Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 180 of 295
Found at i:61771056 original size:16 final size:16
Alignment explanation
Indices: 61771035--61771104 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
61771025 TTGATTTGCT
61771035 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
61771051 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
61771067 ATTAGACCTCTATTCC
1 ATTACACCTCTAATCC
*
61771083 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
61771099 AATACA
1 ATTACA
61771105 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.31, C:0.34, G:0.03, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:61771322 original size:16 final size:16
Alignment explanation
Indices: 61771301--61771370 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
61771291 TTGATTTGCT
61771301 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
61771317 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
61771333 ATTAGACCTCTATTCC
1 ATTACACCTCTAATCC
*
61771349 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
61771365 AATACA
1 ATTACA
61771371 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.31, C:0.34, G:0.03, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:61771486 original size:266 final size:266
Alignment explanation
Indices: 61771012--61771550 Score: 1078
Period size: 266 Copynumber: 2.0 Consensus size: 266
61771002 TTCCATTACA
61771012 TTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTACACCTCTAATCCATTAGACCTC
1 TTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTACACCTCTAATCCATTAGACCTC
61771077 TATTCCATTACGCCTCTAATCCAATACAGCGAACCAAACGTGCTCTCAGTCTACCTTGCACCTAC
66 TATTCCATTACGCCTCTAATCCAATACAGCGAACCAAACGTGCTCTCAGTCTACCTTGCACCTAC
61771142 GCCCATGCTGCTGGCCTCTGCACCATGCTTTCTTTCTTACTAATGTGCGGTCACAGTTAATTTTA
131 GCCCATGCTGCTGGCCTCTGCACCATGCTTTCTTTCTTACTAATGTGCGGTCACAGTTAATTTTA
61771207 AACCTTACCTGCTGAAGCTCCAGTTCGCTTAAAAATAAAAGGGAAATTCCGCCTTCCACGCCACT
196 AACCTTACCTGCTGAAGCTCCAGTTCGCTTAAAAATAAAAGGGAAATTCCGCCTTCCACGCCACT
61771272 CGAACC
261 CGAACC
61771278 TTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTACACCTCTAATCCATTAGACCTC
1 TTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTACACCTCTAATCCATTAGACCTC
61771343 TATTCCATTACGCCTCTAATCCAATACAGCGAACCAAACGTGCTCTCAGTCTACCTTGCACCTAC
66 TATTCCATTACGCCTCTAATCCAATACAGCGAACCAAACGTGCTCTCAGTCTACCTTGCACCTAC
61771408 GCCCATGCTGCTGGCCTCTGCACCATGCTTTCTTTCTTACTAATGTGCGGTCACAGTTAATTTTA
131 GCCCATGCTGCTGGCCTCTGCACCATGCTTTCTTTCTTACTAATGTGCGGTCACAGTTAATTTTA
61771473 AACCTTACCTGCTGAAGCTCCAGTTCGCTTAAAAATAAAAGGGAAATTCCGCCTTCCACGCCACT
196 AACCTTACCTGCTGAAGCTCCAGTTCGCTTAAAAATAAAAGGGAAATTCCGCCTTCCACGCCACT
61771538 CGAACC
261 CGAACC
61771544 TTCAACC
1 TTCAACC
61771551 TCCAGAACAC
Statistics
Matches: 273, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
266 273 1.00
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.29
Consensus pattern (266 bp):
TTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCATTACACCTCTAATCCATTAGACCTC
TATTCCATTACGCCTCTAATCCAATACAGCGAACCAAACGTGCTCTCAGTCTACCTTGCACCTAC
GCCCATGCTGCTGGCCTCTGCACCATGCTTTCTTTCTTACTAATGTGCGGTCACAGTTAATTTTA
AACCTTACCTGCTGAAGCTCCAGTTCGCTTAAAAATAAAAGGGAAATTCCGCCTTCCACGCCACT
CGAACC
Found at i:61772052 original size:3 final size:3
Alignment explanation
Indices: 61772044--61772068 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61772034 ATTTAATTAC
61772044 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
61772069 TTCATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:61772137 original size:12 final size:12
Alignment explanation
Indices: 61772122--61772146 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61772112 ACAACAAATA
61772122 ATAAAAATTTTC
1 ATAAAAATTTTC
61772134 ATAAAAATTTTC
1 ATAAAAATTTTC
61772146 A
1 A
61772147 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:61773270 original size:15 final size:15
Alignment explanation
Indices: 61773250--61773278 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61773240 TATTGTTCAT
61773250 TTTATCTGGATAATG
1 TTTATCTGGATAATG
61773265 TTTATCTGGATAAT
1 TTTATCTGGATAAT
61773279 TATTAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (15 bp):
TTTATCTGGATAATG
Found at i:61774712 original size:29 final size:28
Alignment explanation
Indices: 61774677--61774733 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
61774667 GCGAGATATA
* *
61774677 CTGATTTGGCTTTGGGCCATGAATATCAG
1 CTGATTTGGCTTCGAGCCATG-ATATCAG
61774706 CTGATTTGGCTTCGAGCCATGATATCAG
1 CTGATTTGGCTTCGAGCCATGATATCAG
61774734 TACTTCGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (28 bp):
CTGATTTGGCTTCGAGCCATGATATCAG
Found at i:61778430 original size:27 final size:27
Alignment explanation
Indices: 61778411--61778475 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
61778401 AGGGCATTTT
61778411 AGTCATTTTACCACAAAAGGGCAAAAC
1 AGTCATTTTACCACAAAAGGGCAAAAC
* *
61778438 AGTCATTTTACCACATAAGGGAAAAAC
1 AGTCATTTTACCACAAAAGGGCAAAAC
*
61778465 AGTAATTTTAC
1 AGTCATTTTAC
61778476 AACCAATTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (27 bp):
AGTCATTTTACCACAAAAGGGCAAAAC
Found at i:61782288 original size:40 final size:40
Alignment explanation
Indices: 61782242--61782321 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
61782232 ATAAGATTCC
*
61782242 ATATGCTTTGACTATTAGATTTATCATGTATGTCATGCTA
1 ATATGCTTTGACTATTAGATCTATCATGTATGTCATGCTA
*
61782282 ATATGCTTTGATTATTAGATCTATCATGTATGTCATGCTA
1 ATATGCTTTGACTATTAGATCTATCATGTATGTCATGCTA
61782322 TGTATTCGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (40 bp):
ATATGCTTTGACTATTAGATCTATCATGTATGTCATGCTA
Found at i:61783179 original size:31 final size:27
Alignment explanation
Indices: 61783134--61783194 Score: 68
Period size: 31 Copynumber: 2.1 Consensus size: 27
61783124 AATGGCTAGG
61783134 TAATTTTGAAATTTGTGATAATTTTAAAGGT
1 TAATTTTGAAATTTG-G-TAA--TTAAAGGT
**
61783165 TAATTTTGGTATTTGGTAATTAAAGGT
1 TAATTTTGAAATTTGGTAATTAAAGGT
61783192 TAA
1 TAA
61783195 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 11 0.39
29 3 0.11
30 1 0.04
31 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (27 bp):
TAATTTTGAAATTTGGTAATTAAAGGT
Found at i:61821528 original size:63 final size:64
Alignment explanation
Indices: 61821448--61821625 Score: 193
Period size: 67 Copynumber: 2.8 Consensus size: 64
61821438 ATATAGTTCG
* * * *
61821448 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACTCAGTACCACCCATGCGACCTAGCCACATATATCCCGTA
* * * *
61821511 GCTCTCTTGTCTACATGGTGTTCTTCAC-CTAGAACCACGCATGCGACCTAGCTACATATATCCC
1 GCTCTCTTGTCTACATGGTG---TACACTC-AGTACCACCCATGCGACCTAGCCACATATATCCC
61821575 GTA
62 GTA
*
61821578 GCTCTCTTGTCTACATGGTGTACACAT-AGTATCACCCATGCGACCTAG
1 GCTCTCTTGTCTACATGGTGTACAC-TCAGTACCACCCATGCGACCTAG
61821626 GTACATCATA
Statistics
Matches: 95, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 22 0.23
65 1 0.01
66 23 0.24
67 30 0.32
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTCAGTACCACCCATGCGACCTAGCCACATATATCCCGTA
Found at i:61822405 original size:30 final size:30
Alignment explanation
Indices: 61822371--61822431 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
61822361 TCCTTAACTC
61822371 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
61822401 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
61822431 A
1 A
61822432 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:61826802 original size:103 final size:103
Alignment explanation
Indices: 61826673--61826877 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 103
61826663 GAATCTACAA
61826673 AATTTGTGATCAAAGTGTCAAACCCGTTAGGCAAATACGTGTTAGATGATAAAGTATGTAAGAAT
1 AATTTGTGATCAAAGTGTCAAACCCGTTAGGCAAATACGTGTTAGATGATAAAGTATGTAAGAAT
61826738 TGTCCTTTGATAATTAGAGGTCACTATTTTTCGACTAG
66 TGTCCTTTGATAATTAGAGGTCACTATTTTTCGACTAG
*
61826776 AATTTGTGATCAAAGTGTCAAACCCGTTAGGCAAATATGTGTTAGATGATAAAGTATGTAAGAAT
1 AATTTGTGATCAAAGTGTCAAACCCGTTAGGCAAATACGTGTTAGATGATAAAGTATGTAAGAAT
61826841 TGTCCTTTGATAATTAGAGGTCACTATTTTTCGACTA
66 TGTCCTTTGATAATTAGAGGTCACTATTTTTCGACTA
61826878 ACCTTATGCT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (103 bp):
AATTTGTGATCAAAGTGTCAAACCCGTTAGGCAAATACGTGTTAGATGATAAAGTATGTAAGAAT
TGTCCTTTGATAATTAGAGGTCACTATTTTTCGACTAG
Found at i:61829526 original size:14 final size:16
Alignment explanation
Indices: 61829502--61829534 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
61829492 ATTTTCTGTG
61829502 TTTATTATGTGTGA-A
1 TTTATTATGTGTGATA
61829517 TTTA-TATGTGTGATA
1 TTTATTATGTGTGATA
61829532 TTT
1 TTT
61829535 TTCGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TTTATTATGTGTGATA
Found at i:61830679 original size:45 final size:45
Alignment explanation
Indices: 61830619--61830746 Score: 168
Period size: 45 Copynumber: 2.8 Consensus size: 45
61830609 TAGGATTCCA
* * *
61830619 ATATATGTTTTCGTGTAAGGCCACGTCTAGGACGTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAAT
*
61830664 ATATGTGTTTTCGTGTAAGACCACGGT-TGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCAAT
* * * *
61830709 ATATGTGGTTACGTGTAAGATCATGTCTGGGACGTTGG
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGG
