Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 92 of 186
Found at i:30008212 original size:25 final size:26
Alignment explanation
Indices: 30008184--30008245 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
30008174 TTGTTATGAG
*
30008184 TAGCTAAGTCTGTTAGC-AAGTTTGT
1 TAGCTAAGTCTGTTAGCTAAGTCTGT
*
30008209 TAGCTAAGTTTGTTAGCTAAGTCTGT
1 TAGCTAAGTCTGTTAGCTAAGTCTGT
*
30008235 TAACTAAGTCT
1 TAGCTAAGTCT
30008246 ATAAATACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
TAGCTAAGTCTGTTAGCTAAGTCTGT
Found at i:30008217 original size:13 final size:13
Alignment explanation
Indices: 30008184--30008245 Score: 90
Period size: 13 Copynumber: 4.8 Consensus size: 13
30008174 TTGTTATGAG
30008184 TAGCTAAGTCTGT
1 TAGCTAAGTCTGT
*
30008197 TAGC-AAGTTTGT
1 TAGCTAAGTCTGT
*
30008209 TAGCTAAGTTTGT
1 TAGCTAAGTCTGT
30008222 TAGCTAAGTCTGT
1 TAGCTAAGTCTGT
*
30008235 TAACTAAGTCT
1 TAGCTAAGTCT
30008246 ATAAATACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
12 11 0.24
13 34 0.76
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (13 bp):
TAGCTAAGTCTGT
Found at i:30010266 original size:13 final size:13
Alignment explanation
Indices: 30010209--30010264 Score: 87
Period size: 13 Copynumber: 4.4 Consensus size: 13
30010199 TATGAGTAGT
30010209 TAAGTTTGTTAGC
1 TAAGTTTGTTAGC
30010222 -AAGTTTGTTAGC
1 TAAGTTTGTTAGC
30010234 TAAGTTTGTTAGC
1 TAAGTTTGTTAGC
* *
30010247 TAAGTCTGTTAAC
1 TAAGTTTGTTAGC
30010260 TAAGT
1 TAAGT
30010265 CTATAAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.30
13 28 0.70
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (13 bp):
TAAGTTTGTTAGC
Found at i:30015715 original size:18 final size:18
Alignment explanation
Indices: 30015675--30015718 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
30015665 TATATTTTTT
*
30015675 TAAAAATATTAATTACCA
1 TAAAAATATTAAGTACCA
*
30015693 TAAAAATATT-AGTACGA
1 TAAAAATATTAAGTACCA
30015710 TGAAAAATA
1 T-AAAAATA
30015719 ATTTCTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (18 bp):
TAAAAATATTAAGTACCA
Found at i:30016961 original size:14 final size:13
Alignment explanation
Indices: 30016943--30016976 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
30016933 CTTTTCTTCT
30016943 TTCTTTTTTTTTG
1 TTCTTTTTTTTTG
*
30016956 TCTCTTTCTTTTTG
1 T-TCTTTTTTTTTG
30016970 TTCTTTT
1 TTCTTTT
30016977 CCCTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTTTTG
Found at i:30020867 original size:20 final size:22
Alignment explanation
Indices: 30020842--30020885 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
30020832 GCCCAAGCCC
30020842 AACCCAAAT-AAAAATACT-AA
1 AACCCAAATCAAAAATACTGAA
*
30020862 AACCCACATCAAAAATACTGAA
1 AACCCAAATCAAAAATACTGAA
30020884 AA
1 AA
30020886 AATCAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 9 0.43
22 4 0.19
ACGTcount: A:0.61, C:0.23, G:0.02, T:0.14
Consensus pattern (22 bp):
AACCCAAATCAAAAATACTGAA
Found at i:30025075 original size:15 final size:15
Alignment explanation
Indices: 30025045--30025075 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30025035 TAATTGTAAT
30025045 AAATATTTATTATGA
1 AAATATTTATTATGA
*
30025060 AAATATTTATTTTGA
1 AAATATTTATTATGA
30025075 A
1 A
30025076 TATTTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
AAATATTTATTATGA
Found at i:30026058 original size:24 final size:24
Alignment explanation
Indices: 30026026--30026075 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
30026016 TCATAATCAA
* * *
30026026 ATACAAATGCATATACAGATTTAG
1 ATACAAATGCAGACACAGATATAG
30026050 ATACAAATGCAGACACAGATATAG
1 ATACAAATGCAGACACAGATATAG
30026074 AT
1 AT
30026076 GTAGTCATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (24 bp):
ATACAAATGCAGACACAGATATAG
Found at i:30028976 original size:18 final size:18
Alignment explanation
Indices: 30028953--30028988 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30028943 AATAAAGTTC
*
30028953 ATCATTTAAATTAATTAA
1 ATCATTTAAATCAATTAA
30028971 ATCATTTAAATCAATTAA
1 ATCATTTAAATCAATTAA
30028989 TAATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
ATCATTTAAATCAATTAA
Found at i:30031248 original size:20 final size:21
Alignment explanation
Indices: 30031216--30031264 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
30031206 TGAAATACAT
30031216 AACAT-AT-ATATAAAAA-AA
1 AACATAATAATATAAAAATAA
30031234 CAACA-AATAATATAAAAATAA
1 -AACATAATAATATAAAAATAA
30031255 AACATAATAA
1 AACATAATAA
30031265 AGATTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.23
20 13 0.50
21 7 0.27
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.20
Consensus pattern (21 bp):
AACATAATAATATAAAAATAA
Found at i:30031364 original size:24 final size:25
Alignment explanation
Indices: 30031305--30031367 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 25
