGATAAAATTGTAAAAACAACATATTCCCCATCATGTT
CTTCTTCTTG
Found at i:22789 original size:76 final size:76
Alignment explanation
Indices: 22721--22876 Score: 186
Period size: 76 Copynumber: 2.1 Consensus size: 76
22711 GTTTCGGCTG
* * *
22721 TTGATGGAAATTTTACAAATCACATATCCCCAATCATGTTCTTTTCTTTCAGCTTGTCATTAGTT
1 TTGATAGAAATTTTACAAATCACATATCCCCAATCATATTCTTTTCCTTCAGCTTGTCATTAGTT
22786 TGTTTCAACTA
66 TGTTTCAACTA
* * ** * * * ** *
22797 TTGATAGAAATTTTAGAAATCAGATATTTCCTATCATATTCTTTTCCTTCAGCCTATTGTCAGTT
1 TTGATAGAAATTTTACAAATCACATATCCCCAATCATATTCTTTTCCTTCAGCTTGTCATTAGTT
*
22862 TGTTTCAACTG
66 TGTTTCAACTA
22873 TTGA
1 TTGA
22877 AAGGAAGTTC
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (76 bp):
TTGATAGAAATTTTACAAATCACATATCCCCAATCATATTCTTTTCCTTCAGCTTGTCATTAGTT
TGTTTCAACTA
Found at i:23582 original size:44 final size:43
Alignment explanation
Indices: 23519--23666 Score: 181
Period size: 44 Copynumber: 3.4 Consensus size: 43
23509 TAGGCCTACA
23519 TCAAACTTCTTTCACTATAGTTTGAAATGATGGTTCTACCCTGG
1 TCAAACTTCTTTCACTATAGTTTG-AATGATGGTTCTACCCTGG
* * * * *
23563 TCAAACTCCTTTCACTATAGTTTGACATGTTGGTTTTGCCCTAG
1 TCAAACTTCTTTCACTATAGTTTGA-ATGATGGTTCTACCCTGG
* *
23607 TCAAACTTCTTTCACCATAGTTTG-ATGTAGTGGTTCTGCCCTGG
1 TCAAACTTCTTTCACTATAGTTTGAATG-A-TGGTTCTACCCTGG
*
23651 TCAAACTTCGTTCACT
1 TCAAACTTCTTTCACT
23667 TCCATTTGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 3 0.03
43 1 0.01
44 85 0.96
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (43 bp):
TCAAACTTCTTTCACTATAGTTTGAATGATGGTTCTACCCTGG
Found at i:23675 original size:44 final size:43
Alignment explanation
Indices: 23519--23726 Score: 129
Period size: 44 Copynumber: 4.7 Consensus size: 43
23509 TAGGCCTACA
* * * ** *
23519 TCAAACTTCTTTCACTATAGTTTGAAATGATGGTTCTACCCTGG
1 TCAAACTTCGTTCACCACAGTTTGATGTGATGGTT-TGCCCTGG
* * * * ** * *
23563 TCAAACTCCTTTCACTATAGTTTGACATGTTGGTTTTGCCCTAG
1 TCAAACTTCGTTCACCACAGTTTGATGTGATGG-TTTGCCCTGG
* *
23607 TCAAACTTCTTTCACCATAGTTTGATGT-AGTGGTTCTGCCCTGG
1 TCAAACTTCGTTCACCACAGTTTGATGTGA-TGGTT-TGCCCTGG
*
23651 TCAAACTTCGTTCACTTC-CA-TTTGATGTGATGGTTTAGCCTTGG
1 TCAAACTTCGTTCAC--CACAGTTTGATGTGATGGTTT-GCCCTGG
* *
23695 TCAAAC-TCTTTTCATCCTCA-TTTGATGTGATG
1 TCAAACTTC-GTTCA-CCACAGTTTGATGTGATG
23727 ACTCAGCCCT
Statistics
Matches: 139, Mismatches: 15, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.04
44 127 0.91
45 5 0.04
46 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (43 bp):
TCAAACTTCGTTCACCACAGTTTGATGTGATGGTTTGCCCTGG
Found at i:23708 original size:88 final size:87
Alignment explanation
Indices: 23519--23705 Score: 211
Period size: 88 Copynumber: 2.1 Consensus size: 87
23509 TAGGCCTACA
* *
23519 TCAAACTTCTTTCACTATAGTTTGAAATGATGGTTCTACCCTGGTCAAACTCCTTTCACTATAGT
1 TCAAACTTCTTTCACCATAGTTTG-AATGATGGTTCTACCCTGGTCAAACTCCGTTCACTATAGT
* *
23584 TTGACATGTTGGTTTTGCCCTAG
65 TTGACATGATGGTTTAGCCCTAG
* *
23607 TCAAACTTCTTTCACCATAGTTTG-ATGTAGTGGTTCTGCCCTGGTCAAACTTCGTTCACT-TCC
1 TCAAACTTCTTTCACCATAGTTTGAATG-A-TGGTTCTACCCTGGTCAAACTCCGTTCACTAT--
** * *
23670 A-TTTGATGTGATGGTTTAGCCTTGG
62 AGTTTGACATGATGGTTTAGCCCTAG
23695 TCAAAC-TCTTT
1 TCAAACTTCTTT
23706 TCATCCTCAT
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
86 3 0.04
87 7 0.08
88 74 0.87
89 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (87 bp):
TCAAACTTCTTTCACCATAGTTTGAATGATGGTTCTACCCTGGTCAAACTCCGTTCACTATAGTT
TGACATGATGGTTTAGCCCTAG
Found at i:23976 original size:81 final size:80
Alignment explanation
Indices: 23790--24218 Score: 398
Period size: 81 Copynumber: 5.3 Consensus size: 80
23780 TGACTTGTCG
* * * * *
23790 GTTTCACCCTAGTCAACCCTTCTAACCTATTAGCTTTATCGATTTTTC-CC-TGGCCAACC-TTT
1 GTTTCACCCTAGTCAA-CCTTTTAACCCATTGGCTTTATC-A-GTTTCGCCTTAGCCAACCTTTT
**
23852 AATTGGTTGACTTTATCG
63 AATTGGTTGACTTTATTA
* * * *
23870 GTTTCACCCTAGTTAACCCTTCTAACCCATTGGCTTTATCAGTTTCACTTTAGCCAACCTTTTAA
1 GTTTCACCCTAGTCAA-CCTTTTAACCCATTGGCTTTATCAGTTTCGCCTTAGCCAACCTTTTAA
* *
23935 TTAGTTAACTTTATTA
65 TTGGTTGACTTTATTA
* ** * * ** *
23951 GTTTCACCCTGGTCAATGTTTCTAACTCATTGGTTTTATGGGTTTCGCCCTAGCCAACCTTTTAA
1 GTTTCACCCTAGTCAACCTTT-TAACCCATTGGCTTTATCAGTTTCGCCTTAGCCAACCTTTTAA
*
24016 TTGTTTGACTTTATTA
65 TTGGTTGACTTTATTA
** * * * *
24032 GTTTTGCCCTAGTCAGCCCTTTTAACCCATTGGCTTTATCGGTTTTGCCTTAGCCAACTTTTTAA
1 GTTTCACCCTAGTCA-ACCTTTTAACCCATTGGCTTTATCAGTTTCGCCTTAGCCAACCTTTTAA
* *
24097 TTGGTTGATTTTATTG
65 TTGGTTGACTTTATTA
* * ** * * **
24113 GTTTAACTCTAGTCAACCCTTTTAACCTTTTGGCTTTATC-GATTTTGCCTTGGTTAACCTTTTA
1 GTTTCACCCTAGTCAA-CCTTTTAACCCATTGGCTTTATCAG-TTTCGCCTTAGCCAACCTTTTA
24177 ATTGGTTGACTTTATTA
64 ATTGGTTGACTTTATTA
* *
24194 GTTTCACCCTGGTCAACCTTCTAAC
1 GTTTCACCCTAGTCAACCTTTTAAC
24219 TTGTTGCCCT
Statistics
Matches: 286, Mismatches: 56, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
78 4 0.01
79 2 0.01
80 56 0.20
81 221 0.77
82 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (80 bp):
GTTTCACCCTAGTCAACCTTTTAACCCATTGGCTTTATCAGTTTCGCCTTAGCCAACCTTTTAAT
TGGTTGACTTTATTA
Found at i:24041 original size:40 final size:40
Alignment explanation
Indices: 23924--24213 Score: 136
Period size: 40 Copynumber: 7.2 Consensus size: 40
23914 TCACTTTAGC
* * ** *
23924 CAACCTTTTAATTAGTTAACTTTATTAGTTTCACCCTGGT
1 CAACCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGT
** * ** ** ** * *
23964 CAATGTTTCTAACTCATTGGTTTTATGGGTTTCGCCCTAGC
1 CAACCTTT-TAATTGGTTGACTTTATTAGTTTTGCCCTAGT
*
24005 CAACCTTTTAATTGTTTGACTTTATTAGTTTTGCCCTAGT
1 CAACCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGT
* **** * ** * *
24045 CAGCCCTTTTAACCCATTGGCTTTATCGGTTTTGCCTTAGC
1 CA-ACCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGT
* * * ** *
24086 CAACTTTTTAATTGGTTGATTTTATTGGTTTAACTCTAGT
1 CAACCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGT
* * * *
24126 CAACCCTTTTAACCTT--TTGGCTTTA-TCGATTTTGCCTTGGT
1 CAA-CCTTTTAA--TTGGTTGACTTTATTAG-TTTTGCCCTAGT
* ** *
24167 TAACCTTTTAATTGGTTGACTTTATTAGTTTCACCCTGGT
1 CAACCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGT
24207 CAACCTT
1 CAACCTT
24214 CTAACTTGTT
Statistics
Matches: 177, Mismatches: 64, Indels: 18
0.68 0.25 0.07
Matches are distributed among these distances:
38 2 0.01
40 91 0.51
41 82 0.46
43 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (40 bp):
CAACCTTTTAATTGGTTGACTTTATTAGTTTTGCCCTAGT
Found at i:24174 original size:162 final size:162
Alignment explanation
Indices: 23789--24218 Score: 499
Period size: 162 Copynumber: 2.7 Consensus size: 162
23779 TTGACTTGTC
* * *
23789 GGTTTCACCCTAGTCAACCCTTCTAACCTATTAGCTTTATCGATTTTTCCCTGGCCAACC-TTTA
1 GGTTTCACCCTAGTCAACCCTTTTAACCTATTGGCTTTATCGATTTTGCCCTGGCCAACCTTTTA
** *
23853 ATTGGTTGACTTTATCGGTTTCACCCTAGTTAACCCTTCTAACCCATTGGCTTTATCAGTTTCAC
66 ATTGGTTGACTTTATTAGTTTCACCCTAGTCAACCCTTCTAACCCATTGGCTTTATCAGTTTCAC
*
23918 TTTAGCCAACCTTTTAATTAGTTAACTTTATT
131 CTTAGCCAACCTTTTAATTAGTTAACTTTATT
* * ** * * * * *
23950 AGTTTCACCCTGGTCAA-TGTTTCTAA-CTCATTGGTTTTATGGGTTTCGCCCTAGCCAACCTTT
1 GGTTTCACCCTAGTCAACCCTTT-TAACCT-ATTGGCTTTATCGATTTTGCCCTGGCCAACCTTT
* ** * * * *
24013 TAATTGTTTGACTTTATTAGTTTTGCCCTAGTCAGCCCTTTTAACCCATTGGCTTTATCGGTTTT
64 TAATTGGTTGACTTTATTAGTTTCACCCTAGTCAACCCTTCTAACCCATTGGCTTTATCAGTTTC
* * * * *
24078 GCCTTAGCCAACTTTTTAATTGGTTGATTTTATT
129 ACCTTAGCCAACCTTTTAATTAGTTAACTTTATT
* * * * **
24112 GGTTTAACTCTAGTCAACCCTTTTAACCTTTTGGCTTTATCGATTTTGCCTTGGTTAACCTTTTA
1 GGTTTCACCCTAGTCAACCCTTTTAACCTATTGGCTTTATCGATTTTGCCCTGGCCAACCTTTTA
*
24177 ATTGGTTGACTTTATTAGTTTCACCCTGGTCAA-CCTTCTAAC
66 ATTGGTTGACTTTATTAGTTTCACCCTAGTCAACCCTTCTAAC
24219 TTGTTGCCCT
Statistics
Matches: 215, Mismatches: 49, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
160 4 0.02
161 50 0.23
162 156 0.73
163 5 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (162 bp):
GGTTTCACCCTAGTCAACCCTTTTAACCTATTGGCTTTATCGATTTTGCCCTGGCCAACCTTTTA
ATTGGTTGACTTTATTAGTTTCACCCTAGTCAACCCTTCTAACCCATTGGCTTTATCAGTTTCAC
CTTAGCCAACCTTTTAATTAGTTAACTTTATT
Found at i:24789 original size:32 final size:30
Alignment explanation
Indices: 24753--24811 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
24743 GAAAACAAAT
24753 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
24785 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
24812 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:25110 original size:13 final size:13
Alignment explanation
Indices: 25092--25117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25082 CAATTTTTTG
25092 TGTATCGATACAT
1 TGTATCGATACAT
25105 TGTATCGATACAT
1 TGTATCGATACAT
25118 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:25132 original size:32 final size:33
Alignment explanation
Indices: 25072--25135 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
25062 TACAAGCCAA
** *
25072 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
25105 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
25136 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:25209 original size:20 final size:20
Alignment explanation
Indices: 25165--25218 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
25155 ATTCCCAATG
***
25165 ACATGTATCGATACATTTTT
1 ACATGTATCGATACATTGCA
*
25185 TCATGTATCGATACATTGCA
1 ACATGTATCGATACATTGCA
25205 ACATGTATCGATAC
1 ACATGTATCGATAC
25219 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
ACATGTATCGATACATTGCA
Found at i:25886 original size:13 final size:13
Alignment explanation
Indices: 25868--25893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25858 TACACCAAGT
25868 ATGTATCGATACA
1 ATGTATCGATACA
25881 ATGTATCGATACA
1 ATGTATCGATACA
25894 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:25891 original size:32 final size:33
Alignment explanation
Indices: 25850--25913 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
25840 TAGCCAAACT
**
25850 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
25882 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
25914 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:31160 original size:13 final size:13
Alignment explanation
Indices: 31142--31180 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
31132 TCACTATTCA
31142 TGTATCGATACAT
1 TGTATCGATACAT
*
31155 TGTATCGATACAG
1 TGTATCGATACAT
31168 TGTATCGATACAT
1 TGTATCGATACAT
31181 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:31480 original size:158 final size:158
