Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 254 of 316
Found at i:83958519 original size:43 final size:43
Alignment explanation
Indices: 83958458--83958540 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
83958448 ACATGAATCA
*
83958458 CATCCATCATGAACTCGGACCTCTCAACAAGCTCGGATGCTTG
1 CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGCTTG
* *
83958501 CATCCATAATGAACTCGGACCTCTCAACGAGCTTGGATGC
1 CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
83958541 CACATATCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
CATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGCTTG
Found at i:83960038 original size:27 final size:27
Alignment explanation
Indices: 83960008--83960177 Score: 177
Period size: 27 Copynumber: 6.3 Consensus size: 27
83959998 GGTGAAATAG
* *
83960008 TCATATTACCATAAAAGGGCAAAACAA
1 TCATTTTACCATATAAGGGCAAAACAA
** *
83960035 TCATTTTACCACCTAAGGGAAAAACAA
1 TCATTTTACCATATAAGGGCAAAACAA
83960062 TCATTTTACC-TCATAAGGGCAAAACAA
1 TCATTTTACCAT-ATAAGGGCAAAACAA
* * *
83960089 TCATTTTACCCTATAAGGCCAAAACAG
1 TCATTTTACCATATAAGGGCAAAACAA
*
83960116 TCATTTTACC-TCATAAGGGTAAAA-AA
1 TCATTTTACCAT-ATAAGGGCAAAACAA
* *
83960142 GTCATTTTACC-TCATAAGGTCAAAATAA
1 -TCATTTTACCAT-ATAAGGGCAAAACAA
83960170 TCATTTTA
1 TCATTTTA
83960178 TTAATTAGGG
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.02
27 118 0.96
28 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGCAAAACAA
Found at i:83960071 original size:54 final size:53
Alignment explanation
Indices: 83960022--83960177 Score: 206
Period size: 54 Copynumber: 2.9 Consensus size: 53
83960012 ATTACCATAA
* **
83960022 AAGGGCAAAACAATCATTTTACCACCTAAGGGAAAAACAATCATTTTACCTCAT
1 AAGGGCAAAACAATCATTTTACC-CATAAGGCCAAAACAATCATTTTACCTCAT
*
83960076 AAGGGCAAAACAATCATTTTACCCTATAAGGCCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAATCATTTTACCC-ATAAGGCCAAAACAATCATTTTACCTCAT
* * *
83960130 AAGGGTAAAA-AAGTCATTTTACCTCATAAGGTCAAAATAATCATTTTA
1 AAGGGCAAAACAA-TCATTTTACC-CATAAGGCCAAAACAATCATTTTA
83960178 TTAATTAGGG
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
53 3 0.03
54 87 0.96
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (53 bp):
AAGGGCAAAACAATCATTTTACCCATAAGGCCAAAACAATCATTTTACCTCAT
Found at i:83960133 original size:81 final size:81
Alignment explanation
Indices: 83960008--83960177 Score: 234
Period size: 81 Copynumber: 2.1 Consensus size: 81
83959998 GGTGAAATAG
* * *
83960008 TCATATTACCATAAAAGGGCAAAACAATCATTTTACCACCTAAGGG-AAAAACAATCATTTTACC
1 TCATTTTACCATAAAAGGCCAAAACAATCATTTTACCACATAAGGGTAAAAA-AATCATTTTACC
83960072 TCATAAGGGCAAAACAA
65 TCATAAGGGCAAAACAA
* * * * *
83960089 TCATTTTACCCTATAAGGCCAAAACAGTCATTTTACCTCATAAGGGTAAAAAAGTCATTTTACCT
1 TCATTTTACCATAAAAGGCCAAAACAATCATTTTACCACATAAGGGTAAAAAAATCATTTTACCT
* *
83960154 CATAAGGTCAAAATAA
66 CATAAGGGCAAAACAA
83960170 TCATTTTA
1 TCATTTTA
83960178 TTAATTAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 73 0.94
82 5 0.06
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (81 bp):
TCATTTTACCATAAAAGGCCAAAACAATCATTTTACCACATAAGGGTAAAAAAATCATTTTACCT
CATAAGGGCAAAACAA
Found at i:83963475 original size:18 final size:18
Alignment explanation
Indices: 83963436--83963479 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
83963426 GGCCCTTTCA
83963436 AGTAACAGTAAACAGTAC
1 AGTAACAGTAAACAGTAC
* **
83963454 AGTAATAGTAAACAGTGT
1 AGTAACAGTAAACAGTAC
83963472 AGTAACAG
1 AGTAACAG
83963480 AAAATAGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.20
Consensus pattern (18 bp):
AGTAACAGTAAACAGTAC
Found at i:83963851 original size:27 final size:27
Alignment explanation
Indices: 83963809--83964066 Score: 184
Period size: 27 Copynumber: 9.6 Consensus size: 27
83963799 ACACAGGGAT
* *
83963809 AAAACAGTCATCTTACCATAAAAGGGA
1 AAAACAGTCATTTTACCATAAAAGGGC
* * *
83963836 AAAACAATCTTTTTACCACATAAAGGGC
1 AAAACAGTCATTTTACCATA-AAAGGGC
* * *
83963864 AAAACAATCATTTTACC-TCATAAGAGC
1 AAAACAGTCATTTTACCAT-AAAAGGGC
* *
83963891 AAAACAGTCATTTTACCCTATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
** *
83963918 AAAACAGTCATTTTACCCCATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
* * *
83963945 AAAATAGTCATTTTACC-TCATAAGGGT
1 AAAACAGTCATTTTACCAT-AAAAGGGC
* * ** *
83963972 AAAGCATTCATTTTACCCCATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
* * * *
83963999 AAAATAGTAATTTTACC-TCATAAGGGA
1 AAAACAGTCATTTTACCAT-AAAAGGGC
* * *
83964026 AAAATAGTCTTTTTACC-TCATAAGGGC
1 AAAACAGTCATTTTACCAT-AAAAGGGC
83964053 AAAAC-GTCATTTTA
1 AAAACAGTCATTTTA
83964067 TCAATTAGAG
Statistics
Matches: 194, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.04
27 162 0.84
28 24 0.12
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATAAAAGGGC
Found at i:83963930 original size:54 final size:54
Alignment explanation
Indices: 83963809--83964066 Score: 297
Period size: 54 Copynumber: 4.8 Consensus size: 54
83963799 ACACAGGGAT
* * * * * *
83963809 AAAACAGTCATCTTACCAT-AAAAGGGAAAAACAATCTTTTTACCACATAAAGGGC
1 AAAACAGTCATTTTACC-TCATAAGGGCAAAACAGTCATTTTACCTCAT-AAGGGC
* *
83963864 AAAACAATCATTTTACCTCATAAGAGCAAAACAGTCATTTTACC-CTATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCTC-ATAAGGGC
* * *
83963918 AAAACAGTCATTTTACCCCATAAGGGCAAAATAGTCATTTTACCTCATAAGGGT
1 AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
* * * * * *
83963972 AAAGCATTCATTTTACCCCATAAGGGCAAAATAGTAATTTTACCTCATAAGGGA
1 AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
* *
83964026 AAAATAGTCTTTTTACCTCATAAGGGCAAAAC-GTCATTTTA
1 AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTA
83964067 TCAATTAGAG
Statistics
Matches: 177, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 8 0.05
54 131 0.74
55 38 0.21
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (54 bp):
AAAACAGTCATTTTACCTCATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
Found at i:83963983 original size:81 final size:81
Alignment explanation
Indices: 83963809--83964066 Score: 329
Period size: 81 Copynumber: 3.2 Consensus size: 81
83963799 ACACAGGGAT
* * * * * * * *
83963809 AAAACAGTCATCTTACCATAAAAGGGAAAAACAATCTTTTTACCACATAAAGGGCAAAACAATCA
1 AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCACAT-AAGGGCAAAATAGTCA
*
83963874 TTTTACCTCATAAGAGC
65 TTTTACCTCATAAGGGC
*
83963891 AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAATAGTCAT
1 AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAT
*
83963956 TTTACCTCATAAGGGT
66 TTTACCTCATAAGGGC
* * * * * * * *
83963972 AAAGCATTCATTTTACCCCATAAGGGCAAAATAGTAATTTTACCTCATAAGGGAAAAATAGTCTT
1 AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAT
83964037 TTTACCTCATAAGGGC
66 TTTACCTCATAAGGGC
83964053 AAAAC-GTCATTTTA
1 AAAACAGTCATTTTA
83964067 TCAATTAGAG
Statistics
Matches: 154, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 8 0.05
81 105 0.68
82 41 0.27
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (81 bp):
AAAACAGTCATTTTACCCTATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCAT
TTTACCTCATAAGGGC
Found at i:83964753 original size:13 final size:13
Alignment explanation
Indices: 83964718--83964753 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
83964708 TAGCAAAAAG
83964718 AAAAATAAAATAA
1 AAAAATAAAATAA
* *
83964731 AATAAGAAAATAA
1 AAAAATAAAATAA
83964744 AAAAATAAAA
1 AAAAATAAAA
83964754 ATCCCTCTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:83970373 original size:42 final size:44
Alignment explanation
Indices: 83970268--83970421 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 44
83970258 TCGTACAACA
* ** * * *
83970268 CCAACGTCCCAAATGTGGTCTTACATGT-AATCACATATAGATG
1 CCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATCGATG
* * * * * *
83970311 CCACTGTCCCAGACAGGGTCTTACACG-AACTCATATAT-GATG
1 CCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATCGATG
* * *
83970353 TCGATGTCCCAAACATGGTCTTACATGTAAATCACAAATCGATG
1 CCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATCGATG
*
83970397 CCAACGTCCCAAACATGGTCTTACA
1 CCAATGTCCCAAACATGGTCTTACA
83970422 TGAATCACAT
Statistics
Matches: 87, Mismatches: 21, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 25 0.29
43 36 0.41
44 26 0.30
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (44 bp):
CCAATGTCCCAAACATGGTCTTACACGTAAATCACAAATCGATG
Found at i:83971560 original size:13 final size:13
Alignment explanation
Indices: 83971542--83971566 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83971532 TCAAACGATA
83971542 AAATTTTCACACG
1 AAATTTTCACACG
83971555 AAATTTTCACAC
1 AAATTTTCACAC
83971567 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:83974309 original size:42 final size:44
Alignment explanation
Indices: 83974242--83974345 Score: 133
Period size: 42 Copynumber: 2.4 Consensus size: 44
83974232 TATCAATTTC
* *
83974242 TGATTTACGTGTAAGACCATGTCTAGGACATTGGCATC-ATATA
1 TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCGATATA
* *
83974285 TGATTT-CGTGTAAGACCCTATCTAGGACAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCGATATA
**
83974328 TGA-TTACAAGTAAGACCA
1 TGATTTACGTGTAAGACCA
83974346 CGTCTGGGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 30 0.58
43 22 0.42
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATATCTAGGACAGTGGCATCGATATA
Found at i:83974362 original size:43 final size:42
Alignment explanation
Indices: 83974205--83974363 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
83974195 TATGTGTTAT
* * *
83974205 CGTGTAAGACCACATTTGGGACGTTGGTATCA-ATTTCTGATTTA
1 CGTGTAAGACCACATCTAGGACGTTGGCATCATA-TT-TGA-TTA
