Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 24 of 100
Found at i:6924085 original size:2 final size:2
Alignment explanation
Indices: 6924080--6924121 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
6924070 CGTAGGAGAG
*
6924080 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6924121 A
1 A
6924122 AGCCATTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6928585 original size:20 final size:20
Alignment explanation
Indices: 6928562--6928609 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
6928552 TCTTGTTTAG
6928562 TTTGTCCTCTTCT-TTTTGTC
1 TTTGTCCTCTTCTGTTTT-TC
6928582 TTTGCTCC-C-TCTGTTTTTC
1 TTTG-TCCTCTTCTGTTTTTC
6928601 TTT-TCCTCT
1 TTTGTCCTCT
6928610 GAAAACCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 9
0.73 0.00 0.27
Matches are distributed among these distances:
17 3 0.12
18 1 0.04
19 8 0.33
20 9 0.38
21 3 0.12
ACGTcount: A:0.00, C:0.29, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTGTCCTCTTCTGTTTTTC
Found at i:6936902 original size:20 final size:19
Alignment explanation
Indices: 6936865--6936911 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
6936855 GATATTTTAT
6936865 TAATTAAAATAAATAAATA
1 TAATTAAAATAAATAAATA
*
6936884 TATATTAAAATATAA-AAATT
1 TA-ATTAAAATA-AATAAATA
6936904 TAATTAAA
1 TAATTAAA
6936912 CTTACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 15 0.60
21 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATTAAAATAAATAAATA
Found at i:6937049 original size:2 final size:2
Alignment explanation
Indices: 6937042--6937076 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6937032 ATTCACCCAC
*
6937042 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CG CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6937077 GTATAAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.51, G:0.03, T:0.46
Consensus pattern (2 bp):
CT
Found at i:6943184 original size:14 final size:14
Alignment explanation
Indices: 6943165--6943192 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6943155 TAAACAACTA
6943165 ACTACTGAGTAGTG
1 ACTACTGAGTAGTG
6943179 ACTACTGAGTAGTG
1 ACTACTGAGTAGTG
6943193 TGGGCTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
ACTACTGAGTAGTG
Found at i:6945202 original size:2 final size:2
Alignment explanation
Indices: 6945195--6945232 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6945185 TGTAAAACTC
6945195 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6945233 GCCTCTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6949199 original size:19 final size:18
Alignment explanation
Indices: 6949171--6949206 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6949161 ATATACCAAC
6949171 AATTATTATAATATAATT
1 AATTATTATAATATAATT
*
6949189 AATTAATTATAATTTAAT
1 AATT-ATTATAATATAAT
6949207 ATTATGTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATTATAATATAATT
Found at i:6950942 original size:21 final size:22
Alignment explanation
Indices: 6950911--6950959 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
6950901 AGGTTGTAAT
* * *
6950911 AATATAAAATTTTAAAAAT-AA
1 AATAAAAAATTTTTAAAAATAA
*
6950932 ATTAAAAAATTTTTAAAAATAA
1 AATAAAAAATTTTTAAAAATAA
6950954 AATAAA
1 AATAAA
6950960 TATATTTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAAAAATTTTTAAAAATAA
Found at i:6950948 original size:22 final size:21
Alignment explanation
Indices: 6950911--6950959 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
6950901 AGGTTGTAAT
*
6950911 AATATAAAATTTTAAAAATAA
1 AATAAAAAATTTTAAAAATAA
*
6950932 ATTAAAAAATTTTTAAAAATAA
1 AATAAAAAA-TTTTAAAAATAA
6950954 AATAAA
1 AATAAA
6950960 TATATTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAAAAAATTTTAAAAATAA
Found at i:6951806 original size:20 final size:20
Alignment explanation
Indices: 6951781--6951853 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
6951771 AATTATAATT
*
6951781 AATTAAATAATTAATTAACA
1 AATTAAATAATTAAATAACA
* * *
6951801 AATTAAATAATCAACTAATA
1 AATTAAATAATTAAATAACA
6951821 AATTATAACATAATTAAATAATCA
1 AA-T-TAA-ATAATTAAATAA-CA
*
6951845 AACTAAATA
1 AATTAAATA
6951854 TAATAAGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 19 0.45
21 4 0.10
22 6 0.14
23 10 0.24
24 3 0.07
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTAAATAATTAAATAACA
Found at i:6951811 original size:16 final size:16
Alignment explanation
Indices: 6951792--6951842 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
6951782 ATTAAATAAT
6951792 TAATTAACAAATTAAA
1 TAATTAACAAATTAAA
* *
6951808 TAATCAACTAA-TAAA
1 TAATTAACAAATTAAA
*
6951823 TTA-TAACATAATTAAA
1 TAATTAACA-AATTAAA
6951839 TAAT
1 TAAT
6951843 CAAACTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
14 3 0.12
15 8 0.31
16 15 0.58
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATTAACAAATTAAA
Found at i:6965872 original size:19 final size:19
Alignment explanation
Indices: 6965850--6965916 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
6965840 TTGGAAATAT
6965850 TTTTTGTATTTAAAAATTA
1 TTTTTGTATTTAAAAATTA
* * *
6965869 TTTTAATATAACTATTAGAAATAA
1 TTTT--TGT-A-T-TTAAAAATTA
*
6965893 TTTTTGTGTTTAAAAATTA
1 TTTTTGTATTTAAAAATTA
6965912 TTTTT
1 TTTTT
6965917 ATTCAAACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
19 17 0.47
20 1 0.03
21 2 0.06
22 3 0.08
23 1 0.03
24 12 0.33
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (19 bp):
TTTTTGTATTTAAAAATTA
Found at i:6965917 original size:44 final size:44
Alignment explanation
Indices: 6965826--6965915 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
6965816 AGCCCGCCCG
* *
6965826 TTTAATATTAACCTTTGGAAATATTTTTTGTATTTAAAAATTAT
1 TTTAATATTAACCTTTAGAAATAATTTTTGTATTTAAAAATTAT
*
6965870 TTTAATA-TAA-CTATTAGAAATAATTTTTGTGTTTAAAAATTAT
1 TTTAATATTAACCT-TTAGAAATAATTTTTGTATTTAAAAATTAT
6965913 TTT
1 TTT
6965916 TATTCAAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.05
43 33 0.79
44 7 0.17
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (44 bp):
TTTAATATTAACCTTTAGAAATAATTTTTGTATTTAAAAATTAT
Found at i:6965976 original size:20 final size:22
Alignment explanation
Indices: 6965939--6965990 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
6965929 TATTAAATAA
* *
6965939 TAAAAAATTTTGACTTTTCAAT
1 TAAAAAAATTTGACTTTTAAAT
6965961 TAAAAAAATTT-A-TTTTAAATT
1 TAAAAAAATTTGACTTTTAAA-T
6965982 TAAATAAAA
1 TAAA-AAAA
6965991 AGTTTATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
21 6 0.23
22 14 0.54
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAAAAAATTTGACTTTTAAAT
Found at i:6969829 original size:1 final size:1
Alignment explanation
Indices: 6969823--6969847 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6969813 TCTGAAATAC
6969823 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
6969848 CTTAGTGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6969988 original size:16 final size:18
Alignment explanation
Indices: 6969958--6969992 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6969948 AATATACCGT
6969958 AATATAATATAATTTTTA
1 AATATAATATAATTTTTA
*
6969976 AATA-AATATATTTTTTA
1 AATATAATATAATTTTTA
6969993 TTAATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATAATATAATTTTTA
Found at i:6975202 original size:23 final size:24
Alignment explanation
Indices: 6975139--6975203 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
6975129 TTCGATCGAG
* *
6975139 TTTAAATCGAGTTTCGAACTTTTAAT
1 TTTAAATTGA-TTTCGAAC-TTTAAA
*
6975165 TTTAAATTGAATTCGAAC-TTAAA
1 TTTAAATTGATTTCGAACTTTAAA
6975188 TTTAATATT-ATTTCGA
1 TTTAA-ATTGATTTCGA
6975204 TTCGAACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 15 0.44
24 3 0.09
25 7 0.21
26 9 0.26
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (24 bp):