Alignment explanation
Indices: 31192--31506 Score: 612
Period size: 158 Copynumber: 2.0 Consensus size: 158
31182 ATAAATAGTA
31192 TCGATACATCACTGTTCACACCATTTAATAAAAGCCCAACGGCTATAATTTCAAATGCATGTATC
1 TCGATACATCACTGTTCACACCATTTAATAAAAGCCCAACGGCTATAATTTCAAATGCATGTATC
31257 GATACATTATAATTTGTATCAATACATTGGAGCGTGTAAGTGCGGAAACAACGTTTAAACAAGTC
66 GATACATTATAATTTGTATCAATACATTGGAGCGTGTAAGTGCGGAAACAACGTTTAAACAAGTC
*
31322 TACAATGGCTATAAACTCCATTATTTCT
131 TACAACGGCTATAAACTCCATTATTTCT
31350 TCGATACATCACTGTTCACACCATTTAATAAAAGCCCAACGGCTATAATTTCAAATGCATGTATC
1 TCGATACATCACTGTTCACACCATTTAATAAAAGCCCAACGGCTATAATTTCAAATGCATGTATC
*
31415 GATACATTATAATTTGTATCGATACATTGGAGCGTGTAAGTGCGGAAACAACGTTTAAACAAGTC
66 GATACATTATAATTTGTATCAATACATTGGAGCGTGTAAGTGCGGAAACAACGTTTAAACAAGTC
31480 TACAACGGCTATAAACTCCATTATTTC
131 TACAACGGCTATAAACTCCATTATTTC
31507 ATCTCCAACG
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 155 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (158 bp):
TCGATACATCACTGTTCACACCATTTAATAAAAGCCCAACGGCTATAATTTCAAATGCATGTATC
GATACATTATAATTTGTATCAATACATTGGAGCGTGTAAGTGCGGAAACAACGTTTAAACAAGTC
TACAACGGCTATAAACTCCATTATTTCT
Found at i:37300 original size:21 final size:21
Alignment explanation
Indices: 37271--37315 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37261 AAGTTTTTAT
*
37271 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
37291 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
37313 TTT
1 TTT
37316 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:39214 original size:32 final size:30
Alignment explanation
Indices: 39178--39236 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
39168 GAAAACAAAT
39178 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
39210 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
39237 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:39565 original size:19 final size:18
Alignment explanation
Indices: 39495--39565 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
39485 TACAAGCCAA
*
39495 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
39515 TGTATCGATAC-A-TT--
1 TGTATCGATACAATTTGG
*
39529 T-TATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
39547 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
39566 CTACTACCGA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.21
14 1 0.02
15 1 0.02
16 4 0.09
18 2 0.05
19 15 0.35
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:49740 original size:31 final size:31
Alignment explanation
Indices: 49705--49768 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
49695 GCTCCAAAAA
* *
49705 TTTCCCATTTCTTTTTTCATTTTT-ATGACAT
1 TTTCCCACTT-TTTATTCATTTTTGATGACAT
* *
49736 TTTCCTACTTTTTATTCATTTTTGATGAGAT
1 TTTCCCACTTTTTATTCATTTTTGATGACAT
49767 TT
1 TT
49769 GCATTAAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.17, C:0.16, G:0.06, T:0.61
Consensus pattern (31 bp):
TTTCCCACTTTTTATTCATTTTTGATGACAT
Found at i:50389 original size:166 final size:165
Alignment explanation
Indices: 50090--50538 Score: 407
Period size: 166 Copynumber: 2.7 Consensus size: 165
50080 AATATATACA
* * * *
50090 AAAAAATTCAAAATTCAT-AAAATAAATTGAATTTCTTAAAACT-ATTTTAATGGGAGTTCAATG
1 AAAAAATTCAAAATTCATGAAAATGAATTAAATTT-TCAAAACTGA-TTTAATGGAAGTTCAATG
* *
50153 ACAATATTAGATGAATTCTAAAAATTTTAGACCAAAGAAAATCCCCCCAGAAATATTTATGAAAT
64 ACAATATTAGATGAATTCTAAAAATTTTAAACCAAAGAAAATCCCCCCAGAAAAATTTATGAAAT
* *
50218 AGAAAACT-CGATTTTTTAGGAAAAGAGAGA-TTTTAAAG
129 AGAAAACTCCG-TTTTTCA--AAAAGAGAGAGTTTCAAAG
* *
50256 AAAAAATCCAAAATTCATGAAAATGAATTAAATTTTCAAAACTGATTTAATGGAAGTTTAATGAC
1 AAAAAATTCAAAATTCATGAAAATGAATTAAATTTTCAAAACTGATTTAATGGAAGTTCAATGAC
* * ** * * *
50321 ATTATTATATGAATTCTAAAAATTTTAAAATGAAA-AAAAT-CCCTCTGAAAAAATTTAT-AGAG
66 AATATTAGATGAATTCTAAAAATTTT-AAACCAAAGAAAATCCCCCCAG-AAAAATTTATGA-AA
* * *
50383 TAGAAAACTCCGTTTTTCAAAAATAGGGAGTTTCAAGG
128 TAGAAAACTCCGTTTTTCAAAAAGAGAGAGTTTCAAAG
* * * * * * *
50421 AAAAAATTTAAAAACTCATGAAAATGAA-CAAATTTTTGAAAACTGATTTAATATGAA-ATAAAT
1 AAAAAA-TTCAAAATTCATGAAAATGAATTAAA-TTTTCAAAACTGATTTAAT-GGAAGTTCAAT
* * ** * **
50484 AAAAATATTTTATGAATTTTAAAAATTAAAAACC-AAGAAAAATCCCCCC-GAAAAA
63 GACAATATTAGATGAATTCTAAAAATTTTAAACCAAAG-AAAATCCCCCCAGAAAAA
50539 GAATTACGGA
Statistics
Matches: 232, Mismatches: 38, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
164 10 0.04
165 29 0.12
166 164 0.71
167 29 0.12
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (165 bp):
AAAAAATTCAAAATTCATGAAAATGAATTAAATTTTCAAAACTGATTTAATGGAAGTTCAATGAC
AATATTAGATGAATTCTAAAAATTTTAAACCAAAGAAAATCCCCCCAGAAAAATTTATGAAATAG
AAAACTCCGTTTTTCAAAAAGAGAGAGTTTCAAAG
Found at i:52593 original size:13 final size:13
Alignment explanation
Indices: 52553--52605 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
52543 CCGTTACAAG
52553 CAATGTATCGATA
1 CAATGTATCGATA
52566 CAA--T-TC-AT-
1 CAATGTATCGATA
52574 C-ATGTATCGATA
1 CAATGTATCGATA
52586 CAATGTATCGATA
1 CAATGTATCGATA
*
52599 CATTGTA
1 CAATGTA
52606 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:52593 original size:33 final size:33
Alignment explanation
Indices: 52553--52621 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
52543 CCGTTACAAG
*
52553 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
*
52586 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
52619 CAA
1 CAA
52622 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:52689 original size:13 final size:13
Alignment explanation
Indices: 52671--52697 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52661 ACAATTGTCC
52671 ATGTATCGATACA
1 ATGTATCGATACA
52684 ATGTATCGATACA
1 ATGTATCGATACA
52697 A
1 A
52698 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:55291 original size:20 final size:20
Alignment explanation
Indices: 55266--55310 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
55256 TTTACCCAGA
55266 TGTATCAATACATTGTTCAT
1 TGTATCAATACATTGTTCAT
*
55286 TGTATCAATGCATTGTTCAT
1 TGTATCAATACATTGTTCAT
55306 TGTAT
1 TGTAT
55311 AGACACCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (20 bp):
TGTATCAATACATTGTTCAT
Found at i:58619 original size:13 final size:13
Alignment explanation
Indices: 58601--58627 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58591 ACATTACGCT
58601 TTGTATCGATACA
1 TTGTATCGATACA
58614 TTGTATCGATACA
1 TTGTATCGATACA
58627 T
1 T
58628 GCTCATTGTA
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:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:58657 original size:20 final size:19
Alignment explanation
Indices: 58611--58666 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
58601 TTGTATCGAT
58611 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* * *
58630 TCATTGTATCAATACATGG
1 ACATTGTATCGATACATGC
58649 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
58667 AAGATTGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:58743 original size:21 final size:21
Alignment explanation
Indices: 58696--58750 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
58686 CTACCACTGT
58696 TTGTATCGATACATGGGACAA
1 TTGTATCGATACATGGGACAA
*
58717 -TGTATCGATACATGATGA-AA
1 TTGTATCGATACATG-GGACAA
58737 TTGTATCGATACAT
1 TTGTATCGATACAT
58751 TGCTTGTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATGGGACAA
Found at i:60332 original size:3 final size:3
Alignment explanation
Indices: 60324--60354 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
60314 TGAAGAGGAA
*
60324 GAT GAT GAT GAT GAC GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
60355 GTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:67398 original size:19 final size:19
Alignment explanation
Indices: 67355--67428 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
67345 CACACCCAGA
* *
67355 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
*
67375 TGTATCGATACATGCTCAT
1 TGTATCGATACATGATCAT
67394 TGTATCGATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AT
67414 TGTATCGATACATGA
1 TGTATCGATACATGA
67429 GATTGGCAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:67495 original size:13 final size:13
Alignment explanation
Indices: 67477--67525 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
67467 CATGGGACAA
67477 TGTATCGATACAT
1 TGTATCGATACAT
67490 TGTATCGATACA-
1 TGTATCGATACAT
*
67502 TG-AT---TAAAT
1 TGTATCGATACAT
67511 TGTATCGATACAT
1 TGTATCGATACAT
67524 TG
1 TG
67526 CTTGTAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 3 0.10
9 2 0.07
10 2 0.07
11 2 0.07
12 2 0.07
13 18 0.62
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:67498 original size:33 final size:34
Alignment explanation
Indices: 67456--67525 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
67446 CTACCACTGT
67456 TTGTATCGATACATG-GGACAA-TGTATCGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
**
67489 TTGTATCGATACATGATTAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
67523 TTG
1 TTG
67526 CTTGTAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:73519 original size:78 final size:78
Alignment explanation
Indices: 73425--73599 Score: 226
Period size: 78 Copynumber: 2.2 Consensus size: 78
73415 AAGACTATTC
*
73425 CTTTTTCCTTTGTCCTCAAGAAGCAGGACATATTTCATTTCCTCCTATTCCTTTATCCTCAAAGA
1 CTTTTTCCTTTGTCCTCAAGAAGCAGAACATATTTCATTTCCTCCTATTCCTTTATCCTCAAAGA
73490 ATAGGGTGCACTT
66 ATAGGGTGCACTT
* * * ** * *
73503 CTTTTTCTTTTGTCCTCAAGAAGTAGAACGTATTTTGTTTCCTCTTATTCCTTTGTCCTCAAAGA
1 CTTTTTCCTTTGTCCTCAAGAAGCAGAACATATTTCATTTCCTCCTATTCCTTTATCCTCAAAGA
***
73568 ATAGGACACACTT
66 ATAGGGTGCACTT
*
73581 -TTTTTCCCTTTATCCTCAA
1 CTTTTT-CCTTTGTCCTCAA
73600 AGAGCAGGAT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
77 5 0.06
78 78 0.94
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (78 bp):
CTTTTTCCTTTGTCCTCAAGAAGCAGAACATATTTCATTTCCTCCTATTCCTTTATCCTCAAAGA
ATAGGGTGCACTT
Found at i:74006 original size:62 final size:62
Alignment explanation
Indices: 73929--74202 Score: 247
Period size: 62 Copynumber: 4.4 Consensus size: 62
73919 GCCTTAGAAT
* * * * * * *
73929 GTCAAAGCCCGCACAAGCTGGTGGCA-CCTGAGTCTTAGCTCGCT-CGAGTTGGCGGCACCTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCT-AGTCTAAGC-CGCTACAAGCTAGCGACACCTGA
* ** * *