61830747 TATCGTATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.03
45 69 0.95
46 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAAT
Found at i:61830780 original size:41 final size:45
Alignment explanation
Indices: 61830648--61830796 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 45
61830638 GCCACGTCTA
* * * * * **
61830648 GGACGTTGGCATCAATATATGTGTTTTCGTGTAAGACCACGGTTG
1 GGACGTTGGCATCGATATATGTGATTACGTGTAAGATCATGCCTG
* *
61830693 GGACGTTGGCATCGATATATGTGGTTACGTGTAAGATCATGTCTG
1 GGACGTTGGCATCGATATATGTGATTACGTGTAAGATCATGCCTG
* *
61830738 GGACGTTGGTATCG-TAT-T-TGATT-CGTGTAAGATCCTGCCTG
1 GGACGTTGGCATCGATATATGTGATTACGTGTAAGATCATGCCTG
*
61830779 GGATAG-TGGCATCGATAT
1 GGA-CGTTGGCATCGATAT
61830797 GAGATAGCAT
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 26 0.29
42 8 0.09
43 1 0.01
44 3 0.03
45 51 0.57
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (45 bp):
GGACGTTGGCATCGATATATGTGATTACGTGTAAGATCATGCCTG
Found at i:61832133 original size:48 final size:48
Alignment explanation
Indices: 61832062--61832157 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
61832052 GTAGTACTAA
61832062 ATATTTGTGGTTTAATTTAGACCATGAAAATTTGATTAATGAATGTGG
1 ATATTTGTGGTTTAATTTAGACCATGAAAATTTGATTAATGAATGTGG
61832110 ATATTTGTGGTTTAATTTAGACCATGAAAATTTGATTAATGAATGTGG
1 ATATTTGTGGTTTAATTTAGACCATGAAAATTTGATTAATGAATGTGG
61832158 TTTTTATGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (48 bp):
ATATTTGTGGTTTAATTTAGACCATGAAAATTTGATTAATGAATGTGG
Found at i:61832143 original size:27 final size:27
Alignment explanation
Indices: 61832064--61832143 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
61832054 AGTACTAAAT
61832064 ATTTGTGGTTTAATTTAGACCATGAAA
1 ATTTGTGGTTTAATTTAGACCATGAAA
* *** * *
61832091 A-TT-T-GATTAA--T-GAATGTGGAT
1 ATTTGTGGTTTAATTTAGACCATGAAA
61832112 ATTTGTGGTTTAATTTAGACCATGAAA
1 ATTTGTGGTTTAATTTAGACCATGAAA
61832139 ATTTG
1 ATTTG
61832144 ATTAATGAAT
Statistics
Matches: 35, Mismatches: 12, Indels: 12
0.59 0.20 0.20
Matches are distributed among these distances:
21 6 0.17
22 3 0.09
23 1 0.03
24 10 0.29
25 1 0.03
26 3 0.09
27 11 0.31
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTGTGGTTTAATTTAGACCATGAAA
Found at i:61833051 original size:30 final size:30
Alignment explanation
Indices: 61833015--61833083 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
61833005 TTTACAAAGA
61833015 AAGAGAGGTTGGTGGGT-AAAAGTAGATATG
1 AAGAGAGGTTGGTGGGTCAAAAGTAGATA-G
* *
61833045 AAGAGAGGTTGGTGGGTCATAAGTGGATAG
1 AAGAGAGGTTGGTGGGTCAAAAGTAGATAG
61833075 -AGAGAGGTT
1 AAGAGAGGTT
61833084 TTCTAAACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 9 0.25
30 18 0.50
31 9 0.25
ACGTcount: A:0.33, C:0.01, G:0.42, T:0.23
Consensus pattern (30 bp):
AAGAGAGGTTGGTGGGTCAAAAGTAGATAG
Found at i:61833310 original size:28 final size:28
Alignment explanation
Indices: 61833256--61833313 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
61833246 TTGTCTACAT
* **
61833256 TTGGATGTCGTTTTCCCAAGTTTCTTCC
1 TTGGATGTCATTTTCCCAAGTAGCTTCC
*
61833284 TTGGATGTCATTTTCCCATGTAGCTTCC
1 TTGGATGTCATTTTCCCAAGTAGCTTCC
61833312 TT
1 TT
61833314 TTTTGTTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (28 bp):
TTGGATGTCATTTTCCCAAGTAGCTTCC
Found at i:61834039 original size:14 final size:14
Alignment explanation
Indices: 61834020--61834049 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61834010 TTATATCGAG
61834020 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
61834034 ACCAATCCAATTCA
1 ACCAATCCAAATCA
61834048 AC
1 AC
61834050 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:61834067 original size:22 final size:23
Alignment explanation
Indices: 61834042--61834087 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
61834032 CAACCAATCC
61834042 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTGT-AAGATA
*
61834064 AATTCATGCATATTTGTAAGATA
1 AATTCATACATATTTGTAAGATA
61834087 A
1 A
61834088 CGTCATTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTGTAAGATA
Found at i:61834093 original size:23 final size:23
Alignment explanation
Indices: 61834049--61834093 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
61834039 TCCAATTCAA
*
61834049 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
61834072 CATATTTGT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
61834094 TACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:61836940 original size:22 final size:22
Alignment explanation
Indices: 61836895--61836941 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
61836885 ATAATATAGA
*
61836895 TTTAATAAATGCAGAAAAATAT
1 TTTAATAAATGCAGAAAAAAAT
*
61836917 TTTAATAAATGGA-AAGAAAAAT
1 TTTAATAAATGCAGAA-AAAAAT
61836939 TTT
1 TTT
61836942 GAACTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (22 bp):
TTTAATAAATGCAGAAAAAAAT
Found at i:61838438 original size:28 final size:26
Alignment explanation
Indices: 61838383--61838467 Score: 125
Period size: 27 Copynumber: 3.2 Consensus size: 26
61838373 AGCATGGCTG
* *
61838383 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
61838409 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
61838437 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
61838464 CCAG
1 CCAG
61838468 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.59
28 17 0.31
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.14
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:61846283 original size:54 final size:54
Alignment explanation
Indices: 61846223--61846334 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
61846213 AGCATAGTTG
* * * *
61846223 CCAGAACCGATA-ATATGATAGAGTCACTAGATACAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGAT-CAGATAATCGTGGC-GTAGCCA
* * *
61846277 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCGTAGCCA
1 CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCGTAGCCA
61846331 CCAG
1 CCAG
61846335 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.67
55 15 0.31
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCGTAGCCA
Found at i:61846285 original size:27 final size:26
Alignment explanation
Indices: 61846223--61846334 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
61846213 AGCATAGTTG
* * ** *
61846223 CCAGAACCGATAATATGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
61846249 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
61846277 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
61846304 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
61846331 CCAG
1 CCAG
61846335 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 6 0.08
27 53 0.73
28 14 0.19
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:61849404 original size:14 final size:15
Alignment explanation
Indices: 61849385--61849414 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
61849375 AAAATAAAAG
61849385 AATGAGGAG-AAGAA
1 AATGAGGAGAAAGAA
61849399 AATGAGGAGAAAGAA
1 AATGAGGAGAAAGAA
61849414 A
1 A
61849415 CATCATGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (15 bp):
AATGAGGAGAAAGAA
Found at i:61857944 original size:43 final size:42
Alignment explanation
Indices: 61857860--61857980 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
61857850 TGTGATTACA
* * * *
61857860 TATAAGACCAAGTCTGGGACATTGGCATTGTATTCTAATTTCG
1 TATAAGACCATGTCTGGGACATTGGCATCGTA-TATGATTTCG
* *
61857903 TGTAAGACCATTTCTGGGACATTGGCATCGTTATATGATTTCG
1 TATAAGACCATGTCTGGGACATTGGCATCG-TATATGATTTCG
* * *
61857946 TATAAGACCCTGTCTAGGACAGTGGCATCG-ATATG
1 TATAAGACCATGTCTGGGACATTGGCATCGTATATG
61857981 TGATAACACG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 5 0.08
43 59 0.89
44 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TATAAGACCATGTCTGGGACATTGGCATCGTATATGATTTCG
Found at i:61859271 original size:55 final size:55
Alignment explanation
Indices: 61859206--61859316 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
61859196 GTAAAACCCT
* *
61859206 CGATGAAAAACAATCATTCAAAGAGAAATCATCGAACATGCAATGCAATCCCATC
1 CGATGAAAAACAAGCATTCAAAGAGAAATCATCAAACATGCAATGCAATCCCATC
*
61859261 CGATGAAAAACAAGCATTCAAAGAGAAATCATCAAACATGCAATGCAGTCCCATC
1 CGATGAAAAACAAGCATTCAAAGAGAAATCATCAAACATGCAATGCAATCCCATC
61859316 C
1 C
61859317 AAATTATCCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.17
Consensus pattern (55 bp):
CGATGAAAAACAAGCATTCAAAGAGAAATCATCAAACATGCAATGCAATCCCATC
Found at i:61859983 original size:29 final size:29
Alignment explanation
Indices: 61859926--61860040 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
61859916 TACTAGTATC
* * * *
61859926 TGGCCCATTAAGTCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
61859954 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
*
61859983 TGGTCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
61860012 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
61860040 T
1 T
61860041 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.61
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:61865577 original size:29 final size:29
Alignment explanation
Indices: 61865545--61865602 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
61865535 TTCATTTTAG
*
61865545 GATAGAATTAACAATATATTTTTATTTGT
1 GATAGAATTAACAATAGATTTTTATTTGT
* *