TTTAAATTGATTTCGAACTTTAAA
Found at i:6976163 original size:20 final size:18
Alignment explanation
Indices: 6976127--6976165 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
6976117 AATTTTGAAA
*
6976127 AAATTAAAATTTGATTTG
1 AAATTAAAATTTAATTTG
6976145 AAATTATAATATTTAATTTG
1 AAATTA-AA-ATTTAATTTG
6976165 A
1 A
6976166 TTTGAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (18 bp):
AAATTAAAATTTAATTTG
Found at i:6981947 original size:12 final size:12
Alignment explanation
Indices: 6981901--6981947 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
6981891 GTTTAGGCAG
6981901 AAAAAGTAAAGCA
1 AAAAAGTAAAG-A
* *
6981914 AAAAAATAAATA
1 AAAAAGTAAAGA
6981926 AAGAAA-TAAAGA
1 AA-AAAGTAAAGA
6981938 AAAAAGTAAA
1 AAAAAGTAAA
6981948 AGGAAACAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 3 0.10
12 14 0.48
13 12 0.41
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (12 bp):
AAAAAGTAAAGA
Found at i:6994865 original size:2 final size:2
Alignment explanation
Indices: 6994858--6994890 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6994848 ACAGTTTCAA
6994858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6994891 AGAATTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6997350 original size:18 final size:21
Alignment explanation
Indices: 6997312--6997351 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
6997302 GTAAATGCAA
6997312 TAATGATAATAAAATGAATTG
1 TAATGATAATAAAATGAATTG
6997333 TAATGA-AA-AAAATG-ATTG
1 TAATGATAATAAAATGAATTG
6997351 T
1 T
6997352 TAAAGATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 2 0.11
21 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (21 bp):
TAATGATAATAAAATGAATTG
Found at i:6997394 original size:24 final size:24
Alignment explanation
Indices: 6997362--6997408 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6997352 TAAAGATGTT
*
6997362 AAATATAAAATTAT-ATATAATAAA
1 AAATAT-AAATTATAAAATAATAAA
*
6997386 AAATTTAAATTATAAAATAATAA
1 AAATATAAATTATAAAATAATAA
6997409 TATTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
AAATATAAATTATAAAATAATAAA
Found at i:6999970 original size:3 final size:3
Alignment explanation
Indices: 6999962--7000005 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6999952 GTTTTCTGTC
6999962 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7000006 GTGAATCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7008172 original size:14 final size:14
Alignment explanation
Indices: 7008153--7008180 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7008143 GGTGACAGAG
7008153 TGTTAAAGGCATTT
1 TGTTAAAGGCATTT
7008167 TGTTAAAGGCATTT
1 TGTTAAAGGCATTT
7008181 GGTGATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TGTTAAAGGCATTT
Found at i:7014412 original size:34 final size:33
Alignment explanation
Indices: 7014355--7014458 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 33
7014345 GACTTTCCGA
***
7014355 AAAGTCATGTACCTTTCCAAAAATCCATTTTCGG
1 AAAGTCATGTACCTTTTTGAAAAT-CATTTTCGG
* * *
7014389 AAAGTCATGTACTTTTTTGAAAATGAATTTCTGG
1 AAAGTCATGTACCTTTTTGAAAATCATTTTC-GG
* * *
7014423 AAAATCATATACCTTTTTGAAAATGCATTTTTGG
1 AAAGTCATGTACCTTTTTGAAAAT-CATTTTCGG
7014457 AA
1 AA
7014459 GGTGAGATAA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
33 5 0.09
34 47 0.84
35 4 0.07
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (33 bp):
AAAGTCATGTACCTTTTTGAAAATCATTTTCGG
Found at i:7018878 original size:41 final size:41
Alignment explanation
Indices: 7018821--7018903 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
7018811 ACTAGAAAAA
7018821 GAATATGAAAGGGCTTAACTTGTTGGACATGGGTGAGGCCT
1 GAATATGAAAGGGCTTAACTTGTTGGACATGGGTGAGGCCT
7018862 GAATATGAAAGGGCTTAACTTGTTGGACATGGGTGAGGCCT
1 GAATATGAAAGGGCTTAACTTGTTGGACATGGGTGAGGCCT
7018903 G
1 G
7018904 TTCTCTTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.27
Consensus pattern (41 bp):
GAATATGAAAGGGCTTAACTTGTTGGACATGGGTGAGGCCT
Found at i:7028321 original size:2 final size:2
Alignment explanation
Indices: 7028314--7028343 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7028304 ATATGTTTCA
*
7028314 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7028344 TAAATAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7037815 original size:16 final size:15
Alignment explanation
Indices: 7037796--7037846 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
7037786 TAAGATGTCT
7037796 TTATATTAAAAATGAA
1 TTATATTAAAAAT-AA
* * *
7037812 TTATTTTTATAA-AA
1 TTATATTAAAAATAA
7037826 TTATATTAAAAATAAA
1 TTATATTAAAAAT-AA
7037842 TTATA
1 TTATA
7037847 AAATTTATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 11 0.41
16 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TTATATTAAAAATAA
Found at i:7037970 original size:29 final size:29
Alignment explanation
Indices: 7037926--7037997 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
7037916 TGAATATTTC
7037926 TTAAATTATAATAAAATATTTAATATAATAT
1 TTAAATTAT-A-AAAATATTTAATATAATAT
* * *
7037957 TTAAATTTTAAAAATTTTTAATATGATAT
1 TTAAATTATAAAAATATTTAATATAATAT
7037986 TTAAATTATAAA
1 TTAAATTATAAA
7037998 TTTATTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 28 0.76
30 1 0.03
31 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TTAAATTATAAAAATATTTAATATAATAT
Found at i:7038148 original size:29 final size:27
Alignment explanation
Indices: 7038101--7038156 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
7038091 AAAAATTGAT
7038101 AATTTAAATATTAAATTAAAAATATTTTA
1 AATTTAAATATTAAATT--AAATATTTTA
**
7038130 AATTTAAATATTATGTTAAATATTTTA
1 AATTTAAATATTAAATTAAATATTTTA
7038157 TTATAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.40
29 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
AATTTAAATATTAAATTAAATATTTTA
Found at i:7046493 original size:17 final size:18
Alignment explanation
Indices: 7046462--7046496 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7046452 TTTATTTGAA
7046462 TTTTATATTTGTATTTTT
1 TTTTATATTTGTATTTTT
*
7046480 TTTTAT-TTTTTATTTTT
1 TTTTATATTTGTATTTTT
7046497 AGACTATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTATATTTGTATTTTT
Found at i:7048610 original size:3 final size:3
Alignment explanation
Indices: 7048602--7048628 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7048592 AATTGATTTT
7048602 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
7048629 AATGATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7049535 original size:2 final size:2
Alignment explanation
Indices: 7049530--7049571 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7049520 ATAGTGTGTG
7049530 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7049572 ACGTGAGGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7053592 original size:32 final size:37
Alignment explanation
Indices: 7053554--7053626 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 37
7053544 TTAAATAAAA
7053554 TTTGAATTT-AAT-TTT-A-TTATT-ATCGAATTAAG
1 TTTGAATTTAAATATTTAATTTATTGATCGAATTAAG
7053586 TTTGAATTTAAATAGTTTAATTTATTGATCGAATTAAG
1 TTTGAATTTAAATA-TTTAATTTATTGATCGAATTAAG
7053624 TTT
1 TTT
7053627 AAATATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
32 9 0.26
33 3 0.09
35 3 0.09
36 1 0.03
37 5 0.14
38 14 0.40
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (37 bp):
TTTGAATTTAAATATTTAATTTATTGATCGAATTAAG
Found at i:7053857 original size:19 final size:19
Alignment explanation
Indices: 7053820--7053856 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7053810 AATTTTAATT
7053820 TTTGAATTAAAAAATAAAA
1 TTTGAATTAAAAAATAAAA
*
7053839 TTTG-ATTAAAATATAAAA
1 TTTGAATTAAAAAATAAAA
7053857 AATAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TTTGAATTAAAAAATAAAA
