Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 259 of 333
Found at i:85342382 original size:22 final size:20
Alignment explanation
Indices: 85342339--85342397 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
85342329 TCAAATAGAG
*
85342339 AAAAATAAGTTTTTAATCTTTT
1 AAAAATAA-TTTTT-ATATTTT
*
85342361 AAAGATTATATTTTTATATTTT
1 AAA-AATA-ATTTTTATATTTT
85342383 AAAAATAATTTTTAT
1 AAAAATAATTTTTAT
85342398 TATAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.25
21 3 0.09
22 12 0.38
23 8 0.25
24 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
AAAAATAATTTTTATATTTT
Found at i:85343261 original size:13 final size:14
Alignment explanation
Indices: 85343242--85343318 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
85343232 TACAATATTC
85343242 ATATATTTTAATTTT
1 ATAT-TTTTAATTTT
*
85343257 ATATTTTTAATTTCG
1 ATATTTTTAATTT-T
* *
85343272 AGAATTTTTAAATTT
1 A-TATTTTTAATTTT
85343287 ATATATTTTAAGTTTTT
1 ATAT-TTTTAA--TTTT
* *
85343304 ATAATTTTATTTTT
1 ATATTTTTAATTTT
85343318 A
1 A
85343319 GATAATTGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
14 16 0.33
15 12 0.24
16 15 0.31
17 6 0.12
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (14 bp):
ATATTTTTAATTTT
Found at i:85343925 original size:18 final size:19
Alignment explanation
Indices: 85343886--85343926 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
85343876 ATTATTTGGA
*
85343886 TATTATATAATTCTTGTTT
1 TATTATATAATTCTTGTAT
85343905 TATTAT-TAATT-TTGCTAT
1 TATTATATAATTCTTG-TAT
85343923 TATT
1 TATT
85343927 TTAGTGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTATATAATTCTTGTAT
Found at i:85349381 original size:14 final size:14
Alignment explanation
Indices: 85349362--85349390 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
85349352 GAGAAATAAG
85349362 AAGCTGACGTGGAT
1 AAGCTGACGTGGAT
85349376 AAGCTGACGTGGAT
1 AAGCTGACGTGGAT
85349390 A
1 A
85349391 CTTTTTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (14 bp):
AAGCTGACGTGGAT
Found at i:85352029 original size:69 final size:69
Alignment explanation
Indices: 85351918--85352055 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
85351908 CTTCCCATTG
* *
85351918 GATGTCTATTAGTAGATAATGTGCCTCATTAAAACCTTATTAGGAAAAACCCTGT-AGGATAAAA
1 GATGTCCATTAGTAGATAATGTGCCTCATTAAAACCTTATTAGGAAAAACCCTATGA-GATAAAA
85351982 ACCTA
65 ACCTA
* * *
85351987 GATGTCCATTGGTAGATAATGTGCCTCGTTAAAACCTTATTAGGAAAAGCCCTATGAGATAAAAA
1 GATGTCCATTAGTAGATAATGTGCCTCATTAAAACCTTATTAGGAAAAACCCTATGAGATAAAAA
85352052 CCTA
66 CCTA
85352056 ATGAATGAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
69 62 0.98
70 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (69 bp):
GATGTCCATTAGTAGATAATGTGCCTCATTAAAACCTTATTAGGAAAAACCCTATGAGATAAAAA
CCTA
Found at i:85365968 original size:20 final size:20
Alignment explanation
Indices: 85365943--85365985 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
85365933 AATAACCATA
85365943 GGCCATATCATAATGACATT
1 GGCCATATCATAATGACATT
85365963 GGCCATATCATAATGACATT
1 GGCCATATCATAATGACATT
85365983 GGC
1 GGC
85365986 ACATGCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (20 bp):
GGCCATATCATAATGACATT
Found at i:85367505 original size:19 final size:19
Alignment explanation
Indices: 85367481--85367556 Score: 107
Period size: 19 Copynumber: 3.8 Consensus size: 19
85367471 AATCTTTAAG
85367481 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
85367500 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
85367519 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
85367540 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
85367557 GATTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
19 32 0.62
20 3 0.06
21 9 0.17
22 8 0.15
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:85371037 original size:44 final size:44
Alignment explanation
Indices: 85370830--85371160 Score: 210
Period size: 44 Copynumber: 7.5 Consensus size: 44
85370820 GGGACAATGT
* *
85370830 AGATCAAAGA-AACAAGATTTGACATCCCTGTGTTTATAGGGAAAC
1 AGATCAAAGATAGC-AGATCTGACATCCCTGTGTTTATAGGG-AAC
* * * *
85370875 AGATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTACAGTGAAAC
1 AGATCAAAGATAGCAGATCTGACATC-CCTGTGTTTATAG-GGAAC
* ** * *
85370920 AGATCGAAGATTTCAG--CATGGCATCCCTATGTTTATAGGGAAC
1 AGATCAAAGATAGCAGATC-TGACATCCCTGTGTTTATAGGGAAC
* ** * *
85370963 AAATTGAAGATAGCAGAT-TTAGTATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAGATCTGA-CATCCCTGTGTTTATAGGGAAC
* * * *
85371007 AGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAAC
1 AGATCAAAGATAGCAGATCTGACATCCCTGTGTTTATAG-GGAAC
*** *
85371052 AGATCAAAGATTTTA-A-CATGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAGATC-TGACATCCCTGTGTTTATAGGGAAC
** * * * * *
85371095 A-AGTTGAAGATAGCAAATTTGGCATCCCTGTGTTTACAAGGAAC
1 AGA-TCAAAGATAGCAGATCTGACATCCCTGTGTTTATAGGGAAC
* *
85371139 AAATCGAAGACATAGCAGATCT
1 AGATC-AA-AGATAGCAGATCT
85371161 AATTTTCGGA
Statistics
Matches: 218, Mismatches: 51, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.00
43 31 0.14
44 106 0.49
45 67 0.31
46 13 0.06
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (44 bp):
AGATCAAAGATAGCAGATCTGACATCCCTGTGTTTATAGGGAAC
Found at i:85371085 original size:132 final size:132
Alignment explanation
Indices: 85370852--85371160 Score: 456
Period size: 132 Copynumber: 2.3 Consensus size: 132
85370842 CAAGATTTGA
* *
85370852 CATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTTACAGTGA
1 CATCCCTGTGTTTATAGGG-AACAGATCAAAGATAGCAGATCTGACACTCCTGTGCTTACAGCGA
* * *
85370917 AACAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAATTGAAGATAGCAGATT
65 AACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAATTGAAGATAGCAAATT
85370982 TAG
130 TAG
* *
85370985 TATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAA
1 CATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCCTGTGCTTACAGCGAA
* * *
85371050 ACAGATCAAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAAATTT
66 ACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAATTGAAGATAGCAAATTT
*
85371115 GG
131 AG
* * * *
85371117 CATCCCTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATCT
1 CATCCCTGTGTTTATAGGGAACAGATC-AA-AGATAGCAGATCT
85371161 AATTTTCGGA
Statistics
Matches: 158, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
132 126 0.80
133 20 0.13
134 12 0.08
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (132 bp):
CATCCCTGTGTTTATAGGGAACAGATCAAAGATAGCAGATCTGACACTCCTGTGCTTACAGCGAA
ACAGATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAATTGAAGATAGCAAATTT
AG
Found at i:85371310 original size:175 final size:175
Alignment explanation
Indices: 85371111--85372036 Score: 1555
Period size: 175 Copynumber: 5.3 Consensus size: 175
85371101 AAGATAGCAA
* * * * *
85371111 ATTTGGCATCCCTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATCTAATTTTCGGATGTTC
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTC
*
85371176 TCACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATA
66 TTACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATA
* *
85371241 GCTGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATG
131 GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATG
* * *
85371286 ATTTGGCATTATTGTGTTTACAAGGAACAAATCGAAAACATAGCAGATTTGACTTTTGGATGTTC
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTC
* * *
85371351 TCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCACTTCGACGGAGAGCAGGTACATA
66 TTACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATA
* *
85371416 GTAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATG
131 GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATG
* *
85371461 ATTTGGCATTCTTGTGTTTACAAGGAACAAATTGAAGACATAGTAGATTTGACTTTCGGATGTTC
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTC
* *
85371526 TTACACCAAAGTAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATA
66 TTACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATA
*
85371591 GCAGGTCTAACCTTCAGATGTTTATATTGAAGCAGATCTAAGATG
131 GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATG
* * **
85371636 ATTTGGCATTCTTGTGTTTACAAGAAACAAATTGAAGACATAGCAGATTTGACTTTCAAATGTTC
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTC
*
85371701 TTACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCTATTTCGACGGAGAGCAGGTACATA
66 TTACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATA
*
85371766 GAAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATG
131 GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATG
85371811 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTC
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTC
* *
85371876 TTACACCAAAGCAGATCCAAGATAACTAATCTGGCATCTCCATTTCGATGGAGAGCAGGTACATA
66 TTACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATA
*
85371941 GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATTTAAGATG
131 GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATG
* * *
85371986 ATTTGGTATTCTTGTGTTTATAAGGAACAAATCAAAGACATAGCAGATTTG
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTG
85372037 GCATTCACGT
Statistics
Matches: 707, Mismatches: 44, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 707 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (175 bp):
ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTC
TTACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATA
GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATG
Found at i:85372529 original size:19 final size:19
Alignment explanation
Indices: 85372505--85372602 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
85372495 AATCTTTAAG
85372505 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
85372524 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
85372543 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
85372560 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
85372579 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
85372600 GAT
1 GAT
85372603 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:85372535 original size:36 final size:35
Alignment explanation
Indices: 85372495--85372602 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
85372485 ATGGAAATAT
85372495 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
85372531 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
85372567 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
85372603 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:85377135 original size:46 final size:46
Alignment explanation
Indices: 85377065--85377237 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
85377055 TGTAACCCGC
* * *