61865574 GATAGAATTAATAGTAGATTTTTATTTGT
1 GATAGAATTAACAATAGATTTTTATTTGT
61865603 TTTGTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (29 bp):
GATAGAATTAACAATAGATTTTTATTTGT
Found at i:61871209 original size:30 final size:30
Alignment explanation
Indices: 61871173--61871235 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
61871163 GAAAACCAGA
* * *
61871173 ATAAAGAAATCCATGATAGAGGAATCCAAG
1 ATAAAGAAATCCAAGATACAGAAATCCAAG
* *
61871203 ATAAAGATATCCAAGGTACAGAAATCCAAG
1 ATAAAGAAATCCAAGATACAGAAATCCAAG
61871233 ATA
1 ATA
61871236 CCATATCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (30 bp):
ATAAAGAAATCCAAGATACAGAAATCCAAG
Found at i:61871214 original size:15 final size:15
Alignment explanation
Indices: 61871173--61871235 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
61871163 GAAAACCAGA
*
61871173 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
* *
61871188 ATAGAGGAATCCAAG
1 ATAAAGAAATCCAAG
*
61871203 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
61871218 GTACAGAAATCCAAG
1 ATAAAGAAATCCAAG
61871233 ATA
1 ATA
61871236 CCATATCATA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61881247 original size:15 final size:15
Alignment explanation
Indices: 61881227--61881278 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
61881217 ACTACAAAAC
61881227 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
61881242 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
61881261 ATTTATTATTAATAT
1 ATTTATTATTAATAT
61881276 ATT
1 ATT
61881279 AATATTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 12 0.39
16 1 0.03
17 8 0.26
18 1 0.03
19 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:61881302 original size:19 final size:19
Alignment explanation
Indices: 61881278--61881323 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 19
61881268 ATTAATATAT
61881278 TAATATTGAATATTTTAAA
1 TAATATTGAATATTTTAAA
*
61881297 TAATATT---TATTTTCAA
1 TAATATTGAATATTTTAAA
61881313 TAATATGTGAA
1 TAATAT-TGAA
61881324 GAATCTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
16 14 0.64
17 1 0.05
19 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TAATATTGAATATTTTAAA
Found at i:61898139 original size:15 final size:15
Alignment explanation
Indices: 61898121--61898152 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
61898111 TCCTTTAGAG
61898121 TTAGCCACTTTGGCA
1 TTAGCCACTTTGGCA
61898136 TTAGCCACTTTGGCA
1 TTAGCCACTTTGGCA
61898151 TT
1 TT
61898153 GGCTTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (15 bp):
TTAGCCACTTTGGCA
Found at i:61898439 original size:30 final size:30
Alignment explanation
Indices: 61898405--61898472 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
61898395 CACCACAAAC
* *
61898405 GCTCACATAT-ACCAGATTTCTGCCACAAGG
1 GCTCACATATAACAAG-TTCCTGCCACAAGG
* *
61898435 GCTCACGTGTAACAAGTTCCTGCCACAAGG
1 GCTCACATATAACAAGTTCCTGCCACAAGG
61898465 GCTCACAT
1 GCTCACAT
61898473 GTTAGATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (30 bp):
GCTCACATATAACAAGTTCCTGCCACAAGG
Found at i:61898594 original size:23 final size:23
Alignment explanation
Indices: 61898559--61898602 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
61898549 CACATATATC
* * *
61898559 AGAACATCCACAATGGCTTCCTT
1 AGAACAACAACAAAGGCTTCCTT
61898582 AGAACAACAACAAAGGCTTCC
1 AGAACAACAACAAAGGCTTCC
61898603 ACATAATAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.18
Consensus pattern (23 bp):
AGAACAACAACAAAGGCTTCCTT
Found at i:61904980 original size:32 final size:32
Alignment explanation
Indices: 61904944--61905028 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
61904934 CCCATCATAG
* *
61904944 TATCAGTTGGGCCTAGCCCATCTCAGAATCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
*
61904976 TATCAGTTGGGCCTAGTCCATATCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
61905008 TATCAGTTGGGCCTAGCCCAT
1 TATCAGTTGGGCCTAGCCCAT
61905029 TTCAATTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (32 bp):
TATCAGTTGGGCCTAGCCCATATCAGAACCAA
Found at i:61913510 original size:30 final size:30
Alignment explanation
Indices: 61913476--61913536 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
61913466 TTCCCGAGCA
61913476 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
61913506 TAGGGGTAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
61913536 T
1 T
61913537 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:61914117 original size:68 final size:66
Alignment explanation
Indices: 61914001--61914316 Score: 247
Period size: 64 Copynumber: 4.8 Consensus size: 66
61913991 CAGATGGTAT
* * ** *
61914001 GTAGCTAGGTCACATGTGTAATAC-GGGATGTATACCATGT-GTACAAGAGAGCTACGAGACATT
1 GTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAGACA-T
61914064 ATGAG
63 AT-AG
* *
61914069 GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGAAAAGAGAGCTACG-G-GATATA
1 GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGACATATA
*
61914132 T
66 G
* *
61914133 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAG--ATAAA
1 GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGACATATA
*
61914196 T
66 G
** * * * * * * * *
61914197 GTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGCTATGAG--AT
1 GTAGCTAGGTCACATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGACAT
*
61914260 A-AA
63 ATAG
* * * * *
61914263 GTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACTATGT-GTACAAGAGAGCTA
1 GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTA
61914317 AAATTATGTG
Statistics
Matches: 207, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
63 20 0.10
64 78 0.38
65 12 0.06
66 19 0.09
67 30 0.14
68 46 0.22
69 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (66 bp):
GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGACATATA
G
Found at i:61914152 original size:64 final size:64
Alignment explanation
Indices: 61914069--61914316 Score: 259
Period size: 64 Copynumber: 3.8 Consensus size: 64
61914059 ACATTATGAG
* * *
61914069 GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGAAAAGAGAGCTACGGGATATAT
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGAAAAGAGAGCTACGAGATAAAT
*
61914133 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGAAAAGAGAGCTACGAGATAAAT
* * * * * * * *
61914197 GTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTA-AACAAGAGAGCTATGAGATA
1 GTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGAA-AAGAGAGCTACGAGATA
61914261 AA-
62 AAT
* * * * * * *
61914263 GTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACTATGT-GTACAAGAGAGCTA
1 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-AAAAGAGAGCTA
61914317 AAATTATGTG
Statistics
Matches: 152, Mismatches: 26, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
63 18 0.12
64 79 0.52
65 8 0.05
66 18 0.12
67 29 0.19
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (64 bp):
GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGAAAAGAGAGCTACGAGATAAAT
Found at i:61917109 original size:41 final size:41
Alignment explanation
Indices: 61917052--61917133 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
61917042 AAATAGGGCC
61917052 TAAATGGAATAGTGGTTGTGAAACCACAAATCTGAGATAGA
1 TAAATGGAATAGTGGTTGTGAAACCACAAATCTGAGATAGA
61917093 TAAATGGAATAGTGGTTGTGAAACCACAAATCTGAGATAGA
1 TAAATGGAATAGTGGTTGTGAAACCACAAATCTGAGATAGA
61917134 AATGTTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (41 bp):
TAAATGGAATAGTGGTTGTGAAACCACAAATCTGAGATAGA
Found at i:61918116 original size:30 final size:30
Alignment explanation
Indices: 61918070--61918128 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
61918060 TTCCCGAGCC
61918070 TAGGGGCAAAAGTGTAAATATGCAAAAGTG
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTG
* * * *
61918100 TAGGGGTAAAATTGTAATTTTGCAAAAGT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGT
61918129 TTGAGTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTG
Found at i:61918747 original size:64 final size:64
Alignment explanation
Indices: 61918592--61918908 Score: 282
Period size: 64 Copynumber: 4.9 Consensus size: 64
61918582 ATACAGATGG
* * * ** *
61918592 TATGTAGCTAGGTCACATGTGTAATAC-GGGATGTATACCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCGCATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAG--
61918655 ATTA
62 A-TA
* *
61918659 TGAGGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
*
61918724 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATATAGACAAGAGAGCTACGAGATA
1 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * * * * * *
61918788 AATGTAGCTAGGTTGCATGTGTGGTTCCAAATGAAGGACACCATGTAAACAAGAGAGCTATGAGA
1 TATGTAGCTAGGTCGCATGGGT-GATAC-TATG-TGTACACCATGTAGACAAGAGAGCTACGAGA
61918853 TA
63 TA
* * * * * * *
61918855 -AAGTGGTTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
61918909 CAAAATTATG
Statistics
Matches: 207, Mismatches: 36, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
63 19 0.09
64 81 0.39
65 9 0.04
66 19 0.09
67 29 0.14
68 48 0.23
69 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:61926674 original size:39 final size:39
Alignment explanation
Indices: 61926572--61926683 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 39
61926562 AAGAGGGTCA
