Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 234 of 344
Found at i:77520953 original size:19 final size:17
Alignment explanation
Indices: 77520896--77520955 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 17
77520886 AAAAGGTAAA
*
77520896 TTTTTAT-T-TTTTTAT
1 TTTTTATATATTTATAT
*
77520911 TTTTT-TGTA-TTATAT
1 TTTTTATATATTTATAT
77520926 TTTTTATATATTTATAT
1 TTTTTATATATTTATAT
77520943 GTTTTTGATATAT
1 -TTTTT-ATATAT
77520956 ATATGTGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 1 0.03
15 16 0.43
16 3 0.08
17 6 0.16
18 5 0.14
19 6 0.16
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTATATATTTATAT
Found at i:77520957 original size:32 final size:30
Alignment explanation
Indices: 77520896--77520959 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 30
77520886 AAAAGGTAAA
* *
77520896 TTTTTATTTTTTTATTTTTTTGTATTATAT
1 TTTTTATTTTTATATGTTTTTGTATTATAT
77520926 TTTTTATATATTTATATGTTTTTGATATATATAT
1 TTTTTAT-T-TTTATATGTTTTTG-TAT-TATAT
77520960 GTGGAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 7 0.25
31 1 0.04
32 12 0.43
33 3 0.11
34 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (30 bp):
TTTTTATTTTTATATGTTTTTGTATTATAT
Found at i:77520958 original size:17 final size:17
Alignment explanation
Indices: 77520912--77520961 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
77520902 TTTTTTTATT
77520912 TTTTTG-TAT-TATAT-
1 TTTTTGATATATATATG
77520926 TTTTT-ATATATTTATATG
1 TTTTTGATATA--TATATG
77520944 TTTTTGATATATATATG
1 TTTTTGATATATATATG
77520961 T
1 T
77520962 GGAAAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.27
17 12 0.40
18 5 0.17
19 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (17 bp):
TTTTTGATATATATATG
Found at i:77521953 original size:21 final size:21
Alignment explanation
Indices: 77521927--77521972 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
77521917 CTTGATCGGT
*
77521927 TCCACTGCAACTTCAATTAGC
1 TCCACTGCAACTTCAATCAGC
*
77521948 TCCACTGCAACTTCGATCAGC
1 TCCACTGCAACTTCAATCAGC
77521969 TCCA
1 TCCA
77521973 ATCTTTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (21 bp):
TCCACTGCAACTTCAATCAGC
Found at i:77522191 original size:88 final size:86
Alignment explanation
Indices: 77522055--77522391 Score: 331
Period size: 87 Copynumber: 3.8 Consensus size: 86
77522045 AATAGACATT
* * * * **
77522055 AAAAACAGAAATTGAAAAATAGCTTAGCACGTGAGCCAAGGCTTAACTCATTTCTCGCAATATGA
1 AAAAACAGAAATTG-AAAATACCTCAG--CGTGACCCAAGGCTCAACTCACCTCTCGCAATATGA
* *
77522120 GTTGCTTTTTTG-AAACTTAATTTG
63 GTTG-ATTTTTGAAAACTTAAATTG
** * *
77522144 AAAAGA-AGATTTTGAAAATACCTC-GACATGTGACCCAAGGCTCAACTCACATCTCGCAATAGG
1 AAAA-ACAGAAATTGAAAATACCTCAG-C--GTGACCCAAGGCTCAACTCACCTCTCGCAATATG
* *
77522207 AGTTGAGTTTTGAAAAATATAAATTG
62 AGTTGATTTTTGAAAACT-TAAATTG
** *
77522233 AAAAACAGAAATTGAAAATACCTCAGCGT-ACCTTGAGGCTCAACTCACCTCTCACAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACC-CAAGGCTCAACTCACCTCTCGCAATATGAGT
* *
77522297 TGATTTTTGAAAAGCATAACTTG
65 TGATTTTTGAAAA-CTTAAATTG
* * ** *
77522320 AAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
77522385 GATTTTT
66 GATTTTT
77522392 TTTGAAAAGC
Statistics
Matches: 210, Mismatches: 28, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
86 5 0.02
87 117 0.56
88 49 0.23
89 37 0.18
90 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (86 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAACTTAAATTG
Found at i:77522235 original size:14 final size:14
Alignment explanation
Indices: 77522216--77522250 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
77522206 GAGTTGAGTT
* *
77522216 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
77522230 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
77522244 TTGAAAA
1 TTGAAAA
77522251 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:77522280 original size:87 final size:86
Alignment explanation
Indices: 77521995--77522391 Score: 328
Period size: 87 Copynumber: 4.5 Consensus size: 86
77521985 TACTCGGCAT
* * * * *
77521995 GTGATCCTGA-GCTCAACTCATTCCTCGCAATGTAAATTGACTCTTT-AAAAA-ATAGACATT-A
1 GTGA-CCTGAGGCTCAACTCACT-CTCGCAATATGAGTTGA-TTTTTGAAAAACATA-A-ATTGA
* *
77522056 AAAACAGAAATTGAAAAATAGCTTAGCAC
61 AAAACAGAAATTG-AAAATACCTCAG--C
* * * * * *
77522085 GTGAGCC-AAGGCTTAACTCATTTCTCGCAATATGAGTTGCTTTTTTG--AAACTTAATTTGAAA
1 GTGA-CCTGAGGCTCAACTCA-CTCTCGCAATATGAGTTG-ATTTTTGAAAAACATAAATTGAAA
**
77522147 AGA-AGATTTTGAAAATACCTC-GAC
63 A-ACAGAAATTGAAAATACCTCAG-C
** * * *
77522171 ATGTGACCCAAGGCTCAACTCACATCTCGCAATAGGAGTTGAGTTTTGAAAAATATAAATTGAAA
1 --GTGACCTGAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAA
77522236 AACAGAAATTGAAAATACCTCAGC
63 AACAGAAATTGAAAATACCTCAGC
* * *
77522260 GT-ACCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAGCATAACTTGAAAA
1 GTGACC-TGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAA
*
77522324 ACGGAAATTGAAAATACCTCAGC
64 ACAGAAATTGAAAATACCTCAGC
*
77522347 GTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT
1 GTGACCTGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTT
77522392 TTTGAAAAGC
Statistics
Matches: 253, Mismatches: 36, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
86 5 0.02
87 119 0.47
88 46 0.18
89 45 0.18
90 36 0.14
91 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (86 bp):
GTGACCTGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAAC
AGAAATTGAAAATACCTCAGC
Found at i:77522509 original size:75 final size:75
Alignment explanation
Indices: 77522317--77522557 Score: 392
Period size: 75 Copynumber: 3.2 Consensus size: 75
77522307 AAAGCATAAC
* *
77522317 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
77522382 GTTGATTTTTT
66 GTTGA-TTTTT
* * * *
77522393 TTGAAAAGCAGAATTTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCCCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
77522458 GTTGATTTTT
66 GTTGATTTTT
* *
77522468 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCTCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
77522533 GTTGATTTTT
66 GTTGATTTTT
*
77522543 TTGAAAAATAGAAAT
1 TTGAAAAACAGAAAT
77522558 AAAAACATTA
Statistics
Matches: 152, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
75 88 0.58
76 64 0.42
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:77535558 original size:40 final size:40
Alignment explanation
Indices: 77535453--77535659 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
77535443 GGATTGATAA
* *
77535453 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
77535493 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77535532 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77535572 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
77535612 CCGGGCTAAGTCCCAAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
77535652 CC-GGCTAA
1 CCGGGCTAA
77535660 ACTCCGAAGG
Statistics
Matches: 157, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 43 0.27
40 114 0.73
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:77535667 original size:119 final size:119
Alignment explanation
Indices: 77535449--77535669 Score: 315
Period size: 119 Copynumber: 1.9 Consensus size: 119
77535439 ATTCGGATTG
* * *
77535449 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCAT
* *
77535514 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCGAGTTACT
*
77535568 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCAAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCAAAGGC
*
77535632 ATTTGAGCTAG-TAGCTATATCC-GGCTAAACT-CCGAAGG
64 ATTTGAGCGAGTTA-CTATATCCGGGCT-AACTCCCGAAGG
77535670 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
118 2 0.02
119 61 0.67
120 28 0.31
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCAT
TTGAGCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:77543605 original size:40 final size:40
Alignment explanation
Indices: 77543500--77543706 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
77543490 GGATTGATAA
* *
77543500 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
77543540 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
77543579 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77543619 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
77543659 CCGGGCTAAGTCCCAAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
77543699 CC-GGCTAA
1 CCGGGCTAA
77543707 ACTCCGAAGG
Statistics
Matches: 155, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 43 0.28
40 112 0.72
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:77543715 original size:119 final size:119
Alignment explanation
Indices: 77543496--77543716 Score: 315
Period size: 119 Copynumber: 1.9 Consensus size: 119
77543486 ATTCGGATTG
* * *
77543496 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCAT
* *
77543561 TTGTGCGAGTTACTATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCGAGTTACTATATCCGGGCTAACTCTCGAAGGCATTTGTGCGAGTTACT
*
77543615 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCAAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCAAAGGC
*
77543679 ATTTGAGCTAG-TAGCTATATCC-GGCTAAACTC-CGAAGG
64 ATTTGAGCGAGTTA-CTATATCCGGGCT-AACTCTCGAAGG
77543717 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
118 2 0.02
119 60 0.66
120 29 0.32
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCAAAGGCAT
TTGAGCGAGTTACTATATCCGGGCTAACTCTCGAAGGCATTTGTGCGAGTTACT
Found at i:77560929 original size:14 final size:14
Alignment explanation
Indices: 77560909--77560946 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
77560899 TTTAATATCA
*
77560909 TTTAAAAACC-AGT
1 TTTAAAAACCAAGG
77560922 TCTTAAAAACCAAGG
1 T-TTAAAAACCAAGG
77560937 TTTAAAAACC
1 TTTAAAAACC
77560947 CAAAATTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.82
15 3 0.14