85377065 CCATAAGCAAACTCGGACTTAACTCAACGAGCTCAGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCACAT
* * *
85377111 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCACAT
* * *
85377161 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCACAT
*
85377204 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
85377238 GGATGCTCAA
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 55 0.53
47 25 0.24
48 3 0.03
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCACAT
Found at i:85377187 original size:93 final size:93
Alignment explanation
Indices: 85377074--85377243 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
85377064 CCCATAAGCA
* *
85377074 AACTCGGACTTAACTCAACGAGCTCAGG-CGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTC-GGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
85377138 CGAGTTCGAATGCCTAGTTACATCTCACG
65 CGAGTTCGAATGCCTAGTTACATCTCACG
* * *
85377167 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAAC
*
85377232 GAGTTCGGATGC
66 GAGTTCGAATGC
85377244 TCAATCATCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGAATGCCTAGTTACATCTCACG
Found at i:85379727 original size:40 final size:40
Alignment explanation
Indices: 85379690--85379914 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
85379680 GCTACTCGTT
* * *
85379690 CAAATGACTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
85379730 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85379770 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
85379810 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
85379849 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
85379890 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
85379915 CATCATTCGA
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 117 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:85379874 original size:119 final size:120
Alignment explanation
Indices: 85379692--85379914 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
85379682 TACTCGTTCA
*
85379692 AATGACTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGACTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
85379757 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
85379812 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGACTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
85379874 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
85379915 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.74
120 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGACTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:85400198 original size:40 final size:40
Alignment explanation
Indices: 85400153--85400383 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
85400143 ATAACCACAA
* * * *
85400153 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
85400193 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
85400233 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
85400273 GCACAAATGCCTTC-GGTCTTAGCCTGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
85400312 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
85400352 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
85400384 CATTCAAATG
Statistics
Matches: 178, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 31 0.17
40 147 0.83
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:85421540 original size:13 final size:13
Alignment explanation
Indices: 85421522--85421546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85421512 TCGAGCACAC
85421522 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
85421535 GCCCGTGTCCCT
1 GCCCGTGTCCCT
85421547 CACACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:85432331 original size:13 final size:13
Alignment explanation
Indices: 85432313--85432338 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85432303 ATATTATAAT
85432313 TATTTTATGTTAA
1 TATTTTATGTTAA
85432326 TATTTTATGTTAA
1 TATTTTATGTTAA
85432339 AAATAAAAAT
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:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:85433747 original size:40 final size:40
Alignment explanation
Indices: 85433699--85433864 Score: 253
Period size: 40 Copynumber: 4.2 Consensus size: 40
85433689 GGACTAAGAT
*
85433699 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
85433739 TCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
85433779 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* ** * *
85433819 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GACTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
85433858 CCGAAGG
1 CCGAAGG
85433865 TACTTGGGTT
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 14 0.12
40 104 0.88
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:85441571 original size:33 final size:33
Alignment explanation
Indices: 85441529--85441597 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
85441519 AATGAAATGA
85441529 GATAAAAGATTATATCGTAATAAGCTCATCTAT
1 GATAAAAGATTATATCGTAATAAGCTCATCTAT
*
85441562 GATAAAAGATTATATCGTAATGAGCTCATCTAT
1 GATAAAAGATTATATCGTAATAAGCTCATCTAT
85441595 GAT
1 GAT
85441598 TGATTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (33 bp):
GATAAAAGATTATATCGTAATAAGCTCATCTAT
Found at i:85442025 original size:21 final size:21
Alignment explanation
Indices: 85441996--85442039 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
85441986 TTGTGAAAAT
85441996 GTTACTATGATGATGACATA-GC
1 GTTACTATGAT-ATG-CATATGC
85442018 GTTA-TATGATATGCATATGC
1 GTTACTATGATATGCATATGC
85442038 GT
1 GT
85442040 ATGAGAGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
20 7 0.33
21 6 0.29
22 4 0.19
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (21 bp):
GTTACTATGATATGCATATGC
Found at i:85443593 original size:50 final size:48
Alignment explanation
Indices: 85443489--85443712 Score: 212
Period size: 47 Copynumber: 4.7 Consensus size: 48
85443479 TTATTTGTGT
* *
85443489 GCTAGTGTAAGA-CATGTCTGGGATAT-GCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAATATGAGA
* *
85443535 GCTAGTGTAAGACCATGTCTTGGACATGGCATC-GGCACGAATATGCAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-AATATG--AGA
* * * * *
85443585 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAATAT-GAGA
*
85443634 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAAT-AT-GA-GA
* *
85443681 GCCAGTGTAAGACCATGGCTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
85443713 GGGCATTCTA
Statistics
Matches: 148, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 16 0.11
47 46 0.31
48 11 0.07
49 33 0.22
50 38 0.26
51 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAATATGAGA
Found at i:85443654 original size:49 final size:47
Alignment explanation
Indices: 85443533--85443712 Score: 182
Period size: 50 Copynumber: 3.7 Consensus size: 47
85443523 CACATTATGA
* * ** * * *
85443533 GAGCTAGTGTAAGACCATGTCTTGGACATGGCATCGGCACGAATATGCAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCG-AT-CG-AT
*
85443583 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAA-CTCGA--TCGAT
* * * *
85443633 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATCGAT
*
85443679 GAGCCAGTGTAAGACCATGGCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
85443713 GGGCATTCTA
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
46 4 0.04
47 31 0.27
48 4 0.04
49 33 0.29
50 36 0.32
51 4 0.04
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATCGAT
Found at i:85448634 original size:30 final size:30
Alignment explanation
Indices: 85448576--85448634 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
85448566 TTTACAAGCC
* * *
85448576 TAGGGGTCAAAGTGTAAATAAGTGAAAGTT
1 TAGGGGTCAAAATGCAAATAAGTAAAAGTT
**
85448606 TAGGGGTCAAAATGCAAATTTGTAAAAGT
1 TAGGGGTCAAAATGCAAATAAGTAAAAGT
85448635 ATGATTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (30 bp):
TAGGGGTCAAAATGCAAATAAGTAAAAGTT
Found at i:85453953 original size:17 final size:17
Alignment explanation
Indices: 85453931--85453964 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
85453921 AATCTTTGAG
85453931 AATTGCCACAACATTTT
1 AATTGCCACAACATTTT
**
85453948 AATTGCCTTAACATTTT
1 AATTGCCACAACATTTT
85453965 TCATTCATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (17 bp):
AATTGCCACAACATTTT
Found at i:85456248 original size:24 final size:24
Alignment explanation
Indices: 85456215--85456263 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
85456205 AGTCTGTCAA
**
85456215 ATAGGATTTAGGAGTTGATAAGGG
1 ATAGGATTTAGGAGCAGATAAGGG
*
85456239 ATAGGTTTTAGGAGCAGATAAGGG
1 ATAGGATTTAGGAGCAGATAAGGG
85456263 A
1 A
85456264 GGAAATCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.27
Consensus pattern (24 bp):
ATAGGATTTAGGAGCAGATAAGGG
Found at i:85457747 original size:27 final size:26
Alignment explanation
Indices: 85457682--85457793 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 26
85457672 AGGAAGCGTC
* * *
85457682 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCAC-ATTATCTGTT
*
85457709 CCGAGTG-CTCTGCCACATATATCTGTT
1 CTG-GTGACTCTGCCACAT-TATCTGTT
** *
85457736 CTGGTGGTTCTGCCATGATTATCTGTAT
1 CTGGTGACTCTGCCA-CATTATCTGT-T
* *
85457764 CTGGTGACTCTGTCACATTATCTCTT
1 CTGGTGACTCTGCCACATTATCTGTT
85457790 CTGG
1 CTGG
85457794 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
26 10 0.14
27 41 0.59
28 18 0.26
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:85460147 original size:28 final size:28
Alignment explanation
Indices: 85460089--85460319 Score: 204
Period size: 28 Copynumber: 8.3 Consensus size: 28
85460079 AGGCCATTAC
* * *
85460089 AAAGCCTTTGTTGCAAACCTCT---ATG
1 AAAGCCTTTGTGGCGAACCTCTGAAAGG
* *
85460114 AAAGCCTTTATGGCGAACCTCTGAGAGG
1 AAAGCCTTTGTGGCGAACCTCTGAAAGG
* * * *
85460142 AAAGCCTTTATGGAGAACCTTTGAAAAG
1 AAAGCCTTTGTGGCGAACCTCTGAAAGG
* *
85460170 AAAGCCTTTATGTCGAACCTCTGAAAGG
1 AAAGCCTTTGTGGCGAACCTCTGAAAGG
* *
85460198 AAAGCCTTTGTGGCAAACCTCCGTAAAGG
1 AAAGCCTTTGTGGCGAACCTCTG-AAAGG
* * * *
85460227 AAAGCTTTTGCGGCAAACCTCTACAAAGG
1 AAAGCCTTTGTGGCGAACCTCT-GAAAGG
*
85460256 AAAGCCTTTGTGGCGAACCTTTGTAAA-G
1 AAAGCCTTTGTGGCGAACCTCTG-AAAGG
*
85460284 AAAGCCTTTGTGAC-AACCTCTGATAAAGG
1 AAAGCCTTTGTGGCGAACCTCTG--AAAGG
85460313 AAA-CCTT
1 AAAGCCTT
85460320 GTGAGAATCT
Statistics
Matches: 171, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
25 19 0.11
27 7 0.04
28 91 0.53
29 54 0.32
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (28 bp):
AAAGCCTTTGTGGCGAACCTCTGAAAGG
Found at i:85461932 original size:45 final size:46
Alignment explanation
Indices: 85461880--85461966 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 46
85461870 TTTTTTTGAG
* *