* *
61926572 AAGTAGGGGGAGGGAT-AGTGGGGGAGAGGGAGAGAACTG
1 AAGTAGGGGGAGGGATGA-TGGGGAAAAGGGAGAGAACTG
* *
61926611 AAGTAGGGGGAGGGACGATAGGGAAAAGGGAGAGAA-TCG
1 AAGTAGGGGGAGGGATGATGGGGAAAAGGGAGAGAACT-G
* *
61926650 AAGTAAGGGGAGGAATGATGGGGAAGAA-GGAGAG
1 AAGTAGGGGGAGGGATGATGGGGAA-AAGGGAGAG
61926684 GGATGGGAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 58 0.94
40 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.52, T:0.09
Consensus pattern (39 bp):
AAGTAGGGGGAGGGATGATGGGGAAAAGGGAGAGAACTG
Found at i:61927150 original size:32 final size:32
Alignment explanation
Indices: 61927114--61927181 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
61927104 TTCTTATTTA
*
61927114 CATTTCTTTAAT-TTCTTCTTCCCTCCATCATG
1 CATTTCTTT-ATCTTCTTCTTCACTCCATCATG
*
61927146 CATTTCTTTATCTTCTTCTTCATTCCATCATG
1 CATTTCTTTATCTTCTTCTTCACTCCATCATG
61927178 CATT
1 CATT
61927182 CATTTACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.51
Consensus pattern (32 bp):
CATTTCTTTATCTTCTTCTTCACTCCATCATG
Found at i:61933809 original size:21 final size:21
Alignment explanation
Indices: 61933764--61933809 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
61933754 GAATTGAAAG
*
61933764 AGTTGAAAGCCCAGTTGCAAG
1 AGTTGAAAGCCCAGTTGCAAC
61933785 AGTTGAAAGCCCAGCTT-CAAC
1 AGTTGAAAGCCCAG-TTGCAAC
61933806 AGTT
1 AGTT
61933810 AACAAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (21 bp):
AGTTGAAAGCCCAGTTGCAAC
Found at i:61940351 original size:48 final size:48
Alignment explanation
Indices: 61940280--61940376 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
61940270 ATCAAGAAAA
* *
61940280 GCGAAATATGGATTTAGATAGGGGAAAGAACAAGGTTTGAGATTAATC
1 GCGAAATACGGATTTAGATAGGGGAAAGAACAAGGTTTCAGATTAATC
61940328 GCGAAATACGGATTTAGATAGGGGAAAGAACAAGGTTTCAGATTAATC
1 GCGAAATACGGATTTAGATAGGGGAAAGAACAAGGTTTCAGATTAATC
61940376 G
1 G
61940377 ACTTAATTCG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.39, C:0.08, G:0.29, T:0.24
Consensus pattern (48 bp):
GCGAAATACGGATTTAGATAGGGGAAAGAACAAGGTTTCAGATTAATC
Found at i:61942107 original size:19 final size:20
Alignment explanation
Indices: 61942079--61942119 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
61942069 GTCCCCTGTA
61942079 TTTTGAAAAAAATTC-TAAG
1 TTTTGAAAAAAATTCATAAG
*
61942098 TTTTGTAAAAAATTCATAAG
1 TTTTGAAAAAAATTCATAAG
61942118 TT
1 TT
61942120 ATCAGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTTGAAAAAAATTCATAAG
Found at i:61947376 original size:37 final size:37
Alignment explanation
Indices: 61947324--61947401 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
61947314 AACGGGTCTG
* *
61947324 GTTTGGGGGTGTTACATTTTGTAGTAACAGAGTCCAA
1 GTTTGGGGGTATTACATTTAGTAGTAACAGAGTCCAA
*
61947361 GTTTGGGGGTATTACATTTAGTAGTAACAGAGTCCAG
1 GTTTGGGGGTATTACATTTAGTAGTAACAGAGTCCAA
61947398 GTTT
1 GTTT
61947402 ACTAATCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.36
Consensus pattern (37 bp):
GTTTGGGGGTATTACATTTAGTAGTAACAGAGTCCAA
Found at i:61948126 original size:26 final size:26
Alignment explanation
Indices: 61948090--61948146 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
61948080 CTCCGATGTA
* * *
61948090 ATATTGTGATTGCATACTTCAGTGTG
1 ATATTGAGATTACACACTTCAGTGTG
**
61948116 ATATTGAGATTACACACTTTGGTGTG
1 ATATTGAGATTACACACTTCAGTGTG
61948142 ATATT
1 ATATT
61948147 ATGATGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (26 bp):
ATATTGAGATTACACACTTCAGTGTG
Found at i:61950044 original size:27 final size:27
Alignment explanation
Indices: 61950010--61950187 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
61950000 TAAATTGTAC
*
61950010 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61950037 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61950063 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61950091 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61950119 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
61950146 AGCACTAAGTGTGCGAGTGGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61950173 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61950188 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61950128 original size:82 final size:81
Alignment explanation
Indices: 61950011--61950161 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
61950001 AAATTGTACA
* * *
61950011 GCACTAAGTGTGCGATTTGGCTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61950075 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61950092 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
61950157 TGCGA
65 TGCGA
61950162 GTGGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61950178 original size:82 final size:81
Alignment explanation
Indices: 61950007--61950187 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
61949997 GAGTAAATTG
* * *
61950007 TACAGCACTAAGTGTGCGATTTGGCTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
61950072 GTGTGCGAATTGACCA
66 GTGTGCGAATGGACCA
* * ** *
61950088 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61950152 AAGTGTGCGAGTGGATTA
64 AAGTGTGCGAATGGACCA
* *
61950170 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61950188 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATGGACCA
Found at i:61952653 original size:18 final size:18
Alignment explanation
Indices: 61952610--61952684 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
61952600 GGCCCATTGT
* *
61952610 AGTAACAATAAACAGTGC
1 AGTAACAGTAATCAGTGC
*
61952628 AGTAACAGTAATCTGTGC
1 AGTAACAGTAATCAGTGC
* *
61952646 AGTAACAGTCATCAGTGT
1 AGTAACAGTAATCAGTGC
* *
61952664 AGCAATAGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
61952682 AGT
1 AGT
61952685 CAGTATACAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (18 bp):
AGTAACAGTAATCAGTGC
Found at i:61953040 original size:27 final size:27
Alignment explanation
Indices: 61953008--61953318 Score: 326
Period size: 27 Copynumber: 11.5 Consensus size: 27
61952998 TACATCACAT
*
61953008 AGGGCAAAACAGTCATCTTACCATATA
1 AGGGCAAAACAGTCATTTTACCATATA
* * *
61953035 AAGGCAAAACAATCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCATATA
* *
61953062 AGGGCAAAACAATCATTTTACC-TCATG
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* * *
61953089 AGGGTAAAACAGTTATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCATATA
* * *
61953116 AGGGAAAAATAGTCATTTTACC-TCAAA
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* *
61953143 AGGGCAAAACAGTTATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCATATA
* *
61953170 AGGGCAAAATAGTCATTTTGCC-TCATA
1 AGGGCAAAACAGTCATTTTACCAT-ATA
*
61953197 AGGGCAAAACAATCATTTTACC-TCATA
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* * *
61953224 AGAGCAAAACAATCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCATATA
* *
61953251 AGGGCAAAATAGTCATTTTACC-TCATG
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* *
61953278 AGGGCAAAACAATCATTTTACCATGTA
1 AGGGCAAAACAGTCATTTTACCATATA
61953305 AGGGCAAAACAGTC
1 AGGGCAAAACAGTC
61953319 TGTAACATCC
Statistics
Matches: 235, Mismatches: 41, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
27 234 1.00
28 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCATATA
Found at i:61953098 original size:54 final size:54
Alignment explanation
Indices: 61953003--61953318 Score: 386
Period size: 54 Copynumber: 5.9 Consensus size: 54
61952993 GTATATACAT
* * * *
61953003 CACAT-AGGGCAAAACAGTCATCTTACCAT-ATAAAGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACC-TCATAAGGGCAAAACAGTCATTTTAC
* * *
61953056 CACATAAGGGCAAAACAATCATTTTACCTCATGAGGGTAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAACAGTCATTTTAC
* * * * *
61953110 CACATAAGGGAAAAATAGTCATTTTACCTCAAAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAACAGTCATTTTAC
* * * *
61953164 CACATAAGGGCAAAATAGTCATTTTGCCTCATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAACAGTCATTTTAC
* * * *
61953218 CTCATAAGAGCAAAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAACAGTCATTTTAC
* * *
61953272 CTCATGAGGGCAAAACAATCATTTTACCAT-GTAAGGGCAAAACAGTC
1 CACATAAGGGCAAAACAATCATTTTACC-TCATAAGGGCAAAACAGTC
61953319 TGTAACATCC
Statistics
Matches: 229, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
53 6 0.03
54 223 0.97
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (54 bp):
CACATAAGGGCAAAACAATCATTTTACCTCATAAGGGCAAAACAGTCATTTTAC
Found at i:61953148 original size:81 final size:81
Alignment explanation
Indices: 61953003--61953315 Score: 405
Period size: 81 Copynumber: 3.9 Consensus size: 81
61952993 GTATATACAT
* * * *
61953003 CACAT-AGGGCAAAACAGTCATCTTACCATATAAAGGCAAAACAATCATTTTACCACATAAGGGC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGC
61953067 AAAACAATCATTTTAC
66 AAAACAATCATTTTAC
* * * * * * * *
61953083 CTCATGAGGGTAAAACAGTTATTTTACCACATAAGGGAAAAATAGTCATTTTACCTCAAAAGGGC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGC
* *
61953148 AAAACAGTTATTTTAC
66 AAAACAATCATTTTAC
* * * *
61953164 CACATAAGGGCAAAATAGTCATTTTGCCTCATAAGGGCAAAACAATCATTTTACCTCATAAGAGC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGC
61953229 AAAACAATCATTTTAC
66 AAAACAATCATTTTAC
* * * *
61953245 CACATAAGGGCAAAATAGTCATTTTACCTCATGAGGGCAAAACAATCATTTTACCAT-GTAAGGG