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.26
Consensus pattern (14 bp):
TTTAAAAACCAAGG
Found at i:77571758 original size:12 final size:12
Alignment explanation
Indices: 77571741--77571768 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
77571731 TTATGAGCCT
77571741 ACCACATGGGTG
1 ACCACATGGGTG
77571753 ACCACATGGGTG
1 ACCACATGGGTG
77571765 ACCA
1 ACCA
77571769 TACGCCAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (12 bp):
ACCACATGGGTG
Found at i:77572322 original size:5 final size:5
Alignment explanation
Indices: 77572308--77572338 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
77572298 AAGGAGACAG
77572308 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
77572339 TGATAACTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:77575184 original size:17 final size:18
Alignment explanation
Indices: 77575159--77575193 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77575149 AGTATTCAAA
*
77575159 GTAACAATC-TCAAAAAT
1 GTAAAAATCATCAAAAAT
77575176 GTAAAAATCATCAAAAAT
1 GTAAAAATCATCAAAAAT
77575194 CGAGCAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (18 bp):
GTAAAAATCATCAAAAAT
Found at i:77575561 original size:13 final size:13
Alignment explanation
Indices: 77575543--77575567 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77575533 ACAAATGATA
77575543 AAATTTTCACACG
1 AAATTTTCACACG
77575556 AAATTTTCACAC
1 AAATTTTCACAC
77575568 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:77579699 original size:3 final size:3
Alignment explanation
Indices: 77579693--77579722 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
77579683 GGTAATAATA
*
77579693 GTG GTG GTG GTG GTA GTG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
77579723 ATGATAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.00, G:0.63, T:0.33
Consensus pattern (3 bp):
GTG
Found at i:77579709 original size:15 final size:15
Alignment explanation
Indices: 77579691--77579721 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
77579681 ATGGTAATAA
77579691 TAGTGGTGGTGGTGG
1 TAGTGGTGGTGGTGG
77579706 TAGTGGTGGTGGTGG
1 TAGTGGTGGTGGTGG
77579721 T
1 T
77579722 GATGATAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.58, T:0.35
Consensus pattern (15 bp):
TAGTGGTGGTGGTGG
Found at i:77580949 original size:33 final size:34
Alignment explanation
Indices: 77580876--77580952 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
77580866 GTGTTATGTT
* *
77580876 ATATGATGAAATGATGAATTGGTTGATGAATTGA
1 ATATGATAAAATGATGAATTAGTTGATGAATTGA
*
77580910 AAATGATAAAATG-TGAATTAAGTTGAATG-A-TGA
1 ATATGATAAAATGATGAATT-AGTTG-ATGAATTGA
77580943 ATATGATAAA
1 ATATGATAAA
77580953 TGGTTACCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 18 0.49
34 16 0.43
35 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.32
Consensus pattern (34 bp):
ATATGATAAAATGATGAATTAGTTGATGAATTGA
Found at i:77582519 original size:43 final size:43
Alignment explanation
Indices: 77582472--77582640 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
77582462 GTGTTCTCAT
77582472 GTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTATGC
1 GTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTATGC
* * * * * *
77582515 GTAAGACCATGTCTAGGACATCGGCATTG-TATTTGATT-CGT
1 GTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTATGC
* * *
77582556 GTAAGACCCTGTCTGGGATAG-TGGCATCGATATGTGA-TA-GC
1 GTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTATGC
* **
77582597 ATGTAAAACCACATCTGGGACGTTGGCA-CGATATATGTGATTAT
1 --GTAAGACCATGTCTGGGACGTTGGCATCGATAT-T-TGATTAT
77582641 TCGAGTATCC
Statistics
Matches: 96, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
41 25 0.26
42 22 0.23
43 44 0.46
44 3 0.03
45 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTATGC
Found at i:77582582 original size:41 final size:42
Alignment explanation
Indices: 77582471--77582593 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 42
77582461 TGTGTTCTCA
* *
77582471 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTATG
1 TGTAAGACCATGTCTGGGAAG-TGGCATCGATATTTGATTACG
* * *
77582514 CGTAAGACCATGTCTAGGACA-TCGGCATTG-TATTTGATT-CG
1 TGTAAGACCATGTCTGGGA-AGT-GGCATCGATATTTGATTACG
* *
77582555 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATGTGAT
1 TGTAAGACCATGTCTGGGA-AGTGGCATCGATATTTGAT
77582594 AGCATGTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
41 24 0.37
42 18 0.28
43 23 0.35
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGAAGTGGCATCGATATTTGATTACG
Found at i:77606058 original size:20 final size:20
Alignment explanation
Indices: 77606032--77606081 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
77606022 TGAACCACTC
77606032 CATTTACTTACTTAT-CA-TT
1 CATTTACTTACTT-TCCATTT
77606051 CTATTTACTTACTTTCCATTT
1 C-ATTTACTTACTTTCCATTT
77606072 CATTTACTTA
1 CATTTACTTA
77606082 GCATAAGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.07
20 23 0.82
21 3 0.11
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTT
Found at i:77611664 original size:27 final size:27
Alignment explanation
Indices: 77611588--77611803 Score: 274
Period size: 27 Copynumber: 8.1 Consensus size: 27
77611578 GAAATTATTA
**
77611588 AAATA-CCTCGATTTGTAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACCG
* *
77611614 AAATACCCTC-AATTGTGAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
** *
77611640 AAATACCCTTAATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCG
* *
77611667 AAATACCCTCAATTTGTAAAATTACTG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
77611694 AAATACGCTCGATTTGTAAAATTACTG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
77611721 AAATACCCCCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
*
77611748 AAACACCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
77611775 AAACACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
77611802 AA
1 AA
77611804 GTGTAAAATT
Statistics
Matches: 167, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 26 0.16
27 141 0.84
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCG
Found at i:77611833 original size:27 final size:27
Alignment explanation
Indices: 77611803--77611868 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
77611793 AAATTATCGA
* * * *
77611803 AGTGTAAAATTACTGAAATACCCTTGT
1 AGTGTAAAATGACCGAAATACCCCTAT
*
77611830 AGTGTAAAATGACCGACATACCCCTAT
1 AGTGTAAAATGACCGAAATACCCCTAT
*
77611857 AGGGTAAAATGA
1 AGTGTAAAATGA
77611869 TTGTTTTGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (27 bp):
AGTGTAAAATGACCGAAATACCCCTAT
Found at i:77615738 original size:30 final size:30
Alignment explanation
Indices: 77615704--77615764 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
77615694 TTCCTGAGCC
77615704 TAGGGGCAAAAGTT-TAAATATGCAAAAGTT
1 TAGGGGCAAAA-TTATAAATATGCAAAAGTT
*
77615734 TAGGGGCAAAATTATAAATTTGCAAAAGTT
1 TAGGGGCAAAATTATAAATATGCAAAAGTT
77615764 T
1 T
77615765 GAGTTAAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATTATAAATATGCAAAAGTT
Found at i:77620957 original size:27 final size:26
Alignment explanation
Indices: 77620917--77621028 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
77620907 AGGAAGCGTC
*
77620917 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
77620944 CTGGTGGCGCTGCCACATATATCTGCT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
77620971 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
77620999 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
77621025 CTGG
1 CTGG
77621029 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:77621021 original size:54 final size:54
Alignment explanation
Indices: 77620917--77621028 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
77620907 AGGAAGCGTC
*
77620917 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCGCTGCCACATATATCTGCT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACGCTGCCACATATATCTGCT
* * * * *
77620971 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACGCTGCCACATATATCTGCT
77621025 CTGG
1 CTGG
77621029 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACGCTGCCACATATATCTGCT
Found at i:77624727 original size:48 final size:48
Alignment explanation
Indices: 77624662--77624954 Score: 541
Period size: 48 Copynumber: 6.1 Consensus size: 48
77624652 GCTGAAATTG
*
77624662 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
77624710 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
77624758 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
77624806 ATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
77624854 ATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
77624902 ATGTATGAGATATGTATATGTGGTAAAGCCGAGTGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
77624950 ATGTA
1 ATGTA
77624955 GGCGAGGTGC
Statistics
Matches: 240, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 240 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:77631957 original size:18 final size:18
Alignment explanation
Indices: 77631934--77631971 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
77631924 AAAAATCACT
77631934 TAACAA-AATACTTATAAA
1 TAACAACAATACTT-TAAA
77631952 TAACAACTAATACTTTAAA
1 TAACAAC-AATACTTTAAA
77631971 T
1 T
77631972 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (18 bp):
TAACAACAATACTTTAAA
Found at i:77634497 original size:93 final size:93
Alignment explanation
Indices: 77634338--77634508 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
77634328 GGATGGTTGA
*
77634338 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
77634403 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
77634431 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
*
77634496 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