** * * *
83974249 CGTGTAAGACCATGTCTAGGACATTGGCATCATATATGATTT
1 CGTGTAAGACCACATCTAGGACGTTGGCATCATATTTGATTA
83974291 CGTGTAAGACC-CTATCTAGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-ATCTAGGAC-GTTGGCATC-ATATTTGATTA
** * *
83974334 CAAGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACATCTAGGACGTTGGCAT
83974364 TGTATGAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 29 0.32
43 34 0.37
44 28 0.30
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACATCTAGGACGTTGGCATCATATTTGATTA
Found at i:83976463 original size:46 final size:48
Alignment explanation
Indices: 83976395--83976519 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 48
83976385 GTATGTAAGC
*
83976395 CAGTGTAAGACGTGTCTGGGACATGCATCGGCCACATT-ATGA-G-G-G
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGA-GACGAGAG
*
83976440 TCAGTGTAAGACATGTCTAGGACATGCATC-G--ACATTGAGACGAGAG
1 -CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGAGACGAGAG
*
83976486 CTAGTGTAAGACATGTTTGGGACATGCATCGGCC
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCC
83976520 TCGACATATA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
43 7 0.10
44 2 0.03
45 3 0.04
46 54 0.81
47 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGAGACGAGAG
Found at i:83976667 original size:49 final size:49
Alignment explanation
Indices: 83976582--83976709 Score: 125
Period size: 49 Copynumber: 2.6 Consensus size: 49
83976572 TGTGTGTCAA
*
83976582 TGTAAGACCTGTCCGGGACATGGCATCGACACCGATAGATAAGAACT-AG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAA-AACTCAG
* * * * * *
83976631 TGTAAGACCTGTCTGGGACATGGCTTTGGC-CTCGATATATGAAAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATAAAACTCAG
* * **
83976680 TGTAATACCTGTTTGGGACACAGCATCGAC
1 TGTAAGACCTGTCTGGGACATGGCATCGAC
83976710 TTTAATGTAC
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
48 4 0.06
49 59 0.94
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAAAACTCAG
Found at i:83977202 original size:118 final size:118
Alignment explanation
Indices: 83976994--83977230 Score: 474
Period size: 118 Copynumber: 2.0 Consensus size: 118
83976984 TAGGAATGGT
83976994 TATGAGCATATTGTTCTATGATAATTAGCTGATGTTTATTTTCGTACAACTTACTAAGCTTTATG
1 TATGAGCATATTGTTCTATGATAATTAGCTGATGTTTATTTTCGTACAACTTACTAAGCTTTATG
83977059 CTTACCCCTTTTCCTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTTGTGGA
66 CTTACCCCTTTTCCTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTTGTGGA
83977112 TATGAGCATATTGTTCTATGATAATTAGCTGATGTTTATTTTCGTACAACTTACTAAGCTTTATG
1 TATGAGCATATTGTTCTATGATAATTAGCTGATGTTTATTTTCGTACAACTTACTAAGCTTTATG
83977177 CTTACCCCTTTTCCTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTTGTGGA
66 CTTACCCCTTTTCCTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTTGTGGA
83977230 T
1 T
83977231 CATCGCCTTA
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (118 bp):
TATGAGCATATTGTTCTATGATAATTAGCTGATGTTTATTTTCGTACAACTTACTAAGCTTTATG
CTTACCCCTTTTCCTTTCCATTTTCTTATAGTGCCGCCAAAGTAGCTTGTGGA
Found at i:83983119 original size:15 final size:16
Alignment explanation
Indices: 83983099--83983128 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
83983089 AAGGTCTTAT
83983099 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
83983114 AATCATAACCTTACT
1 AATCATAACCTTACT
83983129 GAGGGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:83983439 original size:42 final size:40
Alignment explanation
Indices: 83983299--83983456 Score: 167
Period size: 42 Copynumber: 3.9 Consensus size: 40
83983289 TACCGTACCA
** * *
83983299 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTC-TAT-T
* * *
83983341 ATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCTC-A-T
1 ATGCC-ATATCCCAGATATGGTCTTACACATAGTCTCTATT
* *
83983380 ATGCCATATCCCAGATATAGTCTTACACGTAGTCTCATATT
1 ATGCCATATCCCAGATATGGTCTTACACATAGTCTC-TATT
*
83983421 GATGCCATATCCTAGATATGGTCTTACACATAGTCT
1 -ATGCCATATCCCAGATATGGTCTTACACATAGTCT
83983457 TAGTAACCCT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
38 26 0.27
39 5 0.05
40 1 0.01
41 2 0.02
42 37 0.39
43 25 0.26
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (40 bp):
ATGCCATATCCCAGATATGGTCTTACACATAGTCTCTATT
Found at i:83985420 original size:33 final size:31
Alignment explanation
Indices: 83985365--83985436 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 31
83985355 AGGGTTAGAG
83985365 AAAAAAAAAGAAGAAAAAGGAAATAGAGAAAAT
1 AAAAAAAAAGAAGAAAAAGGAAA-AG-GAAAAT
* **
83985398 AAAAGAAAAGAAGAAATTGGAAAAGGAAAA-
1 AAAAAAAAAGAAGAAAAAGGAAAAGGAAAAT
*
83985428 AAATAAAAA
1 AAAAAAAAA
83985437 TCAAAGTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 7 0.21
31 5 0.15
32 2 0.06
33 20 0.59
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (31 bp):
AAAAAAAAAGAAGAAAAAGGAAAAGGAAAAT
Found at i:83988254 original size:16 final size:16
Alignment explanation
Indices: 83988235--83988267 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
83988225 TTTCCCCAAT
83988235 TTTATTTTCATATGCA
1 TTTATTTTCATATGCA
*
83988251 TTTATTTTTATATGCA
1 TTTATTTTCATATGCA
83988267 T
1 T
83988268 ATTTAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTATTTTCATATGCA
Found at i:83988821 original size:15 final size:15
Alignment explanation
Indices: 83988801--83988839 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
83988791 TTGTAAAGTA
* *
83988801 ACATTCTCGACAATC
1 ACATTCTCAACAACC
*
83988816 ACATTCCCAACAACC
1 ACATTCTCAACAACC
83988831 ACATTCTCA
1 ACATTCTCA
83988840 TAACATGGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.38, G:0.03, T:0.23
Consensus pattern (15 bp):
ACATTCTCAACAACC
Found at i:83991748 original size:28 final size:29
Alignment explanation
Indices: 83991689--83991755 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
83991679 AATATTTCTC
* *
83991689 CAAATTAATTATTAAATAAAATAGTTTAA
1 CAAATCAATTATTAAATAAAATAATTTAA
*
83991718 CAAATCAATT-TTAAGT-AAATAATTTACA
1 CAAATCAATTATTAAATAAAATAATTTA-A
*
83991746 CAACTCAATT
1 CAAATCAATT
83991756 CTAATTCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 9 0.27
28 15 0.45
29 9 0.27
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (29 bp):
CAAATCAATTATTAAATAAAATAATTTAA
Found at i:83993525 original size:29 final size:29
Alignment explanation
Indices: 83993483--83993539 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
83993473 TTATAACTAG
83993483 GTCAATTACTTGGAGGCAAAGGAAGGGTA
1 GTCAATTACTTGGAGGCAAAGGAAGGGTA
83993512 GTCAATTACTTGGAGGCAAAGGAAGGGT
1 GTCAATTACTTGGAGGCAAAGGAAGGGT
83993540 TGTTTCCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.35, T:0.21
Consensus pattern (29 bp):
GTCAATTACTTGGAGGCAAAGGAAGGGTA
Found at i:83997025 original size:46 final size:46
Alignment explanation
Indices: 83996888--83997063 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
83996878 TCACTTGTGT
* * ** * *
83996888 GAGCTAGTGTAGGACATGTCTGGGACATGCATCGGCC-ACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GACGA
* *
83996934 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGACGA
* * * *
83996982 GTGCTAGTGTAAGACATGTGTGGGACATGCTTCGGCCTTGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACG-A
* *
83997029 -AGCCAGTGTATGACATGTCTGAGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
83997064 TACGAGATGT
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 56 0.53
47 26 0.25
48 23 0.22
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGA
Found at i:83999188 original size:20 final size:20
Alignment explanation
Indices: 83999163--83999230 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
83999153 TTTTGCACAT
83999163 TAATTCCATATAACACTTAC
1 TAATTCCATATAACACTTAC
**
83999183 TAATTCCATA-AA-TTTTGCAC
1 TAATTCCATATAACACTT--AC
83999203 ATTAATTCCATATAACACTTAC
1 --TAATTCCATATAACACTTAC
83999225 TAATTC
1 TAATTC
83999231 TTCTCAGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 18 0.47
22 12 0.32
23 2 0.05
24 2 0.05
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.38
Consensus pattern (20 bp):
TAATTCCATATAACACTTAC
Found at i:83999208 original size:42 final size:42
Alignment explanation
Indices: 83999149--83999230 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
83999139 AATAATAACT
83999149 TAAATTTTGCACATTAATTCCATATAACACTTACTAATTCCA
1 TAAATTTTGCACATTAATTCCATATAACACTTACTAATTCCA
83999191 TAAATTTTGCACATTAATTCCATATAACACTTACTAATTC
1 TAAATTTTGCACATTAATTCCATATAACACTTACTAATTC
83999231 TTCTCAGTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (42 bp):
TAAATTTTGCACATTAATTCCATATAACACTTACTAATTCCA
Found at i:83999211 original size:22 final size:22
Alignment explanation
Indices: 83999149--83999214 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
83999139 AATAATAACT
83999149 TAAATTTTGCACATTAATTCCA
1 TAAATTTTGCACATTAATTCCA
**
83999171 TATAACACTT--AC--TAATTCCA
1 TA-AA-TTTTGCACATTAATTCCA
83999191 TAAATTTTGCACATTAATTCCA
1 TAAATTTTGCACATTAATTCCA
83999213 TA
1 TA
83999215 TAACACTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 12 0.35
22 14 0.41
23 2 0.06
24 2 0.06
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (22 bp):
TAAATTTTGCACATTAATTCCA
Found at i:83999384 original size:42 final size:42
Alignment explanation
Indices: 83999338--83999438 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
83999328 GGTTGAACGA
* **
83999338 AAGCTCATAGGAGTTGGACAAAAACCCATTAGGGTTAAACAG
1 AAGCTCATAAGAGTTAAACAAAAACCCATTAGGGTTAAACAG
* * * ** *
83999380 AAGCTCAAAAAAGCTAAACGGAAACCCATTAGGGTTAAACGG
1 AAGCTCATAAGAGTTAAACAAAAACCCATTAGGGTTAAACAG