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACC-TCATAAGGG
61953309 CAAAACA
65 CAAAACA
61953316 GTCTGTAACA
Statistics
Matches: 200, Mismatches: 31, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
80 4 0.02
81 195 0.98
82 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (81 bp):
CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGC
AAAACAATCATTTTAC
Found at i:61963841 original size:27 final size:27
Alignment explanation
Indices: 61963813--61963899 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
61963803 TGTTACACAG
*
61963813 TCATTTTACCTCATGAGGGCAAAACAG
1 TCATTTTACCTCATGAGGGCAAAACAA
* *
61963840 TCATTTTACCACATAAGGGCAAAACAA
1 TCATTTTACCTCATGAGGGCAAAACAA
*
61963867 TCATTTTACTTCATGAGGGCAAAACAA
1 TCATTTTACCTCATGAGGGCAAAACAA
61963894 TCATTT
1 TCATTT
61963900 ATCAATATGG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (27 bp):
TCATTTTACCTCATGAGGGCAAAACAA
Found at i:61964023 original size:17 final size:19
Alignment explanation
Indices: 61963990--61964025 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
61963980 CCGTTTGGTT
61963990 TACCCGTGTGAGGCCCACA
1 TACCCGTGTGAGGCCCACA
61964009 TACCCGTG-G-GGCCCACA
1 TACCCGTGTGAGGCCCACA
61964026 CAACTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.19, C:0.39, G:0.28, T:0.14
Consensus pattern (19 bp):
TACCCGTGTGAGGCCCACA
Found at i:61969274 original size:48 final size:48
Alignment explanation
Indices: 61969221--61969349 Score: 165
Period size: 47 Copynumber: 2.7 Consensus size: 48
61969211 GCTACGAGAT
* *
61969221 GTGTCAGTGTAAGACCATGCCTGGGACATGGCATTGGCACGT-ATAGAG
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTCG-ACGTGATAGAG
* * *
61969269 GTGTCAGTGTAAGACCATGTCTGGGACATGGCA-TCGACTTGATGGAT
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTCGACGTGATAGAG
*
61969316 GAG-CTAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTGTC-AGTGTAAGACCATGTCTGGGACATGGCAT
61969350 CGTCATTACA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
46 4 0.06
47 36 0.50
48 32 0.44
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (48 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTCGACGTGATAGAG
Found at i:61970524 original size:20 final size:21
Alignment explanation
Indices: 61970485--61970524 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61970475 GTTATAATGA
61970485 CCACACGGGCATGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
61970506 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCATGTTGCCCT
61970525 ATTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:61976536 original size:38 final size:38
Alignment explanation
Indices: 61976473--61976661 Score: 184
Period size: 38 Copynumber: 4.9 Consensus size: 38
61976463 ATTTGATGTG
* *
61976473 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
* *
61976513 TATCCGGGTTAAATCTCGCAGGCTTCGTGCTAGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GGAATTA
* *
61976551 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
61976589 TATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
61976627 TATCTGAGTTTAAAGTCCCGTAGGCTTCATGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGG
61976662 TGTTATGTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
37 3 0.02
38 85 0.68
39 14 0.11
40 23 0.18
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:61976582 original size:76 final size:78
Alignment explanation
Indices: 61976482--61976661 Score: 231
Period size: 76 Copynumber: 2.3 Consensus size: 78
61976472 GTATCCGGGC
* * * * *
61976482 TTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCTCGCAGGCTTCGTGCTAG
1 TTAAAGTCCCGCAGGCT-TCATGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTAG
61976546 TAATATATCTG-GG
65 TAATATATCTGAGG
* * *
61976559 TTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGT
1 TTAAAGTCCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTAGT
* *
61976623 ATTATATCTGAGT
66 AATATATCTGAGG
*
61976636 TTAAAGTCCCGTAGGCTTCATGCTGG
1 TTAAAGTCCCGCAGGCTTCATGCTGG
61976662 TGTTATGTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.01
76 58 0.66
77 11 0.12
78 18 0.20
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (78 bp):
TTAAAGTCCCGCAGGCTTCATGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTAGT
AATATATCTGAGG
Found at i:61990607 original size:47 final size:48
Alignment explanation
Indices: 61990539--61990708 Score: 163
Period size: 47 Copynumber: 3.6 Consensus size: 48
61990529 TTTGTACGCT
* *
61990539 AGTGTAAGA-CATGTCTGGGACAT-TCATCGGCCACAT-TATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGTATA-GAGGAGCC
* *
61990585 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGAGCC
* * * * * *
61990633 AGTGTAAGACCATGTCTAGGACATGGCATC--AACTTGATGGATGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-ATAGAGGAGCC
* *
61990680 ATTGTAAGACCATGTCTAGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
61990709 TGGTATTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
46 12 0.11
47 54 0.51
48 40 0.38
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGAGCC
Found at i:61993917 original size:20 final size:20
Alignment explanation
Indices: 61993894--61993934 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
61993884 AAAGAAAGAT
61993894 AAAATAAATCGTTAGCTCAA
1 AAAATAAATCGTTAGCTCAA
*
61993914 AAAATAAATTGTTAGCTCAA
1 AAAATAAATCGTTAGCTCAA
61993934 A
1 A
61993935 CATCTCAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (20 bp):
AAAATAAATCGTTAGCTCAA
Found at i:62016809 original size:37 final size:37
Alignment explanation
Indices: 62016759--62016861 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
62016749 CAAATAGTCC
62016759 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
62016796 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
*
62016833 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTTATCGGGTCTTACCCGGA
62016862 ATACATTTCC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
Found at i:62016966 original size:48 final size:48
Alignment explanation
Indices: 62016905--62017277 Score: 611
Period size: 48 Copynumber: 7.8 Consensus size: 48
62016895 TGTTACAACA
* * *
62016905 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
62016953 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
62017001 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
62017049 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
62017097 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
62017145 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
62017193 TTCACATTAGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
62017241 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
62017278 TTATCTTGTA
Statistics
Matches: 305, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 305 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:62025480 original size:26 final size:26
Alignment explanation
Indices: 62025451--62025574 Score: 83
Period size: 27 Copynumber: 4.7 Consensus size: 26
62025441 TTAGTTTACC
*
62025451 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTACTGAAATACCCCCAGTTATA
* *
62025477 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCCC-AGTTATA
** * * *
62025504 AAATTACCCAAATATCCTCGATTTATA
1 AAATTACTGAAATA-CCCCCAGTTATA
**
62025531 AAATTA-TCGAAATACCCTTAGTT-TGCA
1 AAATTACT-GAAATACCCCCAGTTAT--A
62025558 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
62025575 TCGACATGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
25 4 0.05
26 19 0.24
27 48 0.61
28 8 0.10
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATTACTGAAATACCCCCAGTTATA
Found at i:62025525 original size:27 final size:27
Alignment explanation
Indices: 62025475--62025536 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
62025465 CCCCCAGTTG
62025475 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCAAAGTACCCCCGATTTA
* *
62025502 TAAAATTACCCAAA-TATCCTCGATTTA
1 TAAAATTA-CCAAAGTACCCCCGATTTA
62025529 TAAAATTA
1 TAAAATTA
62025537 TCGAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAGTACCCCCGATTTA
Found at i:62025646 original size:27 final size:27
Alignment explanation
Indices: 62025597--62026005 Score: 525
Period size: 27 Copynumber: 15.2 Consensus size: 27
62025587 ATTATCAAAG
* *
62025597 TACCATCGAATTACA-AATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
62025623 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* **
62025650 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
62025677 TACCCTCGATTTATAGAACTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
62025704 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
62025731 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
62025758 TACCCTCGATTTACTGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
62025785 TACCTTCGATTGACAGAATTACTAGTT
1 TACCCTCGATTTACAGAATTACTATTT
62025812 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
62025839 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * * *
62025866 TACCCTTGATTTGCAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
62025893 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
62025920 TACCCTCGATTTACAAAACTACTGA-TT
1 TACCCTCGATTTACAGAATTACT-ATTT
* *
62025947 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