73991 GTCAAAGCCCACACAAGTTGGAGGCACCCTAGTCTAAGCCTATACAAGCTAGCAACACCTAA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCTAAGCCGCTACAAGCTAGCGACACCTGA
* *
74053 GTCAAAGCCCACACAAGTTGGTGGCACCCAAGTCAAAGCC-CGTACAAGCTAGCGACA-CTCGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCTAAGCCGC-TACAAGCTAGCGACACCT-GA
* * * * *
74115 GTCAAAGCCCACACAAGTTAGTGGCACCCTAGT-TAAAG-C-CTACACGAGTTGGCGGCACTTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCT-AAGCCGCTACA--AGCTAGCGACACCTGA
* *
74177 GTTAAAGCCCATACAAGTTGGTGGCA
1 GTCAAAGCCCACACAAGTTGGTGGCA
74203 TCCATGTTTG
Statistics
Matches: 176, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
60 4 0.02
61 6 0.03
62 162 0.92
63 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (62 bp):
GTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCTAAGCCGCTACAAGCTAGCGACACCTGA
Found at i:74010 original size:31 final size:31
Alignment explanation
Indices: 73929--74202 Score: 185
Period size: 31 Copynumber: 8.8 Consensus size: 31
73919 GCCTTAGAAT
* * *
73929 GTCAAAGCCCGCACAAGCTGGTGGCACCTGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCTGA
** * * * *
73960 GTCTTAGCTCGCTCGAGTTGGCGGCACCTGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCTGA
*
73991 GTCAAAGCCCACACAAGTTGGAGGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGCGGCA-CCTGA
* * * * * ** *
74022 GTCTAAGCCTATACAAGCTAGCAACACCTAA
1 GTCAAAGCCCACACAAGTTGGCGGCACCTGA
* **
74053 GTCAAAGCCCACACAAGTTGGTGGCACCCAA
1 GTCAAAGCCCACACAAGTTGGCGGCACCTGA
** * * *
74084 GTCAAAGCCCGTACAAGCTAGCGACA-CTCGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCT-GA
* *
74115 GTCAAAGCCCACACAAGTTAGTGGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGCGGCA-CCTGA
* * * *
74146 GTTAAAGCCTACACGAGTTGGCGGCACTTGA
1 GTCAAAGCCCACACAAGTTGGCGGCACCTGA
* * *
74177 GTTAAAGCCCATACAAGTTGGTGGCA
1 GTCAAAGCCCACACAAGTTGGCGGCA
74203 TCCATGTTTG
Statistics
Matches: 183, Mismatches: 54, Indels: 12
0.73 0.22 0.05
Matches are distributed among these distances:
30 6 0.03
31 172 0.94
32 3 0.02
33 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (31 bp):
GTCAAAGCCCACACAAGTTGGCGGCACCTGA
Found at i:82217 original size:131 final size:130
Alignment explanation
Indices: 82048--82296 Score: 349
Period size: 131 Copynumber: 1.9 Consensus size: 130
82038 TGCATTCATT
* *
82048 CATGACTTGCATTTTTGAAGCCCTTATTTCAAAACCTTCTGTATATATTTGTTTGTATTACTTTG
1 CATGACTTACATTTTTGAAGCCCTTATTTCAAAACCTTCTGTATATATCTGTTTGTATTAC-TTG
* * * * *
82113 TTATA-CTTTTCTCTTTAACATTATATTAATTTCATC-TATGTATTCATTTGCATATATGAATAC
65 TTACACCTTTT-TCTTTAACATCACATTAATTTCATCTTA-GCACTCATTTGCATATATGAATAC
82176 ATA
128 ATA
* * *
82179 CATGACTTACATTTTTGAAGCCCTTGTTTCCAAACCTTCTGTATATATCTGTTTGTCTTACTTGT
1 CATGACTTACATTTTTGAAGCCCTTATTTCAAAACCTTCTGTATATATCTGTTTGTATTACTTGT
* *
82244 TACACCTTTTTCTTTGACATCACATTAATTTTATCTTAGCACTCATTTGCATA
66 TACACCTTTTTCTTTAACATCACATTAATTTCATCTTAGCACTCATTTGCATA
82297 CATGTATATG
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
130 41 0.39
131 63 0.61
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.47
Consensus pattern (130 bp):
CATGACTTACATTTTTGAAGCCCTTATTTCAAAACCTTCTGTATATATCTGTTTGTATTACTTGT
TACACCTTTTTCTTTAACATCACATTAATTTCATCTTAGCACTCATTTGCATATATGAATACATA
Found at i:85077 original size:44 final size:44
Alignment explanation
Indices: 85010--85112 Score: 152
Period size: 44 Copynumber: 2.3 Consensus size: 44
85000 TAATTTTTCG
*
85010 CATTAGCATCATTTCATGCAAATCTACAATTTAGGTAACATCCA
1 CATTAGCATCATTTCATGCAAATCTACAATTTAGCTAACATCCA
* ** *
85054 CATTAGCATCATTTCATGTAAATCTGTAATTTAGCTAACATCTA
1 CATTAGCATCATTTCATGCAAATCTACAATTTAGCTAACATCCA
*
85098 CATTAGCATCGTTTC
1 CATTAGCATCATTTC
85113 TTGAACATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (44 bp):
CATTAGCATCATTTCATGCAAATCTACAATTTAGCTAACATCCA
Found at i:85460 original size:19 final size:20
Alignment explanation
Indices: 85436--85489 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
85426 ACATTAGGCT
**
85436 TTGTATCGATACATGTTC-A
1 TTGTATCGATACATGCACAA
*
85455 TTGTATTGATACATGCACAA
1 TTGTATCGATACATGCACAA
*
85475 TTATATCGATACATG
1 TTGTATCGATACATG
85490 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCACAA
Found at i:85487 original size:20 final size:19
Alignment explanation
Indices: 85439--85489 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
85429 TTAGGCTTTG
** *
85439 TATCGATACATGTTCATTG
1 TATCGATACATGCACATTA
*
85458 TATTGATACATGCACAATTA
1 TATCGATACATGCAC-ATTA
85478 TATCGATACATG
1 TATCGATACATG
85490 AAACTGGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
TATCGATACATGCACATTA
Found at i:93232 original size:33 final size:33
Alignment explanation
Indices: 93190--93256 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
93180 TGAGAGTTGA
* *
93190 TCACTTCACTTTTGTAGCACATGAATGAGCACT
1 TCACTTCACTCTTGCAGCACATGAATGAGCACT
* *
93223 TCACTTCACTCTTGCAGCGCATGGATGAGCACT
1 TCACTTCACTCTTGCAGCACATGAATGAGCACT
93256 T
1 T
93257 TAGTGCACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (33 bp):
TCACTTCACTCTTGCAGCACATGAATGAGCACT
Found at i:94196 original size:13 final size:13
Alignment explanation
Indices: 94178--94202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94168 CCATTATGCT
94178 TTGTATCGATACC
1 TTGTATCGATACC
94191 TTGTATCGATAC
1 TTGTATCGATAC
94203 ATACTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACC
Found at i:94234 original size:20 final size:19
Alignment explanation
Indices: 94191--94244 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
94181 TATCGATACC
* *
94191 TTGTATCGATACATACTCA
1 TTGTATCGATACATGCACA
*
94210 TTGTATCGACACATGCACAA
1 TTGTATCGATACATGCAC-A
94230 TTGTATCGATACATG
1 TTGTATCGATACATG
94245 AAATTGGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATGCACA
Found at i:96247 original size:92 final size:92
Alignment explanation
Indices: 96089--96406 Score: 354
Period size: 92 Copynumber: 3.5 Consensus size: 92
96079 GGAAAAGGGT
* * * *
96089 ATCATATCCCCTTCATTTAACCACTA-AATGGTATTGATGCATCACAAAACCAAATTTCCTTTGG
1 ATCATATCCCTTTCATTCAACCACTAGAA-GGTATTGATGCATCACAAAGCCAAATTTCCTTGGG
* *
96153 GCAAGGATATCCCTACCACACATTCCAA
65 GCAAGGATATCACTACCATACATTCCAA
* *
96181 ATCATATCCCTTTCATTCAACCACTAGAAGGTATTGATGCATCACAGAGCCAGATTTCCTTGGGG
1 ATCATATCCCTTTCATTCAACCACTAGAAGGTATTGATGCATCACAAAGCCAAATTTCCTTGGGG
* * * *
96246 CAAGGATAT-ATTGCCCATACAATCCCA
66 CAAGGATATCACT-ACCATACATTCCAA
* * *
96273 ATCATATCTCTTTTATTCAACCACTAGATA-TTATTGATGCATCACAAAGCCAAATTTCCTTGGG
1 ATCATATCCCTTTCATTCAACCACTAGA-AGGTATTGATGCATCACAAAGCCAAATTTCCTTGGG
* * * ** *
96337 GCAATGATATCTCGACCATTTATTCCTA
65 GCAAGGATATCACTACCATACATTCCAA
* ** * *
96365 ATTATATCTTTTTCATTTAACCACTAGATGGTATTGATGCAT
1 ATCATATCCCTTTCATTCAACCACTAGAAGGTATTGATGCAT
96407 TACATGACCA
Statistics
Matches: 189, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
91 1 0.01
92 185 0.98
93 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.32
Consensus pattern (92 bp):
ATCATATCCCTTTCATTCAACCACTAGAAGGTATTGATGCATCACAAAGCCAAATTTCCTTGGGG
CAAGGATATCACTACCATACATTCCAA
Found at i:96621 original size:35 final size:35
Alignment explanation
Indices: 96583--96748 Score: 170
Period size: 35 Copynumber: 4.7 Consensus size: 35
96573 ATTTTCTCTT
* * *
96583 GTTTGACTGTATCTGGTCAAACTTTTTCTATCATT
1 GTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
* * * * *
96618 GTTTAATTGTATTTGGTCAAACCCTTTTCATCATC
1 GTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
*
96653 GTTTGACTGTATCAGGTCAAACTCTTTCCATCATC
1 GTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
* * ** *
96688 ATTTGATTACATCTGGCCAAACTCTTTCCATCATC
1 GTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
* * * *
96723 ATTTGACTATATATGCTCAAACTCTT
1 GTTTGACTGTATCTGGTCAAACTCTT
96749 CTCATTTTAG
Statistics
Matches: 106, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 106 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (35 bp):
GTTTGACTGTATCTGGTCAAACTCTTTCCATCATC
Found at i:96885 original size:44 final size:44
Alignment explanation
Indices: 96739--97442 Score: 434
Period size: 44 Copynumber: 16.0 Consensus size: 44
96729 CTATATATGC
* * * * *
96739 TCAAACTCTTCTCATTT-TAGTCTAACGTATGGCTACGACCCTAG
1 TCAAACTCTTCTCATTTCT-GTTTGACGTATGGTTACCACCCTGG
* * * * ** * *
96783 TCAAATTATTTTTATTT-TGATTTGACACATGGTTACCATCCTAG
1 TCAAACTCTTCTCATTTCTG-TTTGACGTATGGTTACCACCCTGG
* ** *
96827 TCAAA-TCTACCTCATCCCTGTTTGACGTATGGTTACCACCCTAG
1 TCAAACTCT-TCTCATTTCTGTTTGACGTATGGTTACCACCCTGG
* *
96871 TCAAACTCTTCTCATTT-TAGTCTGATGTATGGTTACCACCCTGG
1 TCAAACTCTTCTCATTTCT-GTTTGACGTATGGTTACCACCCTGG
* * * * * *
96915 TCAGATTCTTTTCA-TTCTAATTTGACGTATGGTTAGCACCCTAG
1 TCAAACTCTTCTCATTTCT-GTTTGACGTATGGTTACCACCCTGG
* * *
96959 TCAAA-TCTACCTC-TTTGTTGTTTGACGTATGGTTGCCACCCTGG
1 TCAAACTCT-TCTCATTT-CTGTTTGACGTATGGTTACCACCCTGG
* * *
97003 TCGAACTCTTCTCATTTCGGTCTGACGTATGGTTA-CACCCTGG
1 TCAAACTCTTCTCATTTCTGTTTGACGTATGGTTACCACCCTGG
* * * * * *
97046 TCAGATTCTTTTCA-TTCTAATTTGACATATGGTTACCACCCTTG
1 TCAAACTCTTCTCATTTCT-GTTTGACGTATGGTTACCACCCTGG
* *
97090 TCAAA-TCTGCCTC-TTTCCTGTTTGACGTATGGTTACCACCTTGG
1 TCAAACTCT-TCTCATTT-CTGTTTGACGTATGGTTACCACCCTGG
* * * *
97134 TCCAACTCTTTTCATTTC-GATTTGACATATGGTTACCACCCTAG
1 TCAAACTCTTCTCATTTCTG-TTTGACGTATGGTTACCACCCTGG
* * * * * * * * *
97178 TTAGATTATTTTTA-TTCTGATTTGATGCATGGTTACCACCCTAG
1 TCAAACTCTTCTCATTTCTG-TTTGACGTATGGTTACCACCCTGG
* * * * * *
97222 TTAAA-TCTACCTCCTTTTTGTTTGACATATGGTTACCAACCTGG
1 TCAAACTCT-TCTCATTTCTGTTTGACGTATGGTTACCACCCTGG
* * ** * *
97266 TCAAACTCTTTTTAACTCAGTTTGACGTATGGATACCACCCTGG
1 TCAAACTCTTCTCATTTCTGTTTGACGTATGGTTACCACCCTGG
* *
97310 TCAAACTCCTT-TCA-TTCGTGCTTAACGTATGGTTACCACCCTGG
1 TCAAACT-CTTCTCATTTC-TGTTTGACGTATGGTTACCACCCTGG
* * * * * * **
97354 TCAAGCTCTTTTCATTTCTGTTTGATGTGTGATTACCACTCTAA
1 TCAAACTCTTCTCATTTCTGTTTGACGTATGGTTACCACCCTGG
* * * * *
97398 TCAAA-TGTTTCTCATTTTTGTCTGGCGTATGGTTACCACCTTGG
1 TCAAACT-CTTCTCATTTCTGTTTGACGTATGGTTACCACCCTGG
97442 T
1 T
97443 TAGATTCTTG
Statistics
Matches: 501, Mismatches: 131, Indels: 56
0.73 0.19 0.08
Matches are distributed among these distances:
42 3 0.01
43 55 0.11
44 410 0.82
45 33 0.07
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (44 bp):
TCAAACTCTTCTCATTTCTGTTTGACGTATGGTTACCACCCTGG
Found at i:96981 original size:132 final size:131
Alignment explanation
Indices: 96739--97451 Score: 680
Period size: 132 Copynumber: 5.4 Consensus size: 131