* *
83999422 AAACTCATATGAGTTAA
1 AAGCTCATAAGAGTTAA
83999439 TTGAAGCTCA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.19
Consensus pattern (42 bp):
AAGCTCATAAGAGTTAAACAAAAACCCATTAGGGTTAAACAG
Found at i:83999437 original size:21 final size:21
Alignment explanation
Indices: 83999394--83999438 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
83999384 TCAAAAAAGC
*
83999394 TAAACGGAAACCCATTAGGGT
1 TAAACGGAAACCCATTAGAGT
*
83999415 TAAACGGAAACTCA-TATGAGT
1 TAAACGGAAACCCATTA-GAGT
83999436 TAA
1 TAA
83999439 TTGAAGCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (21 bp):
TAAACGGAAACCCATTAGAGT
Found at i:84005477 original size:85 final size:84
Alignment explanation
Indices: 84005321--84005481 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 84
84005311 GGAAAGCTCG
* **
84005321 TACAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAGATA
1 TACAATGCCAACATCCCAGACGTGCTCTTACATGTAATCAAATATCGATGCCAACGTCCCAGATA
84005386 GGGTCTTACACGAAATCAAA
66 -GGTCTTACACGAAATCAAA
* * * *
84005406 TACAATGCCAACGT-CCAGACGTGCTCTTACATGTAAATTATAA-GTCGATGCTAACGTCCCAGA
1 TACAATGCCAACATCCCAGACGTGCTCTTACATGT-AATCA-AATATCGATGCCAACGTCCCAGA
84005469 CGTA-GTCTTACAC
64 --TAGGTCTTACAC
84005482 AATAACACAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
84 19 0.29
85 42 0.65
86 2 0.03
87 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (84 bp):
TACAATGCCAACATCCCAGACGTGCTCTTACATGTAATCAAATATCGATGCCAACGTCCCAGATA
GGTCTTACACGAAATCAAA
Found at i:84006582 original size:13 final size:13
Alignment explanation
Indices: 84006564--84006588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84006554 ATAAATGATA
84006564 AAATTTTCACACT
1 AAATTTTCACACT
84006577 AAATTTTCACAC
1 AAATTTTCACAC
84006589 ATGTCAATTC
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:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCACACT
Found at i:84010032 original size:40 final size:39
Alignment explanation
Indices: 84009931--84010153 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
84009921 TCCTCGTTCA
* * *
84009931 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
84009970 AATGCCTTCGGGACATAGCCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
84010009 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGTAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * *
84010049 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGG-ATTTAGTAACTCGCAC
* * * * *
84010089 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
84010130 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
84010154 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 41 0.26
40 102 0.66
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:84010162 original size:41 final size:41
Alignment explanation
Indices: 84010085--84010162 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
84010075 TTTGTATCTC
* * *
84010085 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
84010126 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
84010163 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:84011759 original size:27 final size:27
Alignment explanation
Indices: 84011707--84011796 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 27
84011697 GTGATAGAGT
*
84011707 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* *
84011736 CATCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
**
84011763 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
84011791 CACCAG
1 CACCAG
84011797 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 23 0.43
28 24 0.45
29 6 0.11
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:84011949 original size:28 final size:28
Alignment explanation
Indices: 84011902--84011963 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
84011892 AAATTAACCC
*
84011902 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
84011930 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
84011958 TAGGGG
1 TAGGGG
84011964 CATTCTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:84014871 original size:46 final size:46
Alignment explanation
Indices: 84014821--84014996 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
84014811 TGGTTGAGCA
*
84014821 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84014867 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
84014912 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84014960 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84014997 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:84014977 original size:93 final size:93
Alignment explanation
Indices: 84014818--84014989 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
84014808 GGATGGTTGA
* *
84014818 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84014883 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
84014911 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84014976 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
84014990 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:84023252 original size:15 final size:15
Alignment explanation
Indices: 84023215--84023254 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
84023205 ACCCTCCCCG
*
84023215 CTCTTCTTCTCTTTT
1 CTCTTCTTTTCTTTT
*
84023230 CTCCTCTTTTCTTTT
1 CTCTTCTTTTCTTTT
*
84023245 CTTTTCTTTT
1 CTCTTCTTTT
84023255 TTCCCCCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
CTCTTCTTTTCTTTT
Found at i:84023254 original size:10 final size:10
Alignment explanation
Indices: 84023218--84023252 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
84023208 CTCCCCGCTC
84023218 TTCTTCTCTT
1 TTCTTCTCTT
*
84023228 TTCTCCTCTT
1 TTCTTCTCTT
*
84023238 TTCTTTTCTT
1 TTCTTCTCTT
84023248 TTCTT
1 TTCTT
84023253 TTTTCCCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTCTCTT
Found at i:84025149 original size:6 final size:6
Alignment explanation
Indices: 84025104--84025158 Score: 65
Period size: 6 Copynumber: 8.8 Consensus size: 6
84025094 TTGAGTCCGA
* * *
84025104 TTATTT CTATGT TTATGT TTATTT TTATCTT TTATCTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTAT-TT TTAT-TT TTATTT TTATTT
84025154 TTATT
1 TTATT
84025159 CTTCTTGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
6 31 0.70
7 13 0.30
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:84025161 original size:20 final size:20
Alignment explanation
Indices: 84025121--84025157 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
84025111 TATGTTTATG
84025121 TTTATTTTTATCTTTTATCT
1 TTTATTTTTATCTTTTATCT
84025141 TTTATTTTTAT-TTTTAT
1 TTTATTTTTATCTTTTAT
84025158 TCTTCTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTATTTTTATCTTTTATCT
Found at i:84032727 original size:42 final size:42
Alignment explanation
Indices: 84032612--84032728 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
84032602 GGAAAGCTCG
* * *
84032612 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATAAAA
1 TACAATGCCAACGTCCTAGACGTGGTCTTACACGAAACAAAA
* * * * * *
84032654 TATCGATACC-ACTGTCCTAAATGGGGTCTTACACGAAACCAAA
1 TA-CAATGCCAAC-GTCCTAGACGTGGTCTTACACGAAACAAAA
*
84032697 TACAATGCCAACATCCTAGACGTGGTCTTACA
1 TACAATGCCAACGTCCTAGACGTGGTCTTACA
84032729 TGATAACACA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
TACAATGCCAACGTCCTAGACGTGGTCTTACACGAAACAAAA
Found at i:84037669 original size:19 final size:20
Alignment explanation
Indices: 84037637--84037675 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
84037627 AAAGTTGTGA
84037637 AAATTAATGAAAAAT-TATG
1 AAATTAATGAAAAATATATG
* *
84037656 AAATTTATGGAAAATATATG
1 AAATTAATGAAAAATATATG
84037676 CTGTAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (20 bp):
AAATTAATGAAAAATATATG
Found at i:84046898 original size:95 final size:97
Alignment explanation
Indices: 84046670--84046942 Score: 297
Period size: 95 Copynumber: 2.8 Consensus size: 97
84046660 GTAAGGGTCG
** * * **
84046670 ATGCCATGTCCCGGACATGGTCTTACACTAGCTCACA-C-ATCAAAGTCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATCTATC-GGGTCGATGCCATGTCCCAGA
* **
84046733 CATGGTCTTACACTAACTCTCGTATATCGAGGCCA
65 CATGGTCTTACACTAAC-CACG-ATATCGAAACCA
* **
84046768 ATGCCATGTCCCAGAA-ATGGTGTTACACGGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAG
1 ATGCCATGTCCCA-AACATGGTATTACACTAGCTCTCATCTATCGG-GTCGATGCCATGTCCCAG
*
84046832 ACATGGTCTTACACTGA-CAC-ATATC-AAACCA
64 ACATGGTCTTACACTAACCACGATATCGAAACCA
* * * *
84046863 ATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATATCTTGAGGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATCTATCG-GGTCGATGCCATGTCCCAGA
84046928 CATGGTCTTACACTA
65 CATGGTCTTACACTA
84046943 GCTCTCATAT
Statistics
Matches: 149, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
94 2 0.01
95 71 0.48
96 6 0.04
98 31 0.21
99 2 0.01
100 37 0.25
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (97 bp):
ATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATCTATCGGGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTAACCACGATATCGAAACCA
Found at i:84046933 original size:145 final size:148
Alignment explanation
Indices: 84046665--84046994 Score: 425
Period size: 145 Copynumber: 2.2 Consensus size: 148
84046655 ATAGGGTAAG
* * * *
84046665 GGTCGATGCCATGTCCCGGACATGGTCTTACACTAGCTCACACATCAAAGTCGATGCCATGTCCC
1 GGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAAGCCAATGCCATGTCCC
* * * *
84046730 AGACATGGTCTTACACTAACTCTCGTATATCGAGGCCAATGCCATGTCCCAGAAATGGTGTTACA
66 AAACATGGTATTACACTAACTCTCATATATCGAGGCCAATGCCATGTCCCAGAAATGGTCTTACA
* * *
84046795 CGGGCTCTCATCTATC-G