62025974 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
62026001 TACCC
1 TACCC
62026006 CTAGGGTGTT
Statistics
Matches: 333, Mismatches: 47, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
26 12 0.04
27 320 0.96
28 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:62026286 original size:27 final size:26
Alignment explanation
Indices: 62026242--62026293 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
62026232 CTTACTGCAA
*
62026242 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
62026269 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
62026294 GCAGCTTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:62026361 original size:26 final size:27
Alignment explanation
Indices: 62026332--62026391 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
62026322 CCACATATAT
*
62026332 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
62026358 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
62026385 ATATCTG
1 ATATCTG
62026392 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:62026557 original size:31 final size:31
Alignment explanation
Indices: 62026522--62026625 Score: 109
Period size: 31 Copynumber: 3.2 Consensus size: 31
62026512 TCTGATATTG
*
62026522 ATTCTGTTACCTAATACTGATTCTAATTCTA
1 ATTCTGTCACCTAATACTGATTCTAATTCTA
*
62026553 ATTCTGTCACCTAATTCTGATTTTGATTCTAATTCTA
1 ATTCTGTCACCTAA---T-A--CTGATTCTAATTCTA
* * *
62026590 ATTCTGTCACCTGATTCTGATTCTAATTCTG
1 ATTCTGTCACCTAATACTGATTCTAATTCTA
62026621 ATTCT
1 ATTCT
62026626 CATTTTGATT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
31 31 0.51
34 2 0.03
35 1 0.02
37 27 0.44
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (31 bp):
ATTCTGTCACCTAATACTGATTCTAATTCTA
Found at i:62026580 original size:37 final size:37
Alignment explanation
Indices: 62026538--62026625 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
62026528 TTACCTAATA
62026538 CTGATTCTAATTCTAATTCTGTCACCTAATTCTGATT
1 CTGATTCTAATTCTAATTCTGTCACCTAATTCTGATT
* *
62026575 TTGATTCTAATTCTAATTCTGTCACCTGATTCTGATT
1 CTGATTCTAATTCTAATTCTGTCACCTAATTCTGATT
* *
62026612 CTAATTCTGATTCT
1 CTGATTCTAATTCT
62026626 CATTTTGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.48
Consensus pattern (37 bp):
CTGATTCTAATTCTAATTCTGTCACCTAATTCTGATT
Found at i:62026586 original size:18 final size:18
Alignment explanation
Indices: 62026538--62026625 Score: 71
Period size: 18 Copynumber: 5.1 Consensus size: 18
62026528 TTACCTAATA
*
62026538 CTGATTCTAATTCTAATT
1 CTGATTCTAATTCTGATT
*
62026556 CTG-TCACCTAATTCTGATT
1 CTGAT--TCTAATTCTGATT
* *
62026575 TTGATTCTAATTCTAATT
1 CTGATTCTAATTCTGATT
*
62026593 CTG--TC--A-CCTGATT
1 CTGATTCTAATTCTGATT
62026606 CTGATTCTAATTCTGATT
1 CTGATTCTAATTCTGATT
62026624 CT
1 CT
62026626 CATTTTGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
13 8 0.15
14 1 0.02
15 2 0.04
16 2 0.04
17 2 0.04
18 24 0.45
19 13 0.25
20 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.48
Consensus pattern (18 bp):
CTGATTCTAATTCTGATT
Found at i:62026609 original size:6 final size:6
Alignment explanation
Indices: 62026566--62026646 Score: 58
Period size: 6 Copynumber: 13.3 Consensus size: 6
62026556 CTGTCACCTA
* * * * *
62026566 ATTCTG ATTTTG ATTCTA ATTCTA ATTCTG -TCACCTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
62026615 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
62026647 CATGTTTCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
5 2 0.03
6 51 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:62026620 original size:12 final size:12
Alignment explanation
Indices: 62026541--62026646 Score: 72
Period size: 12 Copynumber: 8.7 Consensus size: 12
62026531 CCTAATACTG
*
62026541 ATTCTAATTCTA
1 ATTCTGATTCTA
*
62026553 ATTCTG-TCACCTA
1 ATTCTGAT--TCTA
* *
62026566 ATTCTGATTTTG
1 ATTCTGATTCTA
*
62026578 ATTCTAATTCTA
1 ATTCTGATTCTA
* *
62026590 ATTCTG-TCACCTG
1 ATTCTGAT--TCTA
62026603 ATTCTGATTCTA
1 ATTCTGATTCTA
*
62026615 ATTCTGATTCTC
1 ATTCTGATTCTA
*
62026627 ATTTTGATTCTA
1 ATTCTGATTCTA
*
62026639 GTTCTGAT
1 ATTCTGAT
62026647 CATGTTTCTT
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
11 2 0.03
12 49 0.70
13 17 0.24
14 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:62027811 original size:20 final size:21
Alignment explanation
Indices: 62027786--62027827 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
62027776 TTCTGAACTG
*
62027786 TATGATGAT-AGCATACGAAA
1 TATGATAATGAGCATACGAAA
*
62027806 TATGATAATGAGCATATGAAA
1 TATGATAATGAGCATACGAAA
62027827 T
1 T
62027828 GTATAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (21 bp):
TATGATAATGAGCATACGAAA
Found at i:62037262 original size:27 final size:27
Alignment explanation
Indices: 62037232--62037333 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
62037222 CCCAAATTAA
* * *
62037232 TAAAGTGACTATTTTGCCCTGATGTGG
1 TAAAATGACTATTTTGCCCTTATATGG
* * *
62037259 TAAAATGATTGTTTTGCCCTATATATGA
1 TAAAATGACTATTTTGCCCT-TATATGG
62037287 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* * *
62037314 TAAGATGACTGTTTTTCCCT
1 TAAAATGACTATTTTGCCCT
62037334 ATGTGATGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
27 40 0.65
28 22 0.35
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:62037298 original size:55 final size:55
Alignment explanation
Indices: 62037231--62037335 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 55
62037221 CCCCAAATTA
* * *
62037231 ATAAAGTGACTATTTTGCCCTGATGTGGTAAAATGATTGTTTTGCCCTATATATG
1 ATAAAATGACTATTTTGCCCTGATATGGTAAAATGACTGTTTTGCCCTATATATG
* * *
62037286 ATAAAATGACTATTTTGCCCTTATATGGTAAGATGACTGTTTTTCCCTAT
1 ATAAAATGACTATTTTGCCCTGATATGGTAAAATGACTGTTTTGCCCTAT
62037336 GTGATGTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (55 bp):
ATAAAATGACTATTTTGCCCTGATATGGTAAAATGACTGTTTTGCCCTATATATG
Found at i:62045769 original size:26 final size:25
Alignment explanation
Indices: 62045740--62045790 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
62045730 ATTTTTCAAA
62045740 AATATGAAATA-TAAACTGAATTGAAT
1 AATA-GAAATATTAAAC-GAATTGAAT
* *
62045766 AATAGAAGTATTAAACGGATTGAAT
1 AATAGAAATATTAAACGAATTGAAT
62045791 TTGTATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (25 bp):
AATAGAAATATTAAACGAATTGAAT
Found at i:62049946 original size:75 final size:74
Alignment explanation
Indices: 62049800--62049946 Score: 161
Period size: 75 Copynumber: 2.0 Consensus size: 74
62049790 AGAGAAATTA
* * * * * *
62049800 ATATTCTTTTGAAAGAATATAATTTATTTTTCTAACATTCAATTTGGCTTCTCTACTAGTAAGGG
1 ATATTATTTTGAAAGAATATAATTCATTTTTCTAACATTCAATTTGCCTTCTCTACTAATAAAGA
62049865 GATAATCCT
66 GATAATCCT
* ** * * *
62049874 ATATTATTTTGAAAAGAATATAATTCCTTTTTCTAATTTTCCATTTGCCTTCTTTATTAATAAA-
1 ATATTATTTTG-AAAGAATATAATTCATTTTTCTAACATTCAATTTGCCTTCTCTACTAATAAAG
62049938 AGAGTAATC
65 AGA-TAATC
62049947 TTGTTTTCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
74 12 0.20
75 47 0.80
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (74 bp):
ATATTATTTTGAAAGAATATAATTCATTTTTCTAACATTCAATTTGCCTTCTCTACTAATAAAGA
GATAATCCT
Found at i:62054165 original size:45 final size:45
Alignment explanation
Indices: 62054097--62054228 Score: 210
Period size: 45 Copynumber: 2.9 Consensus size: 45
62054087 AGGCACGATA
* * *
62054097 TCACCGGTACTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
62054142 TCACCGGCATTGTAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
62054187 TCACCTGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
62054229 GTCGTATGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 79 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:62061157 original size:45 final size:45
Alignment explanation
Indices: 62061107--62061238 Score: 212
Period size: 45 Copynumber: 2.9 Consensus size: 45
62061097 AGGCATGATA
*
62061107 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCTCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* *
62061152 TCACCGGAATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
62061197 TCACCGGCATTATAACCTGCTAGGCTCAAAGGCCCGAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
62061239 GTCGTATGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 3 0.04
45 77 0.96
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:62067290 original size:46 final size:46
Alignment explanation
Indices: 62067238--62067466 Score: 207
Period size: 46 Copynumber: 4.8 Consensus size: 46
62067228 GATATTTGGG
* *
62067238 CATCCGAACTCGTTGAGTTGAGTTCAAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAA
62067284 CATCCGAACTCGTTGAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAG-T---T-CGAGTTCACTTATGGATGCAAA
* * * * *
62067335 CGTCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAAATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATG-GATGCAA--A
*
62067380 GGCATCCGAACTCGTTGAGTTGAG-TCTAAGTTCACTTATGGATGCAAA
1 --CATCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATGCAAA
** * * *
62067428 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGG
62067467 GTGGGTTACA
Statistics
Matches: 148, Mismatches: 19, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
42 4 0.03
43 5 0.03
45 2 0.01
46 58 0.39
47 25 0.17
48 2 0.01
50 7 0.05