77634509 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77634511 original size:46 final size:46
Alignment explanation
Indices: 77634342--77634513 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
77634332 GGTTGAGCAT
* *
77634342 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * *
77634388 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
*
77634433 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
77634481 CCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
77634514 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 58 0.55
47 27 0.26
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:77650925 original size:19 final size:19
Alignment explanation
Indices: 77650901--77650937 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
77650891 AGTTAATAAC
*
77650901 AAATTTCATTACGGTGGGA
1 AAATTTAATTACGGTGGGA
77650920 AAATTTAATTACGGTGGG
1 AAATTTAATTACGGTGGG
77650938 TGAATGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (19 bp):
AAATTTAATTACGGTGGGA
Found at i:77652618 original size:22 final size:22
Alignment explanation
Indices: 77652591--77652635 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
77652581 TTACCATTAA
*
77652591 AAAAATTAAAAACCCTAACCCT
1 AAAAATTAAAAACCATAACCCT
77652613 AAAAATTAAAAACCATAACCCT
1 AAAAATTAAAAACCATAACCCT
77652635 A
1 A
77652636 GAAGAGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAAATTAAAAACCATAACCCT
Found at i:77653474 original size:8 final size:8
Alignment explanation
Indices: 77653461--77653485 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
77653451 AAAAAATATA
77653461 TTAAATTT
1 TTAAATTT
77653469 TTAAATTT
1 TTAAATTT
77653477 TTAAATTT
1 TTAAATTT
77653485 T
1 T
77653486 CTTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:77653533 original size:10 final size:10
Alignment explanation
Indices: 77653518--77653561 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
77653508 ATGTTCCAAA
77653518 ATTTTAATAT
1 ATTTTAATAT
77653528 ATTTTAATAT
1 ATTTTAATAT
**
77653538 ATTAAAATAT
1 ATTTTAATAT
*
77653548 A-TTAAATAT
1 ATTTTAATAT
77653557 ATTTT
1 ATTTT
77653562 CTTATTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAATAT
Found at i:77655352 original size:13 final size:14
Alignment explanation
Indices: 77655334--77655362 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
77655324 AATTGATTTA
77655334 AAGGTTAA-TTAGT
1 AAGGTTAACTTAGT
77655347 AAGGTTAACTTAGT
1 AAGGTTAACTTAGT
77655361 AA
1 AA
77655363 ACTAGTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (14 bp):
AAGGTTAACTTAGT
Found at i:77655575 original size:5 final size:5
Alignment explanation
Indices: 77655565--77655591 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
77655555 TGAGCATTTG
77655565 ATCGA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA ATCGA AT
77655592 GAAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATCGA
Found at i:77657522 original size:29 final size:28
Alignment explanation
Indices: 77657479--77657533 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
77657469 GAGTTATACC
*
77657479 GATTTGGCTTTGGGCCATGAATATCAGCT
1 GATTTGGCTTCGGGCCATG-ATATCAGCT
77657508 GATTTGGCTTCGGGCCATGATATCAG
1 GATTTGGCTTCGGGCCATGATATCAG
77657534 TATTTCGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGCT
Found at i:77665286 original size:79 final size:79
Alignment explanation
Indices: 77665140--77665359 Score: 234
Period size: 79 Copynumber: 2.8 Consensus size: 79
77665130 CCAAATCACG
* * ** * *
77665140 TACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTAT
1 TACCTTCGGGACTTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAT
77665204 AGTAACTCGCACAAA
65 AGTAACTCGCACAAA
*
77665219 TACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-
1 TACCTTCGGGACTTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
77665282 TAGTATCTCGCACAAA
64 TAGTAACTCGCACAAA
* * * *
77665298 TGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TACCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
77665360 CATCATTCAA
Statistics
Matches: 120, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
78 3 0.03
79 69 0.57
80 48 0.40
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
TACCTTCGGGACTTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
GTAACTCGCACAAA
Found at i:77665359 original size:40 final size:40
Alignment explanation
Indices: 77665156--77665359 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
77665146 CGGAATTTAA
** *
77665156 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
77665196 CCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
77665236 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
77665275 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
77665315 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
77665355 CCGGA
1 CCGGA
77665360 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:77670240 original size:93 final size:93
Alignment explanation
Indices: 77670032--77670242 Score: 352
Period size: 93 Copynumber: 2.2 Consensus size: 93
77670022 GACCCATACA
*
77670032 GCCTGGACACACGGGCGTGTCCTAGGCCGTGTGACTTAACATGGGCGCGATAATAGGTTCCACGG
1 GCCTGGACACAC-GGCGTGTCCTAGGCCGTGTGACTTAACATGGGCACGATAATAGGTTCCACGG
**
77670097 TTGTGTGATATAGCCATGTACCCCACACG
65 TCATGTGATATAGCCATGTACCCCACACG
*
77670126 GCCTGGACACACGGCCATGTCCTAGGCCGTGTGACTTAACAT-GGCACGATAATAGGTTCCACGG
1 GCCTGGACACACGG-CGTGTCCTAGGCCGTGTGACTTAACATGGGCACGATAATAGGTTCCACGG
77670190 TCATGTGATATAGCCATGTACCCCACACG
65 TCATGTGATATAGCCATGTACCCCACACG
77670219 GCCTGGACACACAGGCGTGTCCTA
1 GCCTGGACACAC-GGCGTGTCCTA
77670243 AGTTGTTTAA
Statistics
Matches: 110, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
93 70 0.64
94 40 0.36
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.21
Consensus pattern (93 bp):
GCCTGGACACACGGCGTGTCCTAGGCCGTGTGACTTAACATGGGCACGATAATAGGTTCCACGGT
CATGTGATATAGCCATGTACCCCACACG
Found at i:77671139 original size:7 final size:7
Alignment explanation
Indices: 77671129--77671178 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
77671119 CCTTATTAGC
77671129 ATTATTT
1 ATTATTT
77671136 ATTATTT
1 ATTATTT
77671143 ATTATTT
1 ATTATTT
77671150 ATT-TTT
1 ATTATTT
77671156 ATTTATTT
1 A-TTATTT
*
77671164 CTTATGTT
1 ATTAT-TT
*
77671172 ACTATTT
1 ATTATTT
77671179 CTCTATTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 4 0.11
7 25 0.68
8 8 0.22
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:77672779 original size:6 final size:6
Alignment explanation
Indices: 77672764--77672848 Score: 100
Period size: 6 Copynumber: 14.0 Consensus size: 6
77672754 ATTAAGTCCA
* * *
77672764 TTTATC TTTATG TTTATT TTTATT TTTATC TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
77672812 TTTATT TTTATT TTTCTT ATTT-TAT TTTATT TATATT
1 TTTATT TTTATT TTTATT -TTTAT-T TTTATT TTTATT
77672849 GTTTTTCTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
6 65 0.93
7 5 0.07
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:77683409 original size:20 final size:21
Alignment explanation
Indices: 77683366--77683409 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
77683356 AAACATAATA
*
77683366 ATAGTATTACAAAGTATATAC
1 ATAGTATTACAAAATATATAC
*
77683387 ATAGTATTA-AAAATATGTAC
1 ATAGTATTACAAAATATATAC
77683407 ATA
1 ATA
77683410 ATATGGCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (21 bp):
ATAGTATTACAAAATATATAC
Found at i:77683447 original size:26 final size:26
Alignment explanation
Indices: 77683387--77683478 Score: 75
Period size: 26 Copynumber: 3.6 Consensus size: 26
77683377 AAGTATATAC
**
77683387 ATAGTATT-AAAAATATGTACATAAT
1 ATAGTATTAAAAAATACATACATAAT
* **
77683412 ATGGCGTTAAAAAATACATACATAAT
1 ATAGTATTAAAAAATACATACATAAT
* *
77683438 ATAGTATTAAATATATACATAAGATAAT
1 ATAGTATTAAA-AAATACAT-ACATAAT
77683466 AT-GTA--AAAAAATA
1 ATAGTATTAAAAAATA
77683479 TAATATAGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 4 0.08
25 8 0.15
26 23 0.43
27 10 0.19
28 8 0.15
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (26 bp):
ATAGTATTAAAAAATACATACATAAT
Found at i:77683524 original size:45 final size:46
Alignment explanation
Indices: 77683421--77683524 Score: 110
Period size: 45 Copynumber: 2.3 Consensus size: 46
77683411 TATGGCGTTA
*
77683421 AAAAATACATACATAATATAGTATTAAATATATACATAAGATAATATG
1 AAAAATACA-ATATAATATAGTATTAAATATATA-ATAAGATAATATG
* *
77683469 TAAAA-A-AATATAATATAGTATTCGAAATATAT-ATATGAT-ATAT-
1 AAAAATACAATATAATATAGTATT--AAATATATAATAAGATAATATG
77683512 AAAAATACAATAT
1 AAAAATACAATAT
77683525 TAAAAGGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
43 4 0.08
44 5 0.10
45 25 0.52
46 1 0.02
47 9 0.19
48 4 0.08
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.33
Consensus pattern (46 bp):
AAAAATACAATATAATATAGTATTAAATATATAATAAGATAATATG
Found at i:77683569 original size:24 final size:23
Alignment explanation
Indices: 77683533--77683598 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
77683523 ATTAAAAGGC
*
77683533 ATATATACGTAATATATATATAAA
1 ATATATACATAATATATAT-TAAA
*
77683557 ATGTATACATAATATAGTATTAAA
1 ATATATACATAATATA-TATTAAA
* *
77683581 ATATTTACATAGTATATA
1 ATATATACATAATATATA
77683599 CATATTAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.06
24 31 0.86
25 3 0.08
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (23 bp):
ATATATACATAATATATATTAAA
Found at i:77683750 original size:24 final size:24
Alignment explanation
Indices: 77683719--77683787 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
77683709 AATAATAAGG
*
77683719 ATAATATAAAAATATATACATGAA
1 ATAATATAAAAATATATACATCAA
* * * * *
77683743 ATAGTATAAAAAAATATATAACTA
1 ATAATATAAAAATATATACATCAA
*
77683767 ATAATATTAAAATATATACAT
1 ATAATATAAAAATATATACAT
77683788 AATATTTATA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAATATAAAAATATATACATCAA
Found at i:77683805 original size:24 final size:23
Alignment explanation
Indices: 77683722--77683819 Score: 87
Period size: 22 Copynumber: 4.2 Consensus size: 23
77683712 AATAAGGATA
77683722 ATATAAAAATATATACATGAAATAGT
1 ATATAAAAATATATACAT--AATA-T
*
77683748 ATAAAAAAATATATA-ACTAATA-
1 ATATAAAAATATATACA-TAATAT
*
77683770 ATATTAAAATATATACATAATAT
1 ATATAAAAATATATACATAATAT
* *
77683793 TTAT-AAAACATATACGAT-ATAT
1 ATATAAAAATATATAC-ATAATAT
77683815 ATATA
1 ATATA
77683820 CATTAGAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
22 35 0.57
23 6 0.10
24 4 0.07
25 1 0.02
26 15 0.25
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (23 bp):
ATATAAAAATATATACATAATAT
Found at i:77683958 original size:22 final size:23
Alignment explanation
Indices: 77683884--77684006 Score: 76
Period size: 22 Copynumber: 5.2 Consensus size: 23
77683874 GTACGTATAT
* * *
77683884 ATATAAATAATAATGGTATTAGAA
1 ATATACATAATAATAGTA-TAAAA
* * * *
77683908 ATATTCAATATATAATATTAGAAAT
1 ATATAC-ATA-ATAATAGTATAAAA
77683933 ATATACATAA-AATAGTATAAAA
1 ATATACATAATAATAGTATAAAA
77683955 ATAT--ATAACTAAT-GATATTAAAA
1 ATATACATAA-TAATAG-TA-TAAAA
77683978 TATATACATAATAATA-TATAAAAA
1 -ATATACATAATAATAGTAT-AAAA
77684002 ATATA
1 ATATA
77684007 ATATTAAAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
20 4 0.05
21 1 0.01
22 18 0.23
23 12 0.16
24 17 0.22
25 14 0.18
26 11 0.14
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATACATAATAATAGTATAAAA
Found at i:77683996 original size:24 final size:23
Alignment explanation
Indices: 77683919--77684006 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 23
77683909 TATTCAATAT
77683919 ATAATAT-TAGAAATATATACATA
1 ATAATATATA-AAATATATACATA
77683942 A-AATAGTATAAAAATATATA-ACTA
1 ATAATA-TAT-AAAATATATACA-TA
*
77683966 ATGATAT-TAAAATATATACATA
1 ATAATATATAAAATATATACATA
*
77683988 ATAATATATAAAAAATATA
1 ATAATATATAAAATATATA
77684007 ATATTAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
22 22 0.40
23 15 0.27
24 14 0.25
25 4 0.07
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (23 bp):
ATAATATATAAAATATATACATA
Found at i:77684016 original size:15 final size:16
Alignment explanation
Indices: 77683988--77684021 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
77683978 TATATACATA
77683988 ATAATATATAAAAAAT
1 ATAATATATAAAAAAT
77684004 ATAATAT-TAAAAAAT
1 ATAATATATAAAAAAT
77684019 ATA
1 ATA
77684022 TGTATATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATATATAAAAAAT
Found at i:77684041 original size:25 final size:26
Alignment explanation
Indices: 77684013--77684071 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
77684003 TATAATATTA
*
77684013 AAAAATATATGTAT-ATAACATA-TAT
1 AAAAATATATAT-TCATAACATAGTAT
*
77684038 AAAAAAATATATTCATAACATAGTAT
1 AAAAATATATATTCATAACATAGTAT
*
77684064 TAAAATAT
1 AAAAATAT
77684072 TTACATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 18 0.64
26 9 0.32
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (26 bp):
AAAAATATATATTCATAACATAGTAT
Found at i:77684067 original size:27 final size:28
Alignment explanation
Indices: 77684007--77684068 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
77683997 AAAAAATATA
*
77684007 ATATT-AAAAAATATATGTATATAACAT
1 ATATTAAAAAAATATATGTACATAACAT
77684034 ATA-TAAAAAAATATAT-T-CATAACAT
1 ATATTAAAAAAATATATGTACATAACAT
77684059 AGTATTAAAA
1 A-TATTAAAA
77684069 TATTTACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 8 0.26
26 4 0.13
27 19 0.61
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (28 bp):
ATATTAAAAAAATATATGTACATAACAT
Found at i:77684184 original size:18 final size:19
Alignment explanation
Indices: 77684151--77684210 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
77684141 TTTATTAAAG
77684151 ATATATACATATATAATAA-A
1 ATATATAC-TA-ATAATAATA
77684171 ATATATACTAATAATAATA
1 ATATATACTAATAATAATA
* *
77684190 ACA-ATAATAATAATAATA
1 ATATATACTAATAATAATA
77684208 ATA
1 ATA
77684211 AACAAAAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 23 0.64
19 5 0.14
20 8 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATATACTAATAATAATA
Found at i:77684185 original size:3 final size:3
Alignment explanation
Indices: 77684163--77684211 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
77684153 ATATACATAT
* *
77684163 ATA ATA A-A ATA TATA CTA ATA ATA ATA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
77684208 ATA A
1 ATA A
77684212 ACAAAAAGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:77685791 original size:21 final size:21
Alignment explanation
Indices: 77685765--77685815 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
77685755 ATAAGATCTG
**
77685765 CAACTTCAATGTGCTCCACTGA
1 CAACTTCAATCAGCTCCACT-A
*
77685787 -AACTTCGATCAGCTCCACTA
1 CAACTTCAATCAGCTCCACTA
77685807 CAACTTCAA
1 CAACTTCAA
77685816 GGAGGCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.25
Consensus pattern (21 bp):
CAACTTCAATCAGCTCCACTA
Found at i:77686028 original size:13 final size:14
Alignment explanation
Indices: 77685994--77686042 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
77685984 TGCGTTGTTT
77685994 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
* *
77686008 ATT-AAAAAAAGAA
1 TTTGAAAAACAGAA
77686021 TTTGAAAAACA-AA
1 TTTGAAAAACAGAA
77686034 TTTTGAAAA
1 -TTTGAAAA
77686043 TACCTCGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.24
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:77686174 original size:88 final size:88
Alignment explanation
Indices: 77686025--77686818 Score: 764
Period size: 88 Copynumber: 9.1 Consensus size: 88
77686015 AAAGAATTTG
* *
77686025 AAAAACA-AATTTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGA
1 AAAAACAGAA-TTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
77686089 GTTGATTTTTGGAAAACAGAAATT
65 GTTGATTTTTGGAAAACAGAAATT
*
77686113 AAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
77686178 TTGATTTTTTTGAAAAGCAGAAATT
66 TTGA-TTTTTGGAAAA-CAGAAATT
* * * *
77686203 ---GA-A-AA---G-AAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCACAATATGCG
1 AAAAACAGAATTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
* ** *
77686257 TTGTTTTTTTGCTAAATAGAAATT
66 TTG-ATTTTTGGAAAACAGAAATT
* *
77686281 AAAAACAGAATTTGAAAATACCTCGGCATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
77686346 TTGATTTTTGAAAAACAGAAATT
66 TTGATTTTTGGAAAACAGAAATT
*
77686369 AAAAACAGAATTTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
77686434 TTGATTTTT-GAAGAACAGAAATT
66 TTGATTTTTGGAA-AACAGAAATT
* ** *
77686457 GAAAAAACAGAAATTGAAAATACCTCAGC--GTGTTCTGAGGCTCAACTCACCTCTCGCAATATG
1 --AAAAACAGAATTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
77686520 AGTTGATTTTTTTGAAAAGCAGAAATT
64 AGTTGA-TTTTTGGAAAA-CAGAAATT
* * * * * *
77686547 ---GA-A-AA---G-AAATACCTTAGCATGT--CCCGAGGCTCAACTCACTTTTCACAATATGCG
1 AAAAACAGAATTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
77686601 TTGTTTTTTTGAAAAACAGAAATT
66 TTG-ATTTTTGGAAAACAGAAATT
* ** * ** *
77686625 AAAAACAGAATTTGAAAA-ACAAATTTTGAAAAT-ACCTCGGCATGTGACCCAAGGCTCAACTCA
1 AAAAACAGAATTTGAAAATAC---CTCAGCATGTGACC-C-G-A-G-G-CTCAA--CTC-A--C-
* * * * *
77686688 CCCTCGCAATATGAGTTGGTTTTTGAAAAATATAAATT
51 CTCTCGCAATATGAGTTGATTTTTGGAAAACAGAAATT
*
77686726 AAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAATTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
77686791 TTGATTTTT-GAAGAACAGAAATT
66 TTGATTTTTGGAA-AACAGAAATT
*
77686814 GAAAA
1 AAAAA
77686819 TACCTCAGCG
Statistics
Matches: 584, Mismatches: 70, Indels: 104
0.77 0.09 0.14
Matches are distributed among these distances:
78 15 0.03
79 93 0.16
80 1 0.00
81 15 0.03
82 3 0.01
83 6 0.01
84 1 0.00
85 3 0.01
86 5 0.01
87 19 0.03
88 233 0.40
89 60 0.10
90 46 0.08
91 2 0.00
92 4 0.01
93 1 0.00
94 5 0.01
95 2 0.00
96 5 0.01
97 1 0.00
98 4 0.01
99 6 0.01
100 3 0.01
101 36 0.06
102 15 0.03
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (88 bp):
AAAAACAGAATTTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGGAAAACAGAAATT
Found at i:77686374 original size:13 final size:13
Alignment explanation
Indices: 77686356--77686386 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
77686346 TTGATTTTTG
77686356 AAAAACAGAAATT
1 AAAAACAGAAATT
*
77686369 AAAAACAGAATTT
1 AAAAACAGAAATT
77686382 AAAAA
1 AAAAA
77686387 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:77686467 original size:15 final size:15
Alignment explanation
Indices: 77686447--77686476 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
77686437 ATTTTTGAAG
77686447 AACAGAAATTGAAAA
1 AACAGAAATTGAAAA
77686462 AACAGAAATTGAAAA
1 AACAGAAATTGAAAA
77686477 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (15 bp):
AACAGAAATTGAAAA
Found at i:77686476 original size:14 final size:14
Alignment explanation
Indices: 77686441--77686476 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
77686431 GAGTTGATTT
*
77686441 TTGAAGAACAGAAA
1 TTGAAAAACAGAAA
77686455 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
77686470 TTGAAAA
1 TTGAAAA
77686477 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.61, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:77686557 original size:344 final size:346
Alignment explanation
Indices: 77686011--77687344 Score: 1799
Period size: 344 Copynumber: 3.8 Consensus size: 346
77686001 AACAGAAATT
* * *
77686011 AAAAAAAGAATTTGAAAAACA-AATTTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC
1 AAAAACAGAAATT-AAAAACAGAA-TTTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCAC
* * *
77686075 CTCTCGAAATATGAGTTGATTTTTGGAAAACAGAAATT-AAAAACAGAATTTGAAAATACCTCGG
64 CTCTCGCAATATGAGTTGATTTTT-GAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAG
* *
77686139 CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTG
128 C--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTG
*
77686204 AAAAGAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGCGTTGTTTTTTTGC
191 AAAAGAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGCGTTGTTTTTTTGA
* * *
77686269 TAAATAGAAATTAAAAAC-A-G-AA-TTTGAAAATACCTCGGCATGTGACCCAAGGCTCAACTCA
256 AAAAAAGAAATTAAAAACAATGAAATTTTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCA
77686330 CCTCTCGCAATATGAGTTGATTTTTG
321 CCTCTCGCAATATGAGTTGATTTTTG
*
77686356 AAAAACAGAAATTAAAAACAGAATTTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCT
1 AAAAACAGAAATTAAAAACAGAATTTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
77686421 CTCGCAATATGAGTTGATTTTTGAAGAACAGAAATTGAAAAAACAGAAATTGAAAATACCTCAGC
66 CTCGCAATATGAGTTGATTTTTGAA-AACAGAAATTG-AAAAACAGAAATTGAAAATACCTCAGC
*
77686486 GTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAA
129 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAA
* * * *
77686551 AGAAATACCTTAGCATGTCCCGAGGCTCAACTCACTTTTCACAATATGCGTTGTTTTTTTGAAAA
194 AGAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGCGTTGTTTTTTTGAAAA
* *
77686616 ACAGAAATTAAAAACAGAATTTGAAAAACAAATTTTGAAAATACCTCGGCATGTGACCCAAGGCT
259 AAAGAAATTAAAAAC--AA--TG------AAATTTTGAAAATACCTCAGCATGTGACCCAAGGCT
*
77686681 CAACTCACC-CTCGCAATATGAGTTGGTTTTTG
314 CAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
77686713 AAAAATATAAATTAAAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
1 AAAAACAGAAATTAAAAACAGAATTTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
77686778 CTCGCAATATGAGTTGATTTTT-------G-AA--G---AACAGAAATTGAAAATACCTCAGCGT
66 CTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGT
77686830 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAG
131 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAG
* *
77686895 AAATACCTCAGTGTGTCCCGAGGCTCAACTCACATCTCACAATATGCGTTGTTTTTTTGAAAAAA
196 AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGCGTTGTTTTTTTG-AAAAA
*
77686960 AAGAAATTAAAAACAGATTTTGAAAAACAGATTTTGAAAATACCTCAGCATGTGACCCGAGGCTC
260 AAGAAATTAAAAACA-A---TG----A-A-ATTTTGAAAATACCTCAGCATGTGACCCAAGGCTC
* *
77687025 AACTCACCTCTCGCAATATGACTTAATTTTTG
315 AACTCACCTCTCGCAATATGAGTTGATTTTTG
*
77687057 AAAAACAGAAATTAAAAATAGAATTTGAAAAACAAAATTTTAAAAAACCTCGGCATGTGACCCGA
1 AAAAACAGAAATTAAAAACAGAATTT-----A-AAAA---T-----ACCTCGGCATGTGACCCGA
*
77687122 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAAAACAGAAATT
52 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG-AAAAACAGAAATT
77687187 GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
115 GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
* *
77687252 AGCAGAAATTGAAAAGAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
180 AGCAGAAATTGAAAAGAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGCGT
** * *
77687317 TAATTTTTTGAAAAGAAGAAATTGAAAA
245 TGTTTTTTTGAAAAAAAGAAATTAAAAA
77687345 GAAATACCTC
Statistics
Matches: 889, Mismatches: 47, Indels: 79
0.88 0.05 0.08
Matches are distributed among these distances:
341 5 0.01
342 146 0.16
343 66 0.07
344 256 0.29
345 13 0.01
346 26 0.03
347 1 0.00
348 2 0.00
349 1 0.00
350 5 0.01
353 1 0.00
357 107 0.12
358 96 0.11
366 1 0.00
367 2 0.00
369 1 0.00
372 16 0.02
373 144 0.16
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (346 bp):
AAAAACAGAAATTAAAAACAGAATTTAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGT
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAG
AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGCGTTGTTTTTTTGAAAAAA
AGAAATTAAAAACAATGAAATTTTGAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTG
Found at i:77686621 original size:78 final size:78
Alignment explanation
Indices: 77686459--77686629 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 78
77686449 CAGAAATTGA
* * * *
77686459 AAAAACAGAAATTG---AAAATACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCACAATATGA
77686521 GTTGATTTTTTTG
66 GTTGATTTTTTTG
* * * *
77686534 AAAAGCAGAAATTGAAAAGAAATACCTTAGCATGTCCCGAGGCTCAACTCACTTTTCACAATATG
1 AAAAACAGAAATTGAAAA-AAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCACAATATG
*
77686599 CGTTG-TTTTTTTG
65 AGTTGATTTTTTTG
77686612 AAAAACAGAAATT-AAAAA
1 AAAAACAGAAATTGAAAAA
77686630 CAGAATTTGA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
75 13 0.16
76 1 0.01
77 4 0.05
78 21 0.26
79 43 0.52
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (78 bp):
AAAAACAGAAATTGAAAAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCACAATATGA
GTTGATTTTTTTG
Found at i:77686630 original size:13 final size:14
Alignment explanation
Indices: 77686609--77686645 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
77686599 CGTTGTTTTT
77686609 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
77686623 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
77686636 TTGAAAAACA
1 TTGAAAAACA
77686646 AATTTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:77686649 original size:13 final size:14
Alignment explanation
Indices: 77686608--77686656 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
77686598 GCGTTGTTTT
77686608 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
*
77686622 ATT-AAAAACAGAA
1 TTTGAAAAACAGAA
77686635 TTTGAAAAACA-AA
1 TTTGAAAAACAGAA
77686648 TTTTGAAAA
1 -TTTGAAAA
77686657 TACCTCGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 14 0.45
14 17 0.55
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.24
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:77686940 original size:79 final size:74
Alignment explanation
Indices: 77686727--77686957 Score: 297
Period size: 79 Copynumber: 3.1 Consensus size: 74
77686717 ATATAAATTA
* * *
77686727 AAAACAGAATTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAG--TGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
77686792 TGA--TTTTTG
64 TGATTTTTTTG
* *
77686801 AAGAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AA-AACAGAAATTGAAAATACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
77686866 GATTTTTTTG
65 GATTTTTTTG
* *
77686876 AAAAGCAGAAATTGAAAAGAAATACCTCAGTGTGTCCCGAGGCTCAACTCACATCTCACAATATG
1 AAAA-CAGAAATTG---A-AAATACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
77686941 CGTTG-TTTTTTTG
61 AGTTGATTTTTTTG
77686954 AAAA
1 AAAA
77686958 AAAAGAAATT
Statistics
Matches: 139, Mismatches: 10, Indels: 12
0.86 0.06 0.07
Matches are distributed among these distances:
73 38 0.27
74 4 0.03
75 38 0.27
78 13 0.09
79 46 0.33
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:77686985 original size:14 final size:14
Alignment explanation
Indices: 77686968--77686999 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
77686958 AAAAGAAATT
77686968 AAAAACAGATTTTG
1 AAAAACAGATTTTG
77686982 AAAAACAGATTTTG
1 AAAAACAGATTTTG
77686996 AAAA
1 AAAA
77687000 TACCTCAGCA
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:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (14 bp):
AAAAACAGATTTTG
Found at i:77687055 original size:104 final size:102
Alignment explanation
Indices: 77686895--77687191 Score: 386
Period size: 102 Copynumber: 2.9 Consensus size: 102
77686885 AATTGAAAAG
* * * *
77686895 AAATACCTCAG--TGTGTCCCGAGGCTCAACTCACATCTCACAATATG-CGTTGTTTTTTTGAAA
1 AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAC-TTG-ATTTTTG-AA
* *
77686957 AAAAAGAAATTAAAAACAGATTTTGAAAAAC-AGATTTTGA
63 AAAAAGAAATTAAAAACAGAATTTGAAAAACAAAATTTT-A
*
77686997 AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGACTTAATTTTTGAAAAA
1 AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGACTTGATTTTTGAAAAA
* *
77687062 CAGAAATTAAAAATAGAATTTGAAAAACAAAATTTTA
66 AAGAAATTAAAAACAGAATTTGAAAAACAAAATTTTA
* * *
77687099 AAAAACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGACTTGATTTTTGAAAAA
* *
77687164 TAGAAATTGAAAAAACAGAAATTGAAAA
66 AAGAAATT--AAAAACAGAATTTGAAAA
77687192 TACCTCAGCG
Statistics
Matches: 173, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
102 110 0.64
103 12 0.07
104 50 0.29
105 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.26
Consensus pattern (102 bp):
AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGACTTGATTTTTGAAAAA
AAGAAATTAAAAACAGAATTTGAAAAACAAAATTTTA
Found at i:77687087 original size:14 final size:14
Alignment explanation
Indices: 77687053--77687102 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
77687043 TGACTTAATT
77687053 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
* *
77687067 ATT-AAAAATAGAA
1 TTTGAAAAACAGAA
*
77687080 TTTGAAAAACAAAA
1 TTTGAAAAACAGAA
*
77687094 TTTTAAAAA
1 TTTGAAAAA
77687103 ACCTCGGCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:77687183 original size:15 final size:15
Alignment explanation
Indices: 77687159--77687191 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
77687149 TTGATTTTTG
*
77687159 AAAAATAGAAATTGA
1 AAAAACAGAAATTGA
77687174 AAAAACAGAAATTGA
1 AAAAACAGAAATTGA
77687189 AAA
1 AAA
77687192 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.12, T:0.15
Consensus pattern (15 bp):
AAAAACAGAAATTGA
Found at i:77687306 original size:79 final size:79
Alignment explanation
Indices: 77687189--77687478 Score: 439
Period size: 78 Copynumber: 3.7 Consensus size: 79
77687179 CAGAAATTGA
*
77687189 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAG
1 AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAG
77687254 CAGAAATTGAAAAG
66 CAGAAATTGAAAAG
*
77687268 AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTGAAAAG
1 AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAG
*
77687332 AAGAAATTGAAAAG
66 CAGAAATTGAAAAG
*
77687346 AAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG-AAA
1 AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAA
77687410 GACAGAAATTG---A-