85461880 AAAACCACATTCATTTCTAAATG-ATTCCATTTCTCCATTTCGAAA
1 AAAACCACAATCATTTCTAAATGTATTCCATTTATCCATTTCGAAA
* * *
85461925 AAAACCACAATCATTTCTGAATGTATTCTATTTATCTATTTC
1 AAAACCACAATCATTTCTAAATGTATTCCATTTATCCATTTC
85461967 TATTTATTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 21 0.58
46 15 0.42
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (46 bp):
AAAACCACAATCATTTCTAAATGTATTCCATTTATCCATTTCGAAA
Found at i:85467054 original size:29 final size:28
Alignment explanation
Indices: 85466965--85467056 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 28
85466955 ACTATGTGCC
* *
85466965 AGTGATTACAGTTATCATGTACTTTGTACT
1 AGTG-TTACAATTATCAAGTAC-TTGTACT
* *
85466995 GGTGTTACAATTATCAAGCACTT-TACGCT
1 AGTGTTACAATTATCAAGTACTTGTA--CT
* *
85467024 AGTGTTATATTTATCAAGTACTATGTACT
1 AGTGTTACAATTATCAAGTACT-TGTACT
85467053 AGTG
1 AGTG
85467057 GTGGGTACCA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
27 2 0.04
28 2 0.04
29 40 0.80
30 4 0.08
31 2 0.04
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.40
Consensus pattern (28 bp):
AGTGTTACAATTATCAAGTACTTGTACT
Found at i:85475860 original size:40 final size:40
Alignment explanation
Indices: 85475800--85475983 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
85475790 TATTCGAATG
*
85475800 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
85475840 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
85475880 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
85475920 ATATCCGGGCCAAG-TCCTGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
*
85475960 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
85475984 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.02
40 114 0.93
41 5 0.04
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:85475942 original size:80 final size:80
Alignment explanation
Indices: 85475800--85475983 Score: 246
Period size: 80 Copynumber: 2.3 Consensus size: 80
85475790 TATTCGAATG
* * * *
85475800 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACCAAGATCCGAAGGCA
* *
85475865 TTTGTGCGAGTTG-CT
66 TTTATGCGAG-TGACC
* * *
85475880 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACTATATCCGGGCCAAG-TCCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACCAAGATCC-GAAGGC
*
85475944 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
85475960 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
85475984 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 5 0.05
80 86 0.95
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACCAAGATCCGAAGGCA
TTTATGCGAGTGACC
Found at i:85478908 original size:40 final size:40
Alignment explanation
Indices: 85478864--85479051 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
85478854 GCAAACACAT
* * *
85478864 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
85478904 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85478944 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
85478984 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85479024 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
85479052 TCCAGTGCTC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:85487592 original size:40 final size:40
Alignment explanation
Indices: 85487493--85487677 Score: 295
Period size: 40 Copynumber: 4.7 Consensus size: 40
85487483 GCAAACACAT
* *
85487493 TTGCCTTCGGGTCTTAACCCGGA-ATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
85487532 -TGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85487571 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
85487611 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
85487651 TTGCCTTCGGGTCTTAG-CCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
85487678 TCCAATGCTC
Statistics
Matches: 139, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
38 22 0.16
39 26 0.19
40 91 0.65
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:85491021 original size:20 final size:20
Alignment explanation
Indices: 85490996--85491062 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
85490986 ATGTGTAATT
85490996 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* ** * *
85491016 CAGGGGCACATAAGTGCAATT
1 CAGGGGTACCGAAGTACAA-A
*
85491037 CAGGGGTACCGAAGCACAAA
1 CAGGGGTACCGAAGTACAAA
*
85491057 TAGGGG
1 CAGGGG
85491063 CACGTAAGTG
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 20 0.59
21 14 0.41
ACGTcount: A:0.36, C:0.19, G:0.33, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:85491041 original size:21 final size:21
Alignment explanation
Indices: 85490979--85491042 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 21
85490969 TACAAATAGA
* *
85490979 GGCACATATGTGTAATTCAGG
1 GGCACATAAGTGCAATTCAGG
* ** * *
85491000 GGTACCGAAGTACAA-ACAGG
1 GGCACATAAGTGCAATTCAGG
85491020 GGCACATAAGTGCAATTCAGG
1 GGCACATAAGTGCAATTCAGG
85491041 GG
1 GG
85491043 TACCGAAGCA
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (21 bp):
GGCACATAAGTGCAATTCAGG
Found at i:85491161 original size:41 final size:41
Alignment explanation
Indices: 85490956--85491160 Score: 250
Period size: 41 Copynumber: 5.0 Consensus size: 41
85490946 AAGTACATCT
* * * *
85490956 AGGGGTATCGAAGTACAAATAGAGGCACATATGTGTAATTC
1 AGGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATTC
*
85490997 AGGGGTACCGAAGTACAAACAGGGGCACATAAGTGCAATTC
1 AGGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATTC
* * * *
85491038 AGGGGTACCGAAGCACAAATAGGGGCACGTAAGTGTAATTT
1 AGGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATTC
* * *
85491079 AGAGGTACCAAAGTACAAATAGGGGCACACAAGTGCAATTCC
1 AGGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATT-C
* * * *
85491121 A-GTGTGCCGAAGTACAAACAGGGGCACGTAAGTGCAATTC
1 AGGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATTC
85491161 CTCATTATTC
Statistics
Matches: 139, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 137 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATTC
Found at i:85512441 original size:27 final size:27
Alignment explanation
Indices: 85512411--85512588 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
85512401 ATATTGAGTC
* * * *
85512411 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
85512438 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
85512465 CGTACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
85512493 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
85512520 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
85512547 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
85512574 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85512589 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:85512554 original size:82 final size:81
Alignment explanation
Indices: 85512432--85512587 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
85512422 TGCTATATAA
* * *
85512432 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGTACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
85512497 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
85512514 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
85512578 CACTTAGTGC
65 CACTTAGTGC
85512588 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:85517882 original size:27 final size:27
Alignment explanation
Indices: 85517798--85518137 Score: 224
Period size: 27 Copynumber: 12.6 Consensus size: 27
85517788 TATAGGGTAG
** *
85517798 AATTACTGAAATACCCTTG-TAGGGTAG
1 AATTACTGAAATACCCTTGAT-TTGTAA
* * ** *
85517825 AATTACTGAAATGCCATTG-TAGGGTAG
1 AATTACTGAAATACCCTTGAT-TTGTAA
* **
85517852 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
* *
85517879 AATTACTG-AATACCGTAG-TTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
*
85517904 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
** * * * * *
85517931 AATTACCAAAATGCCCCTGGTTTATGA
1 AATTACTGAAATACCCTTGATTTGTAA
* * *
85517958 AATTACCGAACTACCCTCGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
* ** * *
85517985 AGTTACCAAAATACCCCTGATTTGGAA
1 AATTACTGAAATACCCTTGATTTGTAA
* * *
85518012 AATTACCGAAATACCCTAGATTTGGAA
1 AATTACTGAAATACCCTTGATTTGTAA
* * **
85518039 AATTACAGAAATACCCCTGATTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
**
85518066 AATTA-TAGAAATACCCTTGACTTTCAAA
1 AATTACT-GAAATACCCTTGA-TTTGTAA
* *
85518094 AATTA-TAGAAATACCATTGGTTTGTAA
1 AATTACT-GAAATACCCTTGATTTGTAA
*
85518121 AATCACTGAAATACCCT
1 AATTACTGAAATACCCT
85518138 AGGTTTATAG
Statistics
Matches: 251, Mismatches: 56, Indels: 12
0.79 0.18 0.04
Matches are distributed among these distances:
25 13 0.05
26 16 0.06
27 197 0.78
28 25 0.10
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGTAA
Found at i:85518123 original size:55 final size:53
Alignment explanation
Indices: 85517993--85518139 Score: 141
Period size: 55 Copynumber: 2.7 Consensus size: 53
85517983 AAAGTTACCA
* * * **
85517993 AAATACCCCTGATTTGGAAAATTACCGAAATACCCTAGATTTGGAAAATTACAG
1 AAATACCACTGATTTGCAAAATTA-TGAAATACCCTAGATTTCAAAAATTACAG
* * * *
85518047 AAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCAAAAATTATAG
1 AAATACCACTGATTTGCAAAATTAT-GAAATACCCTAGA-TTTCAAAAATTACAG
* * * *
85518102 AAATACCATTGGTTTGTAAAATCACTGAAATACCCTAG
1 AAATACCACTGATTTGCAAAATTA-TGAAATACCCTAG
85518140 GTTTATAGAT
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
54 34 0.45
55 41 0.54
56 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (53 bp):
AAATACCACTGATTTGCAAAATTATGAAATACCCTAGATTTCAAAAATTACAG
Found at i:85518229 original size:27 final size:27
Alignment explanation
Indices: 85518199--85518276 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
85518189 CCCTAATAGA
* *
85518199 TAAAAAGATCGTAAGGCCCCTGTAGGG
1 TAAAAAGACCGTAAAGCCCCTGTAGGG
*
85518226 TAAAATGACCGTAAAGCCCCTGTAGGG
1 TAAAAAGACCGTAAAGCCCCTGTAGGG
**
85518253 TAAAGTGACCGTAATA-CCCCTGTA
1 TAAAAAGACCGTAA-AGCCCCTGTA
85518277 TTATAAAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
TAAAAAGACCGTAAAGCCCCTGTAGGG
Found at i:85518283 original size:27 final size:27
Alignment explanation
Indices: 85518197--85518287 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
85518187 ACCCCTAATA
* * *
85518197 GATAAAAAGATCGTAAGGCCCCTGTAG
1 GATAAAATGACCGTAAAGCCCCTGTAG
*
85518224 GGTAAAATGACCGTAAAGCCCCTGTAG
1 GATAAAATGACCGTAAAGCCCCTGTAG
* * *
85518251 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GATAAAATGACCGTAA-AGCCCCTGTAG
*
85518278 TATAAAATGA
1 GATAAAATGA
85518288 TGATTATGCC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
GATAAAATGACCGTAAAGCCCCTGTAG
Found at i:85518486 original size:27 final size:27
Alignment explanation
Indices: 85518456--85518508 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
85518446 CATTCGCTGT