Found at i:7053924 original size:93 final size:95
Alignment explanation
Indices: 7053750--7053941 Score: 302
Period size: 93 Copynumber: 2.0 Consensus size: 95
7053740 TAAATTTTTA
7053750 TAAAATATAAAAAATAAATTTATTTTTATATATTAATTAAGTTTAATTAAATAAAATTTTAATTT
1 TAAAATATAAAAAATAAATTTATTTTTATATATTAATTAAGTTTAATTAAATAAAATTTTAATTT
* * *
7053815 TAATTTTTGAATTAAAAAATAAAATTTGAT
66 TAATTCTTGAACTAAAAAATAAAATTTAAT
*
7053845 TAAAATATAAAAAATAAATTTA-TTTT-TATATTAGTTGAA-TTTAATTAAATAAAAATTTT-AT
1 TAAAATATAAAAAATAAATTTATTTTTATATATTAATT-AAGTTTAATTAAAT-AAAATTTTAAT
7053906 TTTAATTCTTGAACTAAAAAATAAAATTTAAT
64 TTTAATTCTTGAACTAAAAAATAAAATTTAAT
7053938 TAAA
1 TAAA
7053942 TTTGAACCTA
Statistics
Matches: 91, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
93 55 0.60
94 14 0.15
95 22 0.24
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (95 bp):
TAAAATATAAAAAATAAATTTATTTTTATATATTAATTAAGTTTAATTAAATAAAATTTTAATTT
TAATTCTTGAACTAAAAAATAAAATTTAAT
Found at i:7056541 original size:94 final size:94
Alignment explanation
Indices: 7056377--7056563 Score: 284
Period size: 94 Copynumber: 2.0 Consensus size: 94
7056367 TCCAATCTCG
* *
7056377 TGACGCCCTCGTCGAGACGTTCGACGTGTATCGAACGGTTTAGGATTGACTTTGATACCACTTGT
1 TGACGCCCTCGTCGAGACGTTCGACGTGTATCGAACGATTTAAGATTGACTTTGATACCACTTGT
7056442 CACGAGTCGAGATTTAAACTCCGAACCCC
66 CACGAGTCGAGATTTAAACTCCGAACCCC
* * * * *
7056471 TGACGCCCTTGTCGAGGCGTTCGGCGTGTATCGAACGATTTAAGATTGATTTTGATATCACTTGT
1 TGACGCCCTCGTCGAGACGTTCGACGTGTATCGAACGATTTAAGATTGACTTTGATACCACTTGT
* * *
7056536 TACGAGTCGAGATTTAAATTTCGAACCC
66 CACGAGTCGAGATTTAAACTCCGAACCC
7056564 GCGTAACTCC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 83 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (94 bp):
TGACGCCCTCGTCGAGACGTTCGACGTGTATCGAACGATTTAAGATTGACTTTGATACCACTTGT
CACGAGTCGAGATTTAAACTCCGAACCCC
Found at i:7059989 original size:16 final size:16
Alignment explanation
Indices: 7059960--7059992 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7059950 AAAAAAAAAG
7059960 AAAAGAAGAGAAGATA
1 AAAAGAAGAGAAGATA
7059976 AAAATGAAGA-AAGATA
1 AAAA-GAAGAGAAGATA
7059992 A
1 A
7059993 TCTTTTGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGAAGAGAAGATA
Found at i:7066185 original size:18 final size:18
Alignment explanation
Indices: 7066159--7066193 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7066149 AACATAAATT
*
7066159 AATAGAAAGAGAAAAAAA
1 AATAAAAAGAGAAAAAAA
*
7066177 AATAAAAAGGGAAAAAA
1 AATAAAAAGAGAAAAAA
7066194 CCAAACCTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
AATAAAAAGAGAAAAAAA
Found at i:7067423 original size:19 final size:20
Alignment explanation
Indices: 7067390--7067428 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7067380 ATAAATAATA
*
7067390 AAATAAAAAATTTAA-AAAT
1 AAATAAAAAACTTAACAAAT
*
7067409 AAATAAAGAACTTAACAAAT
1 AAATAAAAAACTTAACAAAT
7067429 TTAATAATAT
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:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
AAATAAAAAACTTAACAAAT
Found at i:7070320 original size:14 final size:14
Alignment explanation
Indices: 7070303--7070362 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
7070293 ATTTTCCCCC
*
7070303 TTTTTTTTTATCAA
1 TTTTTTTTTATAAA
7070317 TTTTTAATATTTAATAAA
1 TTTTT--T-TTT-ATAAA
*
7070335 TATTTTTTTATAAA
1 TTTTTTTTTATAAA
7070349 TTTTATTTTT-TAAA
1 TTTT-TTTTTATAAA
7070363 ATGGGATCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 17 0.45
15 8 0.21
16 2 0.05
17 3 0.08
18 8 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTTTTTATAAA
Found at i:7071775 original size:6 final size:6
Alignment explanation
Indices: 7071766--7071824 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
7071756 AAACATCATT
* * * *
7071766 TTTTTA TTTTTA TTTATTA TTATTA TTATTA TTATTA TTATTTA -TTTAA
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA
7071815 TTTTT- TTTTT
1 TTTTTA TTTTT
7071825 TTCCATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
5 8 0.17
6 30 0.65
7 8 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:7071785 original size:3 final size:3
Alignment explanation
Indices: 7071769--7071807 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
7071759 CATCATTTTT
*
7071769 TTA TTT TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7071808 TATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:7071868 original size:7 final size:7
Alignment explanation
Indices: 7071845--7071894 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
7071835 TGCGTTTGTC
7071845 TTCTTCT
1 TTCTTCT
*
7071852 TTTTTC-
1 TTCTTCT
7071858 TTCTTCT
1 TTCTTCT
7071865 TTCTTTCT
1 TTC-TTCT
7071873 TTCTTCT
1 TTCTTCT
* *
7071880 TTTTTCC
1 TTCTTCT
7071887 TTCTTCT
1 TTCTTCT
7071894 T
1 T
7071895 CATCCTTATC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 5 0.14
7 23 0.66
8 7 0.20
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTCTTCT
Found at i:7079767 original size:11 final size:11
Alignment explanation
Indices: 7079739--7079782 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
7079729 ATTTCATAAT
* *
7079739 AAATTTATTTG
1 AAATTTGTTAG
7079750 AAATTTGTTAG
1 AAATTTGTTAG
7079761 AAATTTGTT-G
1 AAATTTGTTAG
*
7079771 AGATTTGTTAG
1 AAATTTGTTAG
7079782 A
1 A
7079783 TATTGTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (11 bp):
AAATTTGTTAG
Found at i:7079792 original size:21 final size:20
Alignment explanation
Indices: 7079746--7079792 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
7079736 AATAAATTTA
7079746 TTTGAAATTTGTTAGAAATT
1 TTTGAAATTTGTTAGAAATT
* *
7079766 TGTTGAGATTTGTTAGATATT
1 T-TTGAAATTTGTTAGAAATT
7079787 GTTTGA
1 -TTTGA
7079793 TAGATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTGAAATTTGTTAGAAATT
Found at i:7080532 original size:15 final size:15
Alignment explanation
Indices: 7080512--7080541 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7080502 ATAACTAAAG
*
7080512 AAAAAATGGATAGAT
1 AAAAAATAGATAGAT
7080527 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
7080542 GAGAGATAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:7087235 original size:3 final size:3
Alignment explanation
Indices: 7087227--7087258 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7087217 ATCATTACAA
7087227 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7087259 ATGTTTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7103629 original size:29 final size:29
Alignment explanation
Indices: 7103556--7103630 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
7103546 AATTATATAC
* *
7103556 ATATTTATGTATTATATTAATAAAAATATT
1 ATATTTATATATAAT-TTAATAAAAATATT
* * *
7103586 AT-TTAATATCGTAATTTAATAAATATATT
1 ATATTTATAT-ATAATTTAATAAAAATATT
7103615 ATATTTATATATAATT
1 ATATTTATATATAATT
7103631 AAAATGAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
29 25 0.69
30 11 0.31
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
ATATTTATATATAATTTAATAAAAATATT
Found at i:7103728 original size:18 final size:18
Alignment explanation
Indices: 7103703--7103746 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7103693 TACTACTTTA
*
7103703 TATAATTTTTCTTTTTTT
1 TATAATTTTTCTCTTTTT
* *
7103721 TTTAATTTTTGTCTTTTT
1 TATAATTTTTCTCTTTTT
7103739 TATAATTT
1 TATAATTT
7103747 AGATCAATTT
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:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (18 bp):
TATAATTTTTCTCTTTTT
Found at i:7103948 original size:12 final size:12
Alignment explanation
Indices: 7103931--7103958 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7103921 CTTAATGAGG
7103931 TTTTTTTATTAT
1 TTTTTTTATTAT
7103943 TTTTTTTATTAT
1 TTTTTTTATTAT
7103955 TTTT