96729 CTATATATGC
* * * * * * * * *
96739 TCAAACTCTTCTCATTTTAGTCTAACGTATGGCTACGACCCTAGTCAAATTATTTTTATTTTGAT
1 TCAAACTCTTCTCATTTTAGTCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAAT
** * **
96804 TTGACACATGGTTACCATCCTAGTCAAATCTACCTCATCCCTGTTTGACGTATGGTTACCACCCT
66 TTGACGTATGGTTACCACCCTAGTCAAATCTACCTC-TTTCTGTTTGACGTATGGTTACCACCCT
*
96869 AG
130 GG
*
96871 TCAAACTCTTCTCATTTTAGTCTGATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAAT
1 TCAAACTCTTCTCATTTTAGTCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAAT
* * *
96936 TTGACGTATGGTTAGCACCCTAGTCAAATCTACCTCTTTGTTGTTTGACGTATGGTTGCCACCCT
66 TTGACGTATGGTTACCACCCTAGTCAAATCTACCTCTTT-CTGTTTGACGTATGGTTACCACCCT
97001 GG
130 GG
* **
97003 TCGAACTCTTCTCATTTCGGTCTGACGTATGGTTA-CACCCTGGTCAGATTCTTTTCATTCTAAT
1 TCAAACTCTTCTCATTTTAGTCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAAT
* * * *
97067 TTGACATATGGTTACCACCCTTGTCAAATCTGCCTCTTTCCTGTTTGACGTATGGTTACCACCTT
66 TTGACGTATGGTTACCACCCTAGTCAAATCTACCTCTTT-CTGTTTGACGTATGGTTACCACCCT
97132 GG
130 GG
* * * * * * * * * *
97134 TCCAACTCTTTTCA-TTTCGATTTGACATATGGTTACCACCCTAGTTAGATTATTTTTATTCTGA
1 TCAAACTCTTCTCATTTTAG-TCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAA
* * * * * *
97198 TTTGATGCATGGTTACCACCCTAGTTAAATCTACCTCCTTTTTGTTTGACATATGGTTACCAACC
65 TTTGACGTATGGTTACCACCCTAGTCAAATCTACCT-CTTTCTGTTTGACGTATGGTTACCACCC
97263 TGG
129 TGG
* * ** * * * * * * *
97266 TCAAACTCTTTTTAACTCAGTTTGACGTATGGATACCACCCTGGTCAAACTCCTTTCATTCGT-G
1 TCAAACTCTTCTCATTTTAGTCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTC-TAA
* * * * ** * * * *
97330 CTTAACGTATGGTTACCACCCTGGTCAAGCTCT-TTTCATTTCTGTTTGATGTGTGATTACCACT
65 TTTGACGTATGGTTACCACCCTAGTCAA-ATCTACCTC-TTTCTGTTTGACGTATGGTTACCACC
**
97394 CTAA
128 CTGG
* * * * *
97398 TCAAA-TGTTTCTCATTTTTGTCTGGCGTATGGTTACCACCTTGGTTAGATTCTT
1 TCAAACT-CTTCTCATTTTAGTCTGACGTATGGTTACCACCCTGGTCAGATTCTT
97452 GTTATGTAGA
Statistics
Matches: 472, Mismatches: 100, Indels: 18
0.80 0.17 0.03
Matches are distributed among these distances:
130 3 0.01
131 116 0.25
132 343 0.73
133 10 0.02
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (131 bp):
TCAAACTCTTCTCATTTTAGTCTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCTAAT
TTGACGTATGGTTACCACCCTAGTCAAATCTACCTCTTTCTGTTTGACGTATGGTTACCACCCTG
G
Found at i:99078 original size:165 final size:162
Alignment explanation
Indices: 98810--99288 Score: 439
Period size: 165 Copynumber: 2.9 Consensus size: 162
98800 TTTTAATTCC
* * * *
98810 AAAATTCCTTAAATACTATCATTTAA-TCACCATAAAATTAGTTTTGAAAAATTCTTTTTATTTT
1 AAAATTCATTAAATATTATCATTTAATTCA-CATAAAATTAGTTTTCAAAAATTC-ATTTATTTT
* * * * * * * **
98874 A-TGACTTGTTACTTTTCTTTGGAATTCCTCCTATTTTCAAAATA-TAGAGTTTTCTACTT-TGT
64 ATTCA-TTTTTATTTTTCCTTGAAATTTCT-CTATTTTCAAAAAACT-GAGTTTTCTA-TTCCAT
** *
98936 AAATTTTTTC-ACGATGATTTTTATTAATCCAAAATTTTT
125 AAAGGTTTTCGA-G-GGATTTTTATTAATCCAAAATTTTT
* * *
98975 AAAATTCATCAAATATTATTATTTAATTCACGTAAAATTAGTTTTCAAAAATTCATTTATTTTCA
1 AAAATTCATTAAATATTATCATTTAATTCACATAAAATTAGTTTTCAAAAATTCATTTATTTT-A
* * *
99040 TTCATTTTTCATTTTTCCTTGAAATTTCTCTGTTTTCAAAAAACTGAGTTTTTTATTCCATGAAG
65 TTCATTTTT-ATTTTTCCTTGAAATTTCTCTATTTTCAAAAAACTGAGTTTTCTATTCCATAAAG
* * * *
99105 GTTTTCGAGGGATTTTTCTTAGTTCGAAATTTTT
129 GTTTTCGAGGGATTTTTATTAATCCAAAATTTTT
** * * * * * *
99139 ATTATTCATTAAATATGATCATTTAATTCATATTAAATCAATTTTCAAAAATTCATTCATTTTTA
1 AAAATTCATTAAATATTATCATTTAATTCACATAAAATTAGTTTTCAAAAATTCATTTA-TTTTA
*
99204 TTCATTTTTTATTTTTTTCCTTGAAATTTC-CTAATTTTCAAAAAAACTGAGTTTTTTATTCCAT
65 TTCA-TTTTTA--TTTTTCCTTGAAATTTCTCT-ATTTTC-AAAAAACTGAGTTTTCTATTCCAT
* *
99268 AAACGTTTTCGGGGGATTTTT
125 AAAGGTTTTCGAGGGATTTTT
99289 CAAGGTTTGA
Statistics
Matches: 260, Mismatches: 41, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
164 84 0.32
165 90 0.35
166 44 0.17
167 42 0.16
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (162 bp):
AAAATTCATTAAATATTATCATTTAATTCACATAAAATTAGTTTTCAAAAATTCATTTATTTTAT
TCATTTTTATTTTTCCTTGAAATTTCTCTATTTTCAAAAAACTGAGTTTTCTATTCCATAAAGGT
TTTCGAGGGATTTTTATTAATCCAAAATTTTT
Found at i:99186 original size:164 final size:165
Alignment explanation
Indices: 98967--99395 Score: 524
Period size: 167 Copynumber: 2.6 Consensus size: 165
98957 TATTAATCCA
* * ** * *
98967 AAATTTTTAAAATTCATCAAATATTATTATTTAATTCACGTAAAATTAGTTTTCAAAAATTCATT
1 AAATTTTTAATATTCATCAAATATAATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATT
*
99032 TATTTTCATTCATTTTTCATTTTTCCTTGAAATTTCTCT-GTTTTC-AAAAAACTGAGTTTTTTA
66 TATTTTCATTCATTTTTCATTTTTCCTTGAAATTTC-CTAATTTTCAAAAAAACTGAGTTTTTTA
* * *
99095 TTCCATGAAGGTTTTCGAGGGATTTTTCTTA-GTTCG
130 TTCCATAAACGTTTTCGAGGGATTTTTC-AAGGTTCG
* * * * *
99131 AAATTTTTATTATTCATTAAATATGATCATTTAATTCATATTAAATCAATTTTCAAAAATTCATT
1 AAATTTTTAATATTCATCAAATATAATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATT
* * *
99196 CATTTTTATTCATTTTTTATTTTTTTCCTTGAAATTTCCTAATTTTCAAAAAAACTGAGTTTTTT
66 TATTTTCATTCATTTTTCA--TTTTTCCTTGAAATTTCCTAATTTTCAAAAAAACTGAGTTTTTT
* *
99261 ATTCCATAAACGTTTTCGGGGGATTTTTCAAGGTTTG
129 ATTCCATAAACGTTTTCGAGGGATTTTTCAAGGTTCG
* * * * * *
99298 AAATTTTTACTATTGATCAAATATAATTTTTTAATTCATATTAATTCAGTTTT-GAAATTTCATT
1 AAATTTTTAATATTCATCAAATATAATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATT
* **
99362 TACTTTCATGAATTTTTCATTTTTCCCTTGAAAT
66 TATTTTCATTCATTTTTCATTTTT-CCTTGAAAT
99396 GCCCTTATTT
Statistics
Matches: 224, Mismatches: 35, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
164 76 0.34
165 11 0.05
166 45 0.20
167 92 0.41
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (165 bp):
AAATTTTTAATATTCATCAAATATAATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATT
TATTTTCATTCATTTTTCATTTTTCCTTGAAATTTCCTAATTTTCAAAAAAACTGAGTTTTTTAT
TCCATAAACGTTTTCGAGGGATTTTTCAAGGTTCG
Found at i:99535 original size:20 final size:19
Alignment explanation
Indices: 99510--99551 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
99500 ATTAAATCAG
99510 TTTTGATAAATTCAATTTTT
1 TTTTGA-AAATTCAATTTTT
* *
99530 TTTTGAGAATTGAATTTTT
1 TTTTGAAAATTCAATTTTT
99549 TTT
1 TTT
99552 AGTATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTTGAAAATTCAATTTTT
Found at i:100068 original size:10 final size:10
Alignment explanation
Indices: 100053--100085 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
100043 CTTGGAAAAA
100053 AAAAAGAAAG
1 AAAAAGAAAG
100063 AAAAAGAAAG
1 AAAAAGAAAG
*
100073 -AAAAGAGAG
1 AAAAAGAAAG
100082 AAAA
1 AAAA
100086 CATTGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:103929 original size:19 final size:19
Alignment explanation
Indices: 103884--103939 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
103874 CTGCCAGTTT
*
103884 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAG
* *
103904 TATGTATCAATACAATGAG
1 CATGTATCGATACAATGAG
103923 CATGTATCGATACAATG
1 CATGTATCGATACAATG
103940 TATCGACACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:104958 original size:48 final size:46
Alignment explanation
Indices: 104829--104983 Score: 148
Period size: 48 Copynumber: 3.2 Consensus size: 46
104819 TTATGGTTTT
* * * *
104829 TGTATCGATACAATGAACAATGTATCAATACATCTGGGTTTTTCCAAAA
1 TGTATCGATACAATGAA-AATGTTTCAATACATCT--GATTTTCTAGAA
* *
104878 TGTATTGATACAATGCAAAATGCTTCAATACATCTAGATTTTCTAGAA
1 TGTATCGATACAATG-AAAATGTTTCAATACATCT-GATTTTCTAGAA
* * * ** *
104926 TGTATCGATATAATGAATAATATTTCATTACATCTGGGTTTCTAGAT
1 TGTATCGATACAATGAA-AATGTTTCAATACATCTGATTTTCTAGAA
104973 TGTATCGATAC
1 TGTATCGATAC
104984 GTGCATAGTA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
47 21 0.24
48 36 0.41
49 29 0.33
50 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (46 bp):
TGTATCGATACAATGAAAATGTTTCAATACATCTGATTTTCTAGAA
Found at i:106421 original size:80 final size:81
Alignment explanation
Indices: 106106--106592 Score: 469
Period size: 79 Copynumber: 6.1 Consensus size: 81
106096 AGTACCTCCG
* * * *
106106 ATGGTGAAAATTTTGATATTTTT-GAAGTAAAAATGGGGTCAGAGTA-TCCCTAAAAAATGATGG
1 ATGGTGAAAATTTTGATATTTTTGGAAATAAAAACGGGGTTAGAGTATTCCCTCAAAAATGATGG
* *
106169 GGTTGCAATATCC-CA
66 GGTTGGAGTATCCTCA
* * *
106184 ATGGTGAAAAATTTGATATTTTTGAAAATATAAAACGGGGTTAGAGTATCCCCTCAAAAATGATG
1 ATGGTGAAAATTTTGATATTTTTGGAAATA-AAAACGGGGTTAGAGTATTCCCTCAAAAATGATG
** * *
106249 GGGTTAAAGTATCTTGA
65 GGGTTGGAGTATCCTCA
* * ** *
106266 ATAGTGAAAATTTTGATATTTTTGGAAGTAAAAACGGCTTTAGAGTA-TCTCCTCAAAAATAATG
1 ATGGTGAAAATTTTGATATTTTTGGAAATAAAAACGGGGTTAGAGTATTC-CCTCAAAAATGATG
* *
106330 GAGTTGAAGTATCC-CTA
65 GGGTTGGAGTATCCTC-A
* * * * *
106347 ATGGTGAAAATTTTGATA-TTTAGGAAGTAAAAACGAGGTTGGAGTATTCCCTCGAAAATGATGG
1 ATGGTGAAAATTTTGATATTTTTGGAAATAAAAACGGGGTTAGAGTATTCCCTCAAAAATGATGG
* *
106411 GTTTGGAGTATCCTCG
66 GGTTGGAGTATCCTCA
* * * **
106427 ATGGTGAAAA-ATTAATA-TTTTGGAAATAAAAACGGGGCTAGAGTATTCTTTCAAAAATGATGG
1 ATGGTGAAAATTTTGATATTTTTGGAAATAAAAACGGGGTTAGAGTATTCCCTCAAAAATGATGG
*
106490 GGTTAGAGTAT-CTACA
66 GGTTGGAGTATCCT-CA
* * * * * * * *
106506 ATGGTGAAAA-ATTGATA-CTTTGAAAATAAAAATGAGGTTGGAGTATCCCCTC-GAAATGAT-G
1 ATGGTGAAAATTTTGATATTTTTGGAAATAAAAACGGGGTTAGAGTATTCCCTCAAAAATGATGG
*
106567 GGTTGGAGTATCCTCG
66 GGTTGGAGTATCCTCA
106583 ATGGTGAAAA
1 ATGGTGAAAA
106593 ATCGATAATT
Statistics
Matches: 337, Mismatches: 62, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
77 22 0.07
78 33 0.10
79 99 0.29
80 72 0.21
81 84 0.25
82 27 0.08
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (81 bp):
ATGGTGAAAATTTTGATATTTTTGGAAATAAAAACGGGGTTAGAGTATTCCCTCAAAAATGATGG
GGTTGGAGTATCCTCA
Found at i:108595 original size:22 final size:22
Alignment explanation
Indices: 108570--108613 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
108560 TTGTTAGGAT
108570 CAAAACTACAT-CAAAAATACCC
1 CAAAACTACATCCAAAAA-ACCC
* *
108592 CAAATCTTCATCCAAAAAACCC
1 CAAAACTACATCCAAAAAACCC
108614 TACTCATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (22 bp):
CAAAACTACATCCAAAAAACCC
Found at i:110852 original size:21 final size:21
Alignment explanation
Indices: 110818--110875 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
110808 ATACAAGTAA
*
110818 AAATATATCAATACATCATGT
1 AAATATATCGATACATCATGT
* * *
110839 AAATGTATTGATACATTATGT
1 AAATATATCGATACATCATGT
*
110860 GAATATATCGATACAT
1 AAATATATCGATACAT
110876 ATTGTTGGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATATCGATACATCATGT
Found at i:112926 original size:19 final size:20
Alignment explanation
Indices: 112883--112935 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
112873 AACCCTTGAA
*
112883 TGTATCGATACATGCTGCCT
1 TGTATCGATACATGCTGCAT
*
112903 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCTGCAT
112922 TGTATCGATACATG
1 TGTATCGATACATG
112936 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTGCAT
Found at i:113047 original size:62 final size:66
Alignment explanation
Indices: 112981--113150 Score: 231
Period size: 72 Copynumber: 2.5 Consensus size: 66
112971 GATAATGGTA
* * *
112981 CAATGTATCGATACATGAAGAAATGTATCGATACATAGC-T-T-G-TAATGGCTATAATTTCAAA
1 CAATGTATCGATACATTATGAATTGTATCGATACATAGCTTGTAGTTAATGGCTATAATTTCAAA
113042 T
66 T
113043 CAATGTATCGATACATTATGAATTGTATCGATACATAGCTTGTAACGGCTATTAATGGCTATAAT
1 CAATGTATCGATACATTATGAATTGTATCGATACATAGCTTGT-A--G---TTAATGGCTATAAT
113108 TTCAAAT
60 TTCAAAT
113115 CAATGTATCGATACATTATGAATTGTATCGATACAT
1 CAATGTATCGATACATTATGAATTGTATCGATACAT
113151 GGCTACGGGA
Statistics
Matches: 95, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
62 36 0.38
63 1 0.01
64 1 0.01
68 1 0.01
72 56 0.59
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (66 bp):
CAATGTATCGATACATTATGAATTGTATCGATACATAGCTTGTAGTTAATGGCTATAATTTCAAA
T
Found at i:115109 original size:32 final size:30
Alignment explanation
Indices: 115073--115131 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
115063 GAAATCAAAT
115073 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
115105 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
115132 CTTTGATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:115430 original size:13 final size:13
Alignment explanation
Indices: 115412--115437 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115402 CAATTTTTTG
115412 TGTATCGATACAT
1 TGTATCGATACAT
115425 TGTATCGATACAT
1 TGTATCGATACAT
115438 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:115452 original size:32 final size:33
Alignment explanation
Indices: 115392--115455 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
115382 TACAAGCCAA
** *
115392 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
115425 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
115456 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:118023 original size:13 final size:13
Alignment explanation
Indices: 118005--118042 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
117995 ATAATCCCCC
118005 TGTATCGATACAG
1 TGTATCGATACAG
*
118018 TGTATCGATACAT
1 TGTATCGATACAG
118031 TGTATCGATACA
1 TGTATCGATACA
118043 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:123929 original size:32 final size:30
Alignment explanation
Indices: 123893--123951 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
123883 GAAATCAAAT
123893 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
123925 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
123952 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:124250 original size:13 final size:13
Alignment explanation
Indices: 124232--124257 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124222 CAATTTTTTG
124232 TGTATCGATACAT
1 TGTATCGATACAT
124245 TGTATCGATACAT
1 TGTATCGATACAT
124258 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:124272 original size:32 final size:33
Alignment explanation
Indices: 124212--124275 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
124202 TACAAGCCAA
** *
124212 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
124245 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
124276 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:125238 original size:12 final size:12
Alignment explanation
Indices: 125221--125270 Score: 64
Period size: 13 Copynumber: 4.0 Consensus size: 12
125211 AGGTTCAACT
125221 AAAAAAAGAGAA
1 AAAAAAAGAGAA
125233 AAAAAAAGAGAGA
1 AAAAAAAGAGA-A
*
125246 AAAAAAGGAGAA
1 AAAAAAAGAGAA
*
125258 AGAAAAGAGAGAA
1 A-AAAAAAGAGAA
125271 GAAATAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 13 0.39
13 20 0.61
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:125274 original size:12 final size:12
Alignment explanation
Indices: 125221--125270 Score: 75
Period size: 12 Copynumber: 4.2 Consensus size: 12
125211 AGGTTCAACT
*
125221 AAAAAAAGAGAA
1 AAAAAAAGAGAG
125233 AAAAAAAGAGAG
1 AAAAAAAGAGAG
125245 AAAAAAAG-GAG
1 AAAAAAAGAGAG
125256 AAAGAAAAGAGAG
1 AAA-AAAAGAGAG
125269 AA
1 AA
125271 GAAATAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
11 6 0.17
12 24 0.69
13 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAG
Found at i:127175 original size:97 final size:97
Alignment explanation
Indices: 126957--127166 Score: 366
Period size: 97 Copynumber: 2.2 Consensus size: 97
126947 TTTATTTATC
*
126957 GGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCA
1 GGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTTAAATATTATTCTCACTTAAATTGTCA
*
127022 CCATCGGGCACACTCTAACCCCATTCCTCCGA
66 CCATCGGGCACACTCCAACCCCATTCCTCCGA
*
127054 GGGGATACTCCAACCCTGCTTTTAAACGCATCAAAGTTTAAATATTATTCTCACTTAAATTGTCA
1 GGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTTAAATATTATTCTCACTTAAATTGTCA
* * *
127119 TCATCGGGGACACTCCAACCCTATTCCTCCGA
66 CCATCGGGCACACTCCAACCCCATTCCTCCGA
127151 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
127167 CATTTTTAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 107 1.00
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (97 bp):
GGGGATACTCCAACCCTGCTTTTAAACACATCAAAGTTTAAATATTATTCTCACTTAAATTGTCA
CCATCGGGCACACTCCAACCCCATTCCTCCGA
Found at i:128361 original size:16 final size:17
Alignment explanation
Indices: 128336--128367 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
128326 TTTTTTTCCT
128336 CTTTTGTTTTTCTTTTC
1 CTTTTGTTTTTCTTTTC
128353 CTTTT-TTTTTCTTTT
1 CTTTTGTTTTTCTTTT
128368 ATGTAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (17 bp):
CTTTTGTTTTTCTTTTC
Found at i:133760 original size:49 final size:49
Alignment explanation
Indices: 133698--134242 Score: 526
Period size: 49 Copynumber: 11.5 Consensus size: 49
133688 ATGTTAAAGA
* * ** *
133698 TGCCAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* * *
133747 TGCCAATATGCTGATTCAAGGCCAGTGACATAGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* * * * * * *
133796 TGCCAATATGCTGATTCAAGGCTAGTGATATCGGACTTAAAGATAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* ** *
133845 TGCCAATGTGCTGATTCAAGGCTGGCGACATTGGACTTAAAGATGGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-G--AAGG
* * *
133897 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* *
133946 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT--AGAGGCAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG-AAGG
* * *
133994 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTT----AT--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* *
134035 --CCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* * * *
134081 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* * *
134130 TGCCAATATGCTGATTCAAGGCCAACGATATTGG------ACAT--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
* * * *
134169 TGCCAATGTGATGGTTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
134217 TGCCAATATGCTGATTCAAGGCCAGC
1 TGCCAATATGCTGATTCAAGGCCAGC
134243 AATATTAGAC
Statistics
Matches: 418, Mismatches: 53, Indels: 51
0.80 0.10 0.10
Matches are distributed among these distances:
39 61 0.15
41 1 0.00
43 5 0.01
44 1 0.00
45 2 0.00
46 2 0.00
47 4 0.01
48 99 0.24
49 200 0.48
51 1 0.00
52 42 0.10
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGG
Found at i:134050 original size:39 final size:39
Alignment explanation
Indices: 133996--134207 Score: 127
Period size: 39 Copynumber: 4.9 Consensus size: 39
133986 AGGCAAAGTG
*
133996 CCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTATA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATA
* * * *
134035 CCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A--TA
134083 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAAA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT----AT---A
* * * *
134129 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACATATG
1 ---CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATA
* * * * *
134171 CCAATGTGATGGTTCAAGGCCAGCGACATTGGTCTTA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
134208 AAGACAAGGT
Statistics
Matches: 135, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
39 62 0.46
43 1 0.01
45 4 0.03
46 1 0.01
48 34 0.25
49 33 0.24
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (39 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATA
Found at i:134096 original size:87 final size:87
Alignment explanation
Indices: 133948--134119 Score: 299
Period size: 87 Copynumber: 2.0 Consensus size: 87
133938 GATGAAGGTG
* * * *
133948 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGGCAAAGTGCCAATATGTTGATTCAA
1 CCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGTGCCAATATGCTGATTCAA
134013 GGCCAGCGATATTGGGCTTATA
66 GGCCAGCGATATTGGGCTTATA
*
134035 CCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1 CCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGTGCCAATATGCTGATTCAA
134100 GGCCAGCGATATTGGGCTTA
66 GGCCAGCGATATTGGGCTTA
134120 AAGATAAAAG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (87 bp):
CCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGGCTTATA
Found at i:134145 original size:136 final size:135
Alignment explanation
Indices: 133899--134259 Score: 533
Period size: 136 Copynumber: 2.7 Consensus size: 135
133889 GGTTAAGGTG
* *
133899 CCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCA
* * * * * * *
133964 AGGCCAGCGACATTGGTCTTAGAGGCAAAGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGG
65 AGGCCAGCGATATTGGACTTAAAGGAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGA
*
134029 CTTATA
130 CATATA
*
134035 CCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
* *
134100 GGCCAGCGATATTGGGCTTAAAGATAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGA
66 GGCCAGCGATATTGGACTTAAAG-GAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGA
*
134165 CATATG
130 CATATA
* * *
134171 CCAATGTGATGGTTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