30031295 ATAAGAAAAA
30031305 TAATAAATATAATATA-AAGTAACG
1 TAATAAATATAATATATAAGTAACG
* *
30031329 T-ATAAA-AAAATATATAAGTAA-T
1 TAATAAATATAATATATAAGTAACG
30031351 TAATAAATATAATATAT
1 TAATAAATATAATATAT
30031368 GTGAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 8 0.24
23 16 0.48
24 9 0.27
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (25 bp):
TAATAAATATAATATATAAGTAACG
Found at i:30031375 original size:17 final size:18
Alignment explanation
Indices: 30031355--30031391 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30031345 AGTAATTAAT
*
30031355 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
30031372 AAATATAATAATATATGA
1 AAATATAATAATATATGA
30031390 AA
1 AA
30031392 GAGCTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:30033461 original size:83 final size:83
Alignment explanation
Indices: 30033322--30033516 Score: 372
Period size: 83 Copynumber: 2.3 Consensus size: 83
30033312 TTCGATTTGT
* *
30033322 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
30033387 CTTGTTCCTTGTAAGCAC
66 CTTGTTCCTTGTAAGCAC
30033405 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
30033470 CTTGTTCCTTGTAAGCAC
66 CTTGTTCCTTGTAAGCAC
30033488 AAGGATGCCAAACCATCTTGAGTCTGTTT
1 AAGGATGCCAAACCATCTTGAGTCTGTTT
30033517 TCCTTGTAAA
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 110 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
CTTGTTCCTTGTAAGCAC
Found at i:30046415 original size:16 final size:17
Alignment explanation
Indices: 30046384--30046417 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30046374 AATAAAAAAT
*
30046384 GAATACTACGATATAAA
1 GAATAATACGATATAAA
30046401 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
30046417 G
1 G
30046418 CAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:30046983 original size:21 final size:21
Alignment explanation
Indices: 30046952--30047001 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30046942 TGATATACAT
30046952 AACAT-AT-ATATAAAAAAAA
1 AACATAATAATATAAAAAAAA
*
30046971 CAACA-AATAATATAAAAATAA
1 -AACATAATAATATAAAAAAAA
30046992 AACATAATAA
1 AACATAATAA
30047002 AGATTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (21 bp):
AACATAATAATATAAAAAAAA
Found at i:30047120 original size:17 final size:18
Alignment explanation
Indices: 30047100--30047136 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30047090 AGTAATTAAT
*
30047100 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
30047117 AAATATAATAATATATGA
1 AAATATAATAATATATGA
30047135 AA
1 AA
30047137 GAGATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:30047281 original size:21 final size:21
Alignment explanation
Indices: 30047257--30047298 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30047247 TAAAATTAAA
*
30047257 ATAAACAA-ATAATATATATAT
1 ATAAA-AATATAATAAATATAT
30047278 ATAAAAATATAATAAATATAT
1 ATAAAAATATAATAAATATAT
30047299 GACTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAATATAATAAATATAT
Found at i:30047296 original size:19 final size:19
Alignment explanation
Indices: 30047227--30047298 Score: 51
Period size: 19 Copynumber: 3.7 Consensus size: 19
30047217 AAAATAATTT
* *
30047227 TATAATATATAATATAAAAG
1 TATAATAAAT-ATATAAAAA
*
30047247 TAAAATTAAA-ATA-AACAAA
1 TATAA-TAAATATATAA-AAA
*
30047266 TA-ATATATATATATAAAAA
1 TATA-ATAAATATATAAAAA
30047285 TATAATAAATATAT
1 TATAATAAATATAT
30047299 GACTAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
18 6 0.15
19 25 0.61
20 7 0.17
21 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
TATAATAAATATATAAAAA
Found at i:30052595 original size:29 final size:32
Alignment explanation
Indices: 30052563--30052630 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 32
30052553 TTAATTAAAA
30052563 TTTTAAAAAATA-TTTTTA-AAATTTTT-AAT
1 TTTTAAAAAATAGTTTTTATAAATTTTTGAAT
**
30052592 TTTT-AAAAATAGTTTTTATATTTTTTTGAAT
1 TTTTAAAAAATAGTTTTTATAAATTTTTGAAT
30052623 TTTTAAAA
1 TTTTAAAA
30052631 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 7 0.21
29 10 0.30
30 6 0.18
31 7 0.21
32 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTTAAAAAATAGTTTTTATAAATTTTTGAAT
Found at i:30052614 original size:28 final size:30
Alignment explanation
Indices: 30052561--30052630 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
30052551 AATTAATTAA
*
30052561 AATTTTAAAAAATATTTTTAAAA-TTTTT-
1 AATTTTTAAAAATATTTTTAAAATTTTTTG
* *
30052589 AATTTTTAAAAATAGTTTTTATATTTTTTTG
1 AATTTTTAAAAATA-TTTTTAAAATTTTTTG
30052620 AATTTTTAAAA
1 AATTTTTAAAA
30052631 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.36
29 7 0.19
30 5 0.14
31 11 0.31
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
AATTTTTAAAAATATTTTTAAAATTTTTTG
Found at i:30054073 original size:16 final size:16