131 CGAGCTCTCATATATCAA
*
84046812 GTGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCAAA-CCAATGCCATGTCC
1 G-GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAAGCCAATGCCATGTCC
* * * * *
84046874 CAAACATGGTATTACACTAGCTCTCATATCTTGAGGCCGATGCCATGTCCCAGACATGGTCTTAC
65 CAAACATGGTATTACACTAACTCTCATATATCGAGGCCAATGCCATGTCCCAGAAATGGTCTTAC
* *
84046939 ACTAGCTCTCATATCTCAA
130 ACGAGCTCTCATATATCAA
* * *
84046958 GGCCGATGCCATGTCCTAGACATGGTCTTAAACTAGC
1 GGTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
84046995 TTTCATATCT
Statistics
Matches: 157, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
145 111 0.71
146 12 0.08
147 2 0.01
148 32 0.20
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (148 bp):
GGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAAGCCAATGCCATGTCCC
AAACATGGTATTACACTAACTCTCATATATCGAGGCCAATGCCATGTCCCAGAAATGGTCTTACA
CGAGCTCTCATATATCAA
Found at i:84047003 original size:50 final size:50
Alignment explanation
Indices: 84046668--84047005 Score: 350
Period size: 50 Copynumber: 6.9 Consensus size: 50
84046658 GGGTAAGGGT
* * * * *
84046668 CGATGCCATGTCCCGGACATGGTCTTACACTAGCTCACACA--TCAAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
* * * *
84046716 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
* * * ** * * * *
84046766 CAATGCCATGTCCCAGAAATGGTGTTACACGGGCTCTCATCTATC-GGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAG-GC
* * *
84046816 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATA--TCAA-AC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
* * * **
84046861 CAATGCCATGTCCCAAACATGGTATTACACTAGCTCTCATATCTTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
84046911 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
* * *
84046961 CGATGCCATGTCCTAGACATGGTCTTAAACTAGCTTTCATATCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
84047006 CCTAGCATCA
Statistics
Matches: 237, Mismatches: 44, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
45 28 0.12
46 3 0.01
47 5 0.02
48 40 0.17
49 4 0.02
50 157 0.66
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCAAGGC
Found at i:84049477 original size:43 final size:42
Alignment explanation
Indices: 84049430--84049556 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
84049420 TCTTATATGT
*
84049430 AATCAAATACTGATGCCACTGTCCCAGACAGGGTCTTACACAA
1 AATCAAATAC-GATGCCAATGTCCCAGACAGGGTCTTACACAA
* *
84049473 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACAC-AA
* **
84049516 AATCATAAGT-TGATGCCAACATCCCAGAC-GTGGTCTTACAC
1 AATCA-AA-TACGATGCCAATGTCCCAGACAG-GGTCTTACAC
84049557 GATAACACAT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 28 0.38
43 16 0.22
44 28 0.38
45 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACAA
Found at i:84049500 original size:42 final size:43
Alignment explanation
Indices: 84049430--84049558 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 43
84049420 TCTTATATGT
*
84049430 AATCAAATACTGATGCCACTGTCCCAGACAGGGTCTTACAC-AA
1 AATCAAATAC-GATGCCAATGTCCCAGACAGGGTCTTACACGAA
* *
84049473 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACGAA
* **
84049516 AATCATAAGT-TGATGCCAACATCCCAGAC-GTGGTCTTACACGA
1 AATCA-AA-TACGATGCCAATGTCCCAGACAG-GGTCTTACACGA
84049559 TAACACATAT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.38
43 16 0.22
44 29 0.39
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCCAGACAGGGTCTTACACGAA
Found at i:84051548 original size:30 final size:30
Alignment explanation
Indices: 84051502--84051558 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
84051492 TTTTCGAGCC
84051502 TAGGGGAAAATCGTAATTCTG-CAAAGGTT
1 TAGGGGAAAATCGTAATTCTGCCAAAGGTT
* *
84051531 TAGGGGCAAAATTGTAATTTTGCCAAAG
1 TAGGGG-AAAATCGTAATTCTGCCAAAG
84051559 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 13 0.54
31 5 0.21
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAATCGTAATTCTGCCAAAGGTT
Found at i:84052382 original size:47 final size:47
Alignment explanation
Indices: 84052321--84052485 Score: 244
Period size: 47 Copynumber: 3.5 Consensus size: 47
84052311 GCATTGGCAC
*
84052321 TAAGAC-AAGTATACCATGTAAGACCATGTTT-GAGACATGGCGTTTGG
1 TAAGACAAAG-ATACCATGTAAGACCATGTTTGGA-ACATGGCATTTGG
84052368 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
84052415 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
84052462 TAAGATAAGGATATCATGTAAGAC
1 TAAGACAAAGATACCATGTAAGAC
84052486 TATGCCAAGG
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
47 106 0.95
48 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:84052676 original size:53 final size:54
Alignment explanation
Indices: 84052463--84052675 Score: 187
Period size: 55 Copynumber: 3.9 Consensus size: 54
84052453 GACATTTGGT
* * * *
84052463 AAGATAAGGATATCATGTAAGACTATGCCAAGGCGTGGCATTGATAAGTTCTATA
1 AAGA-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATA
* * * * ** * *
84052518 AGGCAAGGAAATCATGTAAGACCATATCAAGACATGTCATTGATGAGTTACTATA
1 AAGAAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATA
* * * * * *
84052573 AGGCAAATG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATA
1 AAG-AAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATA
* * * *
84052626 AAGAAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGAAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
84052676 AAAAAGGAAA
Statistics
Matches: 127, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
52 4 0.03
53 40 0.31
54 38 0.30
55 42 0.33
56 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGAAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATA
Found at i:84054691 original size:40 final size:40
Alignment explanation
Indices: 84054632--84054849 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
84054622 CGGATGATAA
* * * *
84054632 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
84054672 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84054712 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84054752 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
84054792 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
84054832 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84054850 TACCTGGCTT
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84065955 original size:15 final size:15
Alignment explanation
Indices: 84065935--84065992 Score: 91
Period size: 15 Copynumber: 3.9 Consensus size: 15
84065925 GAACACCAAG
84065935 TAAGGTTTAGGGTTT
1 TAAGGTTTAGGGTTT
84065950 TAAGGTTTAGGGTTT
1 TAAGGTTTAGGGTTT
*
84065965 TAGGGTTTTAGGG-TT
1 TAAGG-TTTAGGGTTT
84065980 TAAGGTTTAGGGT
1 TAAGGTTTAGGGT
84065993 AAGACTACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.18
15 25 0.64
16 7 0.18
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (15 bp):
TAAGGTTTAGGGTTT
Found at i:84065958 original size:7 final size:7
Alignment explanation
Indices: 84065938--84065992 Score: 65
Period size: 7 Copynumber: 7.4 Consensus size: 7
84065928 CACCAAGTAA
84065938 GGTTTAG
1 GGTTTAG
*
84065945 GGTTTTAA
1 GG-TTTAG
84065953 GGTTTAG
1 GGTTTAG
84065960 GGTTTTAG
1 GG-TTTAG
84065968 GGTTTTAG
1 GG-TTTAG
*
84065976 GGTTTAA
1 GGTTTAG
84065983 GGTTTAG
1 GGTTTAG
84065990 GGT
1 GGT
84065993 AAGACTACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
7 21 0.50
8 21 0.50
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:84065967 original size:23 final size:22
Alignment explanation
Indices: 84065935--84065992 Score: 89
Period size: 23 Copynumber: 2.6 Consensus size: 22
84065925 GAACACCAAG
84065935 TAAGGTTTAGGGTTTTAAGGTT
1 TAAGGTTTAGGGTTTTAAGGTT
* *
84065957 TAGGGTTTTAGGGTTTTAGGGTT
1 TAAGG-TTTAGGGTTTTAAGGTT
84065980 TAAGGTTTAGGGT
1 TAAGGTTTAGGGT
84065993 AAGACTACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 12 0.38
23 20 0.62
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (22 bp):
TAAGGTTTAGGGTTTTAAGGTT
Found at i:84070834 original size:40 final size:40
Alignment explanation
Indices: 84070790--84070921 Score: 153
Period size: 40 Copynumber: 3.3 Consensus size: 40
84070780 GGATATAGCT
* *
84070790 ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
84070830 ACTCGTACAAATGCCTTCGGGACTTAACCCGAATT-TAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCG-GTTATAGTA
* * *
84070870 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
84070909 ACTCGCACAAATG
1 ACTCGTACAAATG
84070922 GTTCTGTCCT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
39 25 0.32
40 52 0.66
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:84074579 original size:79 final size:81
Alignment explanation
Indices: 84074437--84074619 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
84074427 TACTCGTTCA
* * *
84074437 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGCACTTAACCCGGA
* *
84074501 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
84074517 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GCATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGCA-CTTAACCCGG
* *
84074579 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
84074596 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
84074620 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGCACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:84074619 original size:40 final size:40
Alignment explanation
Indices: 84074416--84074619 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
84074406 CGGAATTTAA
** *
84074416 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84074456 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84074496 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