1 TTTT
7103959 ATCTTTTTTA
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:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTTATTAT
Found at i:7103951 original size:9 final size:9
Alignment explanation
Indices: 7103932--7103970 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
7103922 TTAATGAGGT
7103932 TTTTTTATTA
1 TTTTTT-TTA
7103942 TTTTTTTTA
1 TTTTTTTTA
*
7103951 TTATTTTTA
1 TTTTTTTTA
*
7103960 TCTTTTTTA
1 TTTTTTTTA
7103969 TT
1 TT
7103971 AAAGTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 19 0.76
10 6 0.24
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:7104537 original size:33 final size:33
Alignment explanation
Indices: 7104473--7104538 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
7104463 AATTTTTTAC
* *
7104473 TAGATAAATTTTAAAAAATATATCAATTAAGGT
1 TAGATAAATTTCAAAAAATATATCAACTAAGGT
* *
7104506 TAGATAGATTTCATAAAAA-ATATCAGCTAAGGT
1 TAGATAAATTTCA-AAAAATATATCAACTAAGGT
7104539 ATCGACGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (33 bp):
TAGATAAATTTCAAAAAATATATCAACTAAGGT
Found at i:7105596 original size:164 final size:163
Alignment explanation
Indices: 7105290--7105605 Score: 454
Period size: 164 Copynumber: 1.9 Consensus size: 163
7105280 ATTTCTAAAC
*
7105290 ACGTGAGTGATAAATTGAACAATTTACTTAAAAAAAATAAAAGAAAATAATAACGGTACCAGATA
1 ACGTGAGTGATAAATTGAACAATTTACTTAAAAAAAAAAAAAGAAAATAATAACGGTACCAGATA
** * * * * *
7105355 TTAAAGTGCATTCGGATTGAAATTTTTGTCCGTTACGTTTATTTTGGTTTTATTTGACCTTAAGC
66 TTAAAGTGCATTCGGATTGAAAAATTTGTCCATTACGTTTATATTGATTTTACTTGACCTTAAAC
*
7105420 AAGTCCAGCAACGAGCGAAGTGCGCTAAGGGCA
131 AAGTCAAGCAACGAGCGAAGTGCGCTAAGGGCA
* * * *
7105453 ACGTGAGTGATAAATTGAAGAATTTAC-TAAAAAAAAAAAAAGGAAAATAATGAGGGTACCGGAT
1 ACGTGAGTGATAAATTGAACAATTTACTTAAAAAAAAAAAAA-GAAAATAATAACGGTACCAGAT
* * **
7105517 ATTAAAAGTGCATTTGTATTGAAAAATTTGTCCATTACGTTTATATTGATTTTACTTGAGTTTAA
65 ATT-AAAGTGCATTCGGATTGAAAAATTTGTCCATTACGTTTATATTGATTTTACTTGACCTTAA
7105582 ACAAGTCAAGCAACGAGCGAAGTG
129 ACAAGTCAAGCAACGAGCGAAGTG
7105606 TACTAAAGGC
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
162 13 0.10
163 48 0.36
164 73 0.54
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (163 bp):
ACGTGAGTGATAAATTGAACAATTTACTTAAAAAAAAAAAAAGAAAATAATAACGGTACCAGATA
TTAAAGTGCATTCGGATTGAAAAATTTGTCCATTACGTTTATATTGATTTTACTTGACCTTAAAC
AAGTCAAGCAACGAGCGAAGTGCGCTAAGGGCA
Found at i:7120935 original size:67 final size:68
Alignment explanation
Indices: 7120833--7120970 Score: 226
Period size: 67 Copynumber: 2.0 Consensus size: 68
7120823 TGCAAACCAC
*
7120833 CTTAATTATAATTTATAACCGATAACTACACATTTAATTAGCAAATTAAATGCCAATAACAATTA
1 CTTAATTATAATTTATAACCGATAACTACACATTTAAATAGCAAATTAAATGCCAATAACAATTA
7120898 TGA
66 TGA
* *
7120901 CTTAATTATAATTTGT-ACCGATAACTAC-CAATTTAAATAGCGAATTAAATGCCAATAACAATT
1 CTTAATTATAATTTATAACCGATAACTACAC-ATTTAAATAGCAAATTAAATGCCAATAACAATT
7120964 ATGA
65 ATGA
7120968 CTT
1 CTT
7120971 GCTTTCTTCT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
66 1 0.02
67 50 0.76
68 15 0.23
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.34
Consensus pattern (68 bp):
CTTAATTATAATTTATAACCGATAACTACACATTTAAATAGCAAATTAAATGCCAATAACAATTA
TGA
Found at i:7124848 original size:2 final size:2
Alignment explanation
Indices: 7124841--7124866 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7124831 ATGCACATAC
7124841 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7124867 CTGAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7132085 original size:4 final size:4
Alignment explanation
Indices: 7132070--7132108 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
7132060 TATACTTATT
*
7132070 TATG TATT TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
7132109 AAGTGAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (4 bp):
TATG
Found at i:7135607 original size:78 final size:79
Alignment explanation
Indices: 7135475--7135626 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 79
7135465 GAATACCATC
* * * * *
7135475 CAACTTGAAGGCGTTGAGGTATACAAAGTCCCTATTGTCCAGCCTATATTAAATTCCTA-AATTT
1 CAACTTGAAGGCATTGAAGTATACAAAGCCCCTATTATCCAGACTATATTAAATTCC-AGAATTT
7135539 CAACAAGTTGACATT
65 CAACAAGTTGACATT
* *
7135554 CAACTTGAAGGCATTTAAGTATACAAA-CCCCTATTATCCAGACTGTATTAAATTCCAGAATTTC
1 CAACTTGAAGGCATTGAAGTATACAAAGCCCCTATTATCCAGACTATATTAAATTCCAGAATTTC
*
7135618 AGCAAGTTG
66 AACAAGTTG
7135627 TTACATCTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
77 1 0.02
78 39 0.61
79 24 0.38
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (79 bp):
CAACTTGAAGGCATTGAAGTATACAAAGCCCCTATTATCCAGACTATATTAAATTCCAGAATTTC
AACAAGTTGACATT
Found at i:7146902 original size:21 final size:21
Alignment explanation
Indices: 7146855--7146905 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7146845 TTTGTGGGAG
7146855 ATTTTTTTTAGTTTTAATTTT
1 ATTTTTTTTAGTTTTAATTTT
* **
7146876 ACTTTTTTTAGTTTTTTTTTT
1 ATTTTTTTTAGTTTTAATTTT
*
7146897 TTTTTTTTT
1 ATTTTTTTT
7146906 TTTTCTGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (21 bp):
ATTTTTTTTAGTTTTAATTTT
Found at i:7151562 original size:14 final size:15
Alignment explanation
Indices: 7151537--7151565 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7151527 AAATTTTATT
7151537 GTGAACAATCATAAA
1 GTGAACAATCATAAA
7151552 GTGAA-AATCATAAA
1 GTGAACAATCATAAA
7151566 TCGTCATCAA
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:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (15 bp):
GTGAACAATCATAAA
Found at i:7157122 original size:120 final size:121
Alignment explanation
Indices: 7156851--7157164 Score: 438
Period size: 120 Copynumber: 2.6 Consensus size: 121
7156841 ATAAAATAAA
* * * * * *
7156851 AAACCTTACCAATATATTGGAAAGTAATTTGATTTTTAAAACAAGATTTTACTAACATATTAGAG
1 AAACCTTACCAACATATTGAAAAGTAATTTGATTTTTAATATAAGATTTTACCAACATATTAGAA
* ** *
7156916 AATCTTATTAATTTTTTATAAAAAAATAAATTTTAAGTGAAAAATAGTTTTCAATG
66 AACCTTATTAATTTTTTATAAAAAAATAAATTTTAAGAAAAAAATAATTTTCAATG
7156972 AAACCTTACCAACATATTGAAAA-TCAATTTGATTTTTAATATAAGATTTTACCAACATATTAGA
1 AAACCTTACCAACATATTGAAAAGT-AATTTGATTTTTAATATAAGATTTTACCAACATATTAGA
*
7157036 AAACCTTATTAATTTTTTAT-AAAAAATAAATTTTAAGAAAAAAATAATTTTTAAT-
65 AAACCTTATTAATTTTTTATAAAAAAATAAATTTTAAGAAAAAAATAATTTTCAATG
* * *
7157091 ATAACCTTACCAACATATTGAAAAGTAATTTGATTTTTAATATAA-AGTTATACCAATATATTGG
1 A-AACCTTACCAACATATTGAAAAGTAATTTGATTTTTAATATAAGA-TTTTACCAACATATTAG
*
7157155 AAAGCCTTAT
64 AAAACCTTAT
7157165 GATTTTTAAA
Statistics
Matches: 174, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
119 2 0.01
120 96 0.55
121 76 0.44
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (121 bp):
AAACCTTACCAACATATTGAAAAGTAATTTGATTTTTAATATAAGATTTTACCAACATATTAGAA
AACCTTATTAATTTTTTATAAAAAAATAAATTTTAAGAAAAAAATAATTTTCAATG
Found at i:7158418 original size:90 final size:90
Alignment explanation
Indices: 7158300--7158476 Score: 275
Period size: 90 Copynumber: 2.0 Consensus size: 90
7158290 ACAAACAATA
7158300 TTTTTTTATCCAAAAGAGGAATTCATGCATTAATT-AATCCATAGTACGGTACATAACAACCCCA
1 TTTTTTTATCCAAAAGAGGAATTCATGCATTAATTAAAT-CATAGTACGGTACATAACAACCCCA
7158364 CAATTCTCATAAAAAAGAATTGGATT
65 CAATTCTCATAAAAAAGAATTGGATT
* * * * *
7158390 TTTTTTTATCCGAAAGAGGAGTTCATGCATTAATTAAATCATAGTAGGGTACGTAAGAACCCCAC
1 TTTTTTTATCCAAAAGAGGAATTCATGCATTAATTAAATCATAGTACGGTACATAACAACCCCAC
* *
7158455 AATTCTCATCAAGAAGAATTGG
66 AATTCTCATAAAAAAGAATTGG
7158477 GGCAATAAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 76 0.96
91 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (90 bp):
TTTTTTTATCCAAAAGAGGAATTCATGCATTAATTAAATCATAGTACGGTACATAACAACCCCAC
AATTCTCATAAAAAAGAATTGGATT
Found at i:7162338 original size:13 final size:13
Alignment explanation