Alignment explanation
Indices: 30054013--30054074 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
30054003 TTTTGAAAAT
*
30054013 AATTTTTAAAATTCTA
1 AATTTTAAAAATTCTA
30054029 AATATTTATAGAAATTCTA
1 AAT-TTTA-A-AAATTCTA
* * *
30054048 AAATTCAAAAATTATA
1 AATTTTAAAAATTCTA
30054064 AATTTTAAAAA
1 AATTTTAAAAA
30054075 AAATCTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 19 0.51
17 4 0.11
18 4 0.11
19 10 0.27
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTTTAAAAATTCTA
Found at i:30055809 original size:22 final size:22
Alignment explanation
Indices: 30055766--30055810 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30055756 GGCCTATTAT
* *
30055766 AAACCAAAGATAATAAATATAA
1 AAACCAAAGATAAAAAAAATAA
30055788 AAACCAAA-ATAAAAAACAATAA
1 AAACCAAAGATAAAAAA-AATAA
30055810 A
1 A
30055811 CGACCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.13
Consensus pattern (22 bp):
AAACCAAAGATAAAAAAAATAA
Found at i:30056692 original size:19 final size:20
Alignment explanation
Indices: 30056650--30056693 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
30056640 ACACAACCCT
*
30056650 CGTACGCCACGCCACACCTC
1 CGTACGCCACGCCACACATC
30056670 CGTACGCCA-G-CACAGCATC
1 CGTACGCCACGCCACA-CATC
30056689 CGTAC
1 CGTAC
30056694 CTGCAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.23, C:0.48, G:0.18, T:0.11
Consensus pattern (20 bp):
CGTACGCCACGCCACACATC
Found at i:30059328 original size:132 final size:132
Alignment explanation
Indices: 30059036--30059328 Score: 358
Period size: 132 Copynumber: 2.2 Consensus size: 132
30059026 CATTCATTCA
* * * * * *
30059036 AAAATTCTTCAAAACTAAGACTAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTATTCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCATAACGTGT
* *
30059101 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTACTTCAAAATTTTCACTCATGTCTT
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTACTTCAAAAGTTTCACTCATATCTT
30059166 TT
131 TT
* * * * *
30059168 AAAGTTCTTCAAAATGAAGACGAGATTCGATATTTAGCAATTCGCGGAATTGTGCCATAACGTGT
1 AAAATTATTCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCATAACGTGT
* * * *
30059233 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTA-TCCGTTC-AAAGTTTCATTCGTAT-T
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTAC-TTCAAAAGTTTCACTCATATCT
30059295 TTCT
130 TT-T
* * *
30059299 AAAAATTATTTAAAACGAAGGCAATATTCG
1 -AAAATTATTCAAAACGAAGACAAGATTCG
30059329 GCGTTTGACA
Statistics
Matches: 137, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
130 3 0.02
131 15 0.11
132 119 0.87
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (132 bp):
AAAATTATTCAAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCATAACGTGT
TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTACTTCAAAAGTTTCACTCATATCTT
TT
Found at i:30059341 original size:132 final size:132
Alignment explanation
Indices: 30059036--30059391 Score: 353
Period size: 132 Copynumber: 2.7 Consensus size: 132
30059026 CATTCATTCA
* * * * * *
30059036 AAAATTCTTCAAAACTAAGACTAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTATTCAAAACGAAGACAAGATTCGACGTTTGACAATTCGCGGAATCGTGCCATAACGTGT
* *
30059101 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTACTTCAAAATTTTCACTCATGTCTT
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTACTTCAAAAGTTTCACTCATATCTT
30059166 TT
131 TT
* * * * ** *
30059168 AAAGTTCTTCAAAATGAAGACGAGATTCGATATTT-AGCAATTCGCGGAATTGTGCCATAACGTG
1 AAAATTATTCAAAACGAAGACAAGATTCGACGTTTGA-CAATTCGCGGAATCGTGCCATAACGTG
* * * *
30059232 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTA-TCCGTTC-AAAGTTTCATTCGTAT-
65 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTAC-TTCAAAAGTTTCACTCATATC
30059294 TTTCT
129 TTT-T
* * * * * * * *
30059299 AAAAATTATTTAAAACGAAGGCAATATTCGGCGTTTGACAATTCG-AGAATCATGCCCTATCGTG
1 -AAAATTATTCAAAACGAAGACAAGATTCGACGTTTGACAATTCGCGGAATCGTGCCATAACGTG
* * ** *
30059363 CTGGGTCGTGATTTCTCGTTTGCTCAAAA
65 TTGGGTTGCAATTTCGCGTTTGCTCAAAA
30059392 CGATCGAACA
Statistics
Matches: 185, Mismatches: 34, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
130 3 0.02
131 53 0.29
132 128 0.69
133 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (132 bp):
AAAATTATTCAAAACGAAGACAAGATTCGACGTTTGACAATTCGCGGAATCGTGCCATAACGTGT
TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATTACTTCAAAAGTTTCACTCATATCTT
TT
Found at i:30062933 original size:41 final size:41
Alignment explanation
Indices: 30062888--30063057 Score: 238
Period size: 41 Copynumber: 4.2 Consensus size: 41
30062878 CGTTCCAAAA
* * * *
30062888 AAAACGCCGGTAAAAA-CAGAGCATTCGCGGCGTTTTTTA-CT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTAGGT
*
30062929 AAAACGCCGCTAAAAA-TAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