1 CCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
* *
134236 GGCCAGCAATATTAGACTTAAAGG
66 GGCCAGCGATATTGGACTTAAAGG
134260 TGCCATAGAG
Statistics
Matches: 203, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
135 43 0.21
136 160 0.79
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (135 bp):
CCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGGAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC
ATATA
Found at i:134225 original size:184 final size:187
Alignment explanation
Indices: 133698--134258 Score: 489
Period size: 184 Copynumber: 3.0 Consensus size: 187
133688 ATGTTAAAGA
* * * * *
133698 TGCCAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGGCTTAAAGATAAAAGTGCCAATATGCTGATT
** * * * * * * * *
133763 CAAGGCCAGTGACATAGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCTAGTGATATC
66 CAAGGCCAACGACATTGG---T-GAG-CAAA-GTGCCAATATGATGATTCAAGGCCAGCGACATT
* * *** *
133828 GGACTTAAAGATAAAGATGCCAATGTGCTGATTCAAGGCTGGCGACATTGGACTTAAAGATGGTT
125 GGGCTTAAAG--AAAG-TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGA--G-C
133893 AAGG
184 AAGG
* * * *
133897 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGGCTTAAAGATAAAAGTGCCAATATGCTGATT
* * *
133962 CAAGGCCAGCGACATTGGTCTTAGAGGCAAAGTGCCAATATGTTGATTCAAGGCCAGCGATATTG
66 CAAGGCCAACGACATTGG---T-GA-GCAAAGTGCCAATATGATGATTCAAGGCCAGCGACATTG
* *
134027 GGCTT------A-TACCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGG
126 GGCTTAAAGAAAGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAGCAAGG
* * *
134081 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAAAGTGCCAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGGGCTTAAAGATAAAAGTGCCAATATGCTGATT
* * * * *
134146 CAAGGCCAACGATATT-G-GA-CATA-TGCCAATGTGATGGTTCAAGGCCAGCGACATTGGTCTT
66 CAAGGCCAACGACATTGGTGAGCAAAGTGCCAATATGATGATTCAAGGCCAGCGACATTGGGCTT
* * * *
134207 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAG
131 AAAGA-AA-GTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAG
134259 GTGCCATAGA
Statistics
Matches: 311, Mismatches: 41, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
175 33 0.11
176 3 0.01
178 2 0.01
182 1 0.00
183 1 0.00
184 112 0.36
188 37 0.12
190 1 0.00
198 34 0.11
199 86 0.28
200 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (187 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATCGGGCTTAAAGATAAAAGTGCCAATATGCTGATT
CAAGGCCAACGACATTGGTGAGCAAAGTGCCAATATGATGATTCAAGGCCAGCGACATTGGGCTT
AAAGAAAGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAGCAAGG
Found at i:134298 original size:34 final size:32
Alignment explanation
Indices: 134255--134798 Score: 386
Period size: 34 Copynumber: 16.8 Consensus size: 32
134245 TATTAGACTT
** *
134255 AAAGGTGCCATAGAGTTGTGGACTTACAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAA
** * *
134287 AAAGGGATGCCATAGAGGTGTGGGCTTAAAACGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA--GAA
* * **
134323 AAAGGGTGTCATGGAGTCATGGACTTAAAA-AGA
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAGA-A
*
134356 AAATGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GAA
* * *
134389 CAAGGTGCCACAGAGTTGTGGACTTTGAAGAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
134423 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GAA
* *
134456 AAAGATGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
* * *
134490 AAAGGTTCCATGGAGTTATGGACTT-----AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAA
* * *
134517 AAAGGTGCCACAGAGTTGTGAACTTTGAAGAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
*
134551 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GAA
* *
134584 AAAGATGCCACGGAGTTTTGGACTT-----AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAA
* *
134611 AAAGGTCCCACAGAGTTG-GCGACTTAAAAGGAAA
1 AAAGGTGCCACGGAGTTGTG-GACTTAAAA-G-AA
* * *
134645 AAAAGTGCCACGGAGTTGTGGGCTTTAAAG--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGAA
*
134675 ---GGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GAA
*
134705 AAAGAGTGCCACAGAGTTGTAGG-CTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGT-GGAC-TT-AAAAGAA
* **
134740 AAAAGTGCCACATAGTTGTGGACTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
** *
134774 AAAGGTGCCACAAAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
134799 TGGGAAGAAA
Statistics
Matches: 415, Mismatches: 57, Indels: 79
0.75 0.10 0.14
Matches are distributed among these distances:
26 1 0.00
27 63 0.15
28 3 0.01
32 31 0.07
33 88 0.21
34 180 0.43
35 36 0.09
36 13 0.03
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.21
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGAA
Found at i:134376 original size:67 final size:68
Alignment explanation
Indices: 134282--134799 Score: 331
Period size: 67 Copynumber: 8.0 Consensus size: 68
134272 GTGGACTTAC
** * * * **
134282 AAGAAAAAGGGATGCCATAGAGGTGTGGGCTTAAAACGGAAAAAGGGTGTCATGGAGTCATGGAC
1 AAGAAAAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGGGTGCCACAGAGTCATGGAC
134347 -TTAAA
63 TTTAAA
* * **
134352 AAG-AAAATGTGCCACGGAGTTGTGGACTTAAAAGGAACAA-GGTGCCACAGAGTTGTGGACTTT
1 AAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTCATGGACTTT
*
134415 GAA
66 AAA
* * * ** *
134418 GAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA-GATGCCACGGAGTTGTGGGCTTT
1 AAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTCATGGACTTT
134482 AAA
66 AAA
* * * ** *
134485 AAGAAAAAGGTTCCATGGAGTTATGGACTT------AAAAA-GGTGCCACAGAGTTGTGAACTTT
1 AAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTCATGGACTTT
*
134543 GAA
66 AAA
* * * * **
134546 GAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA-GATGCCACGGAGTTTTGGAC-TT
1 AAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTCATGGACTTT
134609 ---
66 AAA
* * ** * ** *
134609 ---AAAAAGGTCCCACAGAGTTG-GCGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAGAAAAAGGTGCCACGGAGTTGTG-GACTTAAAAGGAAAAAGGGTGCCACAGAGTCATGGACTT
134670 T--A
65 TAAA
* * **
134672 AAG-----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTAGG-CTT
1 AAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTCAT-GGACTT
134731 TAAA
65 TAAA
* ** * *
134735 AAGAAAAAAGTGCCACATAGTTGTGGACTTTGAAAA-GAAAAA-GGTGCCACAAAGTCGTGGACT
1 AAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGGGTGCCACAGAGTCATGGACT
134798 TT
64 TT
134800 GGGAAGAAAT
Statistics
Matches: 371, Mismatches: 50, Indels: 56
0.78 0.10 0.12
Matches are distributed among these distances:
59 1 0.00
60 35 0.09
61 116 0.31
62 5 0.01
63 4 0.01
65 15 0.04
66 14 0.04
67 126 0.34
68 36 0.10
69 12 0.03
70 7 0.02
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.21
Consensus pattern (68 bp):
AAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTCATGGACTTT
AAA
Found at i:134622 original size:60 final size:61
Alignment explanation
Indices: 134549--134798 Score: 267
Period size: 61 Copynumber: 4.0 Consensus size: 61
134539 CTTTGAAGAG
*
134549 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTTTGGACTT
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * *
134609 AAAAAGGTCCCACAGAGTTG-GCGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACAGAGTTGTG-GACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * *
134670 TAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTAGG-CTTT
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGT-GGAC-TT
* ** *
134732 AAAAAGAAAAAAGTGCCACATAGTTGTGGACTTTGAAAA-GAAAAAG-GTGCCACAAAGTCGTGG
1 AAAAAG------GTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGG
134795 ACTT
58 ACTT
134799 TGGGAAGAAA
Statistics
Matches: 162, Mismatches: 14, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
59 1 0.01
60 36 0.22
61 67 0.41
62 9 0.06
67 4 0.02
68 32 0.20
69 9 0.06
70 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (61 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
Found at i:134675 original size:94 final size:94
Alignment explanation
Indices: 134342--134784 Score: 365
Period size: 94 Copynumber: 4.6 Consensus size: 94
134332 CATGGAGTCA
* * * *
134342 TGGACTTAAAA--AGAAAATGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGAGT
1 TGGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* *
134405 TGTGGACTTTGAAGAGAAAAAGGTGCCACGGAGTTG
66 TATGGAC-TT------AAAAAGGTGCCACAGAGTTG
* * * * *
134441 TGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTTCCATGGAG
1 TGGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAG
134505 TTATGGACTTAAAAAGGTGCCACAGAGTTG
65 TTATGGACTTAAAAAGGTGCCACAGAGTTG
* ** * * *
134535 TGAACTTTGAA-GAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAG
1 TGGACTTAAAAGGA-AAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAG
* *
134599 TTTTGGACTTAAAAAGGTCCCACAGAGTTG
65 TTATGGACTTAAAAAGGTGCCACAGAGTTG
* * *
134629 -GCGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTTTAAA-G-----GGTGCCACAGAG
1 TG-GACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAG
*
134687 TTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTG
65 TTATGGACTT------AAAAAG-GTGCCACAGAGTTG
* **
134724 TAGG-CTTTAAAAAG-AAAAAAGTGCCACATAGTTGTGGACTTTGAAAA-GAAAAAGGTGCCAC
1 T-GGAC-TTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGGTGCCAC
134785 AAAGTCGTGG
Statistics
Matches: 280, Mismatches: 40, Indels: 45
0.77 0.11 0.12
Matches are distributed among these distances:
88 19 0.07
93 4 0.01
94 119 0.43
95 54 0.19
96 10 0.04
97 5 0.02
99 11 0.04
100 19 0.07
101 31 0.11
102 8 0.03
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (94 bp):
TGGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
TATGGACTTAAAAAGGTGCCACAGAGTTG
Found at i:134683 original size:61 final size:61
Alignment explanation
Indices: 134550--134735 Score: 277
Period size: 61 Copynumber: 3.1 Consensus size: 61
134540 TTTGAAGAGA
* * *
134550 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTTTGGACTTA
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* *
134610 AAAAGGTCCCACAGAGTTG-GCGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGTGCCACAGAGTTGTG-GACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * *
134671 AAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTAGGCTTT
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
134732 AAAA
1 AAAA
134736 AGAAAAAAGT
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