85518456 TACTGGTACCTATGCCACAATTACTGA
1 TACTGGTACCTATGCCACAATTACTGA
** * *
85518483 TACTGGTGGCTTTGCCACATTTACTG
1 TACTGGTACCTATGCCACAATTACTG
85518509 TTTCTAATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (27 bp):
TACTGGTACCTATGCCACAATTACTGA
Found at i:85518713 original size:33 final size:33
Alignment explanation
Indices: 85518676--85518746 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
85518666 ACTGTATTGT
85518676 TACTGAATAGGGCTTTGGCCCAGACTGTACTAA
1 TACTGAATAGGGCTTTGGCCCAGACTGTACTAA
*
85518709 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGAATAGGGCTTTGGCCCAGACTGTACTAA
85518742 TACTG
1 TACTG
85518747 TGTTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (33 bp):
TACTGAATAGGGCTTTGGCCCAGACTGTACTAA
Found at i:85520566 original size:28 final size:29
Alignment explanation
Indices: 85520512--85520566 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
85520502 ACAGGGGTTT
* *
85520512 TCACACAGCTTGGCACACGCCTGTGTCCC
1 TCACACAGCATGACACACGCCTGTGTCCC
85520541 TCACACAGCAATGACACAC-CC-GTGTC
1 TCACACAGC-ATGACACACGCCTGTGTC
85520567 TTAGGGGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 11 0.48
30 7 0.30
ACGTcount: A:0.24, C:0.40, G:0.18, T:0.18
Consensus pattern (29 bp):
TCACACAGCATGACACACGCCTGTGTCCC
Found at i:85521637 original size:50 final size:49
Alignment explanation
Indices: 85521562--85521739 Score: 229
Period size: 48 Copynumber: 3.7 Consensus size: 49
85521552 GATGCCGACA
* *
85521562 CCATGTCCTAGACATGGTCTTACACTGGCTCTTATATATCG-GTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTC-TATATATCGAGTG-CGATG
*
85521612 CCATGTCCCAGACATGGTCTTACACTAGCTCT-TATAT-GAATGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTATATATCGAGTGC-GATG
* * * * *
85521660 CCATGTTCCAAACATGGTCTTACACTGGCTC-ACATATCGAGGGCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTATATATCGAGTGCGATG
85521708 CCATGTCCCAGACATGGTCTTACACTAGCTCT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCT
85521740 CATAACCCTA
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
47 2 0.02
48 75 0.68
49 5 0.05
50 29 0.26
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTATATATCGAGTGCGATG
Found at i:85531318 original size:48 final size:48
Alignment explanation
Indices: 85531254--85531387 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
85531244 ATATCGGTGT
* * * * *
85531254 CGATGCCAT-TTCCCAAACATGGCCTTACACAAGCTCTTATATGAA-TG
1 CGATGCCATGTT-CCAAACATGGTCTTACACTAGCTCTCATATCAAGGG
* *
85531301 CTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAGGG
1 C-GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCAAGGG
* *
85531350 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTC
85531388 CTAACCCTAG
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 1 0.01
48 68 0.93
49 4 0.05
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATCAAGGG
Found at i:85539907 original size:46 final size:45
Alignment explanation
Indices: 85539827--85540184 Score: 237
Period size: 46 Copynumber: 7.7 Consensus size: 45
85539817 AAGTTATTAT
* * *
85539827 GAGCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGATATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TTGAGATGA
* *
85539875 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGAAGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTT-GAGATG-A
* * * * ** *
85539922 -AACCAATGTAAGACACGTCTGAGACATGCATCAACTACGAGAT--
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCT-TGAGATGA
* *
85539965 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TTGAGATGA
* ** *
85540013 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACTTCGAGAAGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTT-GAGATG-A
* * * * * *
85540060 -AACCAATGTAAGACACGTCTGAGACATGCATCAAG-TACGAGAT--
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCT-TGAGATGA
* * *
85540103 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGTCTTGAGAT-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTGAGATGA
* *
85540149 TAAACCAGTGTAAGACTATGTCTGGGACATGGCATC
1 -GAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATC
85540185 AACATTTTAC
Statistics
Matches: 240, Mismatches: 50, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
44 18 0.08
45 33 0.14
46 106 0.44
47 59 0.25
48 24 0.10
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTGAGATGA
Found at i:85540079 original size:138 final size:138
Alignment explanation
Indices: 85539831--85540187 Score: 583
Period size: 138 Copynumber: 2.6 Consensus size: 138
85539821 TATTATGAGC
* * *
85539831 CAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
**
85539896 GGGACATGCATCGGCTTCGAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAACTACG
66 GGGACATGCATCAACTTCGAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAACTACG
85539961 AGATGTGT
131 AGATGTGT
85539969 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
*
85540034 GGGACATGCATCAACTTCGAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAAGTACG
66 GGGACATGCATCAACTTCGAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAACTACG
85540099 AGATGTGT
131 AGATGTGT
* * * *
85540107 CAGTGTAAGACCATGTCTGGGACATGGCATCGTC-TTGAGAT-ATAAACCAGTGTAAGACTATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA-GAGCTAGTGTAAGAC-ATGT
85540170 CTGGGACATGGCATCAAC
64 CTGGGACAT-GCATCAAC
85540188 ATTTTACCCC
Statistics
Matches: 206, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
136 1 0.00
137 19 0.09
138 178 0.86
139 8 0.04
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (138 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
GGGACATGCATCAACTTCGAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAACTACG
AGATGTGT
Found at i:85540102 original size:92 final size:92
Alignment explanation
Indices: 85539880--85540186 Score: 272
Period size: 92 Copynumber: 3.3 Consensus size: 92
85539870 TATGAGAGCT
* * * ** * *
85539880 AGTGTAAGACATGTCTGGGACAT-GCATC-GGCTTCGAGAAGTAAACCAATGTAAGACACGTCTG
1 AGTGTAAGACATGTCTGGGACATGGCATCAAGCATCGAG-A-TGAGGCAGTGTAAGACATGTCTG
* * * **
85539943 AGACATGCATCAACTACGAGATGT--GTC
64 GGACATGCATCAACTTCGAGAAGTAAACC
* *
85539970 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAAGCATCGAGATGAG-GC-AGTGTAAGACATGTCT
85540034 GGGACATGCATCAACTTCGAGAAGTAAACC
63 GGGACATGCATCAACTTCGAGAAGTAAACC
* * * * * *
85540064 AATGTAAGACACGTCTGAGACAT-GCATCAAGTA-CGAGATGTGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGGCATCAAGCATCGAGATGAGGCAGTGTAAGA-CATGTCTGG
**
85540127 GACATGGCATCGTCTT-GAGATA-TAAACC
65 GACAT-GCATCAACTTCGAGA-AGTAAACC
85540155 AGTGTAAGACTATGTCTGGGACATGGCATCAA
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCAA
85540187 CATTTTACCC
Statistics
Matches: 180, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
90 20 0.11
91 50 0.28
92 80 0.44
93 21 0.12
94 9 0.05
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAAGCATCGAGATGAGGCAGTGTAAGACATGTCTGGG
ACATGCATCAACTTCGAGAAGTAAACC
Found at i:85540153 original size:91 final size:92
Alignment explanation
Indices: 85540018--85540186 Score: 238
Period size: 91 Copynumber: 1.8 Consensus size: 92
85540008 GATGAGAGCT
85540018 AGTGTAAGACATGTCTGGGACATGCATCAACTTCGAGAAGTAAACCAATGTAAGAC-ACGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATCAACTTCGAGAAGTAAACCAATGTAAGACTACGTCTGA
85540082 GACAT-GCATCAAGTACGAGATGTGTC
66 GACATGGCATCAAGTACGAGATGTGTC
** * *
85540108 AGTGTAAGACCATGTCTGGGACATGGCATCGTCTT-GAGATA-TAAACCAGTGTAAGACTATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAACTTCGAGA-AGTAAACCAATGTAAGACTACGTC
*
85540171 TGGGACATGGCATCAA
63 TGAGACATGGCATCAA
85540187 CATTTTACCC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
90 9 0.13
91 33 0.48
92 20 0.29
93 7 0.10
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACTTCGAGAAGTAAACCAATGTAAGACTACGTCTGA
GACATGGCATCAAGTACGAGATGTGTC
Found at i:85552833 original size:40 final size:40
Alignment explanation
Indices: 85552708--85552865 Score: 124
Period size: 40 Copynumber: 3.8 Consensus size: 40
85552698 TCAATGATTT
* * *
85552708 GCCGAAGCCATTACAATCTCGCACACTTAGTGCCATTTCAATAA
1 GCCGAAGCTATTCCAA-CTCGCACACTTAGTGCCATTT--GT-A
* * *
85552752 ACCGAAGCTATCTCGATA-TCGCACACTTAGTGCC-TCATGTA
1 GCCGAAGCTAT-TCCA-ACTCGCACACTTAGTGCCAT-TTGTA
*
85552793 GCCGAAGCTATTCCAACTCGCACACTTAATGCCATTTGTA
1 GCCGAAGCTATTCCAACTCGCACACTTAGTGCCATTTGTA
*** *
85552833 GTTAAAGCTATTTCGAAC-CGCACACTTAGTGCC
1 GCCGAAGCTA-TTCCAACTCGCACACTTAGTGCC
85552866 GAACTTAATC
Statistics
Matches: 93, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
39 1 0.01
40 43 0.46
41 18 0.19
42 1 0.01
43 1 0.01
44 26 0.28
45 2 0.02
46 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (40 bp):
GCCGAAGCTATTCCAACTCGCACACTTAGTGCCATTTGTA
Found at i:85562565 original size:20 final size:20
Alignment explanation
Indices: 85562540--85562579 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
85562530 TCTATTGAAA
*
85562540 TTGTAAATATATCGAACCCC
1 TTGTAAATATATCAAACCCC
85562560 TTGTAAATATATCAAACCCC
1 TTGTAAATATATCAAACCCC
85562580 GTAGGTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (20 bp):
TTGTAAATATATCAAACCCC
Found at i:85590962 original size:20 final size:19
Alignment explanation
Indices: 85590925--85590981 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
85590915 CTTGTTTTAA
85590925 AAATAATTTAAC-TGATTG
1 AAATAATTTAACTTGATTG
85590943 ACAA-AATTCTAACTTGATTG
1 A-AATAATT-TAACTTGATTG
*
85590963 AAATCATTTTAACTTGATT
1 AAAT-AATTTAACTTGATT
85590982 TAAAAGTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 17 0.52
21 3 0.09
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (19 bp):
AAATAATTTAACTTGATTG
Found at i:85593391 original size:27 final size:27
Alignment explanation
Indices: 85593311--85593539 Score: 275
Period size: 27 Copynumber: 8.5 Consensus size: 27
85593301 TATAAACATA
*
85593311 TATCACAT-AGGGACAAAATAGTCATTC
1 TATCACATAAGGG-CAAAATAGTCATTT
* * *
85593338 TA-CTACATAAGGGCAACACAATCATTT
1 TATC-ACATAAGGGCAAAATAGTCATTT
* * * *
85593365 TACCATATGAGGGCAAAATAGTTATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
85593392 TATCAAATAAGGG-AAAATTAGACATTT
1 TATCACATAAGGGCAAAA-TAGTCATTT
85593419 TATCACATAAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
*
85593446 TATCACAAAAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
85593473 TATCAGATAAGGGTAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
*
85593500 TATCACATAAGGGAAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
*
85593527 TATCATATAAGGG
1 TATCACATAAGGG
85593540 GGTCCAGTGT
Statistics
Matches: 173, Mismatches: 24, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
26 5 0.03
27 159 0.92
28 9 0.05