30062969 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* *
30063010 AAAACGCCGCTAAAAACCAGAGCATTAGCCGCGCTTTATGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
30063051 AAAACGC
1 AAAACGC
30063058 ACATTTGTTG
Statistics
Matches: 119, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 4 0.03
40 17 0.14
41 98 0.82
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
Found at i:30063700 original size:15 final size:15
Alignment explanation
Indices: 30063680--30063711 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30063670 TTTAATTTAG
*
30063680 AAGATAAATGTATAT
1 AAGATAAATATATAT
30063695 AAGATAAATATATAT
1 AAGATAAATATATAT
30063710 AA
1 AA
30063712 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:30070547 original size:9 final size:9
Alignment explanation
Indices: 30070533--30070714 Score: 242
Period size: 9 Copynumber: 20.4 Consensus size: 9
30070523 NNNNNNNNNN
30070533 ATAACTTAT
1 ATAACTTAT
30070542 ATAACTTAT
1 ATAACTTAT
*
30070551 ATAACTTAC
1 ATAACTTAT
30070560 ATAACTTAT
1 ATAACTTAT
* *
30070569 ATAACATAC
1 ATAACTTAT
30070578 ATAACTTAT
1 ATAACTTAT
30070587 ATAACTTAT
1 ATAACTTAT
*
30070596 ATAACTTAG
1 ATAACTTAT
*
30070605 ATAA-ATAT
1 ATAACTTAT
30070613 ATAACTTAT
1 ATAACTTAT
30070622 ATAACTTAT
1 ATAACTTAT
*
30070631 ATAACTTAC
1 ATAACTTAT
30070640 ATAACTTAT
1 ATAACTTAT
* *
30070649 ATAACATAC
1 ATAACTTAT
30070658 ATAACTTAT
1 ATAACTTAT
30070667 ATAACTTAT
1 ATAACTTAT
*
30070676 ATAACTTAG
1 ATAACTTAT
*
30070685 ATAA-ATAT
1 ATAACTTAT
*
30070693 ATAACTTAC
1 ATAACTTAT
*
30070702 ATAACTTAC
1 ATAACTTAT
30070711 ATAA
1 ATAA
30070715 TACTTAAATA
Statistics
Matches: 150, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
8 12 0.08
9 138 0.92
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
ATAACTTAT
Found at i:30070666 original size:80 final size:80
Alignment explanation
Indices: 30070533--30070714 Score: 346
Period size: 80 Copynumber: 2.3 Consensus size: 80
30070523 NNNNNNNNNN
30070533 ATAACTTATATAACTTATATAACTTACATAACTTATATAACATACATAACTTATATAACTTATAT
1 ATAACTTATATAACTTATATAACTTACATAACTTATATAACATACATAACTTATATAACTTATAT
30070598 AACTTAGATAAATAT
66 AACTTAGATAAATAT
30070613 ATAACTTATATAACTTATATAACTTACATAACTTATATAACATACATAACTTATATAACTTATAT
1 ATAACTTATATAACTTATATAACTTACATAACTTATATAACATACATAACTTATATAACTTATAT
30070678 AACTTAGATAAATAT
66 AACTTAGATAAATAT
* *
30070693 ATAACTTACATAACTTACATAA
1 ATAACTTATATAACTTATATAA
30070715 TACTTAAATA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 100 1.00
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (80 bp):
ATAACTTATATAACTTATATAACTTACATAACTTATATAACATACATAACTTATATAACTTATAT
AACTTAGATAAATAT
Found at i:30076360 original size:21 final size:21
Alignment explanation
Indices: 30076327--30076377 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30076317 ACAACTTAGA
*
30076327 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
30076348 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
30076369 GCAGAGGCA
1 GCAGAGGCA
30076378 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:30076678 original size:31 final size:31
Alignment explanation
Indices: 30076632--30076698 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
30076622 TGGTTGTATT
* *
30076632 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
30076663 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
30076694 TTTTA
1 TTTTA
30076699 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:30076796 original size:43 final size:43
Alignment explanation
Indices: 30076772--30076935 Score: 240
Period size: 43 Copynumber: 3.8 Consensus size: 43
30076762 GTAAAAAAAG
* *
30076772 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAA
* *
30076815 CACCGCTAAAAGCCTTGACCTATAGCGGCGCTTTT-ACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCA-CACAAA
* * *
30076858 CGCCGGTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAA
*
30076901 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
30076936 TTCCAATAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCACACAAA
Found at i:30076896 original size:86 final size:86
Alignment explanation
Indices: 30076772--30076935 Score: 274
Period size: 86 Copynumber: 1.9 Consensus size: 86
30076762 GTAAAAAAAG
* *
30076772 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACCTA
1 CGCCGCTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACCTA
30076837 TAGCGGCGCTTTTACCACAAA
66 TAGCGGCGCTTTTACCACAAA
* * *
30076858 CGCCGGTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACCTA
*
30076923 TAGCGGCGTTTTT
66 TAGCGGCGCTTTT
30076936 TTCCAATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (86 bp):
CGCCGCTAAAAGCATTGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACCTA
TAGCGGCGCTTTTACCACAAA
Found at i:30077154 original size:16 final size:16