51 45 0.30
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAA
Found at i:62067325 original size:51 final size:51
Alignment explanation
Indices: 62067249--62067357 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
62067239 ATCCGAACTC
* *
62067249 GTTGAGTTGAGTTCAAGTTCACTTATGGATGCGAACATCCGAACTCGTTGA
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACATCCGAACTCGTTGA
* *
62067300 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGA
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACATCCGAACTCGTTGA
62067351 GTTGAGT
1 GTTGAGT
62067358 CCGAGTTTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACATCCGAACTCGTTGA
Found at i:62071951 original size:46 final size:45
Alignment explanation
Indices: 62071808--62071951 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
62071798 CCCGCCCATA
*
62071808 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* * *
62071857 --CGAACTCGGACTCAACTCAACGAGTTC--A-GACATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
62071900 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
62071947 AGTGA
1 AGTGA
62071952 CATGTCACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 2 0.03
45 1 0.01
46 31 0.40
47 26 0.33
48 6 0.08
49 2 0.03
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:62075788 original size:42 final size:42
Alignment explanation
Indices: 62075736--62075854 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 42
62075726 TGAGTTTACG
* * ****
62075736 TGTAGGACCATATCTAGGATATGGAATTGATATGAGATTTTT
1 TGTAAGACCATATCTAGGATATGGCATTGATATGAGATCCCA
* * * *
62075778 TGTAAGACCATAGCTAGGCTATTGGCATCGATTTGAGATCCCA
1 TGTAAGACCATATCTAGGATA-TGGCATTGATATGAGATCCCA
* * *
62075821 TGTAAGACTATATCTGGGATATGGCATTGGTATG
1 TGTAAGACCATATCTAGGATATGGCATTGATATG
62075855 GTACTATGTG
Statistics
Matches: 59, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATTGATATGAGATCCCA
Found at i:62077052 original size:21 final size:21
Alignment explanation
Indices: 62077028--62077076 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
62077018 TGCCAACATG
62077028 GGCGTGTCCCAAAGCCACACC
1 GGCGTGTCCCAAAGCCACACC
62077049 GGCGTGTCCCAAAGCCACACC
1 GGCGTGTCCCAAAGCCACACC
62077070 GGCGTGT
1 GGCGTGT
62077077 AAACCTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (21 bp):
GGCGTGTCCCAAAGCCACACC
Found at i:62078824 original size:30 final size:30
Alignment explanation
Indices: 62078743--62078816 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
62078733 ATGGTCGTCA
* **
62078743 CCATCGCTTTTCATAAAGGGATAGCCAAAG
1 CCATCCCTTTTCATAAATTGATAGCCAAAG
* *
62078773 CTATCCCTTTTCATAAATTGATAGCCAAAT
1 CCATCCCTTTTCATAAATTGATAGCCAAAG
62078803 CCATCCCTTTTCAT
1 CCATCCCTTTTCAT
62078817 TTTTTGATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (30 bp):
CCATCCCTTTTCATAAATTGATAGCCAAAG
Found at i:62084368 original size:40 final size:40
Alignment explanation
Indices: 62084306--62084400 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
62084296 ACCATGTTCG
62084306 GCACTAAGTGTGCG-ATTCAAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCGAATTCAAAATAGCTTCGGCTATAAA-A
* *
62084346 GCACTAAGTGTGCGAATT-AAAATAGCTTTGGCTATATAA
1 GCACTAAGTGTGCGAATTCAAAATAGCTTCGGCTATAAAA
62084385 GCCACTAAGTGTGCGA
1 G-CACTAAGTGTGCGA
62084401 TACCGGGATA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 2 0.04
40 46 0.90
41 3 0.06
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACTAAGTGTGCGAATTCAAAATAGCTTCGGCTATAAAA
Found at i:62084487 original size:17 final size:17
Alignment explanation
Indices: 62084465--62084498 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
62084455 GCTTCGGCTA
62084465 ATCATTAATGCACTAAG
1 ATCATTAATGCACTAAG
62084482 ATCATTAATGCACTAAG
1 ATCATTAATGCACTAAG
62084499 TTTGCGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
ATCATTAATGCACTAAG
Found at i:62084615 original size:20 final size:20
Alignment explanation
Indices: 62084592--62084654 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
62084582 GGAAATATCA
62084592 GGTATGTACGATACCTATGT
1 GGTATGTACGATACCTATGT
* *
62084612 GGTA-G-ATGATA-CTATATT
1 GGTATGTACGATACCTAT-GT
62084630 AGGTATGTACGATACCTATGT
1 -GGTATGTACGATACCTATGT
62084651 GGTA
1 GGTA
62084655 AATGATACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 4 0.12
18 6 0.18
19 5 0.15
20 9 0.26
21 6 0.18
22 4 0.12
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (20 bp):
GGTATGTACGATACCTATGT
Found at i:62084645 original size:39 final size:39
Alignment explanation
Indices: 62084586--62084665 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
62084576 AATACGGGAA
*
62084586 ATATCAGGTATGTACGATACCTATGTGGTAGATGATACT
1 ATATCAGGTATGTACGATACCTATGTGGTAAATGATACT
*
62084625 ATATTAGGTATGTACGATACCTATGTGGTAAATGATACT
1 ATATCAGGTATGTACGATACCTATGTGGTAAATGATACT
62084664 AT
1 AT
62084666 GTGTATGAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (39 bp):
ATATCAGGTATGTACGATACCTATGTGGTAAATGATACT
Found at i:62088214 original size:24 final size:24
Alignment explanation
Indices: 62088187--62088278 Score: 157
Period size: 24 Copynumber: 3.8 Consensus size: 24
62088177 GTCAGAAGAA
62088187 GATTTAGGAGCTGATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
62088211 GATTTAGGAGCTGATAAGGGAGAG
1 GATTTAGGAGCTGATAAGGGAGAG
* *
62088235 GATTTAGGAGCTGATAAAGGAGAA
1 GATTTAGGAGCTGATAAGGGAGAG
62088259 GATTTAGGAGCTGATCAAGG
1 GATTTAGGAGCTGAT-AAGG
62088279 AGCAAGAGTT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
24 61 0.95
25 3 0.05
ACGTcount: A:0.35, C:0.05, G:0.38, T:0.22
Consensus pattern (24 bp):
GATTTAGGAGCTGATAAGGGAGAG
Found at i:62088598 original size:43 final size:43
Alignment explanation
Indices: 62088538--62088623 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
62088528 AGCTGAAATC
*
62088538 CCTAAAACTATAGTTTTTTCTGTGCCGATTTATCCTAGCCAAT
1 CCTAAAACTATACTTTTTTCTGTGCCGATTTATCCTAGCCAAT
62088581 CCTAAAACTATACTTTTTTCTGTGCCGATTTATCCTAGCCAAT
1 CCTAAAACTATACTTTTTTCTGTGCCGATTTATCCTAGCCAAT
62088624 TTTATTATCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (43 bp):
CCTAAAACTATACTTTTTTCTGTGCCGATTTATCCTAGCCAAT
Found at i:62093619 original size:27 final size:27
Alignment explanation
Indices: 62093591--62093746 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
62093581 TGCTATACAA
* *
62093591 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAACTCGCACACTTAGTGCCACATAG
* * *
62093618 TCAAATCGCGCACTTAGTGCTACATAG
1 TCAACTCGCACACTTAGTGCCACATAG
* * *
62093645 TTAGACTCGCACACTTAGTGCCGCATGG
1 TCA-ACTCGCACACTTAGTGCCACATAG
* *
62093673 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAACTCGCACACTTAGTGCCA-CATAG
** *
62093700 TCATTTCGCACACTTAGTGCAACATAG
1 TCAACTCGCACACTTAGTGCCACATAG
62093727 TCGAA-TCGCACACTTAGTGC
1 TC-AACTCGCACACTTAGTGC
62093747 TGTACAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.77
28 23 0.22
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (27 bp):
TCAACTCGCACACTTAGTGCCACATAG
Found at i:62093655 original size:55 final size:55
Alignment explanation
Indices: 62093570--62093747 Score: 195
Period size: 54 Copynumber: 3.3 Consensus size: 55
62093560 ATATTGAGCC
* * *
62093570 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * * *
62093624 CGCGCACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
62093679 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
62093733 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62093748 GTACAATTTA
Statistics
Matches: 102, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 55 0.54
55 44 0.43
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:62093714 original size:82 final size:81
Alignment explanation
Indices: 62093591--62093746 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
62093581 TGCTATACAA
* * * *
62093591 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCGCACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
62093656 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
62093673 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
62093737 CACTTAGTGC
65 CACTTAGTGC
62093747 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 20 0.31
82 44 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:62099337 original size:24 final size:24
Alignment explanation
Indices: 62099310--62099383 Score: 112
Period size: 24 Copynumber: 3.0 Consensus size: 24
62099300 AAGGCTGTCA
62099310 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
62099334 GGAGAGGATTTAGGAGTTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
62099358 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
62099383 G
1 G
62099384 AGCAGGACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 40 0.93
25 3 0.07
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:62101047 original size:46 final size:46
Alignment explanation
Indices: 62100980--62101157 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
62100970 TGTAACCCGC
* * *
62100980 CCATAAGTGAACTCGGACTCAACTCAATGAGCCCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * *
62101026 CCATAAGTGAACTCGGACTCAACTCAACGAGGTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * **
62101072 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