Indices: 7162320--7162346 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7162310 CTTTAATCTC
7162320 AAAAAATATTATT
1 AAAAAATATTATT
7162333 AAAAAATATTATT
1 AAAAAATATTATT
7162346 A
1 A
7162347 TTTAATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAAATATTATT
Found at i:7162676 original size:11 final size:12
Alignment explanation
Indices: 7162660--7162688 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
7162650 TGAGTACACG
7162660 TTTAATATAT-T
1 TTTAATATATAT
7162671 TTTAATATATAT
1 TTTAATATATAT
7162683 TTTAAT
1 TTTAAT
7162689 TTAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTAATATATAT
Found at i:7162980 original size:9 final size:9
Alignment explanation
Indices: 7162949--7162987 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
7162939 ATAATTGTAC
7162949 AATATATTA
1 AATATATTA
*
7162958 AA-ATTTTAA
1 AATATATT-A
7162967 AATATATTA
1 AATATATTA
7162976 AATATATTA
1 AATATATTA
7162985 AAT
1 AAT
7162988 GGGTATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 4 0.15
9 18 0.69
10 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATATATTA
Found at i:7163178 original size:58 final size:57
Alignment explanation
Indices: 7163069--7163179 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 57
7163059 AATTTATAAT
* * *
7163069 TATATATTATTTTAATCATATTTTTATATATATTCGTGTTACTCATGTTTATTAGTG
1 TATATATTATATTAATCATATTTTTATATATATTCATGTTACTCATATTTATTAGTG
* * * *
7163126 TATAT-TTATATTAATCATATATATTTGTATATATTTATGTTATTTATATTTATT
1 TATATATTATATTAATCATAT-T-TTTATATATATTCATGTTACTCATATTTATT
7163180 TTTATTGTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
56 14 0.31
57 6 0.13
58 25 0.56
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.59
Consensus pattern (57 bp):
TATATATTATATTAATCATATTTTTATATATATTCATGTTACTCATATTTATTAGTG
Found at i:7171788 original size:38 final size:36
Alignment explanation
Indices: 7171709--7171789 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 36
7171699 TCATCAAGAA
7171709 ATATAAAT-AATATAATATTAATCTCTTATTTATAT
1 ATATAAATAAATATAATATTAATCTCTTATTTATAT
*
7171744 AT-TAAATAAATATAATATATATAT-TCATTATTTATTT
1 ATATAAATAAATATAATAT-TA-ATCTC-TTATTTATAT
*
7171781 TTATAAATA
1 ATATAAATA
7171790 TAAAATATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
34 5 0.13
35 12 0.31
36 4 0.10
37 12 0.31
38 6 0.15
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (36 bp):
ATATAAATAAATATAATATTAATCTCTTATTTATAT
Found at i:7171858 original size:79 final size:78
Alignment explanation
Indices: 7171707--7171858 Score: 166
Period size: 79 Copynumber: 1.9 Consensus size: 78
7171697 ATTCATCAAG
* *
7171707 AAATATAAATAATATAATATTAATCTCTTATTTATATATTAAATAAATATAATATATATATTCAT
1 AAATATAAATAATATAATATTAATCTCTTATTTATATATTAAATAAATATAATAAAAATATTCAT
*
7171772 TATTTATTTTTAT
66 TACTTATTTTTAT
* * * * * *
7171785 AAATATAAAATATTTTAATATTTATTTCTTATTTGT-T-TTAAATAATTATATATACAAAATAAT
1 AAATAT-AAATAATATAATATTAATCTCTTATTTATATATTAAATAAATATA-ATA-AAAAT-AT
7171848 TCA-TACTTATT
62 TCATTACTTATT
7171859 AAATAAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
77 12 0.20
78 10 0.16
79 34 0.56
80 5 0.08
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.50
Consensus pattern (78 bp):
AAATATAAATAATATAATATTAATCTCTTATTTATATATTAAATAAATATAATAAAAATATTCAT
TACTTATTTTTAT
Found at i:7172136 original size:11 final size:11
Alignment explanation
Indices: 7172120--7172144 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7172110 ATTCTCTATT
7172120 TTTTATTTATA
1 TTTTATTTATA
7172131 TTTTATTTATA
1 TTTTATTTATA
7172142 TTT
1 TTT
7172145 CAATCTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTATA
Found at i:7173225 original size:32 final size:31
Alignment explanation
Indices: 7173164--7173227 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
7173154 GACACATAAA
7173164 ATATTTATTAATTTTAAATTATTTATAAAAAT
1 ATATTTATTAATTTTAAATTA-TTATAAAAAT
* *
7173196 ATATTTTTTAAATTATTAAATTA-TCTAAAAAT
1 ATATTTATT-AATT-TTAAATTATTATAAAAAT
7173228 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 16 0.57
33 4 0.14
34 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
ATATTTATTAATTTTAAATTATTATAAAAAT
Found at i:7173252 original size:22 final size:23
Alignment explanation
Indices: 7173225--7173273 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
7173215 ATTATCTAAA
7173225 AATTTAAAATT-TAATAAAAATC
1 AATTTAAAATTATAATAAAAATC
*
7173247 AATTT-AAATTATAATAAAATTC
1 AATTTAAAATTATAATAAAAATC
7173269 -ATTTA
1 AATTTA
7173274 TCTTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTTAAAATTATAATAAAAATC
Found at i:7175217 original size:33 final size:33
Alignment explanation
Indices: 7175178--7175247 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
7175168 AAAATTATTG
*
7175178 AATAAATAAATTAGTTTTATATCATTTATAAAT
1 AATAAATAAATTAATTTTATATCATTTATAAAT
*
7175211 AATAAATAAATTAATTTTATATCATTTATAGAT
1 AATAAATAAATTAATTTTATATCATTTATAAAT
7175244 AATA
1 AATA
7175248 TATATGTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (33 bp):
AATAAATAAATTAATTTTATATCATTTATAAAT
Found at i:7178657 original size:12 final size:12
Alignment explanation
Indices: 7178640--7178664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7178630 ATTATATAAA
7178640 AATTAATTATTT
1 AATTAATTATTT
7178652 AATTAATTATTT
1 AATTAATTATTT
7178664 A
1 A
7178665 TATATTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTAATTATTT
Found at i:7178697 original size:22 final size:21
Alignment explanation
Indices: 7178664--7178716 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 21
7178654 TTAATTATTT
7178664 ATATATTTATATTTTAAAAAATA
1 ATAT-TTTATA-TTTAAAAAATA
7178687 ATATTTTATATTTAAAAAATA
1 ATATTTTATATTTAAAAAATA
7178708 ATATTTTAT
1 ATATTTTAT
7178717 TAATTTCGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.67
22 6 0.20
23 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTATATTTAAAAAATA
Found at i:7183483 original size:12 final size:13
Alignment explanation
Indices: 7183454--7183482 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7183444 AGAATATGAG
7183454 AAAAA-GAAAAAT
1 AAAAAGGAAAAAT
7183466 AAAAAGGAAAAAT
1 AAAAAGGAAAAAT
7183479 AAAA
1 AAAA
7183483 GAGACGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAAGGAAAAAT
Found at i:7185286 original size:15 final size:16
Alignment explanation
Indices: 7185266--7185302 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7185256 TTCTTTTTCC
7185266 CAAAAA-GAAAACCCG
1 CAAAAAGGAAAACCCG
7185281 CAAAAAGGAAAACCCG
1 CAAAAAGGAAAACCCG
7185297 CAAAAA
1 CAAAAA
7185303 CAAAGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.62, C:0.24, G:0.14, T:0.00
Consensus pattern (16 bp):
CAAAAAGGAAAACCCG
Found at i:7189537 original size:42 final size:41
Alignment explanation
Indices: 7189420--7189554 Score: 128
Period size: 43 Copynumber: 3.2 Consensus size: 41
7189410 TTCATACAAT
* ** * * * *
7189420 TTTGATAACTTTTGATAGTAATTTGGTAATTTATGACATAAT
1 TTTGATAACTTTTCATA-TAATTTAATAACTTATAATATAAC
* * *
7189462 TCTTGATAATTTTTTATAAAATTTTAATAACTTATTAATATAAC
1 T-TTGATAACTTTTCATATAA-TTTAATAACTTA-TAATATAAC
7189506 TTTGATAACTTTTCATATAATTTAATAACTTATAATAT-AC
1 TTTGATAACTTTTCATATAATTTAATAACTTATAATATAAC
7189546 TTTTGATAA
1 -TTTGATAA
7189555 TTATTAATAC
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.03
41 14 0.18
42 15 0.19
43 39 0.51
44 7 0.09
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (41 bp):
TTTGATAACTTTTCATATAATTTAATAACTTATAATATAAC
Found at i:7189562 original size:21 final size:22
Alignment explanation
Indices: 7189483--7189563 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 22
7189473 TTTTATAAAA
*
7189483 TTTTAATAACTTATTAATATAAC
1 TTTTGATAACTTATTAATAT-AC
*