84074535 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GCATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
84074575 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
84074615 CCGGA
1 CCGGA
84074620 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 94 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:84075267 original size:37 final size:37
Alignment explanation
Indices: 84075217--84075304 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
84075207 AGGCTACCTA
84075217 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
84075254 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
84075291 TGGCCGAACATACA
1 TGGCCGAACATACA
84075305 TGTCTATGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (37 bp):
TGGCCGAACATACACATAACTTATGTACTTATTCATG
Found at i:84082596 original size:39 final size:40
Alignment explanation
Indices: 84082482--84082666 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
84082472 GCTACTCGTT
* *
84082482 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
84082522 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
84082562 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
84082601 CAAATGCCTTC-GCATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
84082642 CAAA-GCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84082667 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:84082650 original size:79 final size:81
Alignment explanation
Indices: 84082482--84082666 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
84082472 GCTACTCGTT
* * * *
84082482 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGCACTTAACCCG
* *
84082546 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
84082563 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GCATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGCA-CTTAACCCG
* *
84082625 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
84082642 CAAAGCCTTCGGGACTTAACCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
84082667 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.02
79 58 0.67
80 24 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGCACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:84082666 original size:40 final size:40
Alignment explanation
Indices: 84082449--84082666 Score: 205
Period size: 40 Copynumber: 5.5 Consensus size: 40
84082439 GAATCACGTA
* * **
84082449 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATATAG-TAACTCGCACAAATG
* * * *
84082488 CCTTCGGGACATAGCCCGGTTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
84082528 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
84082568 CCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATA-TAGTAACTCGCACAAATG
* ** * * *
84082607 CCTTC-GCATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACAAATG
84082647 CCTTCGGGACTTAACCCGGA
1 CCTTCGGGACTTAACCCGGA
84082667 CATCATTCGA
Statistics
Matches: 148, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 43 0.29
40 93 0.63
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:84083315 original size:37 final size:37
Alignment explanation
Indices: 84083265--84083352 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
84083255 AGGCTACCTA
84083265 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
*
84083302 TGGCCAAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
84083339 TGGCCGAACATACA
1 TGGCCGAACATACA
84083353 TGTCTATGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (37 bp):
TGGCCGAACATACACATAACTTATGTACTTATTCATG
Found at i:84093944 original size:40 final size:40
Alignment explanation
Indices: 84093877--84094049 Score: 287
Period size: 40 Copynumber: 4.3 Consensus size: 40
84093867 ACCCAAGTAT
*
84093877 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
84093916 CTTCGGGTCCTAGCCCGGATACAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
84093956 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
84093996 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
84094036 CTTCGGGTCTTAGC
1 CTTCGGGTCTTAGC
84094050 TCGGTTATCA
Statistics
Matches: 125, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 114 0.91
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:84097734 original size:44 final size:43
Alignment explanation
Indices: 84097667--84097794 Score: 143
Period size: 44 Copynumber: 3.0 Consensus size: 43
84097657 TATAGGGTTC
* *
84097667 CGATATGTGATTCTGTGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATGTGATTATGTGTAAGACCACGTATGGGACGTTGGCAT
* *
84097710 CGATTTGTGATTTATGTGTAAGACC-CTGTATGGGATAG-TGGCAT
1 CGATATGTGA-TTATGTGTAAGACCAC-GTATGGGA-CGTTGGCAT
* ** *
84097754 CGATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGC
1 CGATATGTGATTATGTGTAAGACCACGTATGGGACGTTGGC
84097795 GTTGTACGAG
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 1 0.01
43 33 0.47
44 35 0.50
45 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (43 bp):
CGATATGTGATTATGTGTAAGACCACGTATGGGACGTTGGCAT
Found at i:84098846 original size:13 final size:13
Alignment explanation
Indices: 84098828--84098853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84098818 ATATGTTTCA
84098828 TGATTGTTTTGGT
1 TGATTGTTTTGGT
84098841 TGATTGTTTTGGT
1 TGATTGTTTTGGT
84098854 ACAGATCCAA
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:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:84101877 original size:12 final size:12
Alignment explanation
Indices: 84101869--84101895 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
84101859 TATATGGTCT
84101869 GTAATATGGTAG
1 GTAATATGGTAG
84101881 GTAATATGGTAG
1 GTAATATGGTAG
84101893 GTA
1 GTA
84101896 TGTCGTGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (12 bp):
GTAATATGGTAG
Found at i:84102499 original size:20 final size:20
Alignment explanation
Indices: 84102476--84102520 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
84102466 AGGGACTAAA
* *
84102476 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
84102496 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
84102516 ATGAA
1 ATGAA
84102521 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:84119007 original size:40 final size:40
Alignment explanation
Indices: 84118917--84119179 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
84118907 TTGAATGCTG
* * * * * *
84118917 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * * *
84118957 TTCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
84118997 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
84119037 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
84119077 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
84119117 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
84119156 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84119180 TGAACGAGGC
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:84119199 original size:79 final size:80
Alignment explanation
Indices: 84118970--84119214 Score: 251
Period size: 80 Copynumber: 3.1 Consensus size: 80
84118960 GGATTAAGAT
* * * * * ** ****
84118970 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGCGCTA
84119035 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * * ** ** *
84119050 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGCGCTA
*
84119115 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
84119130 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGCGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGCGCTA
* *
84119194 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
84119208 CCGAAGG
1 CCGAAGG
84119215 TACGTGATTT
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 14 0.10
79 46 0.32
80 85 0.59
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGCGCTA
AATCCGGGTTAAGTC
Found at i:84126951 original size:40 final size:40
Alignment explanation
Indices: 84126868--84127130 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
84126858 TTGAATGCTG
* * * * * *
84126868 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
84126908 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
84126948 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
84126988 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
84127028 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
84127068 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
84127107 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84127131 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:84127150 original size:79 final size:80
Alignment explanation
Indices: 84126907--84127165 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
84126897 AAGTGAATAT
* * * * * *
84126907 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
84126971 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
84126987 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
84127052 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
84127067 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
84127131 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
84127146 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
84127166 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:84129094 original size:13 final size:13
Alignment explanation
Indices: 84129076--84129100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84129066 CCAAGCACAC
84129076 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
84129089 GCCCGTGTCCCT