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (27 bp):
TATCACATAAGGGCAAAATAGTCATTT
Found at i:85597163 original size:27 final size:27
Alignment explanation
Indices: 85597130--85597304 Score: 253
Period size: 27 Copynumber: 6.5 Consensus size: 27
85597120 TATAAAAATA
*
85597130 TATCACAT-AGAGGCAAAACAGTCATTT
1 TATCACATAAG-GGCAAAATAGTCATTT
* *
85597157 TACCACATAAGGGCAAAATAATCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
85597184 TACCACATGAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
85597211 TATCACATAAGGGCAAATTAGTCTTTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
85597238 TATCACATAAGGGAAAAATAATCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
85597265 TATCACATAAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
85597292 TATCACATAAGGG
1 TATCACATAAGGG
85597305 GTTCTAGTGT
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 130 0.98
28 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (27 bp):
TATCACATAAGGGCAAAATAGTCATTT
Found at i:85601982 original size:8 final size:8
Alignment explanation
Indices: 85601971--85602005 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
85601961 CTTTCTAACT
85601971 TTTCAGCC
1 TTTCAGCC
*
85601979 TTTCAGCT
1 TTTCAGCC
*
85601987 TTTCAGCT
1 TTTCAGCC
85601995 TTTCAGCC
1 TTTCAGCC
85602003 TTT
1 TTT
85602006 GTAGTTTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.11, C:0.29, G:0.11, T:0.49
Consensus pattern (8 bp):
TTTCAGCC
Found at i:85609406 original size:14 final size:14
Alignment explanation
Indices: 85609387--85609418 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
85609377 ATTTAAACAT
85609387 CTCATAAAATATAA
1 CTCATAAAATATAA
85609401 CTCATAAAATATAA
1 CTCATAAAATATAA
85609415 CTCA
1 CTCA
85609419 ATTCCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (14 bp):
CTCATAAAATATAA
Found at i:85610214 original size:46 final size:46
Alignment explanation
Indices: 85610147--85610321 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
85610137 TGTAACCCGC
85610147 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
85610193 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCACAT
* * * * *
85610243 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
*
85610286 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
85610322 ATGCCCAAAT
Statistics
Matches: 111, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
44 1 0.01
46 63 0.57
47 26 0.23
48 1 0.01
49 1 0.01
50 7 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
Found at i:85610267 original size:93 final size:93
Alignment explanation
Indices: 85610155--85610326 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
85610145 GCCCATAAGT
* *
85610155 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
85610220 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
85610248 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
85610313 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
85610327 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:85614031 original size:42 final size:42
Alignment explanation
Indices: 85613914--85614031 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
85613904 ATTCCAATGT
* * *
85613914 CATATCCCAAATATGGTCTTACATGTAATCTCGTATCGATAC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATAC
* * * *
85613956 CAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATTGATGC
1 C-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATAC
* *
85613999 CATATCCTAGATATGGTCTTATACGTAATCTCA
1 CATATCCCAGATATGGTCTTACACGTAATCTCA
85614032 GTAACCCAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATAC
Found at i:85617469 original size:43 final size:43
Alignment explanation
Indices: 85617379--85617490 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
85617369 ACAGAGATGT
* * *
85617379 GATTACATGTAAGACTATGTCTGGGACATTGGCATTGTATTAA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAGTAA
* * *
85617422 GATTACATGTAAGACCATGTATGGGACATTGGGATCGTTAGT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAGTAA
* *
85617465 GATTACGTGTAAGACCTTGTCTGGGA
1 GATTACATGTAAGACCATGTCTGGGA
85617491 TAGTGTAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 56 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAGTAA
Found at i:85619794 original size:25 final size:25
Alignment explanation
Indices: 85619755--85619803 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
85619745 TTTTATTATA
*
85619755 ACATATATTAACTTATTATTTAATT
1 ACATATATTAACTTATTATATAATT
85619780 ACATAT-TTAACCTTATTATATAAT
1 ACATATATTAA-CTTATTATATAAT
85619804 ATGATTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (25 bp):
ACATATATTAACTTATTATATAATT
Found at i:85626529 original size:34 final size:32
Alignment explanation
Indices: 85626433--85626534 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 32
85626423 TATGCATTTA
* * *
85626433 TGATACTGTACTGAAATGGGCTACGCCTACAC
1 TGATACTGTACTGATATGGGCTAAGCCCACAC
*
85626465 TTATACTGTTACTG-TATTGGGCTAAGGCCCACAC
1 TGATACTG-TACTGATA-TGGGCTAA-GCCCACAC
* *
85626499 TGATACTGCGACTGATATGGGCTTAAGCCCAGAC
1 TGATACTG-TACTGATATGGGC-TAAGCCCACAC
85626533 TG
1 TG
85626535 TTCAACACTG
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
32 8 0.14
33 12 0.21
34 32 0.56
35 5 0.09
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (32 bp):
TGATACTGTACTGATATGGGCTAAGCCCACAC
Found at i:85627586 original size:21 final size:22
Alignment explanation
Indices: 85627562--85627606 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
85627552 TCATATTATT
* *
85627562 CATAATATAACATA-ATTAAAA
1 CATAATACAACATATATCAAAA
*
85627583 CATAATCCAACATATATCAAAA
1 CATAATACAACATATATCAAAA
85627605 CA
1 CA
85627607 AATTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (22 bp):
CATAATACAACATATATCAAAA
Found at i:85633331 original size:25 final size:25
Alignment explanation
Indices: 85633292--85633340 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
85633282 TTTTATTATA
85633292 ACATATATTAACTTATAATTTAATT
1 ACATATATTAACTTATAATTTAATT
*
85633317 ACATAT-TTAACCTTATTATTTAAT
1 ACATATATTAA-CTTATAATTTAAT
85633341 ACGATTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (25 bp):
ACATATATTAACTTATAATTTAATT
Found at i:85638422 original size:25 final size:25
Alignment explanation
Indices: 85638388--85638437 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
85638378 AGCATGATAG
85638388 TATGATTGTGTGAAAATTTAGTTAA
1 TATGATTGTGTGAAAATTTAGTTAA
*
85638413 TATGATTGTGTGAATATTTAGTTAA
1 TATGATTGTGTGAAAATTTAGTTAA
85638438 GGAATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (25 bp):
TATGATTGTGTGAAAATTTAGTTAA
Found at i:85642305 original size:19 final size:19
Alignment explanation
Indices: 85642273--85642318 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
85642263 ACAACATATT
* * *
85642273 ATAATGTCACATTATTTAC
1 ATAATATCAAATTATTCAC
85642292 ATAATATCAAATTATTCAC
1 ATAATATCAAATTATTCAC
85642311 ATATATAT
1 ATA-ATAT
85642319 ACTTAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATATCAAATTATTCAC
Found at i:85656451 original size:49 final size:49
Alignment explanation
Indices: 85656395--85656893 Score: 725
Period size: 49 Copynumber: 10.6 Consensus size: 49
85656385 TATTTGAATA
* *
85656395 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656444 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656493 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656542 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
85656589 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCC---------
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656629 AATGT-AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
85656677 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656724 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656773 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * * *
85656820 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGG-CGAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCG-ATGTGATG
*
85656867 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
85656894 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 16, Indels: 36
0.89 0.03 0.08
Matches are distributed among these distances:
39 33 0.08
40 5 0.01
46 2 0.00
47 184 0.44
48 6 0.01
49 187 0.45
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:85656577 original size:47 final size:47
Alignment explanation
Indices: 85656395--85656893 Score: 692
Period size: 47 Copynumber: 10.6 Consensus size: 47
85656385 TATTTGAATA
* *
85656395 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656444 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656493 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656542 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656589 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGT-A--
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
* *
85656635 AA-GT----GTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
85656677 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656724 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
85656773 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * * *
85656820 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG-CGAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG-ATGTGATG
* *
85656867 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
85656894 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 20, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
39 29 0.07
40 1 0.00
41 2 0.00
42 2 0.00
43 2 0.00
45 2 0.00
46 4 0.01
47 190 0.46
48 1 0.00
49 184 0.44
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:85656583 original size:96 final size:96
Alignment explanation
Indices: 85656395--85656893 Score: 729
Period size: 96 Copynumber: 5.3 Consensus size: 96
85656385 TATTTGAATA
*
85656395 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
85656460 TATATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
85656493 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
85656558 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
85656589 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGT-A--AA-GT----GTATATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
85656646 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
85656677 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
* *
85656740 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
85656773 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * *
85656836 TATGTGACAGGGCCGAGTGGCGAACGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
85656867 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