7189506 -TTTGATAACTT-TTCATATA-
1 TTTTGATAACTTATTAATATAC
* *
7189525 ATTTAATAACTTA-TAATATAC
1 TTTTGATAACTTATTAATATAC
7189546 TTTTGATAA-TTATTAATA
1 TTTTGATAACTTATTAATA
7189564 CAATTTTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 20 0.42
21 18 0.38
22 10 0.21
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTGATAACTTATTAATATAC
Found at i:7189569 original size:41 final size:41
Alignment explanation
Indices: 7189464--7189569 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 41
7189454 GACATAATTC
*
7189464 TTGATAATTTTTTATAAAATTTTAATAACTTATTAATATAACT
1 TTGATAA-TTTTAATAAAA-TTTAATAACTTATTAATATAACT
* *
7189507 TTGATAACTTTTCATATAATTTAATAACTTA-TAATAT-ACTT
1 TTGATAA-TTTTAATAAAATTTAATAACTTATTAATATAAC-T
*
7189548 TTGATAATTATTAATACAATTT
1 TTGATAATT-TTAATAAAATTT
7189570 TTTGTACCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 4 0.07
41 24 0.43
42 12 0.21
43 16 0.29
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.50
Consensus pattern (41 bp):
TTGATAATTTTAATAAAATTTAATAACTTATTAATATAACT
Found at i:7189570 original size:21 final size:22
Alignment explanation
Indices: 7189417--7189570 Score: 108
Period size: 21 Copynumber: 7.3 Consensus size: 22
7189407 CTTTTCATAC
*
7189417 AATTTTGATAACTT-TTGATAGT
1 AATTTTGATAACTTATTAATA-T
* * * *
7189439 AA-TTTGGTAATTTA-TGACAT
1 AATTTTGATAACTTATTAATAT
* * *
7189459 AATTCTTGATAA-TTTTTTATAA
1 AATT-TTGATAACTTATTAATAT
*
7189481 AATTTTAATAACTTATTAATAT
1 AATTTTGATAACTTATTAATAT
* *
7189503 AACTTTGATAACTT-TTCATAT
1 AATTTTGATAACTTATTAATAT
*
7189524 AA-TTTAATAACTTA-TAATAT
1 AATTTTGATAACTTATTAATAT
* *
7189544 ACTTTTGATAA-TTATTAATAC
1 AATTTTGATAACTTATTAATAT
7189565 AATTTT
1 AATTTT
7189571 TTGTACCCTT
Statistics
Matches: 103, Mismatches: 21, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
20 22 0.21
21 47 0.46
22 34 0.33
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (22 bp):
AATTTTGATAACTTATTAATAT
Found at i:7189611 original size:20 final size:19
Alignment explanation
Indices: 7189588--7189634 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7189578 CTTTGATAGT
* *
7189588 ATTTTAGTAATTTGGATACA
1 ATTTTAATAACTT-GATACA
*
7189608 ATTTTAATAACTTGATATA
1 ATTTTAATAACTTGATACA
7189627 ATTTTAAT
1 ATTTTAAT
7189635 TAAAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (19 bp):
ATTTTAATAACTTGATACA
Found at i:7189629 original size:19 final size:19
Alignment explanation
Indices: 7189588--7189655 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 19
7189578 CTTTGATAGT
* * *
7189588 ATTTTAGTAATTTGGATACA
1 ATTTTAATAAATT-GATATA
*
7189608 ATTTTAATAACTTGATATA
1 ATTTTAATAAATTGATATA
*
7189627 ATTTTAATTAAAATTAATATA
1 ATTTTAA-T-AAATTGATATA
7189648 ATTTTAAT
1 ATTTTAAT
7189656 TTTGATAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 12 0.29
20 13 0.32
21 16 0.39
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (19 bp):
ATTTTAATAAATTGATATA
Found at i:7204536 original size:10 final size:10
Alignment explanation
Indices: 7204520--7204553 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
7204510 TTTTTTTTTT
7204520 TGGGGGGGGG
1 TGGGGGGGGG
7204530 -GGGGGGGGG
1 TGGGGGGGGG
*
7204539 TGGGGTGGGG
1 TGGGGGGGGG
7204549 TGGGG
1 TGGGG
7204554 AGAGCAACGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.00, C:0.00, G:0.88, T:0.12
Consensus pattern (10 bp):
TGGGGGGGGG
Found at i:7206219 original size:3 final size:3
Alignment explanation
Indices: 7206211--7206240 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7206201 GCTACAATAG
*
7206211 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7206241 TCACTCAATG
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:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7207023 original size:24 final size:24
Alignment explanation
Indices: 7206987--7207032 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7206977 TAACCATATG
7206987 TAGCATATATAGCATATGTTTGTT
1 TAGCATATATAGCATATGTTTGTT
*
7207011 TAGCATATGTAGCATATGTTTG
1 TAGCATATATAGCATATGTTTG
7207033 CAATTTATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (24 bp):
TAGCATATATAGCATATGTTTGTT
Found at i:7209665 original size:8 final size:8
Alignment explanation
Indices: 7209652--7209686 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
7209642 TATCATTGAA
7209652 ATAAATAT
1 ATAAATAT
*
7209660 ATAAATAA
1 ATAAATAT
7209668 ATAAATAT
1 ATAAATAT
*
7209676 ATATATAT
1 ATAAATAT
7209684 ATA
1 ATA
7209687 GAAGTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAAATAT
Found at i:7210460 original size:22 final size:23
Alignment explanation
Indices: 7210432--7210475 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
7210422 ATTTTATATC
*
7210432 ATTTTTTATTATTTAC-ATTTAT
1 ATTTTTTATGATTTACGATTTAT
*
7210454 ATTTTTTGTGATTTACGATTTA
1 ATTTTTTATGATTTACGATTTA
7210476 CCTATAGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (23 bp):
ATTTTTTATGATTTACGATTTAT
Found at i:7211069 original size:13 final size:13
Alignment explanation
Indices: 7211047--7211089 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
7211037 TTTAAGTTTA
7211047 AATTAATTTTAAT
1 AATTAATTTTAAT
* *
7211060 AATTATTTTTAGT
1 AATTAATTTTAAT
* *
7211073 AATTAACTTTCAT
1 AATTAATTTTAAT
7211086 AATT
1 AATT
7211090 CGTCCAATGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (13 bp):
AATTAATTTTAAT
Found at i:7211687 original size:15 final size:16
Alignment explanation
Indices: 7211662--7211706 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
7211652 AGAAGAAATA
*
7211662 TAAATTATAAAAACCT
1 TAAATTATAAAAAACT
7211678 TAAA-TATAAAAAACT
1 TAAATTATAAAAAACT
*
7211693 TAATATTTTAAAAA
1 TAA-ATTATAAAAA
7211707 GATGGAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.52
16 5 0.20
17 7 0.28
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATTATAAAAAACT
Found at i:7217216 original size:134 final size:136
Alignment explanation
Indices: 7216969--7217225 Score: 349
Period size: 134 Copynumber: 1.9 Consensus size: 136
7216959 AAGAGAAGCA
* * *
7216969 AAGAGGGGAACTTTCTTTCTGGGTCTTCAGCTTTCTCCCAAAATCCATAGGTTTTTTTTTTTCTT
1 AAGAGGGGAACTTTCTTTCCGGGTCTTAAGCTTTCTCCCAAAATCCACA-----TTTTTTTTCTT
* * *
7217034 TTAACTTATCCAAGAAAGTTTACAATTTTCCATGGAATTTGAGTACCCAATTTAGAGGAAGTAAA
61 TTAACTTACCCAAGAAAGTTTACAAATTTCCATCGAATTTGAGTACCCAATTTAGAGGAAGTAAA
7217099 AGGAATAAGAG
126 AGGAATAAGAG
* * *
7217110 AAGAGGGGAATTTTCTTTCCGGGTCTTAAGCTTTCTGCCAAAATCCCCA-TTTTTTT-TTTTAAC
1 AAGAGGGGAACTTTCTTTCCGGGTCTTAAGCTTTCTCCCAAAATCCACATTTTTTTTCTTTTAAC
*
7217173 TTACCCAAGAAAAG-TTACAAATTTCCATCTAATTTGAGTACCCAATTTAGAGG
66 TTACCCAAG-AAAGTTTACAAATTTCCATCGAATTTGAGTACCCAATTTAGAGG
7217226 GAAAAAATAG
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
134 51 0.49
135 11 0.10
141 43 0.41
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (136 bp):
AAGAGGGGAACTTTCTTTCCGGGTCTTAAGCTTTCTCCCAAAATCCACATTTTTTTTCTTTTAAC
TTACCCAAGAAAGTTTACAAATTTCCATCGAATTTGAGTACCCAATTTAGAGGAAGTAAAAGGAA
TAAGAG
Found at i:7250988 original size:121 final size:121
Alignment explanation
Indices: 7250739--7250978 Score: 284
Period size: 121 Copynumber: 2.0 Consensus size: 121
7250729 ACATTTAAAT
* * * * * *
7250739 TTACTTGATGTCACCGAATGCATGAACAAATTAATTCAAAATTTGCATTTTATTTTATTTAATAT
1 TTACTTAATGTCACCGAATGCATAAACAAACTAAATCAAAATTTGAATTTTATCTTATTTAATAT
* * *
7250804 TTAAAAGACTCTGGATACAAAAACATTCTAGAGAATGCTTAAATAAAAACCTATCC
66 TTAAAAGACTCTGGACACAAAAACATTATAGAGAATGATTAAATAAAAACCTATCC
* * * * *
7250860 TTACTTAATGTCACCGAATGTATAAATAAACTAAATC-AAATTTCGAATTTTATCTTGTTTGATC
1 TTACTTAATGTCACCGAATGCATAAACAAACTAAATCAAAATTT-GAATTTTATCTTATTTAATA
* * ** * *
7250924 TTTAGAGGACTCTGGACGTAAAAACATTATAGCGAATTATTAAATAAAAACCTAT
65 TTTAAAAGACTCTGGACACAAAAACATTATAGAGAATGATTAAATAAAAACCTAT