1 GCCCGTGTCCCT
84129101 CATACGGCCT
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:84129133 original size:12 final size:12
Alignment explanation
Indices: 84129116--84129152 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
84129106 GGCCTAGACA
84129116 CGCCCGTGTCAT
1 CGCCCGTGTCAT
84129128 CGCCCGTGTCAT
1 CGCCCGTGTCAT
84129140 CGCCCGTGTCAT
1 CGCCCGTGTCAT
84129152 C
1 C
84129153 ATTCATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (12 bp):
CGCCCGTGTCAT
Found at i:84132010 original size:24 final size:24
Alignment explanation
Indices: 84131982--84132030 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
84131972 GGCATGTAAT
84131982 TATGTTAATTGAATGTTGTGTTTG
1 TATGTTAATTGAATGTTGTGTTTG
84132006 TATGTTAATTGAATGTTGTGTTTG
1 TATGTTAATTGAATGTTGTGTTTG
84132030 T
1 T
84132031 TTGTAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.55
Consensus pattern (24 bp):
TATGTTAATTGAATGTTGTGTTTG
Found at i:84141809 original size:46 final size:46
Alignment explanation
Indices: 84141739--84141830 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
84141729 TTACTTAACT
84141739 CTTGTCTAGTAGAGACATTAGTAGTAATCACTTCCTG-GACAAAAAA
1 CTTGTCTAGTAGAGACATTAGTAGTAATCACTTCC-GAGACAAAAAA
* * *
84141785 CTTGTCTAGTAGAGAGAGTT-GTAGTGATCACTTTCGAGACAAAAAA
1 CTTGTCTAGTAGAGACA-TTAGTAGTAATCACTTCCGAGACAAAAAA
84141831 AAACTATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
45 1 0.02
46 38 0.93
47 2 0.05
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
CTTGTCTAGTAGAGACATTAGTAGTAATCACTTCCGAGACAAAAAA
Found at i:84145801 original size:46 final size:46
Alignment explanation
Indices: 84145734--84145912 Score: 225
Period size: 46 Copynumber: 3.9 Consensus size: 46
84145724 TTATCTTCGA
* * * * *
84145734 CATGATGCCATAGTATTTTTCAACTATGGTCTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-ATTTCATGT
*
84145780 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
84145826 CACGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
84145872 CAGGTTACCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
84145913 TATATCAGAG
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 114 0.97
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:84154640 original size:31 final size:33
Alignment explanation
Indices: 84154595--84154656 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
84154585 TTATAAGCAA
84154595 TTAAACAACTCAAA-TATATAAAC-ATTTCATT
1 TTAAACAACTCAAATTATATAAACAATTTCATT
*
84154626 TTAAACTAAC-CAAATTATATTAACAATTTCA
1 TTAAAC-AACTCAAATTATATAAACAATTTCA
84154657 AGCTTATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 10 0.37
32 11 0.41
33 6 0.22
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (33 bp):
TTAAACAACTCAAATTATATAAACAATTTCATT
Found at i:84159960 original size:21 final size:21
Alignment explanation
Indices: 84159927--84159969 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
84159917 TAAACTTACT
84159927 AAAATTATAAAATATTAAAAA
1 AAAATTATAAAATATTAAAAA
*
84159948 AAAACTTAT-AAATATTATAAA
1 AAAA-TTATAAAATATTAAAAA
84159969 A
1 A
84159970 TATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATTATAAAATATTAAAAA
Found at i:84159965 original size:31 final size:33
Alignment explanation
Indices: 84159891--84159979 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 33
84159881 TTTTCCATAA
84159891 AAATATT-TAAAATATTAAAATTGATATAAACTTACT
1 AAATATTATAAAATATTAAAA---A-ATAAACTTACT
84159927 AAA-ATTATAAAATATTAAAAAA-AAACTTA-T
1 AAATATTATAAAATATTAAAAAATAAACTTACT
84159957 AAATATTATAAAATA-TAAAAAAT
1 AAATATTATAAAATATTAAAAAAT
84159980 CTAATAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
30 11 0.22
31 18 0.36
32 1 0.02
33 1 0.02
35 3 0.06
36 16 0.32
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (33 bp):
AAATATTATAAAATATTAAAAAATAAACTTACT
Found at i:84159979 original size:19 final size:19
Alignment explanation
Indices: 84159957--84160001 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
84159947 AAAAACTTAT
*
84159957 AAATATTATAAAATATAAA
1 AAATATAATAAAATATAAA
* *
84159976 AAATCTAATAAATTATAAA
1 AAATATAATAAAATATAAA
84159995 AAA-ATAA
1 AAATATAA
84160002 AAACTTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATATAATAAAATATAAA
Found at i:84159990 original size:26 final size:26
Alignment explanation
Indices: 84159928--84160013 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 26
84159918 AAACTTACTA
* *
84159928 AAATTATAAAATATTAAAAAAAAACTTAT
1 AAATTATAAAATA-T--AAAAAATCTAAT
84159957 AAATATTATAAAATATAAAAAATCTAAT
1 -AA-ATTATAAAATATAAAAAATCTAAT
* *
84159985 AAATTATAAAAAAATAAAAACT-TAAT
1 AAATTAT-AAAATATAAAAAATCTAAT
84160011 AAA
1 AAA
84160014 ACTTATTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
26 12 0.24
27 14 0.28
28 10 0.20
30 3 0.06
31 11 0.22
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATTATAAAATATAAAAAATCTAAT
Found at i:84160019 original size:28 final size:26
Alignment explanation
Indices: 84159943--84160019 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
84159933 ATAAAATATT
84159943 AAAA-AAAAACTT-ATAAATATTATAA
1 AAAATAAAAACTTAATAAA-ATTATAA
* *
84159968 AATATAAAAAATCTAAT-AAATTATAAA
1 AAAATAAAAACT-TAATAAAATTAT-AA
84159995 AAAATAAAAACTTAATAAAACTTAT
1 AAAATAAAAACTTAATAAAA-TTAT
84160020 TTAAAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
25 3 0.07
26 15 0.36
27 18 0.43
28 6 0.14
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (26 bp):
AAAATAAAAACTTAATAAAATTATAA
Found at i:84160073 original size:29 final size:29
Alignment explanation
Indices: 84160007--84160073 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
84159997 AATAAAAACT
*
84160007 TAATAAAACTTATTTAAAATATTTAAAAT
1 TAATAAAACTTATTTAAAATATTTAAAAA
* *
84160036 TAAAAAAAACTTA-TTAGAAT-TCTTAAAAGA
1 T-AATAAAACTTATTTAAAATAT-TTAAAA-A
84160066 TAATAAAA
1 TAATAAAA
84160074 AATGTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
28 1 0.03
29 19 0.61
30 11 0.35
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (29 bp):
TAATAAAACTTATTTAAAATATTTAAAAA
Found at i:84160074 original size:30 final size:30
Alignment explanation
Indices: 84160007--84160074 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
84159997 AATAAAAACT
*
84160007 TAAT-AAAACTTATTTAAAATATTTAAAAT
1 TAATAAAAACTTATTTAAAATATTTAAAAA
* *
84160036 TAAAAAAAACTTA-TTAGAAT-TCTTAAAAGA
1 TAATAAAAACTTATTTAAAATAT-TTAAAA-A
84160066 TAATAAAAA
1 TAATAAAAA
84160075 ATGTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 15 0.47
30 16 0.50
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (30 bp):
TAATAAAAACTTATTTAAAATATTTAAAAA
Found at i:84160569 original size:21 final size:21
Alignment explanation
Indices: 84160545--84160584 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
84160535 TTTTTATGAT
*
84160545 TTTTTATAGAATTTTAATACA
1 TTTTTATAAAATTTTAATACA
84160566 TTTTTATAAAATTTTAATA
1 TTTTTATAAAATTTTAATA
84160585 TGTTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTTATAAAATTTTAATACA
Found at i:84160590 original size:21 final size:21
Alignment explanation
Indices: 84160545--84160610 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
84160535 TTTTTATGAT
* *
84160545 TTTTTATAGAATTTTAATACA
1 TTTTTATAAAATTTTAATATA
84160566 TTTTTATAAAATTTTAATAT-
1 TTTTTATAAAATTTTAATATA
* * *
84160586 GTTTTA-ATAATTTTAA-ATT
1 TTTTTATAAAATTTTAATATA
84160605 TTTTTA
1 TTTTTA
84160611 ATTGATTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 2 0.05
19 14 0.36
20 5 0.13
21 18 0.46
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTTTATAAAATTTTAATATA
Found at i:84160609 original size:19 final size:18
Alignment explanation
Indices: 84160565--84160612 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
84160555 ATTTTAATAC
*
84160565 ATTTTTATAA-AATTTTA
1 ATTTTTTTAATAATTTTA
*
84160582 ATATGTTTTAATAATTTTAA
1 AT-TTTTTTAATAATTTT-A
84160602 ATTTTTTTAAT
1 ATTTTTTTAAT
84160613 TGATTGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 6 0.24
19 14 0.56
20 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:84164724 original size:4 final size:4
Alignment explanation
Indices: 84164715--84164745 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
84164705 AAAGAGAAGA
84164715 TGAG TGAG TGAG TGAG TGAG TGAG TGAG TGA
1 TGAG TGAG TGAG TGAG TGAG TGAG TGAG TGA
84164746 TCAGCTATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.48, T:0.26
Consensus pattern (4 bp):
TGAG
Found at i:84177511 original size:26 final size:26
Alignment explanation
Indices: 84177482--84177534 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
84177472 AACCGAAAGC
*
84177482 TAGTGCATTGTGTAATAGCCCGATTT
1 TAGTGCATTATGTAATAGCCCGATTT
84177508 TAGTGCATTATGTAATAGCCCGATTT
1 TAGTGCATTATGTAATAGCCCGATTT
84177534 T
1 T
84177535 GAGGCTAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
TAGTGCATTATGTAATAGCCCGATTT
Found at i:84178542 original size:44 final size:44
Alignment explanation
Indices: 84178479--84178566 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
84178469 TCGGACCTTG
*
84178479 ATCGGGGGAAGAACAAGGTTATTGACGATTAGGTTCATTTCCTA
1 ATCGGGGGAAGAACAAGGTTATTGACGATTAGGTCCATTTCCTA
84178523 ATCGGGGGAAGAACAAGGTTATTGACGATTAGGTCCATTTCCTA
1 ATCGGGGGAAGAACAAGGTTATTGACGATTAGGTCCATTTCCTA
84178567 CTATTTTGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
ATCGGGGGAAGAACAAGGTTATTGACGATTAGGTCCATTTCCTA
Found at i:84185806 original size:17 final size:17
Alignment explanation
Indices: 84185784--84185817 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
84185774 TGGGTAGTAG