Alignment explanation
Indices: 30077123--30077206 Score: 71
Period size: 16 Copynumber: 5.1 Consensus size: 16
30077113 ACCTTTTACA
*
30077123 AAAATAGTATAAAAAAT
1 AAAATACTA-AAAAAAT
30077140 AAAATACTAAAAAAAT
1 AAAATACTAAAAAAAT
*** * *
30077156 ATCTTAATGAAAAAAT
1 AAAATACTAAAAAAAT
30077172 AAAATA-TGAAAAGAAAT
1 AAAATACT-AAAA-AAAT
*
30077189 AAAATACAAAAAAAAT
1 AAAATACTAAAAAAAT
30077205 AA
1 AA
30077207 TTTTTTTGGG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
15 1 0.02
16 30 0.57
17 22 0.42
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAATACTAAAAAAAT
Found at i:30077702 original size:151 final size:150
Alignment explanation
Indices: 30077253--30077755 Score: 684
Period size: 149 Copynumber: 3.4 Consensus size: 150
30077243 CTAAAAAAAT
30077253 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACTTAAAAAAATACAAAC
1 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAA--TAAAAAAATAC-AAC
* * * * *
30077318 AAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACACTAAAATAATAAATTTAAA
63 AAATGGCCAAAATCAGAGTTATTTATTAAATTAATAT-AAAAAACACTTAAATAATAAATTTGAA
* *
30077383 ATACTATGTACTAAAATAATAT-A
127 ACATTATGTACTAAAATAATATAA
* ** *
30077406 AAAAATAAAATACGAAAATAGTATATTTTAAAAGATAAAATCTGAAAAT-AAAAAATAACAAAAA
1 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAAAAT-ACAACAA
* * *
30077470 AT-GTCAAAATCA-AGGTTATTTATTAAATTAATATAAAAAACACTTAAACAATACATTTGAAAC
65 ATGGCCAAAATCAGA-GTTATTTATTAAATTAATATAAAAAACACTTAAATAATAAATTTGAAAC
30077533 ATTATGTACTAAAATAATATAA
129 ATTATGTACTAAAATAATATAA
*
30077555 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATGAAATCCAAAAATAAAAAAATTATCAACA
1 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAAAA-TA-CAACA
* *
30077620 AATGGCCAAAATCAGAGTTATTTATTAAATTAATAT-AAAAACAATTAAATAATATATTTGAAAC
64 AATGGCCAAAATCAGAGTTATTTATTAAATTAATATAAAAAACACTTAAATAATAAATTTGAAAC
30077684 ATTATGTACTAAAAT-A-ATAA
129 ATTATGTACTAAAATAATATAA
* *
30077704 AAAAAT-AAATA-TAAAATAAGTATATTTTAAAAAATAAAATCCGAAAA-AAAAA
1 AAAAATAAAATACGAAAAT-AGTATATTTTAAAAAATAAAATCCAAAAATAAAAA
30077756 CCAACAAAGG
Statistics
Matches: 315, Mismatches: 26, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
147 10 0.03
148 75 0.24
149 84 0.27
150 20 0.06
151 51 0.16
152 29 0.09
153 46 0.15
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (150 bp):
AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAAAATACAACAAA
TGGCCAAAATCAGAGTTATTTATTAAATTAATATAAAAAACACTTAAATAATAAATTTGAAACAT
TATGTACTAAAATAATATAA
Found at i:30081553 original size:20 final size:21
Alignment explanation
Indices: 30081528--30081572 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
30081518 TACATTTTGT
30081528 TGTAGATCATTTGATCAGGC-
1 TGTAGATCATTTGATCAGGCG
*
30081548 TGTAGATTATTTGATCAGGCG
1 TGTAGATCATTTGATCAGGCG
30081569 TGTA
1 TGTA
30081573 AATGTTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (21 bp):
TGTAGATCATTTGATCAGGCG
Found at i:30083323 original size:224 final size:224
Alignment explanation
Indices: 30082933--30083382 Score: 900
Period size: 224 Copynumber: 2.0 Consensus size: 224
30082923 TGCACATATT
30082933 TCTTGCTCTCACATTCCTATTTTCAATCGTACCAGTTGAAATGGCTCATGTAAAGTAGAATAGTA
1 TCTTGCTCTCACATTCCTATTTTCAATCGTACCAGTTGAAATGGCTCATGTAAAGTAGAATAGTA
30082998 TCCTTATGCTAGTGTCAGTTTTATTTCAACTTCACTTTCTTGTATTCTAGTTTTGTGTCAGACTT
66 TCCTTATGCTAGTGTCAGTTTTATTTCAACTTCACTTTCTTGTATTCTAGTTTTGTGTCAGACTT
30083063 AAGTTATATGCCTATCAATATCCCATTGATATTCCTTGCAAATACTTTTGGCTTGCCTGGAGTAG
131 AAGTTATATGCCTATCAATATCCCATTGATATTCCTTGCAAATACTTTTGGCTTGCCTGGAGTAG
30083128 CTTAGTTCTTACACTAAAAGCTTGTTGGC
196 CTTAGTTCTTACACTAAAAGCTTGTTGGC
30083157 TCTTGCTCTCACATTCCTATTTTCAATCGTACCAGTTGAAATGGCTCATGTAAAGTAGAATAGTA
1 TCTTGCTCTCACATTCCTATTTTCAATCGTACCAGTTGAAATGGCTCATGTAAAGTAGAATAGTA
30083222 TCCTTATGCTAGTGTCAGTTTTATTTCAACTTCACTTTCTTGTATTCTAGTTTTGTGTCAGACTT
66 TCCTTATGCTAGTGTCAGTTTTATTTCAACTTCACTTTCTTGTATTCTAGTTTTGTGTCAGACTT
30083287 AAGTTATATGCCTATCAATATCCCATTGATATTCCTTGCAAATACTTTTGGCTTGCCTGGAGTAG
131 AAGTTATATGCCTATCAATATCCCATTGATATTCCTTGCAAATACTTTTGGCTTGCCTGGAGTAG
30083352 CTTAGTTCTTACACTAAAAGCTTGTTGGC
196 CTTAGTTCTTACACTAAAAGCTTGTTGGC
30083381 TC
1 TC
30083383 AACAAGATGA
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 226 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (224 bp):
TCTTGCTCTCACATTCCTATTTTCAATCGTACCAGTTGAAATGGCTCATGTAAAGTAGAATAGTA
TCCTTATGCTAGTGTCAGTTTTATTTCAACTTCACTTTCTTGTATTCTAGTTTTGTGTCAGACTT
AAGTTATATGCCTATCAATATCCCATTGATATTCCTTGCAAATACTTTTGGCTTGCCTGGAGTAG
CTTAGTTCTTACACTAAAAGCTTGTTGGC
Found at i:30084175 original size:24 final size:23
Alignment explanation
Indices: 30084131--30084175 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
30084121 TATAAAAAAT
**
30084131 AATTATATTAAGAATTGTTATTA