59 1 0.01
60 35 0.31
61 75 0.67
62 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (61 bp):
AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:134701 original size:27 final size:27
Alignment explanation
Indices: 134649--134702 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
134639 AGGAAAAAAA
* * *
134649 GTGCCACGGAGTTGTGGGCTTTAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
134676 GTGCCACAGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
134703 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (27 bp):
GTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:134799 original size:34 final size:34
Alignment explanation
Indices: 134675--135060 Score: 208
Period size: 34 Copynumber: 11.9 Consensus size: 34
134665 GGCTTTAAAG
*
134675 GGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAA
1 GGTGCCACAGAGTCGTGGACTTTGAAAA-GAAAAA
* *
134708 GAGTGCCACAGAGTTGTAGG-CTTTAAAAAGAAAAA
1 G-GTGCCACAGAGTCGT-GGACTTTGAAAAGAAAAA
* * *
134743 AGTGCCACATAGTTGTGGACTTTGAAAAGAAAAA
1 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
* **
134777 GGTGCCACAAAGTCGTGGACTTTGGGAAG--AAA
1 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
* * *
134809 --TGCCACTGAGTCATGGACTTTG-AAA-AAAGA
1 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
* * * *
134839 -TTGCCACTGTGTCGTGGACTTTGAAGA-AAAAA
1 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
* *
134871 GATGCCA-ATGAGTTGTGGACTTTGAAGAA-AAAAA
1 GGTGCCACA-GAGTCGTGGACTTTGAA-AAGAAAAA
* * * *
134905 -ATGCCACTGAGTCGTGGAC-TTGGAAA-AAAAT
1 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
* * * *
134936 GATGCCACTGAGTCGTGGTCTTAGAAAAG----A
1 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
* * * *
134966 GATGCCACTGAGTCGTTGACTTTGAAGA-AAAAA
1 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
* * * *
134999 GATGCCACTGAGTCGTAGAC-TTG-GAAG-AAAA
1 GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
* * * *
135030 GCATGCCACTGAGTCGTGGTCTTAGAAAAGA
1 G-GTGCCACAGAGTCGTGGACTTTGAAAAGA
135061 GATGCCACTA
Statistics
Matches: 287, Mismatches: 41, Indels: 48
0.76 0.11 0.13
Matches are distributed among these distances:
29 2 0.01
30 45 0.16
31 32 0.11
32 51 0.18
33 66 0.23
34 77 0.27
35 10 0.03
36 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (34 bp):
GGTGCCACAGAGTCGTGGACTTTGAAAAGAAAAA
Found at i:134836 original size:129 final size:127
Alignment explanation
Indices: 134703--135115 Score: 376
Period size: 127 Copynumber: 3.2 Consensus size: 127
134693 ACTTAAAAGG
* *
134703 AAAAAGAGTGCCACAGAGTTGTAGG-CTTTAAAAAGAAAAAAG-TGCCACAT-AGTTGTGGACTT
1 AAAAAGA-TGCCACTGAGTCGT-GGACTTT--AAAGAAAAAAGATGCCA-ATGAGTTGTGGACTT
* * *
134765 TGAA-AAGAAAAAGGTGCCACAAAGTCGTGGACTTTGG-GAAGAA-ATGCCACTGAGTCATGGAC
61 TGAAGAA-AAAAA-ATGCCACAAAGTCGTGGAC-TTGGAAAAAAAGATGCCACTGAGTCATGGAC
*
134827 TTTGA
123 TTAGA
* *
134832 AAAAAGATTGCCACTGTGTCGTGGACTTTGAAGAAAAAAGATGCCAATGAGTTGTGGACTTTGAA
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTAAAGAAAAAAGATGCCAATGAGTTGTGGACTTTGAA
** * *
134897 GAAAAAAAATGCCACTGAGTCGTGGACTTGGAAAAAAATGATGCCACTGAGTCGTGGTCTTAGA
65 GAAAAAAAATGCCACAAAGTCGTGGACTTGGAAAAAAA-GATGCCACTGAGTCATGGACTTAGA
* * * * * * *
134961 AAAGAGATGCCACTGAGTCGTTGACTTTGAAGAAAAAAGATGCCACTGAGTCGTAGACTTGGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAAAAGATGCCAATGAGTTGTGGACTTTGAAG
** ** * * * *
135026 -AAAAGCATGCCACTGAGTCGTGGTCTTAG-AAAAGAGATGCCACT-AGGTCATAGACTTTGAGA
66 AAAAAAAATGCCACAAAGTCGTGGACTTGGAAAAAAAGATGCCACTGA-GTCATGGAC-TT-AGA
** *
135088 AAGGAGATGCCACTGAGTTGTGGACTTT
1 AAAAAGATGCCACTGAGTCGTGGACTTT
135116 GAGAAAAGAG
Statistics
Matches: 243, Mismatches: 31, Indels: 22
0.82 0.10 0.07
Matches are distributed among these distances:
124 1 0.00
125 15 0.06
126 11 0.05
127 85 0.35
128 80 0.33
129 51 0.21
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (127 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTAAAGAAAAAAGATGCCAATGAGTTGTGGACTTTGAAG
AAAAAAAATGCCACAAAGTCGTGGACTTGGAAAAAAAGATGCCACTGAGTCATGGACTTAGA
Found at i:134877 original size:33 final size:33
Alignment explanation
Indices: 134677--135127 Score: 359
Period size: 33 Copynumber: 14.0 Consensus size: 33
134667 CTTTAAAGGG
* * ** *
134677 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
134710 GTGCCACAGAGTTGTAGG-CTTTAAAAAGAAAAAAG-
1 -TGCCACTGAGTCGT-GGACTTT--GAAGAAAAAAGA
* * *
134745 TGCCACAT-AGTTGTGGACTTTGAAAAGAAAAAGG
1 TGCCAC-TGAGTCGTGGACTTTGAAGA-AAAAAGA
** * *
134779 TGCCACAAAGTCGTGGACTTTG--GGAAGAA-A
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
134809 TGCCACTGAGTCATGGACTTT---GAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
134839 TTGCCACTGTGTCGTGGACTTTGAAGAAAAAAGA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * *
134873 TGCCAATGAGTTGTGGACTTTGAAGAAAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
134906 TGCCACTGAGTCGTGGACTTGGAA-AAAAATGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
134938 TGCCACTGAGTCGTGGTC-TT--AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
*
134968 TGCCACTGAGTCGTTGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* *
135001 TGCCACTGAGTCGTAGACTTGGAAG--AAAAGCA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAG-A
* *
135033 TGCCACTGAGTCGTGGTC-TT--AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
* * **
135063 TGCCACT-AGGTCATAGACTTTG-AGAAAGGAGA
1 TGCCACTGA-GTCGTGGACTTTGAAGAAAAAAGA
* *
135095 TGCCACTGAGTTGTGGACTTTG-AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
135127 T
1 T
135128 TTAAGGAATT
Statistics
Matches: 345, Mismatches: 48, Indels: 50
0.78 0.11 0.11
Matches are distributed among these distances:
29 9 0.03
30 55 0.16
31 38 0.11
32 79 0.23
33 91 0.26
34 61 0.18
35 2 0.01
36 10 0.03
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (33 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
Found at i:134974 original size:62 final size:63
Alignment explanation
Indices: 134772--135127 Score: 334
Period size: 62 Copynumber: 5.7 Consensus size: 63
134762 CTTTGAAAAG
* ** * * * *
134772 AAAAAGGTGCCACAAAGTCGTGGACTTTG--GGAAGAA-ATGCCACTGAGTCATGGACTTTGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGA
* * *
134832 AAAAAGATTGCCACTGTGTCGTGGACTTTGAAGAAAAAAGATGCCAATGAGTTGTGGACTTTGAA
1 AAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGAC-TT--A
134897 GA
62 GA
* * * *
134899 AAAAAAATGCCACTGAGTCGTGGACTTGGAA-AAAAATGATGCCACTGAGTCGTGGTCTTAGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGA
* * * *
134961 AAAGAGATGCCACTGAGTCGTTGACTTTGAAGAAAAAAGATGCCACTGAGTCGTAGACTTGGA
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGA
* * * *
135024 AGAAAAGCATGCCACTGAGTCGTGGTC-TT--AGAAAAGAGATGCCACT-AGGTCATAGACTTTG
1 A-AAAAG-ATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGA-GTCGTGGAC-TT-
135085 AGA
61 AGA
** * *
135088 AAGGAGATGCCACTGAGTTGTGGACTTTG-AGAAAAGAGAT
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGAT
135128 TTAAGGAATT
Statistics
Matches: 246, Mismatches: 35, Indels: 26
0.80 0.11 0.08
Matches are distributed among these distances:
60 6 0.02
61 20 0.08
62 71 0.29
63 40 0.16
64 38 0.15
65 41 0.17
66 22 0.09
67 8 0.03
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.23
Consensus pattern (63 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTAGA
Found at i:134992 original size:95 final size:94
Alignment explanation
Indices: 134806--135114 Score: 381
Period size: 95 Copynumber: 3.2 Consensus size: 94
134796 CTTTGGGAAG
* * * * *
134806 AAATGCCACTGAGTCATGGACTTTG-AAAAAAGATTGCCACTGTGTCGTGGACTTTGAAGAAAAA
1 AAATGCCACTGAGTCGTGGACTTGGAAAAAAAGA-TGCCACTGAGTCGTGGTC-TT--AGAAAAG
* * *
134870 AGATGCCAATGAGTTGTGGACTTTGAAGAAAAA
62 AGATGCCACTGAGTCGTAGACTTTGAAGAAAAA
134903 AAATGCCACTGAGTCGTGGACTTGGAAAAAAATGATGCCACTGAGTCGTGGTCTTAGAAAAGAGA
1 AAATGCCACTGAGTCGTGGACTTGGAAAAAAA-GATGCCACTGAGTCGTGGTCTTAGAAAAGAGA
*
134968 TGCCACTGAGTCGTTGACTTTGAAGAAAAA
65 TGCCACTGAGTCGTAGACTTTGAAGAAAAA
* * *
134998 AGATGCCACTGAGTCGTAGACTTGGAAGAAAAGCATGCCACTGAGTCGTGGTCTTAGAAAAGAGA
1 AAATGCCACTGAGTCGTGGACTTGGAAAAAAAG-ATGCCACTGAGTCGTGGTCTTAGAAAAGAGA
* **
135063 TGCCACT-AGGTCATAGACTTTG-AGAAAGG
65 TGCCACTGA-GTCGTAGACTTTGAAGAAAAA
* *
135092 AGATGCCACTGAGTTGTGGACTT
1 AAATGCCACTGAGTCGTGGACTT
135115 TGAGAAAAGA
Statistics
Matches: 191, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
94 28 0.15
95 114 0.60
97 25 0.13
98 22 0.12
99 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (94 bp):
AAATGCCACTGAGTCGTGGACTTGGAAAAAAAGATGCCACTGAGTCGTGGTCTTAGAAAAGAGAT
GCCACTGAGTCGTAGACTTTGAAGAAAAA
Found at i:135115 original size:32 final size:32
Alignment explanation
Indices: 134736--135127 Score: 362
Period size: 32 Copynumber: 12.3 Consensus size: 32
134726 GGCTTTAAAA
*
134736 AGAAAAAAG-TGCCACAT-AGTTGTGGACTTTG
1 AGAAAAAAGATGCCAC-TGAGTCGTGGACTTTG
* * **
134767 AAAAGAAAAAGGTGCCACAAAGTCGTGGACTTTG
1 -AGA-AAAAAGATGCCACTGAGTCGTGGACTTTG
* * *
134801 -GGAAGAA-ATGCCACTGAGTCATGGACTTT-
1 AGAAAAAAGATGCCACTGAGTCGTGGACTTTG
*
134830 -GAAAAAAGATTGCCACTGTGTCGTGGACTTTG
1 AGAAAAAAGA-TGCCACTGAGTCGTGGACTTTG
* *
134862 AAGAAAAAAGATGCCAATGAGTTGTGGACTTTG
1 -AGAAAAAAGATGCCACTGAGTCGTGGACTTTG
* *
134895 AAGAAAAAAAATGCCACTGAGTCGTGGACTTGG
1 -AGAAAAAAGATGCCACTGAGTCGTGGACTTTG
*
134928 A-AAAAAATGATGCCACTGAGTCGTGGTC-TT-
1 AGAAAAAA-GATGCCACTGAGTCGTGGACTTTG
* *
134958 AGAAAAGAGATGCCACTGAGTCGTTGACTTTG
1 AGAAAAAAGATGCCACTGAGTCGTGGACTTTG
*
134990 AAGAAAAAAGATGCCACTGAGTCGTAGAC-TTG
1 -AGAAAAAAGATGCCACTGAGTCGTGGACTTTG
*
135022 -GAAGAAAAGCATGCCACTGAGTCGTGGTC-TT-
1 AGAA-AAAAG-ATGCCACTGAGTCGTGGACTTTG
* * *
135053 AGAAAAGAGATGCCACT-AGGTCATAGACTTTG
1 AGAAAAAAGATGCCACTGA-GTCGTGGACTTTG
** *
135085 AGAAAGGAGATGCCACTGAGTTGTGGACTTTG
1 AGAAAAAAGATGCCACTGAGTCGTGGACTTTG
*
135117 AGAAAAGAGAT
1 AGAAAAAAGAT
135128 TTAAGGAATT
Statistics
Matches: 300, Mismatches: 40, Indels: 40
0.79 0.11 0.11
Matches are distributed among these distances:
29 6 0.02
30 55 0.18
31 48 0.16
32 82 0.27
33 81 0.27
34 28 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (32 bp):
AGAAAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:136412 original size:49 final size:49
Alignment explanation
Indices: 136357--136455 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
136347 GTTTTTCGAC
136357 TTTTGTTGTTCCCTTTTTGATTTTGCCTTTGCACTTTTTTTGTGTTTTT