84185784 AAATGTGATTTCATGAA
1 AAATGTGATTTCATGAA
*
84185801 AAATGTGATTTGATGAA
1 AAATGTGATTTCATGAA
84185818 TTAGGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (17 bp):
AAATGTGATTTCATGAA
Found at i:84189049 original size:40 final size:40
Alignment explanation
Indices: 84188980--84189244 Score: 356
Period size: 40 Copynumber: 6.7 Consensus size: 40
84188970 GGATATAACC
* * * * *
84188980 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
84189019 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
84189059 ACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
84189099 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
84189139 ACTCGCACGAATGCCTTCGGGACTTAGCTCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
84189179 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
84189219 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
84189245 ACCCTGTTAG
Statistics
Matches: 206, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 7 0.03
40 197 0.96
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:84194884 original size:16 final size:16
Alignment explanation
Indices: 84194863--84194893 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
84194853 GTGTGGTCAC
84194863 ACACAAGCCCATGTGT
1 ACACAAGCCCATGTGT
84194879 ACACAAGCCCATGTG
1 ACACAAGCCCATGTG
84194894 GCTTGGGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.16
Consensus pattern (16 bp):
ACACAAGCCCATGTGT
Found at i:84201920 original size:226 final size:227
Alignment explanation
Indices: 84201519--84201961 Score: 690
Period size: 226 Copynumber: 2.0 Consensus size: 227
84201509 GGTCTCTACT
* * * * * *
84201519 CGTGTGGACAAAAATAGGCCATTCGCAATGCCAATTTGCCACCCTTTTCTCATGCTCACTTAGCC
1 CGTGTAGACAAAAATAAGCCATTCACAAGGCCAATTTGCCACCCTTTTCTCATACTCACCTAGCC
* * *
84201584 GTCAAAATGGTATAATTTCATCACAAATATGGGCAGCAAAGACATGCCAATTCACAAAAATTTCA
66 ATCAAAATGGTATAATTTCAACACAAATATGGGCAGCAAAAACATGCCAATTCACAAAAATTTCA
*
84201649 TGCCATTTTATAATCAACAATTTTACTACTTAAATCCTTATTCAAAACATACTAAACCAATATGC
131 TGCCATTTCATAATCAACAATTTTACTACTTAAATCCTTATTCAAAACATACTAAACCAATATGC
84201714 TAAAATCATCAATCTCACATGAGACACACGCC
196 TAAAATCATCAATCTCACATGAGACACACGCC
* * **
84201746 CGTGTAGACAAAAATAAGCCATTTATAAGGCCAATTTGCGTCCCTTTTCTCATACTCACCTAG-C
1 CGTGTAGACAAAAATAAGCCATTCACAAGGCCAATTTGCCACCCTTTTCTCATACTCACCTAGCC
** * *
84201810 ATCACTATGGTATCATTTCAACACAAATATGGGCAGCAAAAACATGCCAATTCACAAACATTTCA
66 ATCAAAATGGTATAATTTCAACACAAATATGGGCAGCAAAAACATGCCAATTCACAAAAATTTCA
* *
84201875 TGCCATTTCATAATCAACCATTTTACTACTTAAATCCTTATTCAAAACATACTAAATCAATATGC
131 TGCCATTTCATAATCAACAATTTTACTACTTAAATCCTTATTCAAAACATACTAAACCAATATGC
*
84201940 TAAAATCATCAATCTCATATGA
196 TAAAATCATCAATCTCACATGA
84201962 CTATTAAATA
Statistics
Matches: 195, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
226 142 0.73
227 53 0.27
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (227 bp):
CGTGTAGACAAAAATAAGCCATTCACAAGGCCAATTTGCCACCCTTTTCTCATACTCACCTAGCC
ATCAAAATGGTATAATTTCAACACAAATATGGGCAGCAAAAACATGCCAATTCACAAAAATTTCA
TGCCATTTCATAATCAACAATTTTACTACTTAAATCCTTATTCAAAACATACTAAACCAATATGC
TAAAATCATCAATCTCACATGAGACACACGCC
Found at i:84202875 original size:43 final size:43
Alignment explanation
Indices: 84202722--84202876 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
84202712 CAGTGCCATA
* * * * * **
84202722 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCGTTG
1 TCCCAGACAAGGTCTTACATGTAATCTCAATA-CAATGCCAATG
* * * *
84202765 TCCCAGACAAGGTCTTACAGGAAAT-TGATTA-ATGATGCCAATG
1 TCCCAGACAAGGTCTTACATGTAATCTCAATACA--ATGCCAATG
* ** *
84202808 TCCCAAACATTGTCTTACACGTAATCTCAATACAATGCCAATG
1 TCCCAGACAAGGTCTTACATGTAATCTCAATACAATGCCAATG
84202851 TCCCAGACAAGGTCTTACATGTAATC
1 TCCCAGACAAGGTCTTACATGTAATC
84202877 ACATCTCGAT
Statistics
Matches: 85, Mismatches: 22, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
43 80 0.94
44 4 0.05
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACAAGGTCTTACATGTAATCTCAATACAATGCCAATG
Found at i:84203543 original size:20 final size:21
Alignment explanation
Indices: 84203500--84203544 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
84203490 AAGCTCAAGC
84203500 ATTCATCAATGGAAATTCAAAA
1 ATTCATCAA-GGAAATTCAAAA
* *
84203522 ATTCATCAA-GAATTTCAGAA
1 ATTCATCAAGGAAATTCAAAA
84203542 ATT
1 ATT
84203545 AGGGTATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (21 bp):
ATTCATCAAGGAAATTCAAAA
Found at i:84208330 original size:22 final size:22
Alignment explanation
Indices: 84208305--84208349 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
84208295 GATGCATTTC
*
84208305 ATGC-ATTTTCATGCCATTAATA
1 ATGCAATTATCATG-CATTAATA
*
84208327 ATGCAATTATCATGCATTCATA
1 ATGCAATTATCATGCATTAATA
84208349 A
1 A
84208350 ATCATACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
ATGCAATTATCATGCATTAATA
Found at i:84211978 original size:67 final size:66
Alignment explanation
Indices: 84211900--84212024 Score: 180
Period size: 67 Copynumber: 1.9 Consensus size: 66
84211890 ATTTAACAAA
* *
84211900 ATTTTTTCTCTCATTTTCTCTCTTGCCAAATACCACTTTTT-TTCTTCAAAACACATGGTTGTTG
1 ATTTTTTCTCTCATTTTCTCTCTCGCCAAACACCA-TTTTTCTTCTTCAAAACACATGGTTGTTG
84211964 CC
65 CC
* * *
84211966 ATTTTTTCCTCTCATTTTCTCTCTCGCCAAACACTATTTTTCTTCTTGAAAACATATGG
1 ATTTTTT-CTCTCATTTTCTCTCTCGCCAAACACCATTTTTCTTCTTCAAAACACATGG
84212025 CTGGCTCATT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
66 12 0.23
67 40 0.77
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.46
Consensus pattern (66 bp):
ATTTTTTCTCTCATTTTCTCTCTCGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGTTGC
C
Found at i:84212207 original size:21 final size:23
Alignment explanation
Indices: 84212163--84212212 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
84212153 TTTTCTCTCA
* *
84212163 TTTTCTCTCTTGCCAAACACCAT
1 TTTTCTCTCTTGCAAAACAACAT
84212186 TTTTC-CTCTT-CAAAACAACAT
1 TTTTCTCTCTTGCAAAACAACAT
84212207 TTTTCT
1 TTTTCT
84212213 TCATCACTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 14 0.58
22 5 0.21
23 5 0.21
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTCTCTCTTGCAAAACAACAT
Found at i:84222927 original size:29 final size:27
Alignment explanation
Indices: 84222909--84222978 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
84222899 ATATTAAGTC
84222909 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
84222936 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
84222964 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
84222979 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:84222972 original size:28 final size:28
Alignment explanation
Indices: 84222909--84223006 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
84222899 ATATTAAGTC
*
84222909 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
84222936 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
84222964 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
84222993 CGCACACTTAGTGC
1 CGCACACTTAGTGC
84223007 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:84227332 original size:30 final size:30
Alignment explanation
Indices: 84227296--84227357 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
84227286 CAAGTAGCCG
* *
84227296 AAGCTAGTTTAAATCGCACACTTAGTGTCA
1 AAGCTAGTTTAAATCACACACTTAGTGCCA
84227326 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAGTTTAAATCACACACTTAGTGCCA
84227356 AA
1 AA
84227358 ACTTCCGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCACACACTTAGTGCCA
Found at i:84234571 original size:65 final size:68
Alignment explanation
Indices: 84234495--84234621 Score: 206
Period size: 67 Copynumber: 1.9 Consensus size: 68
84234485 GAAATGAGCT
*
84234495 AACCATATGTTTTGAAG-AAGAAAAA-TGGTGTTTGGCAAGAGAGAAAATGAGA-AAAAAATGGC
1 AACCATATGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAATGGC
84234557 AAC
66 AAC
* *
84234560 AACCATGTGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGTGAGAAAATGAGAGAAAAAAT
1 AACCATATGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAT
84234622 TTTGTTAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
65 16 0.29
66 7 0.12
67 26 0.46
68 7 0.12
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.21
Consensus pattern (68 bp):
AACCATATGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAATGGC
AAC
Found at i:84237560 original size:31 final size:31
Alignment explanation
Indices: 84237522--84237584 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
84237512 AATGTCATTT
84237522 TACAATTATCGTGCAAAACAATCATAAACTA
1 TACAATTATCGTGCAAAACAATCATAAACTA
84237553 TACAATTATCGTGCAAAACAATCATAAACTA
1 TACAATTATCGTGCAAAACAATCATAAACTA
84237584 T
1 T
84237585 CCTGTAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (31 bp):
TACAATTATCGTGCAAAACAATCATAAACTA
Found at i:84239125 original size:48 final size:48
Alignment explanation
Indices: 84239061--84239385 Score: 364
Period size: 48 Copynumber: 6.7 Consensus size: 48
84239051 GGTTATGTGT
*
84239061 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
* ** * * * *
84239109 GAGCTAGTGTAAGACCATGTCAGGGACATGGCATCGGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
* * *
84239157 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCACTATTATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
* * * * * *
84239205 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGCA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATG-A
* * *
84239254 -AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
* * * * *