85656894 TCCCGAAGGG
Statistics
Matches: 372, Mismatches: 17, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
86 30 0.08
87 1 0.00
88 47 0.13
89 2 0.01
90 2 0.01
92 2 0.01
93 2 0.01
94 51 0.14
95 2 0.01
96 173 0.47
98 60 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:85658498 original size:24 final size:24
Alignment explanation
Indices: 85658471--85658545 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
85658461 CACTGACGAA
*
85658471 CTGAAAAGAGTAAACTCTTATGAG
1 CTGAAAAGAGTAAGCTCTTATGAG
* * *
85658495 CTGAAACGA-TAAGCT-TCAACGAG
1 CTGAAAAGAGTAAGCTCT-TATGAG
*
85658518 CTGAAAATAGTAAGCTCTTATGAG
1 CTGAAAAGAGTAAGCTCTTATGAG
85658542 CTGA
1 CTGA
85658546 TATATCGGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 1 0.03
23 16 0.40
24 22 0.55
25 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (24 bp):
CTGAAAAGAGTAAGCTCTTATGAG
Found at i:85667684 original size:9 final size:9
Alignment explanation
Indices: 85667670--85667700 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
85667660 GGAGCAACCA
85667670 ATGAAGAAG
1 ATGAAGAAG
85667679 ATGAAGAAG
1 ATGAAGAAG
85667688 A-GAAGAAG
1 ATGAAGAAG
85667696 ATGAA
1 ATGAA
85667701 ACAGATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.10
Consensus pattern (9 bp):
ATGAAGAAG
Found at i:85670290 original size:40 final size:40
Alignment explanation
Indices: 85670211--85670491 Score: 388
Period size: 40 Copynumber: 7.0 Consensus size: 40
85670201 CGGGATTCAA
* *
85670211 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85670250 CCGGATATAGTAACTCGCACCATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
85670290 CCGGATATAGTAACTCACACAAATGCCTTCCGAACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85670330 CCGGA-AGTAATAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85670370 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
85670410 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
85670450 CCGGATGTAATAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
85670490 CC
1 CC
85670492 AGTTATCATC
Statistics
Matches: 216, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.00
39 18 0.08
40 197 0.91
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85673765 original size:23 final size:23
Alignment explanation
Indices: 85673739--85673782 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
85673729 AACCCCTAAT
85673739 ATGCATAATTGATTG-ATTTATGA
1 ATGCATAA-TGATTGCATTTATGA
*
85673762 ATGCATGATGATTGCATTTAT
1 ATGCATAATGATTGCATTTAT
85673783 TATTAGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (23 bp):
ATGCATAATGATTGCATTTATGA
Found at i:85677176 original size:40 final size:40
Alignment explanation
Indices: 85677114--85677291 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
85677104 AAGCCAAGTA
* * * *
85677114 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
85677153 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
85677193 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
85677233 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
85677273 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
85677292 TTATCATCCA
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.10
40 111 0.90
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:85679695 original size:16 final size:16
Alignment explanation
Indices: 85679671--85679706 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
85679661 AGAAATAAAA
85679671 AAAATAACAAAAA-TT
1 AAAATAACAAAAATTT
85679686 AAAATCAACAAAAATTT
1 AAAAT-AACAAAAATTT
85679703 AAAA
1 AAAA
85679707 GAGAAGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 8 0.42
17 6 0.32
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAACAAAAATTT
Found at i:85681832 original size:68 final size:68
Alignment explanation
Indices: 85681705--85681899 Score: 284
Period size: 68 Copynumber: 2.8 Consensus size: 68
85681695 CGATTTATCT
* * * *
85681705 CGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGAATCACTCATGTGACCTAGCTACATTTA
1 CGTAGCTCTCTTGTCTACATGG-GATACATC-C-T-GTATCACACATGTGACCTAGCTACATTTA
85681769 TCTCTCA
62 TCTCTCA
85681776 CGTAGCTCTCTTGTCTACATGGGATACATCCTGTATCACACATGTGACCTAGCTACATTTATCTC
1 CGTAGCTCTCTTGTCTACATGGGATACATCCTGTATCACACATGTGACCTAGCTACATTTATCTC
85681841 TCA
66 TCA
* * *
85681844 CGTACCTCTCTTGTCTACACGGGATACATCCCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGGATACATCCTGTATCACACATGTGACCTAGCTAC
85681900 TATATAGTAT
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 87 0.75
69 1 0.01
70 2 0.02
71 26 0.22
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (68 bp):
CGTAGCTCTCTTGTCTACATGGGATACATCCTGTATCACACATGTGACCTAGCTACATTTATCTC
TCA
Found at i:85681924 original size:68 final size:68
Alignment explanation
Indices: 85681742--85681925 Score: 259
Period size: 68 Copynumber: 2.7 Consensus size: 68
85681732 TTCACTTGGA
* *
85681742 ATCACTCATGTGACCTAGCTACATTTATCTCTCACGTAG-CTCTCTTGTCTACATGGGATACATC
1 ATCACACATGTGACCTAGCTACATTTATCTCT-ACGTAGCCTCTCTTGTCTACACGGGATACATC
*
85681806 CTGT
65 CCGT
85681810 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTA-CCTCTCTTGTCTACACGGGATACATC
1 ATCACACATGTGACCTAGCTACATTTATCTCT-ACGTAGCCTCTCTTGTCTACACGGGATACATC
85681874 CCGT
65 CCGT
* *
85681878 ATCACACATGTGACCTAGCTACTATATAGTATCT-CGTAGCCT-TCTTGT
1 ATCACACATGTGACCTAGCTAC-ATTTA-TCTCTACGTAGCCTCTCTTGT
85681926 ACACATGATG
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
68 96 0.90
69 7 0.07
70 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTACGTAGCCTCTCTTGTCTACACGGGATACATCC
CGT
Found at i:85687241 original size:21 final size:21
Alignment explanation
Indices: 85687217--85687290 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
85687207 CTAGGAAATA
85687217 TGTGATCTGAACTCATTGAGT
1 TGTGATCTGAACTCATTGAGT
* ** *
85687238 TGTGGTCTGAGTTCA-TGATCT
1 TGTGATCTGAACTCATTGA-GT
*
85687259 ATGTAATCTGAACTCATTGAGT
1 -TGTGATCTGAACTCATTGAGT
*
85687281 TGTGGTCTGA
1 TGTGATCTGA
85687291 GTTCATGATA
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
20 3 0.08
21 21 0.54
22 12 0.31
23 3 0.08
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.39
Consensus pattern (21 bp):
TGTGATCTGAACTCATTGAGT
Found at i:85687276 original size:43 final size:43
Alignment explanation
Indices: 85687214--85687350 Score: 202
Period size: 43 Copynumber: 3.1 Consensus size: 43
85687204 TCACTAGGAA
*
85687214 ATATGTGATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
1 ATATGTAATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
*
85687257 CTATGTAATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
1 ATATGTAATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
* * * *
85687300 ATATGTGACATCCGAACTCATTGAGTAGTGGTTTGAGTTCGTGAT
1 ATATGT-A-ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
85687345 ATATGT
1 ATATGT
85687351 GACACATGTT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
43 46 0.54
44 1 0.01
45 38 0.45
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (43 bp):
ATATGTAATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGAT
Found at i:85687337 original size:45 final size:45
Alignment explanation
Indices: 85687225--85687354 Score: 201
Period size: 45 Copynumber: 2.9 Consensus size: 45
85687215 TATGTGATCT
* *
85687225 GAACTCATTGAGTTGTGGTCTGAGTTCATGATCTATGT-A-ATCT
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
85687268 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
* * *
85687313 GAACTCATTGAGTAGTGGTTTGAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACA
85687355 CATGTTTTGG
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 37 0.46
44 1 0.01
45 42 0.52
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
Found at i:85695397 original size:82 final size:81
Alignment explanation
Indices: 85695283--85695438 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
85695273 AAATTGTACA
* *
85695283 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
85695347 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
85695364 GCACTAAGTGTGCGAGTTGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
85695429 TGCGAGTTGA
65 TGCGAATTGA
85695439 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85695406 original size:55 final size:55
Alignment explanation
Indices: 85695283--85695437 Score: 172
Period size: 55 Copynumber: 2.8 Consensus size: 55
85695273 AAATTGTACA
* * **
85695283 GCACTAAGGGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAATATGAT
1 GCACTAAGTGTGCGAATT-GACTATGTAGCACTAAGTGTGCGAGTTGGAATATGAT
* ** *
85695337 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGGACTATG-T
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGGAATATGAT
* * *
85695391 GGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTG
1 -GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTG
85695438 ATTATATAGC
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
54 36 0.42
55 49 0.58
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (55 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGGAATATGAT
Found at i:85695439 original size:27 final size:27
Alignment explanation
Indices: 85695282--85695459 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
85695272 TAAATTGTAC
*
85695282 AGCACTAAGGGTGCG-ATTCGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
* * *
85695309 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
85695335 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
85695363 GGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
* * * *
85695391 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
85695418 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
85695445 AGCAGTGAGTGTGCG
1 AGCACTAAGTGTGCG
85695460 GGCTCAATAA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 100 0.79
28 26 0.21
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:85703341 original size:27 final size:26
Alignment explanation
Indices: 85703311--85703487 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
85703301 AAATTGTACA
* *
85703311 GCACTAAGGGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
85703338 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
85703365 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
85703392 GCACTAAGTGTGCGAGTTGGACTATGTG
1 GCACTAAGTGTGCGA-TT-GACTATGTG
* * *
85703420 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
85703447 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
85703474 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
85703488 GACTCAATAA
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.78
28 27 0.21
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:85703425 original size:82 final size:81