1 AATTATATTAAGAATAATTATTA
*
30084154 AATTATATTTAATAATAATTAT
1 AATTATA-TTAAGAATAATTAT
30084176 ATTAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AATTATATTAAGAATAATTATTA
Found at i:30084416 original size:16 final size:16
Alignment explanation
Indices: 30084396--30084462 Score: 98
Period size: 16 Copynumber: 4.2 Consensus size: 16
30084386 TGAATTACTT
* *
30084396 ATTACAGTCCTATTCT
1 ATTACAGCCCTATTCC
30084412 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
* *
30084428 ATTACAACTCTATTCC
1 ATTACAGCCCTATTCC
30084444 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
30084460 ATT
1 ATT
30084463 CCAGTGAACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.27, C:0.31, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:30084612 original size:26 final size:26
Alignment explanation
Indices: 30084530--30084613 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
30084520 GGAACAAACT
* *
30084530 TTAAATACATTACAATATTAATCTAA
1 TTAAATACATTACAACATTAACCTAA
* * *
30084556 TTAAATAAATTA-ATCTAATTGGAACATTAA
1 TTAAATACATTACAAC--ATT--AAC-CTAA
30084586 TTAAATACATTACAACATTAACCTAA
1 TTAAATACATTACAACATTAACCTAA
30084612 TT
1 TT
30084614 GGAACAAACT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
25 1 0.02
26 16 0.36
27 6 0.14
29 5 0.11
30 14 0.32
31 2 0.05
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAATACATTACAACATTAACCTAA
Found at i:30087572 original size:13 final size:13
Alignment explanation
Indices: 30087554--30087592 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
30087544 TTTTAGTTAC
30087554 TAATAATATATTA
1 TAATAATATATTA
*
30087567 TAATAATTTATTTA
1 TAATAATATA-TTA
30087581 TATATAATATAT
1 TA-ATAATATAT
30087593 AAATATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 9 0.41
14 6 0.27
15 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATAATATATTA
Found at i:30091114 original size:59 final size:60
Alignment explanation
Indices: 30090994--30091115 Score: 149
Period size: 59 Copynumber: 2.0 Consensus size: 60
30090984 ATACCTTTTA
* * * *
30090994 TTTCTTCTCTTCTCTTCTCCCTCTCTTCTTCTATAATTTTTTTACTGGAATTTTTCTTTC
1 TTTCTTCTCTTCTCTTCTCCATCTCTTCTTCTATAATTTTTTTACTGCAATGTGTCTTTC
* * **
30091054 TTTCTT-TCTTTTCTTCTCCATCTCTTCTTCTGTAATTTTTTTTACTGCTGTGTGTC-TTC
1 TTTCTTCTCTTCTCTTCTCCATCTCTTCTTCTATAA-TTTTTTTACTGCAATGTGTCTTTC
30091113 TTT
1 TTT
30091116 TTAACACCGA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 32 0.60
60 21 0.40
ACGTcount: A:0.08, C:0.25, G:0.06, T:0.61
Consensus pattern (60 bp):
TTTCTTCTCTTCTCTTCTCCATCTCTTCTTCTATAATTTTTTTACTGCAATGTGTCTTTC
Found at i:30091715 original size:33 final size:33
Alignment explanation
Indices: 30091649--30091715 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
30091639 AAAAGTTTAA
**
30091649 TTATTATTTAATATAAAATAATTTATACGTATT
1 TTATTATTTAATATAAAATAATTTATAAATATT
* *
30091682 TTATTATTTATTATGAATATAATTTA-AAATATT
1 TTATTATTTAATAT-AAAATAATTTATAAATATT
30091715 T
1 T
30091716 AAATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (33 bp):
TTATTATTTAATATAAAATAATTTATAAATATT
Found at i:30091823 original size:24 final size:23
Alignment explanation
Indices: 30091790--30091838 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
30091780 AGGTTATATT
30091790 ATTTAATATTAATATTAATATAA
1 ATTTAATATTAATATTAATATAA
* * *
30091813 ATTTAATTATTTATTTTATTATAA
1 ATTTAA-TATTAATATTAATATAA
30091837 AT
1 AT
30091839 ACATTGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTAATATTAATATTAATATAA
Found at i:30103001 original size:15 final size:15
Alignment explanation
Indices: 30102981--30103016 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
30102971 CTCGGTAGGA
*
30102981 GCTATTTTGTAAGGT
1 GCTATTATGTAAGGT
30102996 GCTATTATGTAAGGT
1 GCTATTATGTAAGGT
30103011 GCTATT
1 GCTATT
30103017 GATATCGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.44
Consensus pattern (15 bp):
GCTATTATGTAAGGT
Found at i:30106674 original size:25 final size:25
Alignment explanation
Indices: 30106621--30106674 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
30106611 GAATCAGTGT
* * * *
30106621 GCTCTCTCGAGTTGTAAATTGGTAT
1 GCTCTCACGAGTTGTAAATCGATAA
30106646 GCTCTCACGAGTTGTAAATCGATAA
1 GCTCTCACGAGTTGTAAATCGATAA
30106671 GCTC
1 GCTC
30106675 ATATGAGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (25 bp):
GCTCTCACGAGTTGTAAATCGATAA
Found at i:30109892 original size:36 final size:37
Alignment explanation
Indices: 30109845--30109917 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
30109835 CATTTGGCAC
30109845 GCTTAAATACC-AGTCTTTCAAAGAACCAATCCCAGA
1 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
30109881 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
1 GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