65 G-CAGAAATTGAAAAG
* * ** *
77687422 AAATAACTCAACGTGTCTTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
77687479 GAAAATAGAA
Statistics
Matches: 196, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
75 5 0.03
76 46 0.23
77 1 0.01
78 75 0.38
79 54 0.28
80 15 0.08
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (79 bp):
AAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAG
CAGAAATTGAAAAG
Found at i:77693951 original size:28 final size:28
Alignment explanation
Indices: 77693911--77693980 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
77693901 ATAGTAAGTC
*
77693911 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
77693939 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
77693967 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77693981 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:77698913 original size:22 final size:22
Alignment explanation
Indices: 77698872--77698913 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
77698862 AATGGATGAA
* *
77698872 TGAATAAATGACAAATGAATAT
1 TGAATAAATAACAAAGGAATAT
*
77698894 TGAATAAATAACGAAGGAAT
1 TGAATAAATAACAAAGGAAT
77698914 GTTAGTCATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (22 bp):
TGAATAAATAACAAAGGAATAT
Found at i:77702926 original size:20 final size:21
Alignment explanation
Indices: 77702883--77702926 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
77702873 AAACATAATA
*
77702883 ATAGTATTACAAAGTATATAC
1 ATAGTATTACAAAATATATAC
*
77702904 ATAGTATTA-AAAATATGTAC
1 ATAGTATTACAAAATATATAC
77702924 ATA
1 ATA
77702927 ATATGGCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (21 bp):
ATAGTATTACAAAATATATAC
Found at i:77702964 original size:26 final size:26
Alignment explanation
Indices: 77702904--77702965 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
77702894 AAGTATATAC
**
77702904 ATAGTATT-AAAAATATGTACATAAT
1 ATAGTATTAAAAAATACATACATAAT
* **
77702929 ATGGCGTTAAAAAATACATACATAAT
1 ATAGTATTAAAAAATACATACATAAT
77702955 ATAGTATTAAA
1 ATAGTATTAAA
77702966 TATAGACATA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (26 bp):
ATAGTATTAAAAAATACATACATAAT
Found at i:77703089 original size:24 final size:23
Alignment explanation
Indices: 77703053--77703611 Score: 105
Period size: 24 Copynumber: 23.8 Consensus size: 23
77703043 TAAAAGACAT
**
77703053 ATATATATGTAATATATATGTAAA
1 ATATATACATAATATATAT-TAAA
*
77703077 ATGTATACATAATATAGTATTAAA
1 ATATATACATAATATA-TATTAAA
* * * **
77703101 ATATTTACATAGTATATACATATT
1 ATATATACATAATATATA-TTAAA
* * *
77703125 AGAAATA-ATAATA-ATGTTAAA
1 ATATATACATAATATATATTAAA
*
77703146 AAATA-ACTATTAATA-ATATTACATAA
1 ATATATAC-A-TAATATATATT--A-AA
77703172 ATATATACAT-ATATATATTAAA
1 ATATATACATAATATATATTAAA
77703194 GATATATAC---ATATA-A-TAAA
1 -ATATATACATAATATATATTAAA
*** * *
77703213 ACGCATAC-TAATAT-TAATACTA
1 ATATATACATAATATATATTA-AA
** *
77703235 ATA-ATA-AGGATA-ATATAAAA
1 ATATATACATAATATATATTAAA
77703255 ATATATACATGAA-ATAGTA-TAAA
1 ATATATACAT-AATATA-TATTAAA
*
77703278 ATATATATAACTAATA-ATATTAAA
1 ATATATA-CA-TAATATATATTAAA
*
77703302 ATATATACATAATATTTA-TAAA
1 ATATATACATAATATATATTAAA
*
77703324 ACATATACGATATATATATACATTAGAA
1 ATATATAC-ATA-ATATAT--ATTA-AA
* * * **
77703352 AT-GATA-ATAATGTAAAAAAAA
1 ATATATACATAATATATATTAAA
* * * **
77703373 ACCTATTAATACGCTACATAAATACGTACGT
1 A--TA-T-ATAC-ATA-ATATATA-TTA-AA
* *
77703404 ATATATATAAATAATAATGGTATTAAA
1 ATAT--ATACATAAT-AT-ATATTAAA
*
77703431 A-ATATTCA-ATATATAATATTAGAA
1 ATATATACATA-ATAT-ATATTA-AA
* *
77703455 ATATATACATAAAATAGTATAAAA
1 ATATATACATAATATA-TATTAAA
*
77703479 ATATATA-ATTAAT-GATATTAAA
1 ATATATACA-TAATATATATTAAA
77703501 ATATATACATAATA-ATATATAAA
1 ATATATACATAATATATAT-TAAA
* * **
77703524 A-A-AAATATAATAT-TAAAAAA
1 ATATATACATAATATATATTAAA
* * *
77703544 ATATATGTATATAACATATATAAAAA
1 ATATA--TACATAATATATAT-TAAA
* *
77703570 ATATATTCATAACATAGTATTAAA
1 ATATATACATAATATA-TATTAAA
*
77703594 ATATTTACATAATATATA
1 ATATATACATAATATATA
77703612 CGTATTAGAA
Statistics
Matches: 385, Mismatches: 86, Indels: 129
0.64 0.14 0.22
Matches are distributed among these distances:
18 5 0.01
19 4 0.01
20 15 0.04
21 38 0.10
22 50 0.13
23 64 0.17
24 119 0.31
25 33 0.09
26 23 0.06
27 10 0.03
28 11 0.03
29 11 0.03
30 1 0.00
31 1 0.00
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.35
Consensus pattern (23 bp):
ATATATACATAATATATATTAAA
Found at i:77703323 original size:22 final size:22
Alignment explanation
Indices: 77702859--77703343 Score: 90
Period size: 23 Copynumber: 21.4 Consensus size: 22
77702849 ACATACGTAC
*
77702859 ATATAT-TAAAATATAAACATA
1 ATATATATAAAATATATACATA
77702880 ATAATAGTATTACAAAGTATATACATA
1 AT-ATA-TA-TA-AAA-TATATACATA
* *
77702907 GTAT-TA-AAAATATGTACATA
1 ATATATATAAAATATATACATA
* * *
77702927 ATATGGCGTTAAAAAATACATACATA
1 ATAT----ATATAAAATATATACATA
* *
77702953 ATATAGTATTAAATATAGACATAA
1 ATATA-TATAAAATATATACAT-A
* * *
77702977 GATAATATGTAAAA-A-AAATATA
1 -AT-ATATATAAAATATATACATA
*
77702999 ATATAGTATTCGAAATATAT--ATA
1 ATATA-TA-T-AAAATATATACATA
* *
77703022 TTATATATAAAA-ATACA-ATA
1 ATATATATAAAATATATACATA
* * * * **
77703042 TTA-AAAGACATATATATATGTA
1 ATATATATA-AAATATATACATA
*
77703064 ATATATATGTAAAATGTATACATA
1 ATATATA--TAAAATATATACATA
*
77703088 ATATAGTATTAAAATATTTACATA
1 ATATA-TA-TAAAATATATACATA
77703112 GTATATACATATTAGAAATA-ATA-ATA
1 --ATAT--ATA-TA-AAATATATACATA
* *
77703138 ATGT-TAAAAAATAACTATTA-ATA
1 ATATATATAAAAT-A-TA-TACATA
*
77703161 ATAT-TACATAAATATATACAT-
1 ATATATATA-AAATATATACATA
77703182 ATATATATTAAAGATATATAC---
1 ATATATA-TAAA-ATATATACATA
***
77703203 ATATA-ATAAAACGCATAC-TA
1 ATATATATAAAATATATACATA
* *
77703223 ATAT-TA-ATACTA-ATA-ATA
1 ATATATATAAAATATATACATA
*
77703241 AGGATAATATAAAAATATATACATGA
1 A-TAT-ATAT-AAAATATATACAT-A
*
77703267 A-ATAGTATAAAATATATATAACTA
1 ATATA-TATAAAATATATA-CA-TA
77703291 ATA-ATATTAAAATATATACATA
1 ATATATA-TAAAATATATACATA
* *
77703313 ATATTTATAAAACATATACGAT-
1 ATATATATAAAATATATAC-ATA
77703335 ATATATATA
1 ATATATATA
77703344 CATTAGAAAT
Statistics
Matches: 345, Mismatches: 57, Indels: 123
0.66 0.11 0.23
Matches are distributed among these distances:
18 11 0.03
19 18 0.05
20 34 0.10
21 28 0.08
22 45 0.13
23 72 0.21
24 62 0.18
25 19 0.06
26 33 0.10
27 17 0.05
28 6 0.02
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATATATAAAATATATACATA
Found at i:77703478 original size:47 final size:47
Alignment explanation
Indices: 77703406--77703534 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 47
77703396 ACGTACGTAT
* *
77703406 ATATATAAATAATAATGGTATTAAAAATAT-TCAA-TATATAATATTAGAA
1 ATATATACATAATAATAGTA-TAAAAATATAT-AATTA-ATAATATTA-AA
*
77703455 ATATATACATAA-AATAGTATAAAAATATATAATTAATGATATTAAA
1 ATATATACATAATAATAGTATAAAAATATATAATTAATAATATTAAA
*
77703501 ATATATACATAATAATA-TATAAAAAAAATATAAT
1 ATATATACATAATAATAGTAT-AAAAATATATAAT
77703535 ATTAAAAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
46 17 0.24
47 35 0.49
48 9 0.12
49 11 0.15
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (47 bp):
ATATATACATAATAATAGTATAAAAATATATAATTAATAATATTAAA
Found at i:77703482 original size:22 final size:23
Alignment explanation
Indices: 77703408--77703548 Score: 84
Period size: 22 Copynumber: 6.2 Consensus size: 23
77703398 GTACGTATAT
* *
77703408 ATATAAATAATAATGGTATTAAAA
1 ATATACATAATAATAGTA-TAAAA
* * * *
77703432 ATATTCAATATATAATATTAGAAAT
1 ATATAC-ATA-ATAATAGTATAAAA
77703457 ATATACATAA-AATAGTATAAAA
1 ATATACATAATAATAGTATAAAA
77703479 ATAT--ATAATTAAT-GATATTAAAA
1 ATATACATAA-TAATAG-TA-TAAAA
77703502 TATATACATAATAATA-TATAAAA
1 -ATATACATAATAATAGTATAAAA
* *
77703525 A-A-A-AT-ATAATATTAAAAAA
1 ATATACATAATAATAGTATAAAA
77703544 ATATA
1 ATATA
77703549 TGTATATAAC
Statistics
Matches: 93, Mismatches: 11, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
18 6 0.06
19 9 0.10
20 6 0.06
21 3 0.03
22 19 0.20
23 11 0.12
24 13 0.14
25 15 0.16
26 11 0.12
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATACATAATAATAGTATAAAA
Found at i:77703549 original size:18 final size:18
Alignment explanation
Indices: 77703512--77703548 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
77703502 TATATACATA
77703512 ATAATATATAAAAAAAAT
1 ATAATATATAAAAAAAAT
77703530 ATAATAT-T-AAAAAAAT
1 ATAATATATAAAAAAAAT
77703546 ATA
1 ATA
77703549 TGTATATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 1 0.05
18 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATATATAAAAAAAAT
Found at i:77703593 original size:26 final size:27
Alignment explanation
Indices: 77703533--77703594 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 27
77703523 AAAAAATATA
*
77703533 ATATTAAAAAAATATATGTATATAACAT
1 ATATT-AAAAAATATATGTACATAACAT
77703561 ATA-TAAAAAATATAT-T-CATAACAT
1 ATATTAAAAAATATATGTACATAACAT
77703585 AGTATTAAAA
1 A-TATTAAAA
77703595 TATTTACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 8 0.26
25 3 0.10
26 16 0.52
27 1 0.03
28 3 0.10
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (27 bp):
ATATTAAAAAATATATGTACATAACAT
Found at i:77703700 original size:14 final size:15
Alignment explanation
Indices: 77703681--77703709 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
77703671 TTAAAGATAT
77703681 AAACATATA-TAATA
1 AAACATATACTAATA
77703695 AAACATATACTAATA
1 AAACATATACTAATA
77703710 CTAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
AAACATATACTAATA
Found at i:77703719 original size:3 final size:3
Alignment explanation
Indices: 77703705--77703737 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
77703695 AAACATATAC
*
77703705 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
77703738 ATAAAAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:77703942 original size:29 final size:29
Alignment explanation