Alignment explanation
Indices: 85703311--85703466 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
85703301 AAATTGTACA
* *
85703311 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
85703375 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
85703392 GCACTAAGTGTGCGAGTTGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
85703457 TGCGAGTTGA
65 TGCGAATTGA
85703467 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:85703478 original size:82 final size:81
Alignment explanation
Indices: 85703307--85703487 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
85703297 GATTAAATTG
* * *
85703307 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
85703372 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
85703388 TGCGGCACTAAGTGTGCGAGTTGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
85703452 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
85703470 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
85703488 GACTCAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:85708004 original size:21 final size:20
Alignment explanation
Indices: 85707980--85708026 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
85707970 TGGAGGATGT
*
85707980 ACATGGCCGTGTG-GCTAAGG
1 ACATGGCCATGTGAGCT-AGG
*
85708000 CACATGCCCATGTGAGCTAGG
1 -ACATGGCCATGTGAGCTAGG
85708021 ACATGG
1 ACATGG
85708027 TTCTTTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 14 0.64
22 3 0.14
ACGTcount: A:0.23, C:0.23, G:0.34, T:0.19
Consensus pattern (20 bp):
ACATGGCCATGTGAGCTAGG
Found at i:85708917 original size:20 final size:20
Alignment explanation
Indices: 85708892--85708951 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
85708882 CTCTTTTTTT
85708892 TAAATAAAAATAAAAATAAC
1 TAAATAAAAATAAAAATAAC
*
85708912 TAAAT-AAAATAAAAAATAAT
1 TAAATAAAAAT-AAAAATAAC
* *
85708932 TAAAACAAAAATGAAAATAA
1 T-AAATAAAAATAAAAATAA
85708952 ATTTTTGAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.15
20 14 0.41
21 10 0.29
22 5 0.15
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAATAAAAATAAAAATAAC
Found at i:85720908 original size:38 final size:39
Alignment explanation
Indices: 85720811--85720920 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 39
85720801 CGGAATTTAA
* ** *
85720811 CCGGATATAGTTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGG-TATAGTAACTCGCACAAATGCCTTCGGGACATAAC
*
85720851 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGG-TATAGTAACTCGCACAAATGCCTTCGGGACATAAC
*
85720891 CCGG-ATAGTATCTCGCACAAATGCCTTCGG
1 CCGGTATAGTAACTCGCACAAATGCCTTCGG
85720921 ATCTTAGTCC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
38 25 0.40
40 38 0.60
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:85720933 original size:38 final size:38
Alignment explanation
Indices: 85720830--85720972 Score: 148
Period size: 40 Copynumber: 3.7 Consensus size: 38
85720820 GTTACTCGTT
*
85720830 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG--ATAGTAACTCGCA
* *
85720870 CAAATGCCTTCGGGACTTAACCCGGATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATAGTAACTCGCA
* * * *
85720908 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCT
1 CAAATGCCTTCGGGA-CTTAGCCCGGATA--GTAAC-TCGCA
85720949 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85720973 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
37 3 0.03
38 34 0.38
39 10 0.11
40 35 0.39
41 7 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGGATAGTAACTCGCA
Found at i:85723250 original size:40 final size:41
Alignment explanation
Indices: 85723206--85723323 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
85723196 AGTGTCGTAC
* * *
85723206 ATAGCTGAAGTTATCT-TAAATCACACACTAAGTGCCAAAT
1 ATAGCCGAAGCTATCTCGAAATCACACACTAAGTGCCAAAT
** * *
85723246 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCGAAATCACACACTAAGTGCCAAAT
* * * * *
85723287 ATAGACAAAGCTATGTCG-ATTCGCACACTAAGTGCCA
1 ATAGCCGAAGCTATCTCGAAATCACACACTAAGTGCCA
85723324 CAAATAACCG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 31 0.48
41 34 0.52
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (41 bp):
ATAGCCGAAGCTATCTCGAAATCACACACTAAGTGCCAAAT
Found at i:85723279 original size:41 final size:40
Alignment explanation
Indices: 85723229--85723323 Score: 145
Period size: 41 Copynumber: 2.4 Consensus size: 40
85723219 TCTTAAATCA
* *
85723229 CACACTAAGTGCCAAATATAGCCGAAGCTATCTCGATCTCG
1 CACACTAAGTGCCAAATATAGACAAAGCTATCTCGAT-TCG
* *
85723270 CACACTAAGTGCCATATATAGACAAAGCTATGTCGATTCG
1 CACACTAAGTGCCAAATATAGACAAAGCTATCTCGATTCG
85723310 CACACTAAGTGCCA
1 CACACTAAGTGCCA
85723324 CAAATAACCG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 17 0.34
41 33 0.66
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCAAATATAGACAAAGCTATCTCGATTCG
Found at i:85731156 original size:20 final size:20
Alignment explanation
Indices: 85731131--85731177 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
85731121 GTTTTGATAT
85731131 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
85731151 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
85731171 ACATGAT
1 ACATGAT
85731178 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:85731278 original size:25 final size:25
Alignment explanation
Indices: 85731250--85731332 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
85731240 CAGTTTACCG
85731250 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
* *
85731275 AAAAGGGCCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATT
* *
85731300 GAAAGGGC-TTTGCCCTAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
85731323 AAAAGAGGCT
1 AAAAG-GGCT
85731333 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.16
24 12 0.24
25 30 0.60
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:85731319 original size:24 final size:24
Alignment explanation
Indices: 85731226--85731319 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 24
85731216 GGAAGTGCAA
* *
85731226 AAAGGG-TTATGCCACAGTTTACCG
1 AAAGGGCTT-TGCCCCAGTTTATCG
**
85731250 AAAAGGGCTTTTGCCCCAGTTTATTA
1 -AAAGGGC-TTTGCCCCAGTTTATCG
85731276 AAAGGGCCTTTGCCCCAGTTTATCG
1 AAAGGG-CTTTGCCCCAGTTTATCG
*
85731301 AAAGGGCTTTGCCCTAGTT
1 AAAGGGCTTTGCCCCAGTT
85731320 ATTAAAAGAG
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
24 12 0.20
25 33 0.56
26 12 0.20
27 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AAAGGGCTTTGCCCCAGTTTATCG
Found at i:85731343 original size:49 final size:51
Alignment explanation
Indices: 85731240--85731344 Score: 128
Period size: 49 Copynumber: 2.1 Consensus size: 51
85731230 GGTTATGCCA
**
85731240 CAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATTAAAAGGGCCTTTGCCC
1 CAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATTAAAAGGGCCTAGGCCC
* *
85731291 CAGTTTATCG-AAAGGGC-TTTGCCCTAG-TTATTAAAAGAGG-CTAGGCCTC
1 CAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATTAAAAG-GGCCTAGGCC-C
85731340 CAGTT
1 CAGTT
85731345 ATATGATAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
48 15 0.31
49 17 0.35
50 7 0.15
51 9 0.19
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (51 bp):
CAGTTTACCGAAAAGGGCTTTTGCCCCAGTTTATTAAAAGGGCCTAGGCCC
Found at i:85731579 original size:31 final size:31
Alignment explanation
Indices: 85731541--85731604 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
85731531 CGTTTACAAT
85731541 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
85731572 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
85731603 AA
1 AA
85731605 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:85731609 original size:38 final size:38
Alignment explanation
Indices: 85731558--85731664 Score: 196
Period size: 38 Copynumber: 2.8 Consensus size: 38
85731548 TCGGCCCAGT
85731558 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
* *
85731596 AATATGAAATATGAAAAGGCTTCGACCTAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
85731634 AATATGAAATATGAAAAGGCTTCGGCCCAGT
1 AATATGAAATATGAAAAGGCTTCGGCCCAGT
85731665 ATATGCTGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.26
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
Found at i:85750315 original size:47 final size:47
Alignment explanation
Indices: 85750242--85750372 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
85750232 CACAATCGAT
* * *
85750242 AAGTACCTATACCATGGCTCGCAGCCAAATCAAGGTAACTTATCTTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCA
* * *
85750289 GAGTACCTAAACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCA
* ** *
85750336 AAATACCTATATAATGGCCCGTAGCCAAATTAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
85750373 TTATTCGCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCA
Found at i:85764656 original size:11 final size:11
Alignment explanation
Indices: 85764640--85764670 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
85764630 GAGCACCAAT
85764640 AGCCAAAAATG
1 AGCCAAAAATG
85764651 AGCCAAAAATG
1 AGCCAAAAATG
85764662 AGCCAAAAA
1 AGCCAAAAA
85764671 GGGACAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.06
Consensus pattern (11 bp):
AGCCAAAAATG
Found at i:85768764 original size:34 final size:34
Alignment explanation
Indices: 85768725--85768791 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
85768715 GATGCTTCGC
* *
85768725 TATAAATCACAAATTTTTTACCCGATTCTGGCTA
1 TATAAATCACAAAATCTTTACCCGATTCTGGCTA
*
85768759 TATAAATCACAAAATCTTTACCCGATTTTGGCT
1 TATAAATCACAAAATCTTTACCCGATTCTGGCT
85768792 GTACTAACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (34 bp):
TATAAATCACAAAATCTTTACCCGATTCTGGCTA
Found at i:85772588 original size:27 final size:26
Alignment explanation
Indices: 85772532--85772642 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
85772522 AGCATGGCTG
* *
85772532 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
85772558 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
85772585 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
85772612 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
85772639 CCAG
1 CCAG
85772643 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 15 0.20
27 59 0.78
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:85772931 original size:19 final size:19
Alignment explanation
Indices: 85772907--85772962 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
85772897 TTGGGCCCCG
85772907 TTGGCCCATTAACCCAATT
1 TTGGCCCATTAACCCAATT
**
85772926 TTGGCCCATTAACCTGATT
1 TTGGCCCATTAACCCAATT
* *
85772945 TCGGCCCGTTAAGCCCAA
1 TTGGCCCATTAA-CCCAA
85772963 AATATCATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 27 0.90
20 3 0.10