62101119 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
62101158 CCCAAATATC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:62101116 original size:93 final size:93
Alignment explanation
Indices: 62100988--62101159 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
62100978 GCCCATAAGT
* ***
62100988 GAACTCGGACTCAACTCAATGAGCCCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62101053 CGAGGTCGGATGCCTAGTTACATCTCTC
66 CGAGGTCGGATGCCTAGTTACATCTCTC
**
62101081 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
62101146 CGAGTTCGGATGCC
66 CGAGGTCGGATGCC
62101160 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGGTCGGATGCCTAGTTACATCTCTC
Found at i:62106145 original size:93 final size:93
Alignment explanation
Indices: 62106033--62106204 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
62106023 GCCCATAACT
* *
62106033 GAACTCGGACTCAAATCAACGAGCCCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAAATCAACGAGCCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62106098 CGAGGTCGGATGCCTAGTTACATCTCTC
66 CGAGGTCGGATGCCTAGTTACATCTCTC
* **
62106126 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAAATCAACGAGCCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
62106191 CGAGTTCGGATGCC
66 CGAGGTCGGATGCC
62106205 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAAATCAACGAGCCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGGTCGGATGCCTAGTTACATCTCTC
Found at i:62106200 original size:46 final size:46
Alignment explanation
Indices: 62106025--62106200 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
62106015 TGTAACCCGC
* ** *
62106025 CCATAACTGAACTCGGACTCAAATCAACGAGCCCGGGCATTCGCAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
62106071 CCATAAGTGAACTCGGACTCAACTCAACGAGGTCGG--ATGC-CTAGTT
1 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ** *
62106117 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAACT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
62106164 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGA
62106201 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 65 0.61
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62106219 original size:46 final size:44
Alignment explanation
Indices: 62106076--62106219 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
62106066 CGCATCCATA
* *
62106076 AGTGAACTCGGACTCAACTCAACGAGGTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
62106125 --CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
62106168 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
62106215 AGTGA
1 AGTGA
62106220 CATGTCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 32 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:62115640 original size:41 final size:41
Alignment explanation
Indices: 62115573--62115726 Score: 193
Period size: 41 Copynumber: 3.8 Consensus size: 41
62115563 TCAGGATTTA
*
62115573 AATCCGAGCTTGGTCTCGAAGAGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
62115614 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
62115655 AA-CCGAACCTAGTTTTGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
62115695 AATCCGAGCTTGGTCTCGAAGGGCTTCTTGAG
1 AATCCGAGCTTGGTCTCGAAGGGCTT-TTGAG
62115727 TCAGCGCTAA
Statistics
Matches: 91, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
40 30 0.33
41 58 0.64
42 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:62117835 original size:10 final size:10
Alignment explanation
Indices: 62117810--62117857 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
62117800 CAATTCTATC
62117810 AAAAA-TAAT
1 AAAAATTAAT
*
62117819 CAAAATTAAT
1 AAAAATTAAT
62117829 AAAAATTAATT
1 AAAAATTAA-T
62117840 ATAAAATTAAT
1 A-AAAATTAAT
*
62117851 TAAAATT
1 AAAAATT
62117858 CAACATGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 4 0.12
10 18 0.55
11 3 0.09
12 8 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:62117847 original size:12 final size:11
Alignment explanation
Indices: 62117820--62117855 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
62117810 AAAAATAATC
62117820 AAAATTAA-TA
1 AAAATTAATTA
62117830 AAAATTAATTA
1 AAAATTAATTA
62117841 TAAAATTAATTA
1 -AAAATTAATTA
62117853 AAA
1 AAA
62117856 TTCAACATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 5 0.21
12 11 0.46
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:62119828 original size:23 final size:24
Alignment explanation
Indices: 62119784--62119829 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
62119774 GCATCATATT
* *
62119784 TCATATACGAAAATCAAACCATAA
1 TCATATACCAAAACCAAACCATAA
*
62119808 TCATA-ACCAAAACCAAGCCATA
1 TCATATACCAAAACCAAACCATA
62119830 TCACATGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.17
Consensus pattern (24 bp):
TCATATACCAAAACCAAACCATAA
Found at i:62120458 original size:42 final size:42
Alignment explanation
Indices: 62120358--62120486 Score: 147
Period size: 42 Copynumber: 3.0 Consensus size: 42
62120348 AGCTCGTACA
* *
62120358 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGAC-AGGTCTTACATGAAATCAAATATCG
62120401 ATGCCACTGTCCCAGACAGGTTCTTACATGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACAGG-TCTTACATGAAATCAAATATCG
* * *
62120443 ATGCTGA-TGTCCCAGACATGGTCTTACATGAAAACACATATCG
1 ATGC-CACTGTCCCAGACA-GGTCTTACATGAAATCAAATATCG
62120486 A
1 A
62120487 ATCCTATGTC
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
42 38 0.50
43 38 0.50
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGTCTTACATGAAATCAAATATCG
Found at i:62124731 original size:43 final size:43
Alignment explanation
Indices: 62124670--62124753 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
62124660 GTTATGTGAA
* *
62124670 TCGCATCCATCATGAACTCGGACCACTCAACGAGCTTGGATTC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCGGATTC
*
62124713 TCGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGAT
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCGGAT
62124754 GCTACATACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCGGATTC
Found at i:62126177 original size:12 final size:12
Alignment explanation
Indices: 62126160--62126186 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62126150 ACTGGTTTGG
62126160 CACGGCCTAGCA
1 CACGGCCTAGCA
62126172 CACGGCCTAGCA
1 CACGGCCTAGCA
62126184 CAC
1 CAC
62126187 AGGCATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.22, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:62130265 original size:28 final size:26
Alignment explanation
Indices: 62130234--62130296 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
62130224 AATTACTTGA
* **
62130234 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
62130262 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
62130288 ATACCCCTA
1 ATACCCCTA
62130297 ACGGTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 21 0.68
27 1 0.03
28 9 0.29
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:62130442 original size:27 final size:27
Alignment explanation
Indices: 62130402--62130500 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
62130392 AGGAAGCGTC
*
62130402 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
62130429 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* * *
62130456 TTGGTGGATCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
62130484 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
62130501 TTACCTGTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
26 2 0.03
27 42 0.71
28 15 0.25
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:62130509 original size:54 final size:54
Alignment explanation
Indices: 62130403--62130509 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
62130393 GGAAGCGTCC
* * *
62130403 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTT
1 TGGTGGATATGCCACAATTATCTGATCTGGTGACTCTGCCACATATACCTGTTT
* * *
62130457 TGGTGGATCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TACCTGTT
1 TGGTGGATATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATACCTGTT
62130510 CTAGCAGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (54 bp):
TGGTGGATATGCCACAATTATCTGATCTGGTGACTCTGCCACATATACCTGTTT
Found at i:62132857 original size:39 final size:39
Alignment explanation
Indices: 62132814--62132932 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
62132804 GTCCAGCACG
** *
62132814 TAGCCTGTAGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
62132853 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
62132892 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
62132931 TA
1 TA
62132933 TATATTCACA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:62141001 original size:39 final size:39
Alignment explanation
Indices: 62140975--62141132 Score: 253
Period size: 39 Copynumber: 4.1 Consensus size: 39
62140965 GTCCAGCACG
*
62140975 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
62141014 TAGCCTACGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
62141053 TAGCCTGCGGACCTGAAGTCCGAATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
62141092 TAGCCTGCGGACCTGAAGTCCGGATATAATCCTCGCGTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
62141131 TA
1 TA
62141133 TATATTCACA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Done.