7250979 ACCTGCTTAA
Statistics
Matches: 98, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
120 6 0.06
121 92 0.94
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (121 bp):
TTACTTAATGTCACCGAATGCATAAACAAACTAAATCAAAATTTGAATTTTATCTTATTTAATAT
TTAAAAGACTCTGGACACAAAAACATTATAGAGAATGATTAAATAAAAACCTATCC
Found at i:7257852 original size:132 final size:132
Alignment explanation
Indices: 7257685--7257944 Score: 412
Period size: 132 Copynumber: 2.0 Consensus size: 132
7257675 TTTCAATCCT
* * *
7257685 ATCAACATTTTCTCTCTGTATTTTGCCTGAACTTAGTAACTAGAAATACATCTTTCTTATTTACT
1 ATCAACATTTTCTCTCTATATTTTACCTCAACTTAGTAACTAGAAATACATCTTTCTTATTTACT
* * * * * *
7257750 TGATGGATAATAAATTCTGTTTCATTGTCGCGGTAATGTATGCAGTTCCTGTAAAGAAGAAGGTC
66 TAACGGATAATAAATTCTGTTTCATTGGCCCGGTAATATATGCAGTTCCTGGAAAGAAGAAGGTC
7257815 CC
131 CC
7257817 ATCAACATTTTCTCTCTATATTTTACCTCAACTTAGTAACTAGAAATACATCTTTCTTATTTACT
1 ATCAACATTTTCTCTCTATATTTTACCTCAACTTAGTAACTAGAAATACATCTTTCTTATTTACT
* * *
7257882 TAACGGATGATAAATTCTGTTTCATTGGCCCGGTAATATCTGCAGTTCCTGGAGAGAAGAAGG
66 TAACGGATAATAAATTCTGTTTCATTGGCCCGGTAATATATGCAGTTCCTGGAAAGAAGAAGG
7257945 GAGAGGGAAG
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 116 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (132 bp):
ATCAACATTTTCTCTCTATATTTTACCTCAACTTAGTAACTAGAAATACATCTTTCTTATTTACT
TAACGGATAATAAATTCTGTTTCATTGGCCCGGTAATATATGCAGTTCCTGGAAAGAAGAAGGTC
CC
Found at i:7264371 original size:21 final size:22
Alignment explanation
Indices: 7264346--7264386 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7264336 GTAAATACAT
*
7264346 CAAGGCATCAA-ACCTAAATTC
1 CAAGGCATAAACACCTAAATTC
*
7264367 CAAGGTATAAACACCTAAAT
1 CAAGGCATAAACACCTAAAT
7264387 ATGGTACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (22 bp):
CAAGGCATAAACACCTAAATTC
Found at i:7266377 original size:15 final size:15
Alignment explanation
Indices: 7266357--7266395 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
7266347 GAAACCCATC
**
7266357 TAATATTTTAATTTT
1 TAATATTTTAACATT
7266372 TAATATTTTAACATT
1 TAATATTTTAACATT
7266387 TAATATTTT
1 TAATATTTT
7266396 TATAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATATTTTAACATT
Found at i:7266380 original size:8 final size:8
Alignment explanation
Indices: 7266357--7266395 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
7266347 GAAACCCATC
7266357 TAATATTT
1 TAATATTT
7266365 TAAT-TTT
1 TAATATTT
7266372 TAATATTT
1 TAATATTT
*
7266380 TAACA-TT
1 TAATATTT
7266387 TAATATTT
1 TAATATTT
7266395 T
1 T
7266396 TATAATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (8 bp):
TAATATTT
Found at i:7266702 original size:24 final size:24
Alignment explanation
Indices: 7266657--7266727 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
7266647 CAAATAACAA
7266657 TTTTAATATTAATATTACTTTAAT
1 TTTTAATATTAATATTACTTTAAT
7266681 TTTTAATAGTTAATATTA-TTT-A-
1 TTTTAATA-TTAATATTACTTTAAT
* ** *
7266703 GTACAATATTAATATTATTTTAAT
1 TTTTAATATTAATATTACTTTAAT
7266727 T
1 T
7266728 ACATGAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 9 0.23
22 8 0.21
23 2 0.05
24 11 0.28
25 9 0.23
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (24 bp):
TTTTAATATTAATATTACTTTAAT
Found at i:7266900 original size:17 final size:18
Alignment explanation
Indices: 7266874--7266917 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
7266864 TAATATATAA
*
7266874 TATAATTATTTT-AATAG
1 TATAAATATTTTGAATAG
*
7266891 TATAAATATTTTGAATAT
1 TATAAATATTTTGAATAG
7266909 TAT-AATATT
1 TATAAATATT
7266918 AAATATTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (18 bp):
TATAAATATTTTGAATAG
Found at i:7266970 original size:20 final size:20
Alignment explanation
Indices: 7266947--7266985 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7266937 TTATTATACA
7266947 AATAAAAATAATATTTTAAT
1 AATAAAAATAATATTTTAAT
** *
7266967 AATAGTAATACTATTTTAA
1 AATAAAAATAATATTTTAA
7266986 ATATTTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
AATAAAAATAATATTTTAAT
Found at i:7275033 original size:20 final size:21
Alignment explanation
Indices: 7274996--7275034 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7274986 ACTAATAAAA
* *
7274996 AATAAAAATTTATTTAATTAC
1 AATAAAAATATATATAATTAC
7275017 AATAAAAATATA-ATAATT
1 AATAAAAATATATATAATT
7275035 TATTTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAAAAATATATATAATTAC
Found at i:7275048 original size:28 final size:28
Alignment explanation
Indices: 7274989--7275051 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
7274979 ACTAAATACT
* *
7274989 AATAAAAAATAAAAATTTATTTAATTAC
1 AATAAAAAATAAAAATTTATTTAATAAA
*
7275017 AATAAAAATATAATAATTTATTTAA-AAA
1 AATAAAAA-ATAAAAATTTATTTAATAAA
7275045 AATAAAA
1 AATAAAA
7275052 TAATTCAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AATAAAAAATAAAAATTTATTTAATAAA
Found at i:7275285 original size:14 final size:14
Alignment explanation
Indices: 7275260--7275301 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
7275250 TTTTGTTCCA
7275260 TATTAT-TTATAAT
1 TATTATATTATAAT
7275273 TATTATATTATAAT
1 TATTATATTATAAT
7275287 TAATTA-ATTATAAT
1 T-ATTATATTATAAT
7275301 T
1 T
7275302 TAAAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.22
14 17 0.63
15 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATATTATAAT
Found at i:7275394 original size:22 final size:21
Alignment explanation
Indices: 7275369--7275417 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
7275359 TAACTATTGC
7275369 TATAATTAAAT-AATTATATAA
1 TATAATTAAATAAATTATA-AA
*
7275390 TTATAA-AAAATAAATTATAAA
1 -TATAATTAAATAAATTATAAA
7275411 TATAATT
1 TATAATT
7275418 CTCCCGCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 12 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAATTAAATAAATTATAAA
Found at i:7277562 original size:19 final size:19
Alignment explanation
Indices: 7277526--7277564 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7277516 CAAAACTGGG
*
7277526 TTTTATCCAAATAAATATA
1 TTTTAGCCAAATAAATATA
* *
7277545 TTTTAGCCATATATATATA
1 TTTTAGCCAAATAAATATA
7277564 T
1 T
7277565 ACACACACTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TTTTAGCCAAATAAATATA
Found at i:7279517 original size:25 final size:25
Alignment explanation
Indices: 7279496--7279545 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7279486 TTTATATTTT
*
7279496 ATATTAATATAAATTATAATATATA
1 ATATTAATATAAAATATAATATATA
* *
7279521 ATTTTTATATAAAATATAATATATA
1 ATATTAATATAAAATATAATATATA
7279546 TAATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATTAATATAAAATATAATATATA
Found at i:7280805 original size:27 final size:27
Alignment explanation
Indices: 7280762--7280816 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
7280752 TATTTAAAAA
7280762 ATTTTTATTACGTTATC-AAAGGATAAT
1 ATTTTTATTACGTTATCGAAA-GATAAT
*
7280789 ATTTTTATTTC-TCTATCGAAAGATAAT
1 ATTTTTATTACGT-TATCGAAAGATAAT
7280816 A
1 A
7280817 GGATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 1 0.04
27 21 0.84
28 3 0.12
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (27 bp):
ATTTTTATTACGTTATCGAAAGATAAT
Found at i:7281303 original size:2 final size:2
Alignment explanation
Indices: 7281296--7281323 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7281286 GACAAGAGGT
7281296 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7281324 GTTATCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7286341 original size:2 final size:2
Alignment explanation
Indices: 7286323--7286356 Score: 50
Period size: 2 Copynumber: 16.0 Consensus size: 2
7286313 TGTTAGTTAA
7286323 TC TC TAC TC TC TAC TC TC TC TC TC TC TC TC TC TC
1 TC TC T-C TC TC T-C TC TC TC TC TC TC TC TC TC TC