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (19 bp):
TTGGCCCATTAACCCAATT
Found at i:85774070 original size:24 final size:23
Alignment explanation
Indices: 85774037--85774142 Score: 140
Period size: 24 Copynumber: 4.4 Consensus size: 23
85774027 GCCGGCCAAC
85774037 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
*
85774062 TCTTCTCCTTTATCAGCTTCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
*
85774086 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
85774110 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
85774134 TCTTCTCCT
1 TCTTCTCCT
85774143 GACAGCCTGT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 3 0.04
24 64 0.85
25 8 0.11
ACGTcount: A:0.19, C:0.37, G:0.06, T:0.39
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:85776506 original size:24 final size:23
Alignment explanation
Indices: 85776478--85776578 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 23
85776468 CCAACTCTTG
*
85776478 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTT-ATCAGCTCCTAAATCCT
*
85776502 CTCCTTTATCAGCTCCAAAATCCT
1 CTCC-TTATCAGCTCCTAAATCCT
85776526 CTCCCTTATCAGCTCCTAAATCCT
1 CT-CCTTATCAGCTCCTAAATCCT
85776550 CTCCCTTATCAGCTCCTAAATCCT
1 CT-CCTTATCAGCTCCTAAATCCT
85776574 CTCCT
1 CTCCT
85776579 GACAGCCATT
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
23 3 0.04
24 65 0.90
25 4 0.06
ACGTcount: A:0.21, C:0.40, G:0.05, T:0.35
Consensus pattern (23 bp):
CTCCTTATCAGCTCCTAAATCCT
Found at i:85778445 original size:30 final size:31
Alignment explanation
Indices: 85778386--85778446 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
85778376 ATTTACGAGC
*
85778386 CTAGGGGTAAAATCGTAATTTTTGTAAAAGT
1 CTAGGGGTAAAATCGTAATTTTTGAAAAAGT
* *
85778417 CTAGGGGTAAAATGGTCA-TTTTGAAAAAGT
1 CTAGGGGTAAAATCGTAATTTTTGAAAAAGT
85778447 ATAGATTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.33
Consensus pattern (31 bp):
CTAGGGGTAAAATCGTAATTTTTGAAAAAGT
Found at i:85779063 original size:50 final size:50
Alignment explanation
Indices: 85778995--85779273 Score: 218
Period size: 50 Copynumber: 5.7 Consensus size: 50
85778985 TCGGCCACTT
* * *
85778995 TATGACAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTCGAGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGA
* * *
85779045 TATGAAAGCTAGTATAAGACCATGTCTGGGACATGGCATCGACTT-GAG-
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGA
* * * ** *
85779093 -AT--G-TCTCAGTGTAAGACCATGTCTAGGACATGGCATTGGCACCGACA
1 TATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGA
* * * * * * *
85779140 GATGAGAGCCAGTGTAAGGCCATGTCTGGGATATGGCATCTGCCTCGATA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGA
* * * *
85779190 TATGAGAG-TCAATGTAAGACCATGTTTGGGACATGGCATCGACTT--TGA
1 TATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGA
* * * *
85779238 TGTGTA-AGCCAGTGTAAGACCATGCCCGGGACATGG
1 TATG-AGAGCTAGTGTAAGACCATGTCTGGGACATGG
85779274 TGTCGGCATC
Statistics
Matches: 178, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
44 2 0.01
45 29 0.16
46 2 0.01
47 2 0.01
48 30 0.17
49 4 0.02
50 108 0.61
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGA
Found at i:85779111 original size:95 final size:98
Alignment explanation
Indices: 85779004--85779273 Score: 271
Period size: 95 Copynumber: 2.8 Consensus size: 98
85778994 TTATGACAGC
* *
85779004 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTCGAGATATGAAAGCTAGTATAAGACCATG
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTCGAGATATGAAAGCCAGTGTAAGACCATG
* *
85779069 TCTGGGACATGGCATC-GACTTG-AGAT-GTCT
66 TCTGGGACATGGCATCTGACTCGAAGATAGACT
* * * ** * * * *
85779099 CAGTGTAAGACCATGTCTAGGACATGGCATTGGCACCGACAGATGAGAGCCAGTGTAAGGCCATG
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTCGAGATATGAAAGCCAGTGTAAGACCATG
* * * *
85779164 TCTGGGATATGGCATCTGCCTCGATATATGAGAGT
66 TCTGGGACATGGCATCTGACTCGA-AGAT-AGACT
* * * * *
85779199 CAATGTAAGACCATGTTTGGGACATGGCATCGACTT--TGATGTGTAAGCCAGTGTAAGACCATG
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTCGAGATATGAAAGCCAGTGTAAGACCATG
* *
85779262 CCCGGGACATGG
66 TCTGGGACATGG
85779274 TGTCGGCATC
Statistics
Matches: 136, Mismatches: 34, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
95 69 0.51
96 4 0.03
98 32 0.24
100 31 0.23
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (98 bp):
CAGTGTAAGACCATGTTTGGGACATGGCATCGGCTTCGAGATATGAAAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCTGACTCGAAGATAGACT
Found at i:85785350 original size:30 final size:31
Alignment explanation
Indices: 85785290--85785350 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
85785280 ATTTACGAGC
*
85785290 CTAGGGGTAAAATCGTAATTTTTGTAAAAGT
1 CTAGGGGCAAAATCGTAATTTTTGTAAAAGT
* * *
85785321 CTAGGGGCAAAATGGTCA-TTTTGTCAAAGT
1 CTAGGGGCAAAATCGTAATTTTTGTAAAAGT
85785351 ATAAATTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (31 bp):
CTAGGGGCAAAATCGTAATTTTTGTAAAAGT
Found at i:85785957 original size:48 final size:48
Alignment explanation
Indices: 85785907--85786189 Score: 286
Period size: 48 Copynumber: 5.9 Consensus size: 48
85785897 GCCACATTAC
* *
85785907 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
* *
85785955 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC-TTGAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
* * * *
85786002 --GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGGTAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TG-AGAT
* * * *
85786050 GAGAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCCTCGATATAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--AGAT
** * * * *
85786100 GAGAGTTAGTGTAATACCATGTTTGGGACATGGCATCGACTTTGATG-T
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAT
* * * * *
85786148 GTGAGCTAGTGTAAGACCATGTCCGGGACTTGGCATTGGCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
85786190 CTTACCCTAT
Statistics
Matches: 195, Mismatches: 33, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
45 33 0.17
46 1 0.01
47 7 0.04
48 78 0.40
49 1 0.01
50 75 0.38
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
Found at i:85786071 original size:95 final size:93
Alignment explanation
Indices: 85785913--85786085 Score: 274
Period size: 95 Copynumber: 1.8 Consensus size: 93
85785903 TTACGAGAGC
** * * *
85785913 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCTAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATGGAGACGAGAGCCAGTGTAAGAACATGTC
85785978 TGGGACATGGCATTGGCTTGAGATGTGT
66 TGGGACATGGCATTGGCTTGAGATGTGT
*
85786006 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGGTAGATGAGAGCCAGTGTAAGAACATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-GG-AGACGAGAGCCAGTGTAAGAACATG
85786071 TCTGGGACATGGCAT
64 TCTGGGACATGGCAT
85786086 CGGCCTCGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 34 0.47
94 1 0.01
95 37 0.51
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (93 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATGGAGACGAGAGCCAGTGTAAGAACATGTC
TGGGACATGGCATTGGCTTGAGATGTGT
Found at i:85789177 original size:47 final size:47
Alignment explanation
Indices: 85789079--85789206 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
85789069 AATCGATAAG
* *** *
85789079 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTTGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAA
* *
85789126 TACCTGA-ACCATGACCCGTAGCCAAATCAAGGTAACTCCTCTCAAAA
1 TACCT-ATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAA
* *
85789173 TACCTATATCATGGCCCGTAGCCAAATTAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
85789207 TTATTCGCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 1 0.01
47 67 0.97
48 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAA
Found at i:85790622 original size:35 final size:35
Alignment explanation
Indices: 85790555--85790675 Score: 91
Period size: 35 Copynumber: 3.5 Consensus size: 35
85790545 CCCTTTCGAG
* **
85790555 GTGTTGCCCTAAATGACCTATATATTGCTTACACA
1 GTGTTGCCCTAAAGGACCTATATACCGCTTACACA
** *
85790590 GTGTTGCCCTGGAGGACCTATATACCGTTTACACA
1 GTGTTGCCCTAAAGGACCTATATACCGCTTACACA
* ** * * * *
85790625 ATGTCACCCAAAATGACCTATATATCG-TCATCACA
1 GTGTTGCCCTAAAGGACCTATATACCGCTTA-CACA
**
85790660 GTGTCACCCTAAAGGA
1 GTGTTGCCCTAAAGGA
85790676 TCAGTAGATA
Statistics
Matches: 67, Mismatches: 18, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
34 2 0.03
35 65 0.97
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (35 bp):
GTGTTGCCCTAAAGGACCTATATACCGCTTACACA
Found at i:85795847 original size:23 final size:23
Alignment explanation
Indices: 85795817--85795863 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
85795807 TGTCCCTTCA
85795817 ATGTTTTGAACTCAATGTGAGCT
1 ATGTTTTGAACTCAATGTGAGCT
85795840 ATGTTTTGAACTCAATGTGAGCT
1 ATGTTTTGAACTCAATGTGAGCT
85795863 A
1 A
85795864 CGTTAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (23 bp):
ATGTTTTGAACTCAATGTGAGCT
Found at i:85796540 original size:26 final size:26
Alignment explanation
Indices: 85796501--85796554 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
85796491 GTTTTTGCAT
*
85796501 GCAAAACAATATAGAAACAAATATTA
1 GCAAAACAAAATAGAAACAAATATTA
*
85796527 GCAAAACAAAATAGAAGCAAATATTA
1 GCAAAACAAAATAGAAACAAATATTA
85796553 GC
1 GC
85796555 TCACTTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.59, C:0.13, G:0.11, T:0.17
Consensus pattern (26 bp):
GCAAAACAAAATAGAAACAAATATTA
Found at i:85799235 original size:48 final size:48
Alignment explanation
Indices: 85799156--85799484 Score: 308
Period size: 48 Copynumber: 6.8 Consensus size: 48
85799146 ATAGGGTAAG
* ** *
85799156 ATGCCGACGCCATACCCCGGACATGGTCTTACACTGGCTCACACATCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCA
* * ** * * *
85799204 AAGTCGATGCCATGTCCCAGACATGGTCTTACACTTACTCTCATATATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC-T-GGCTCACACATCA
* * * * *
85799254 AGGCCGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCTCATCTATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-C-ATCA
* * *
85799304 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCA
* * * ***
85799350 A-GCTGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGTC-TCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ACACATCA
* * *
85799397 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATC-TTA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-CATCA
*
85799445 ATGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
85799485 TCATAATGTG
Statistics
Matches: 226, Mismatches: 46, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
45 31 0.14
46 4 0.02
47 5 0.02
48 110 0.49
49 3 0.01
50 73 0.32
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCA
Done.