30109918 CATACACTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 11 0.31
37 25 0.69
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
GCTTAAATACCAAGTCTTTCAAAGAACCAATCCCAGA
Found at i:30110253 original size:82 final size:82
Alignment explanation
Indices: 30110152--30110402 Score: 335
Period size: 82 Copynumber: 3.0 Consensus size: 82
30110142 AAAACTATCT
* * * * *
30110152 AATTAAATCTTATTTGGAAACAAAAACAAAATTGAATAAAATCTGTTAAACGACAAGAATAAATT
1 AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATC
*
30110217 TCAAAACAGAATTATTC
66 CCAAAACAGAATTATTC
* * * *
30110234 AATTAATTCTCATTTGGAAACAAAATCAAAGTCGAATAAAATCTGTGAAATGA-AGGGAATAAAT
1 AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACA-GGAATAAAT
*
30110298 CCCGAAACAGAATTATTC
65 CCCAAAACAGAATTATTC
* *
30110316 AATTAATTCTCATTTGGAAACAAAATA-AAAATGGAATAAAATCTGTTAAACGGCAGGAATAAAT
1 AATTAATTCTCATTTGGAAACAAAA-ACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAAT
*
30110380 CCCAAAACAGATTTTATTC
65 CCCAAAACAGA-ATTATTC
30110399 AATT
1 AATT
30110403 TTAATTTTTA
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
81 1 0.01
82 134 0.92
83 11 0.08
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (82 bp):
AATTAATTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATC
CCAAAACAGAATTATTC
Found at i:30113131 original size:25 final size:25
Alignment explanation
Indices: 30113103--30113154 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
30113093 AGGAACCTTT
*
30113103 AAATCAATTTGAATAAAATAAAATC
1 AAATCAATTGGAATAAAATAAAATC
** * *
30113128 AAATTGATTGGAATCAAATTAAATC
1 AAATCAATTGGAATAAAATAAAATC
30113153 AA
1 AA
30113155 GATATATGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATAAAATC
Found at i:30114137 original size:22 final size:21
Alignment explanation
Indices: 30114107--30114147 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
30114097 TAACATTAAT
30114107 ATAACTTTAATATATAATTTCA
1 ATAACTTTAAT-TATAATTTCA
* *
30114129 ATAATTTTAATTATTATTT
1 ATAACTTTAATTATAATTT
30114148 AAAGTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATAACTTTAATTATAATTTCA
Found at i:30116383 original size:22 final size:22
Alignment explanation
Indices: 30116358--30116435 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
30116348 TTCACTATGG
* *
30116358 TGCCTACTGATTCGTATTACGA
1 TGCCTACTGATTCGCATTAAGA
* *
30116380 TGCCTATTGTTTCGCATTATA-A
1 TGCCTACTGATTCGCATTA-AGA
30116402 TGCCTACTGATTCGCATTAAGA
1 TGCCTACTGATTCGCATTAAGA
*
30116424 TGCCTATTGATT
1 TGCCTACTGATT
30116436 TGCAGTTCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.02
22 46 0.98
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (22 bp):
TGCCTACTGATTCGCATTAAGA
Found at i:30118234 original size:21 final size:23
Alignment explanation
Indices: 30118211--30118254 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
30118201 TTTAAACCCC
30118211 AGATGATGTGTAG-GGATGGTCA
1 AGATGATGTGTAGAGGATGGTCA
*
30118233 GAGATGGTGTGTAGAGGATGGT
1 -AGATGATGTGTAGAGGATGGT
30118255 GGTAGGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.25, C:0.02, G:0.45, T:0.27
Consensus pattern (23 bp):
AGATGATGTGTAGAGGATGGTCA
Found at i:30123658 original size:19 final size:19
Alignment explanation
Indices: 30123633--30123740 Score: 145
Period size: 17 Copynumber: 5.9 Consensus size: 19
30123623 ATAATCTTCA
*
30123633 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
30123652 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
30123671 ATGATA--CAATCTTAGAG
1 ATGATATGCAATCTTAGAT
30123688 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30123706 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
30123723 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
30123741 AGATATGATT
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
17 32 0.41
18 15 0.19
19 32 0.41
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:30123703 original size:35 final size:36
Alignment explanation
Indices: 30123642--30123740 Score: 157
Period size: 35 Copynumber: 2.8 Consensus size: 36
30123632 AATGATATGT
30123642 AATCTTAGATG-TGATATGCAATCTTAGATATGATAC
1 AATCTTAGA-GATGATATGCAATCTTAGATATGATAC
30123678 AATCTTAGAGATGAT-TGCAATCTTAGATATGATAC
1 AATCTTAGAGATGATATGCAATCTTAGATATGATAC
* *
30123713 AATCTTAGATATGATATACAATCTTAGA
1 AATCTTAGAGATGATATGCAATCTTAGA
30123741 AGATATGATT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
35 35 0.59
36 24 0.41
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (36 bp):
AATCTTAGAGATGATATGCAATCTTAGATATGATAC
Found at i:30124249 original size:18 final size:17
Alignment explanation
Indices: 30124225--30124284 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
30124215 CCAATATATT
30124225 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
30124242 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