Indices: 77703891--77703961 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
77703881 GCATTGGGGA
*
77703891 CCAAATTGAAAAGCGCAACAAAT-TGTAGGG
1 CCAAATT-AAAAGCACAACAAATCTG-AGGG
* * **
77703921 CCAAATTAAAAGCACCATAAATCTGATTG
1 CCAAATTAAAAGCACAACAAATCTGAGGG
77703950 CCAAATTAAAAG
1 CCAAATTAAAAG
77703962 TGCAATTAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.20
Consensus pattern (29 bp):
CCAAATTAAAAGCACAACAAATCTGAGGG
Found at i:77704165 original size:7 final size:7
Alignment explanation
Indices: 77704148--77704180 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
77704138 GGAAAAAAAA
77704148 AGGGAGAG
1 AGGG-GAG
77704156 AGGGGAG
1 AGGGGAG
77704163 AGGGGAG
1 AGGGGAG
77704170 AGGGGAG
1 AGGGGAG
77704177 AGGG
1 AGGG
77704181 AGCTGGGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (7 bp):
AGGGGAG
Found at i:77704172 original size:14 final size:15
Alignment explanation
Indices: 77704148--77704182 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
77704138 GGAAAAAAAA
77704148 AGGGAGAGAGGGGAG
1 AGGGAGAGAGGGGAG
77704163 AGGG-GAGAGGGGAG
1 AGGGAGAGAGGGGAG
77704177 AGGGAG
1 AGGGAG
77704183 CTGGGGGCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (15 bp):
AGGGAGAGAGGGGAG
Found at i:77704286 original size:20 final size:21
Alignment explanation
Indices: 77704261--77704299 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
77704251 AAGGTTAAAG
77704261 TTTTTTTCTTTT-CTTTTTTC
1 TTTTTTTCTTTTCCTTTTTTC
77704281 TTTTTTTCTTTTCCTTTTT
1 TTTTTTTCTTTTCCTTTTT
77704300 ATTATACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTCTTTTCCTTTTTTC
Found at i:77706099 original size:20 final size:20
Alignment explanation
Indices: 77706074--77706111 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
77706064 AGGAAGAAAA
*
77706074 AATATTTGTTGGGTGTTGCC
1 AATATTTGTTAGGTGTTGCC
77706094 AATATTTGTTAGGTGTTG
1 AATATTTGTTAGGTGTTG
77706112 ACACTTCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.05, G:0.29, T:0.47
Consensus pattern (20 bp):
AATATTTGTTAGGTGTTGCC
Found at i:77706812 original size:22 final size:22
Alignment explanation
Indices: 77706784--77706827 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
77706774 TCTTTGTATT
77706784 ATTAAATGTGTTGAATAAATTG
1 ATTAAATGTGTTGAATAAATTG
77706806 ATTAAATGTGTTGAATAAATTG
1 ATTAAATGTGTTGAATAAATTG
77706828 GATATTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (22 bp):
ATTAAATGTGTTGAATAAATTG
Found at i:77707724 original size:25 final size:25
Alignment explanation
Indices: 77707690--77707740 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
77707680 GTTATATAAC
77707690 TTTTTTTTTTAGTGTAGCATTTAGA
1 TTTTTTTTTTAGTGTAGCATTTAGA
77707715 TTTTTTTTTTAGTGTAGCATTTAGA
1 TTTTTTTTTTAGTGTAGCATTTAGA
77707740 T
1 T
77707741 CTTTCTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.61
Consensus pattern (25 bp):
TTTTTTTTTTAGTGTAGCATTTAGA
Found at i:77709218 original size:19 final size:19
Alignment explanation
Indices: 77709194--77709232 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
77709184 TAAAGGCTTC
77709194 AGGTAAGGATGACTTCCTT
1 AGGTAAGGATGACTTCCTT
77709213 AGGTAAGGATGACTTCCTT
1 AGGTAAGGATGACTTCCTT
77709232 A
1 A
77709233 CTCTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (19 bp):
AGGTAAGGATGACTTCCTT
Found at i:77711526 original size:2 final size:2
Alignment explanation
Indices: 77711521--77711570 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
77711511 TAAATATATA
77711521 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
77711563 TA TG TG TG
1 TG TG TG TG
77711571 ATAGCTGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:77715144 original size:16 final size:16
Alignment explanation
Indices: 77715119--77715149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77715109 ACAGTAAACC
*
77715119 AAGTGCGAGCCTGTCA
1 AAGTGAGAGCCTGTCA
77715135 AAGTGAGAGCCTGTC
1 AAGTGAGAGCCTGTC
77715150 TAAATGTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (16 bp):
AAGTGAGAGCCTGTCA
Found at i:77715493 original size:84 final size:83
Alignment explanation
Indices: 77715328--77715482 Score: 229
Period size: 83 Copynumber: 1.9 Consensus size: 83
77715318 GTCAACAGAG
* * * * *
77715328 GCTATGAAAGAGGAGGAGACTCCATTTGATGAGCAAATGTTTGGCACAAAATACTGGGATAGTCA
1 GCTATGAAAGAGGAGAAGACTCCATTTGATCAACAAATATTTGGCACAAAAGACTGGGATAGTCA
77715393 AGTGTGCAAGTCAGATTT
66 AGTGTGCAAGTCAGATTT
* * *
77715411 GCTATGAAGGAGGAGAAGACTCCATTTGATCAACGAATATTTAGGCACAAAAGACTGGGATTGTC
1 GCTATGAAAGAGGAGAAGACTCCATTTGATCAACAAATATTT-GGCACAAAAGACTGGGATAGTC
77715476 AAGTGTG
65 AAGTGTG
77715483 TGAGTGAGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
83 36 0.57
84 27 0.43
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.25
Consensus pattern (83 bp):
GCTATGAAAGAGGAGAAGACTCCATTTGATCAACAAATATTTGGCACAAAAGACTGGGATAGTCA
AGTGTGCAAGTCAGATTT
Found at i:77735803 original size:6 final size:6
Alignment explanation
Indices: 77735785--77735823 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
77735775 TGAAAAAGAT
* *
77735785 AAATAA AGATAA AAGTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
77735824 GTCTTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:77739017 original size:49 final size:49
Alignment explanation
Indices: 77738957--77739176 Score: 283
Period size: 49 Copynumber: 4.6 Consensus size: 49
77738947 GATAATTGTG
77738957 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
77739004 ATGTGAAAGTGTATATACATGTGATAAGGCCTATTGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
77739053 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
77739104 ATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
77739151 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
77739177 TCCCGAAGGG
Statistics
Matches: 152, Mismatches: 13, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
46 2 0.01
47 48 0.32
48 5 0.03
49 51 0.34
51 46 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:77739078 original size:100 final size:98
Alignment explanation
Indices: 77738966--77739165 Score: 303
Period size: 100 Copynumber: 2.0 Consensus size: 98
77738956 GATGTGAATG
77738966 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT--ATGTGA-AA
* * * *
77739031 G-GCCTATTGGCCGATGTGATGAATGTGAAAGTGTA
63 GAGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
* *
77739066 TATATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGAG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGAG
*
77739131 CCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
66 CCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
77739164 TA
1 TA
77739166 AATGTGATAA
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
97 2 0.02
98 37 0.40
100 53 0.58
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (98 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGAG
CCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
Found at i:77739093 original size:51 final size:51
Alignment explanation
Indices: 77738966--77739121 Score: 271
Period size: 51 Copynumber: 3.1 Consensus size: 51
77738956 GATGTGAATG
77738966 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
77739015 TATATACATGTGATAAGGCCTATTGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
77739066 TATATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
77739117 TATAT
1 TATAT
77739122 GTGACAGAGC
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
49 47 0.47
51 53 0.53
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (51 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:77741282 original size:43 final size:43
Alignment explanation
Indices: 77741234--77741336 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
77741224 TTGGTTTTCA
77741234 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
77741277 GCACTAAGTGTGCGGGTAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
77741320 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
77741337 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:77741353 original size:29 final size:29
Alignment explanation
Indices: 77741318--77741391 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
77741308 GTTGTGAGAT
* *
77741318 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
77741347 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
77741376 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
77741392 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:77741800 original size:40 final size:40
Alignment explanation
Indices: 77741781--77742017 Score: 411
Period size: 40 Copynumber: 5.9 Consensus size: 40
77741771 GAGTTACTAA
77741781 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
77741821 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
77741861 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
77741901 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
77741941 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
77741981 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
77742018 CGTGTATTCG
Statistics
Matches: 190, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 190 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:77745707 original size:47 final size:47
Alignment explanation
Indices: 77745655--77745825 Score: 191
Period size: 47 Copynumber: 3.6 Consensus size: 47
77745645 GATAATTGTG
* *
77745655 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
*
77745702 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCAATGTGATGA
1 ATGTGAAA--G--TATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
* * * * * *
77745753 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTATATATATGTGATAAG-GCCTAATGGCCAATGTGATGA
* *
77745800 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTATATATATGTGATAAG
77745826 TCCCGAAGGG
Statistics
Matches: 106, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
46 2 0.02
47 56 0.53
48 2 0.02
49 2 0.02
51 44 0.42
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
Found at i:77745728 original size:51 final size:51
Alignment explanation
Indices: 77745664--77745770 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
77745654 GATGTGAATG
*
77745664 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
77745715 TATATATATGTGATAAGGTCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
77745766 TATAT
1 TATAT
77745771 GTGACAGAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.34
Consensus pattern (51 bp):
TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:77764071 original size:25 final size:25
Alignment explanation
Indices: 77764037--77764088 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
77764027 GTAAAGGGTG
77764037 TTACAATGCAATTTTTGCTTCTTCT
1 TTACAATGCAATTTTTGCTTCTTCT
77764062 TTACAATGCAATTTTTGCTTCTTCT
1 TTACAATGCAATTTTTGCTTCTTCT
77764087 TT
1 TT
77764089 CTTGTCAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.54
Consensus pattern (25 bp):
TTACAATGCAATTTTTGCTTCTTCT
Found at i:77764904 original size:13 final size:13
Alignment explanation
Indices: 77764886--77764910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77764876 CCGAGCACAT
77764886 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
77764899 GCCCGTGTCCTT
1 GCCCGTGTCCTT
77764911 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:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:77774082 original size:46 final size:46
Alignment explanation
Indices: 77774015--77774106 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
77774005 AGAAGAAGAA
* * *
77774015 AATTCACGATTCATGGTGTACTCGCCTCCAGCTTATATGCATAATG
1 AATTCACGATTCACGGCGTACTCGCCTCCAGCCTATATGCATAATG
77774061 AATTCACGATTCACGGCGTACTCGCCTCCAGCCTATATGCATAATG
1 AATTCACGATTCACGGCGTACTCGCCTCCAGCCTATATGCATAATG
77774107 TTGATCTATC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (46 bp):
AATTCACGATTCACGGCGTACTCGCCTCCAGCCTATATGCATAATG
Found at i:77776277 original size:59 final size:59
Alignment explanation
Indices: 77776145--77776326 Score: 231
Period size: 59 Copynumber: 3.1 Consensus size: 59
77776135 CATGTCCAAA
* * * *****
77776145 TTAAAATAACTCCTAATTTATTAAATGAAACAATA-AAAAATAATTTGTACTGTCTTAT
1 TTAAAACAACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATAT
* * *
77776203 TCAAAAGAACGTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATAT
1 TTAAAACAACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATAT
* *
77776262 TTAAAACAACTTCTATTTTATTAAATGAAACAATATAAAAATAGTTTGTACAAATATAT
1 TTAAAACAACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATAT
*
77776321 TAAAAA
1 TTAAAA
77776327 ATCAATGCAT
Statistics
Matches: 107, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
58 30 0.28
59 77 0.72
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (59 bp):
TTAAAACAACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATAT
Found at i:77779326 original size:33 final size:32
Alignment explanation
Indices: 77779273--77779459 Score: 140
Period size: 33 Copynumber: 5.6 Consensus size: 32
77779263 TGGTCCAACC
* * *
77779273 ATGGTCTTACGTCCATAATGCCATAACCCAGTT
1 ATGGTCTTACAT-CAGAATGCCATAACCCAGCT
*
77779306 ATGGTCTTATCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAGCT
* * * *** * *
77779339 ATGGTTTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTACAT-CAGA-A-TGCCATAACCCAGCT
* * * * *
77779374 ATGGTCTTACGTCCATAGTGTCATAACCCAGTT
1 ATGGTCTTACAT-CAGAATGCCATAACCCAGCT
*
77779407 ATGGTCTTATCATCAGAATGCCATAACCCAACT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAGCT
*
77779440 ATGGTCTTACATAAGAATGC
1 ATGGTCTTACATCAGAATGC
77779460 AATTTGTCTT
Statistics
Matches: 118, Mismatches: 31, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
32 13 0.11
33 77 0.65
34 5 0.04
35 23 0.19
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAGCT
Found at i:77779399 original size:101 final size:101
Alignment explanation
Indices: 77779223--77779452 Score: 379
Period size: 101 Copynumber: 2.3 Consensus size: 101
77779213 GTTTCTTTTG
* * * *
77779223 TGCCATAGTCCAACTATGGCTTTACATATAAACATTGTCATGGTCCAACCATGGTCTTACGTCCA
1 TGCCATAGCCCAACTATGGTTTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
77779288 TAATGCCATAACCCAGTTATGGTCTTATCATCAGAA
66 TAATGCCATAACCCAGTTATGGTCTTATCATCAGAA
*
77779324 TGCCATAGCCCAGCTATGGTTTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
1 TGCCATAGCCCAACTATGGTTTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
* *
77779389 TAGTGTCATAACCCAGTTATGGTCTTATCATCAGAA
66 TAATGCCATAACCCAGTTATGGTCTTATCATCAGAA
* *
77779425 TGCCATAACCCAACTATGGTCTTACATA
1 TGCCATAGCCCAACTATGGTTTTACATA
77779453 AGAATGCAAT
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 119 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (101 bp):
TGCCATAGCCCAACTATGGTTTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
TAATGCCATAACCCAGTTATGGTCTTATCATCAGAA
Found at i:77781272 original size:30 final size:31
Alignment explanation
Indices: 77781236--77781307 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
77781226 CTGACTGTTA
* *
77781236 TAAAAAATTATA-AAAAAATATTAATTAA-CT
1 TAAAAAATTA-AGAAAAAATATTAAATAATAT
* *
77781266 TAAAAAATGAAGTAAAAATATTAAATAATAT
1 TAAAAAATTAAGAAAAAATATTAAATAATAT
77781297 TAAAAAATTAA
1 TAAAAAATTAA
77781308 AATTAACCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.03
30 23 0.66
31 11 0.31
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (31 bp):
TAAAAAATTAAGAAAAAATATTAAATAATAT
Found at i:77785973 original size:17 final size:17
Alignment explanation
Indices: 77785928--77785990 Score: 76
Period size: 17 Copynumber: 3.7 Consensus size: 17
77785918 TTCGCATAAA
77785928 ATAATAGTTCAGATG-AA-
1 ATAATAGTTC--ATGCAAT
77785945 ATAATAGTTCATGCAAT
1 ATAATAGTTCATGCAAT
*
77785962 ATAATAGTTCATTCAAT
1 ATAATAGTTCATGCAAT
*
77785979 ATAATAATTCAT
1 ATAATAGTTCAT
77785991 TCATACCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.07
16 2 0.05
17 37 0.88
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (17 bp):
ATAATAGTTCATGCAAT
Found at i:77785991 original size:17 final size:17
Alignment explanation
Indices: 77785945--77785993 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
77785935 TTCAGATGAA
*
77785945 ATAATAGTTCATGCAAT
1 ATAATAGTTCATTCAAT
77785962 ATAATAGTTCATTCAAT
1 ATAATAGTTCATTCAAT
*
77785979 ATAATAATTCATTCA
1 ATAATAGTTCATTCA
77785994 TACCACATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (17 bp):
ATAATAGTTCATTCAAT
Found at i:77786082 original size:22 final size:23
Alignment explanation
Indices: 77786057--77786100 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
77786047 TTATGAAACA
*
77786057 TATAAG-GGACTTTATCACCACC
1 TATAAGTGGACTCTATCACCACC
77786079 TATAAGTGGACTCTATCACCAC
1 TATAAGTGGACTCTATCACCAC
77786101 ACATTGGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (23 bp):
TATAAGTGGACTCTATCACCACC
Found at i:77788414 original size:58 final size:58
Alignment explanation
Indices: 77788343--77788487 Score: 204
Period size: 57 Copynumber: 2.5 Consensus size: 58
77788333 TTGCTAACAT
* * **
77788343 GATTTAGCATGGACTGGTAATCCTGATATAATCT-TTCTCGAGCATATGTTACAATTAG
1 GATTTAGCCTGGACTGGTAATCCTGATATAAGCTCTTCT-GAGCATATGTTACAAAAAG
* *
77788401 GATTTAGCCTGGACTGGTAATCCTAAT-TGAGCTCTTCTGAGCATATGTTACAAAAAG
1 GATTTAGCCTGGACTGGTAATCCTGATATAAGCTCTTCTGAGCATATGTTACAAAAAG
*
77788458 GATTTAGCCTGGACTGGTAATCCTGTTATA
1 GATTTAGCCTGGACTGGTAATCCTGATATA
77788488 TGTTATAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
57 46 0.61
58 30 0.39
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (58 bp):
GATTTAGCCTGGACTGGTAATCCTGATATAAGCTCTTCTGAGCATATGTTACAAAAAG
Found at i:77790970 original size:17 final size:17
Alignment explanation
Indices: 77790948--77790980 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
77790938 CCTTTCTTTC
77790948 TTTTTCCTTTTTTTTGT
1 TTTTTCCTTTTTTTTGT
77790965 TTTTTCCTTTTTTTTG
1 TTTTTCCTTTTTTTTG
77790981 CTTAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTCCTTTTTTTTGT
Found at i:77792325 original size:8 final size:7
Alignment explanation
Indices: 77792312--77792382 Score: 52
Period size: 8 Copynumber: 8.9 Consensus size: 7
77792302 TATCCAAAAA
77792312 AATAAAGT
1 AATAAA-T
77792320 AATAAAT
1 AATAAAT
77792327 AATAAAAT
1 AAT-AAAT
77792335 AAAATAAAGT
1 --AATAAA-T
77792345 AATAAAT
1 AATAAAT
77792352 AATAAAAT
1 AAT-AAAT
77792360 AAAATAAAAT
1 --AAT-AAAT
*
77792370 AAAAAAT
1 AATAAAT
77792377 AATAAA
1 AATAAA
77792383 AGAAAAAGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
7 17 0.31
8 22 0.41
9 3 0.06
10 12 0.22
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:77792326 original size:12 final size:12
Alignment explanation
Indices: 77792311--77792353 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
77792301 ATATCCAAAA
77792311 AAATAAAGTAAT
1 AAATAAAGTAAT
*
77792323 AAATAATA-AAAT
1 AAATAA-AGTAAT
77792335 AAAATAAAGTAAT
1 -AAATAAAGTAAT
77792348 AAATAA
1 AAATAA
77792354 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (12 bp):
AAATAAAGTAAT
Found at i:77792337 original size:5 final size:5
Alignment explanation
Indices: 77792327--77792402 Score: 70
Period size: 5 Copynumber: 15.4 Consensus size: 5
77792317 AGTAATAAAT
* *
77792327 AATAA AATAA AATAA AGTAA TAA-AT AATAA AATAA AATAA AATAA AA-AA
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AATAA
*
77792376 TAATAA AAGAA AA-AGA AA-AA AATAA AA
1 -AATAA AATAA AATA-A AATAA AATAA AA
77792403 ATTGGGTTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
4 8 0.13
5 49 0.82
6 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (5 bp):
AATAA
Done.