1 TTTTGTTGTTCCCTTTTTGATTTTGCCTTTGCACTTTTTTTGTGTTTTT
* *** * ** * *
136406 TTTTGTTTTTGTTTTTTTGGTTTTTTCTTTTCTCTTTTTTTGTGTTTTT
1 TTTTGTTGTTCCCTTTTTGATTTTGCCTTTGCACTTTTTTTGTGTTTTT
136455 T
1 T
136456 ACTTGTGACT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.02, C:0.10, G:0.13, T:0.75
Consensus pattern (49 bp):
TTTTGTTGTTCCCTTTTTGATTTTGCCTTTGCACTTTTTTTGTGTTTTT
Found at i:136436 original size:22 final size:24
Alignment explanation
Indices: 136390--136455 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
136380 TGCCTTTGCA
* *
136390 CTTTTTTTGTGTTTTTTTTTGTTTTT
1 CTTTTTTTGTG-TTTTTTCT-TTTCT
*
136416 GTTTTTTTG-GTTTTTTCTTTTCT
1 CTTTTTTTGTGTTTTTTCTTTTCT
136439 CTTTTTTTGTGTTTTTT
1 CTTTTTTTGTGTTTTTT
136456 ACTTGTGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 12 0.34
24 14 0.40
25 1 0.03
26 8 0.23
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (24 bp):
CTTTTTTTGTGTTTTTTCTTTTCT
Found at i:136467 original size:25 final size:23
Alignment explanation
Indices: 136417--136469 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
136407 TTTGTTTTTG
* *
136417 TTTTTTTGGTTTTTTCTTTTCTC
1 TTTTTTTGGTTTTTTCTTGTCAC
*
136440 TTTTTTTGTGTTTTTTACTTGTGAC
1 TTTTTTTG-GTTTTTT-CTTGTCAC
136465 TTTTT
1 TTTTT
136470 CATCATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 7 0.28
25 10 0.40
ACGTcount: A:0.04, C:0.09, G:0.11, T:0.75
Consensus pattern (23 bp):
TTTTTTTGGTTTTTTCTTGTCAC
Found at i:143631 original size:21 final size:19
Alignment explanation
Indices: 143580--143633 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
143570 TATCAATACA
143580 TTGTATCGATACAATACTT
1 TTGTATCGATACAATACTT
* * * *
143599 ATGTGTCAATACATTTACTGT
1 TTGTATCGATACA-ATACT-T
143620 TTGTATCGATACAA
1 TTGTATCGATACAA
143634 ATTGTTGAAC
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
19 10 0.40
20 4 0.16
21 11 0.44
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (19 bp):
TTGTATCGATACAATACTT
Found at i:144832 original size:62 final size:62
Alignment explanation
Indices: 144735--144856 Score: 217
Period size: 62 Copynumber: 2.0 Consensus size: 62
144725 TGTATAACGA
* *
144735 CTTGCCCCGTCGATACATATCCAAGTGTAGCGCACCTATTCCCTTTAGGACACTTTATTCGG
1 CTTGCCCCGTCAATACATATCCAAGTGTAGAGCACCTATTCCCTTTAGGACACTTTATTCGG
*
144797 CTTGCCCCGTCAATACATATCCAAGTTTAGAGCACCTATTCCCTTTAGGACACTTTATTC
1 CTTGCCCCGTCAATACATATCCAAGTGTAGAGCACCTATTCCCTTTAGGACACTTTATTC
144857 AAACTGAGCC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (62 bp):
CTTGCCCCGTCAATACATATCCAAGTGTAGAGCACCTATTCCCTTTAGGACACTTTATTCGG
Found at i:145563 original size:21 final size:21
Alignment explanation
Indices: 145537--145576 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
145527 ACTTCATCAT
145537 CCGAGATATATATATATATAA
1 CCGAGATATATATATATATAA
145558 CCGAGATATATATATATAT
1 CCGAGATATATATATATAT
145577 GTATAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (21 bp):
CCGAGATATATATATATATAA
Found at i:148591 original size:76 final size:76
Alignment explanation
Indices: 148465--148640 Score: 318
Period size: 76 Copynumber: 2.3 Consensus size: 76
148455 ACAATTCTTC
* *
148465 TACAATGTGCCATGTATCGATACATTGTATCGATGGAAATAGTGGTAGGGTAGCTACTGCTAGTT
1 TACAATGTGCCATGTATCGATACATTGTATCGATGCAAATAGTGGTAGGGTAGCTACTGCCAGTT
148530 TCATGTATCGA
66 TCATGTATCGA
148541 TACAATGTGCCATGTATCGATACATTGTATCGATGCAAATAGTGGTAGGGTAGCTACTGCCAGTT
1 TACAATGTGCCATGTATCGATACATTGTATCGATGCAAATAGTGGTAGGGTAGCTACTGCCAGTT
148606 TCATGTATCGA
66 TCATGTATCGA
148617 TACAATTGTG-CATGTATCGATACA
1 TACAA-TGTGCCATGTATCGATACA
148641 ATGATCATGT
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
76 93 0.96
77 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (76 bp):
TACAATGTGCCATGTATCGATACATTGTATCGATGCAAATAGTGGTAGGGTAGCTACTGCCAGTT
TCATGTATCGA
Found at i:148651 original size:19 final size:18
Alignment explanation
Indices: 148606--148663 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
148596 ACTGCCAGTT
148606 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
148625 TGCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
148644 ATCATGTATCGACACAATG
1 -TCATGTATCGATACAATG
148663 T
1 T
148664 ATCGATGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:149252 original size:19 final size:18
Alignment explanation
Indices: 149212--149249 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
149202 AAAGTTTCTC
149212 TTAATGCAAAATTTTCGT
1 TTAATGCAAAATTTTCGT
*
149230 TTAATGCAAAATTTTTGT
1 TTAATGCAAAATTTTCGT
149248 TT
1 TT
149250 TAAAGCTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (18 bp):
TTAATGCAAAATTTTCGT
Found at i:151370 original size:20 final size:20
Alignment explanation
Indices: 151345--151386 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
151335 TATCAATCCT
151345 AATTCATATCAA-ACAAATAA
1 AATTCA-ATCAACACAAATAA
*
151365 AATTCAATCAACACCAATAA
1 AATTCAATCAACACAAATAA
151385 AA
1 AA
151387 CAACATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (20 bp):
AATTCAATCAACACAAATAA
Found at i:156895 original size:224 final size:224
Alignment explanation
Indices: 156505--156949 Score: 689
Period size: 224 Copynumber: 2.0 Consensus size: 224
156495 TACCAATTGT
156505 AAGCTCAAGGAATAATGAACCAAGAGGGGGTGAATTAGTTCTTTTCAAATTTTGAATGTTTTGAA
1 AAGCTCAAGGAATAATGAACCAAGAGGGGGTGAATTAGTTCTTTTCAAATTTTGAATGTTTTGAA
* * * * *
156570 AGATTTGGTGCAAAACAATTCAAAAGATAAAAAGATTGAGGAGGAAAAGCTTGACATAAGAGTTT
66 AGATTTGGTGCAAAACAATTCAAAAGATAAAAAGATTAAGGAAGAAAAGATCGACACAAGAGTTT
* * *
156635 ATAGAGGTTCGTTCCAATCCAGTACCTACATCCTCTCTCCTCGATACTTCCTTGTCGAGTGGTTA
131 ATAGAGGTTCGATCCAATCCAGTACCTACATCCTCTCTCCTCGACACTTCCTTATCGAGTGGTTA
156700 TCCAATTCACTACAAGAATTGATTACTGA
196 TCCAATTCACTACAAGAATTGATTACTGA
*
156729 AAGCTCAAGGAATAATGAACCAAGAGGGGGGTGAATTAGTTCTTTT-GAATTTTGAGAAT-TTTT
1 AAGCTCAAGGAATAATGAACCAAGA-GGGGGTGAATTAGTTCTTTTCAAATTTT--GAATGTTTT
* * *
156792 -AAAGGTTTGGTGCAAAATAATTCAAAAGATAAAAAGATTAAGGAAGAAATGATCGACACAAGAG
63 GAAAGATTTGGTGCAAAACAATTCAAAAGATAAAAAGATTAAGGAAGAAAAGATCGACACAAGAG
** * *
156856 TTTATAGAGGTTCGATCCAATCTGGTACCTACGTCCTCTCTCCTTGACACTTCCTTATCGAGTGG
128 TTTATAGAGGTTCGATCCAATCCAGTACCTACATCCTCTCTCCTCGACACTTCCTTATCGAGTGG
*
156921 TTATCCAATTCACTACTAGAATTGATTAC
193 TTATCCAATTCACTACAAGAATTGATTAC
156950 CTTTAAGGCA
Statistics
Matches: 201, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
224 173 0.86
225 24 0.12
226 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (224 bp):
AAGCTCAAGGAATAATGAACCAAGAGGGGGTGAATTAGTTCTTTTCAAATTTTGAATGTTTTGAA
AGATTTGGTGCAAAACAATTCAAAAGATAAAAAGATTAAGGAAGAAAAGATCGACACAAGAGTTT
ATAGAGGTTCGATCCAATCCAGTACCTACATCCTCTCTCCTCGACACTTCCTTATCGAGTGGTTA
TCCAATTCACTACAAGAATTGATTACTGA
Found at i:157503 original size:13 final size:13
Alignment explanation
Indices: 157485--157515 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
157475 ATAATTCATT
157485 ATGTATCGATACA
1 ATGTATCGATACA
*
157498 ATGTATTGATACA
1 ATGTATCGATACA
157511 ATGTA
1 ATGTA
157516 CCATATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:157604 original size:19 final size:19
Alignment explanation
Indices: 157560--157615 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
157550 CTGCCAGTTT
**
157560 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
157580 CATGTATCGACACAATGAA
1 CATGTATCGATACAATGAA
157599 CATGTATCGATACAATG
1 CATGTATCGATACAATG
157616 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:157618 original size:13 final size:13
Alignment explanation
Indices: 157600--157628 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
157590 CACAATGAAC
157600 ATGTATCGATACA
1 ATGTATCGATACA
157613 ATGTATCGATACA
1 ATGTATCGATACA
157626 ATG
1 ATG
157629 CATAATGTAT
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:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:157627 original size:32 final size:33
Alignment explanation
Indices: 157581--157645 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
157571 ACAATTGTCC
157581 ATGTATCGACACAATG-A-ACATGTATCGATACA
1 ATGTATCGACACAATGCATA-ATGTATCGATACA
*
157613 ATGTATCGATACAATGCATAATGTATCGATACA
1 ATGTATCGACACAATGCATAATGTATCGATACA
157646 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.50
33 14 0.47
34 1 0.03
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGACACAATGCATAATGTATCGATACA
Found at i:160138 original size:13 final size:13
Alignment explanation
Indices: 160120--160145 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
160110 TAGTACCTCT
160120 TGTATCGATACAA
1 TGTATCGATACAA
160133 TGTATCGATACAA
1 TGTATCGATACAA
160146 GGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:165136 original size:33 final size:33
Alignment explanation
Indices: 165094--165162 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
165084 CCATTAGAAG
*
165094 CAATGTATCGATATAAT-TCATCATGTATCGATA
1 CAATGTATCGATATAATGT-ACCATGTATCGATA
*
165127 CAATGTATCGCTATAATGTACCATGTATCGATA
1 CAATGTATCGATATAATGTACCATGTATCGATA
165160 CAA
1 CAA
165163 ACAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATATAATGTACCATGTATCGATA
Found at i:165342 original size:20 final size:20
Alignment explanation
Indices: 165317--165368 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
165307 GTCAACCATA
165317 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
165337 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
165357 ATGTATCGATAC
1 ATGTATCGATAC
165369 TTTGAAGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAAATACCT
Found at i:166176 original size:20 final size:20
Alignment explanation
Indices: 166150--166205 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
166140 ACTGCCAGTT
*
166150 TCATGTATCAATACAATTG-
1 TCATGTATCGATACAATTGA
166169 TGCATGTATCGATACAA-TGA
1 T-CATGTATCGATACAATTGA
166189 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
166206 ATATCGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:166236 original size:33 final size:32
Alignment explanation
Indices: 166175--166236 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
166165 ATTGTGCATG
* * *
166175 TATCGATACAATGATCATGTATCGATACAATA
1 TATCGATACAAAGATAATATATCGATACAATA
166207 TATCGATACAAAGCATAATATATCGATACA
1 TATCGATACAAAG-ATAATATATCGATACA
166237 TCTAGATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (32 bp):
TATCGATACAAAGATAATATATCGATACAATA
Done.