84239301 GAGCTAGCGTAAAACCATGTCTGGGACATGGCATCGGCACTGATGTATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-TTAT-TATGA
** *
84239351 GAGCCAGTGTAAGACCATGTTCAGGACACGGCATC
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
84239386 TACATTTTAC
Statistics
Matches: 223, Mismatches: 50, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
48 188 0.84
49 3 0.01
50 32 0.14
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTATTATGA
Found at i:84239225 original size:96 final size:96
Alignment explanation
Indices: 84239061--84239385 Score: 474
Period size: 96 Copynumber: 3.4 Consensus size: 96
84239051 GGTTATGTGT
* *
84239061 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
84239126 TGTCAGGGACATGGCATCGGCCTCAATATGC
66 TGTCAGGGACATGGCATCGGCCTCAATATGC
* *
84239157 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCACTATTATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
84239222 TGTCTA-GGACATGGCATCGGCCTCAATATGC
66 TGTC-AGGGACATGGCATCGGCCTCAATATGC
* * * * *
84239253 AAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGTGAGCTAGCGTAAAACCA
1 GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
* * * *
84239318 TGTCTGGGACATGGCATCGGCACTGATGTATGA
66 TGTCAGGGACATGGCATCGGC-CTCA-ATATGC
*
84239351 GAGCCAGTGTAAGACCATGTTCAGG-ACACGGCATC
1 GAGCCAGTGTAAGACCATGTTC-GGAACATGGCATC
84239386 TACATTTTAC
Statistics
Matches: 206, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
96 167 0.81
97 4 0.02
98 33 0.16
99 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTCGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
TGTCAGGGACATGGCATCGGCCTCAATATGC
Found at i:84242456 original size:16 final size:16
Alignment explanation
Indices: 84242435--84242468 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
84242425 ATAAAATAAA
84242435 GTAAACACAAGACAGT
1 GTAAACACAAGACAGT
84242451 GTAAACACAAGACAGT
1 GTAAACACAAGACAGT
84242467 GT
1 GT
84242469 GAGCTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (16 bp):
GTAAACACAAGACAGT
Found at i:84242996 original size:19 final size:20
Alignment explanation
Indices: 84242963--84243001 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
84242953 ACACGTGTAA
84242963 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
84242983 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
84243002 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:84253529 original size:19 final size:19
Alignment explanation
Indices: 84253504--84253553 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
84253494 AATTGATGCC
*
84253504 TCATTTGCATT-CATTTCA
1 TCATTTGCATTACATTACA
84253522 TGCATTTGCATTACATTACA
1 T-CATTTGCATTACATTACA
*
84253542 TCATATGCATTA
1 TCATTTGCATTA
84253554 AAGACCATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (19 bp):
TCATTTGCATTACATTACA
Found at i:84256696 original size:37 final size:37
Alignment explanation
Indices: 84256646--84256721 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
84256636 CTTTAGCTCA
*
84256646 GACAAAATCTCCACACAAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACAAAGTCATCGGGTCTTACCCG
**
84256683 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACAAAGTCATCGGGTCTTACCCG
84256720 GA
1 GA
84256722 ATATATTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (37 bp):
GACAAAATCTCCACACAAAGTCATCGGGTCTTACCCG
Found at i:84256858 original size:149 final size:151
Alignment explanation
Indices: 84256588--84256892 Score: 562
Period size: 149 Copynumber: 2.0 Consensus size: 151
84256578 AGCAATTCTT
84256588 GTCATGAAATCTTATAGCTTTAACCTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAA
1 GTCATGAAATCTTATAGCTTTAACCTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAA
*
84256653 TCTCCACACAAAGTTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
66 TCTCCACACAAAGTTATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
84256718 CGGA-ATATAT-TTC-CAAGTA
131 CGGACATA-ATCTTCACAAGTA
84256737 GTCATGAAATCTTATAGCTTTAACCTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAA
1 GTCATGAAATCTTATAGCTTTAACCTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAA
84256802 TCTCCACACAAAGTTATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
66 TCTCCACACAAAGTTATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
84256867 CGGACATAATCTTCACACGTA
131 CGGACATAATCTTCACAAGTA
84256888 GTCAT
1 GTCAT
84256893 CGGGTCTTAC
Statistics
Matches: 151, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
149 135 0.89
150 6 0.04
151 10 0.07
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (151 bp):
GTCATGAAATCTTATAGCTTTAACCTCTACTCGGATTATCGGTGAGACCTTTAGCTCAGACAAAA
TCTCCACACAAAGTTATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
CGGACATAATCTTCACAAGTA
Found at i:84256942 original size:37 final size:37
Alignment explanation
Indices: 84256795--84256944 Score: 237
Period size: 37 Copynumber: 4.1 Consensus size: 37
84256785 CTTTAGCTCA
** * *
84256795 GACAAAATCTCCACACAAAGTTATCGGGTCTTACCCA
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
84256832 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
84256869 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
84256906 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
84256943 GA
1 GA
84256945 ATATATTTCC
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:84257210 original size:47 final size:47
Alignment explanation
Indices: 84257149--84257333 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
84257139 TACATATATT
* * * *
84257149 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
84257196 TCACATTGGCCATTCGGCCTTATCACACAAATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
84257243 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
84257290 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
84257334 CACAATTATC
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:84257269 original size:22 final size:22
Alignment explanation
Indices: 84257242--84257317 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
84257232 GCTCACATTC
84257242 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
84257264 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
*
84257288 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
84257311 ATCACAT
1 ATCACAT
84257318 ATATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:84261237 original size:25 final size:25
Alignment explanation
Indices: 84261203--84261252 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
84261193 GGAATTCGCA
84261203 CACACATAGTGC-CTCTAATCATTCG
1 CACACATAGTGCTCT-TAATCATTCG
*
84261228 CACACATAGTGCTCTTATTCATTCG
1 CACACATAGTGCTCTTAATCATTCG
84261253 TATTTGCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (25 bp):
CACACATAGTGCTCTTAATCATTCG
Found at i:84261507 original size:23 final size:23
Alignment explanation
Indices: 84261460--84261508 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
84261450 ATATAACACC
**
84261460 AGCACGAATGCTCTTCGAGGTTT
1 AGCACGAATGCTCTTCGAGACTT
84261483 AGCACGAATGCTCTTCGAGACTT
1 AGCACGAATGCTCTTCGAGACTT
84261506 AGC
1 AGC
84261509 CCGGATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
AGCACGAATGCTCTTCGAGACTT
Found at i:84261537 original size:40 final size:40
Alignment explanation
Indices: 84261482--84261830 Score: 590
Period size: 40 Copynumber: 8.7 Consensus size: 40
84261472 CTTCGAGGTT
* *
84261482 TAGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
84261522 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
* * *
84261562 TACCACGAATGCTCTTCGGGGCTTAGCCCGGATATATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
84261602 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
* * *
84261642 TAGCACGAATACTCTTCGGGGCTTAGCCCGGATACATTAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
* *
84261682 TAGCACGAATGCTCTTTGGGGCTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
*
84261722 TAGCACGAATGCTCTTCGGGACTTAGCCCGGGTACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
*
84261762 TAGCACGAATGCTCTTCGGGGCTTAGCCCGGATACATCAC
1 TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
84261802 TAGCACGAATGCTCTTCGGGACTTAGCCC
1 TAGCACGAATGCTCTTCGGGACTTAGCCC
84261831 AGCTATACCA
Statistics
Matches: 289, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 289 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCAC
Found at i:84261548 original size:63 final size:63
Alignment explanation
Indices: 84261428--84261548 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
84261418 CCAGTATGAT
* *
84261428 TGCTCTTCGGGACCCAGCCCGGATATAACACCAGCACGAATGCTCTTCGAGGTTTAGCACGAA
1 TGCTCTTCGAGACCCAGCCCGGATATAACACCAGCACGAATGCTCTTCGAGGCTTAGCACGAA
** * *
84261491 TGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCG-GGACTTAGC
1 TGCTCTTCGAGACCCAGCCCGGATATAACACCAGCACGAATGCTCTTCGAGG-CTTAGC
84261549 CCGGATACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (63 bp):
TGCTCTTCGAGACCCAGCCCGGATATAACACCAGCACGAATGCTCTTCGAGGCTTAGCACGAA
Found at i:84263172 original size:37 final size:37
Alignment explanation
Indices: 84263109--84263218 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
84263099 CTTTAGCTCA
* *
84263109 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
84263146 GACAAAATCT-CATCACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCA-CACGTAGTCATCGGGTCTTACCCG
*
84263183 GACATAATCTCCACACGTAGTCATCGGGTCTTACCC
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
84263219 AGAATATATT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 2 0.03
37 64 0.94
38 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Done.