7286357 CTCAGTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 26 0.87
3 4 0.13
ACGTcount: A:0.06, C:0.47, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:7287467 original size:178 final size:177
Alignment explanation
Indices: 7287169--7287527 Score: 655
Period size: 178 Copynumber: 2.0 Consensus size: 177
7287159 GTTGAGTCCA
7287169 ATAAAGGTGAGGAACAAAAAGAAGAAGAATTCATGAGAAGTGGATCCAAGGCAATGAGAAATAAA
1 ATAAAGGTGAGGAACAAAAAGAAGAAGAATTCATGAGAAGTGGATCCAAGGCAATGAGAAATAAA
* *
7287234 ATAAGTGATCCTAAAATGAGTGTTGATAATGGCGGGGAGCAGCATGCTGCCAAAGCAATGGTGAA
66 ATAAGTGATCCTAAAATGAGTGCTGATAATGGCAGGGAGCAGCATGCTGCCAAAGCAATGGTGAA
7287299 TTCCCAAAGAGTGATCAGAGCTAATTGGAGTACGGAAAACGATGGAG
131 TTCCCAAAGAGTGATCAGAGCTAATTGGAGTACGGAAAACGATGGAG
* * *
7287346 ATAAAGGTGAGGAACAAAAAGAAGAAGAATTCATGGGAAGTGGAATCCAAGGCAATGGGGAATAA
1 ATAAAGGTGAGGAACAAAAAGAAGAAGAATTCATGAGAAGTGG-ATCCAAGGCAATGAGAAATAA
*
7287411 AATAAGTGATCCTAAAGTGAGTGCTGATAATGGCAGGGAGCAGCATGCTGCCAAAGCAATGGTGA
65 AATAAGTGATCCTAAAATGAGTGCTGATAATGGCAGGGAGCAGCATGCTGCCAAAGCAATGGTGA
7287476 ATTCCCAAAGAGTGATCAGAGCTAATTGGAGTACGGAAAACGATGGAG
130 ATTCCCAAAGAGTGATCAGAGCTAATTGGAGTACGGAAAACGATGGAG
7287524 ATAA
1 ATAA
7287528 TTACAATTCC
Statistics
Matches: 175, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
177 42 0.24
178 133 0.76
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (177 bp):
ATAAAGGTGAGGAACAAAAAGAAGAAGAATTCATGAGAAGTGGATCCAAGGCAATGAGAAATAAA
ATAAGTGATCCTAAAATGAGTGCTGATAATGGCAGGGAGCAGCATGCTGCCAAAGCAATGGTGAA
TTCCCAAAGAGTGATCAGAGCTAATTGGAGTACGGAAAACGATGGAG
Found at i:7290015 original size:26 final size:27
Alignment explanation
Indices: 7289986--7290038 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7289976 TTATTTTTTT
* *
7289986 AATATAAAATA-ATTTAATTTTTAAAA
1 AATAAAAAATATATTTAATTTATAAAA
*
7290012 AATAAAAAATATTTTTAATTTATAAAA
1 AATAAAAAATATATTTAATTTATAAAA
7290039 TTGAACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AATAAAAAATATATTTAATTTATAAAA
Found at i:7290183 original size:19 final size:18
Alignment explanation
Indices: 7290159--7290217 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
7290149 AATAAAATAT
*
7290159 TATTTATTTATTTTGATTA
1 TATTTATTTATTAT-ATTA
7290178 TATTTATTATATTATATTA
1 TATTTATT-TATTATATTA
*
7290197 T-TTTATCTTATCATAATTA
1 TATTTAT-TTATTAT-ATTA
7290216 TA
1 TA
7290218 CACTTAACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 10 0.29
19 19 0.56
20 5 0.15
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTTATTTATTATATTA
Found at i:7297710 original size:16 final size:16
Alignment explanation
Indices: 7297689--7297721 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7297679 ACTCTACCAA
7297689 TTCAAAATCCAATAAG
1 TTCAAAATCCAATAAG
*
7297705 TTCAAAATCCTATAAG
1 TTCAAAATCCAATAAG
7297721 T
1 T
7297722 CATACATTTT
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:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (16 bp):
TTCAAAATCCAATAAG
Found at i:7299221 original size:42 final size:42
Alignment explanation
Indices: 7299169--7299248 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
7299159 GGTTTGGCTT
* *
7299169 TTATAGTCCCTGAAAAGAAAATTTCCTTTGTTATTCTTGTTC
1 TTATAGTCCCTGAAAAGAAAAATCCCTTTGTTATTCTTGTTC
*
7299211 TTATATTCCCTGAAAAGAAAAATCCCTTTGTTATTCTT
1 TTATAGTCCCTGAAAAGAAAAATCCCTTTGTTATTCTT
7299249 AGTCACTCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (42 bp):
TTATAGTCCCTGAAAAGAAAAATCCCTTTGTTATTCTTGTTC
Found at i:7304434 original size:18 final size:19
Alignment explanation
Indices: 7304392--7304436 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
7304382 ATGAAAAATG
*
7304392 ATATTATTT-TTTTAAATTA
1 ATATT-TTTCTTTTAAATAA
7304411 AT-TTTTTCTTTTAAA-AA
1 ATATTTTTCTTTTAAATAA
7304428 ATATTTTTC
1 ATATTTTTC
7304437 AAGAAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 6 0.26
18 15 0.65
19 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATTTTTCTTTTAAATAA
Found at i:7304651 original size:25 final size:25
Alignment explanation
Indices: 7304614--7304664 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
7304604 ATTATTGATA
*
7304614 TTAAAACTCTTTTAATA-TTTTCATT
1 TTAAAACTATTTTAATAGTTTT-ATT
* *
7304639 TTAAAAGTATTTTTATAGTTTTATT
1 TTAAAACTATTTTAATAGTTTTATT
7304664 T
1 T
7304665 AAATAAGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (25 bp):
TTAAAACTATTTTAATAGTTTTATT
Found at i:7304965 original size:30 final size:30
Alignment explanation
Indices: 7304876--7304966 Score: 73
Period size: 30 Copynumber: 3.0 Consensus size: 30
7304866 TTTAAATATA
* * *
7304876 AATATAATTATTTTAATAGAATAAATAATTTT
1 AATATTATTATATTAATA-AA-AAATATTTTT
7304908 AATA-T-TTA-A-TAATAAAATATTACTATTTTT
1 AATATTATTATATTAATAAAA-A--A-TATTTTT
7304938 AATATTATTATATTAATAAAAAATATTTT
1 AATATTATTATATTAATAAAAAATATTTT
7304967 AAGAATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 5 0.10
29 1 0.02
30 19 0.40
31 2 0.04
32 7 0.15
33 2 0.04
34 8 0.17
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
AATATTATTATATTAATAAAAAATATTTTT
Found at i:7305133 original size:10 final size:9
Alignment explanation
Indices: 7305084--7305137 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
7305074 TTACTAAAAT
7305084 ATAATTTT-
1 ATAATTTTA
* *
7305092 TTAATATTA
1 ATAATTTTA
7305101 ATAATTTTA
1 ATAATTTTA
*
7305110 ATAA--TAA
1 ATAATTTTA
7305117 ATAATTTTA
1 ATAATTTTA
7305126 ATATATTTTA
1 ATA-ATTTTA
7305136 AT
1 AT
7305138 TATAAATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
7 6 0.17
8 6 0.17
9 16 0.44
10 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATAATTTTA
Found at i:7305150 original size:16 final size:15
Alignment explanation
Indices: 7305046--7305130 Score: 68
Period size: 16 Copynumber: 5.5 Consensus size: 15
7305036 ATTTTTATAG
7305046 TAATA-AAAT-ATTT
1 TAATATAAATAATTT
7305059 TAATATCAAAT-ATTAT
1 TAATAT-AAATAATT-T
* *
7305075 TACTAAAATATAATTTTT
1 TAATATAA-ATAA--TTT
*
7305093 TAATATTAATAATTT
1 TAATATAAATAATTT
7305108 TAATAATAAATAATTT
1 TAAT-ATAAATAATTT
7305124 TAATATA
1 TAATATA
7305131 TTTTAATTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
13 5 0.09
15 19 0.33
16 21 0.36
17 5 0.09
18 6 0.10
19 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATAAATAATTT
Found at i:7305159 original size:26 final size:25
Alignment explanation
Indices: 7305093--7305150 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
7305083 TATAATTTTT
*
7305093 TAATATTAATAATTTTAATAATAAA
1 TAATTTTAATAATTTTAATAATAAA
*
7305118 TAATTTTAATATATTTTAATTATAAA
1 TAATTTTAATA-ATTTTAATAATAAA
7305144 TAATTTT
1 TAATTTT
7305151 TTCTAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATTTTAATAATTTTAATAATAAA
Found at i:7307358 original size:26 final size:26
Alignment explanation
Indices: 7307319--7307373 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
7307309 TGTCCATTTG
* *
7307319 TAAGAATTAATTATTTA-ATCATAGAA
1 TAAGAATGAATTA-TAACATCATAGAA
*
7307345 TAAGAATGATTTATAACATCATAGAA
1 TAAGAATGAATTATAACATCATAGAA
7307371 TAA
1 TAA
7307374 CTCTAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (26 bp):
TAAGAATGAATTATAACATCATAGAA
Found at i:7312644 original size:27 final size:25
Alignment explanation
Indices: 7312613--7312679 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 25
7312603 TATGTCTTGT
7312613 TTACTTCATGTCAACTTCATATCATGG
1 TTACTT-ATGTCAACTTCATATCAT-G
* * * *
7312640 TTACTTTATTTTAATTTTATATCATG
1 TTAC-TTATGTCAACTTCATATCATG
7312666 TTCACTTATGTCAA
1 TT-ACTTATGTCAA
7312680 TTTAAAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 10 0.31
27 20 0.62
28 2 0.06
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.49
Consensus pattern (25 bp):
TTACTTATGTCAACTTCATATCATG
Done.