30124258 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
30124276 TTATATTTT
1 TTATATTTT
30124285 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:30124269 original size:15 final size:16
Alignment explanation
Indices: 30124226--30124284 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
30124216 CAATATATTT
30124226 TATATTTTTTATATAA
1 TATATTTTTTATATAA
30124242 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
30124258 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
30124276 TTATATTTT
1 -TATATTTT
30124285 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:30124309 original size:26 final size:26
Alignment explanation
Indices: 30124261--30124310 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
30124251 TTATAAATAT
* * * *
30124261 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
30124287 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
30124311 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:30141429 original size:48 final size:48
Alignment explanation
Indices: 30141359--30141487 Score: 163
Period size: 48 Copynumber: 2.7 Consensus size: 48
30141349 CGGCTATATT
* * *
30141359 ACGAGAACCAGTGTAAGACCATAAT-TGGGACATGGCATTGGCATTGAG
1 ACGAGAGCTAGTGAAAGACCAT-ATCTGGGACATGGCATTGGCATTGAG
* *
30141407 ACGTGAGTTAGTGAAAGACCATATCTGGGACATGGCATTGGCATTGAG
1 ACGAGAGCTAGTGAAAGACCATATCTGGGACATGGCATTGGCATTGAG
* * *
30141455 ACGAGAGCTAGTGTAGGA-CATGTCTGGGACATG
1 ACGAGAGCTAGTGAAAGACCATATCTGGGACATG
30141488 CATCGGCCTC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 16 0.23
48 54 0.77
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (48 bp):
ACGAGAGCTAGTGAAAGACCATATCTGGGACATGGCATTGGCATTGAG
Found at i:30141521 original size:46 final size:44
Alignment explanation
Indices: 30141464--30141625 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 44
30141454 GACGAGAGCT
* *
30141464 AGTGTAGGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTACGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGG-CTC-AGATGTA-GTC
30141510 AGTGTAAGA-CATGTCTAGGACATGCATCGGCTACATGATGT-GTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCT-CA-GATGTAGTC
* * * *
30141554 AGTATAAGACCATGTCTAAGACATGACATCGACTCA-ACGTGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATG-CATCGGCTCAGA--TG-TAGTC
*
30141601 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTAGGACATG
30141626 GTGTTGACTT
Statistics
Matches: 99, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 11 0.11
45 21 0.21
46 41 0.41
47 25 0.25
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCTCAGATGTAGTC
Found at i:30141612 original size:47 final size:46
Alignment explanation
Indices: 30141507--30141680 Score: 183
Period size: 47 Copynumber: 3.8 Consensus size: 46
30141497 CGAGATGTAC
* * *
30141507 GTCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCT-ACATGATGT
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTAACGTGA-GA
* * *
30141551 GTCAGTATAAGACCATGTCTAAGACATGACATCGACTCAACGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACT-AACGTGAGA
* ** * *
30141598 GTCAGTGTAAGACCATGTCTGGGACATGGTGTTGACTTAGCGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TAACGTGAGA
* *
30141645 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
30141681 ATTATACCCT
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
44 11 0.10
45 13 0.12
46 7 0.07
47 70 0.65
48 6 0.06
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTAACGTGAGA
Found at i:30144870 original size:25 final size:25
Alignment explanation
Indices: 30144842--30144923 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
30144832 AGCTCTTATA
* *
30144842 AGCTTCCCGATACTTAGCTCGCATG
1 AGCTTCCCGATACTTAACTCACATG
*
30144867 AGCTTTCCGATACTTAACTCACATG
1 AGCTTCCCGATACTTAACTCACATG
*
30144892 AGCTTCCCGTTA-TTCAACTCACATG
1 AGCTTCCCGATACTT-AACTCACATG
30144917 AGCTTCC
1 AGCTTCC
30144924 TATTATTTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 2 0.04
25 49 0.96
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (25 bp):
AGCTTCCCGATACTTAACTCACATG
Found at i:30144929 original size:25 final size:25
Alignment explanation
Indices: 30144882--30144930 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
30144872 TCCGATACTT
*
30144882 AACTCACATGAGCTTCCCGTTATTC
1 AACTCACATGAGCTTCCCATTATTC
*
30144907 AACTCACATGAGCTTCCTATTATT
1 AACTCACATGAGCTTCCCATTATT
30144931 TAGCTCGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (25 bp):
AACTCACATGAGCTTCCCATTATTC
Found at i:30150066 original size:64 final size:64
Alignment explanation
Indices: 30149965--30150093 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
30149955 TGTGACCATC
30149965 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGCTCATATGGTGGATGAATGGGCTA
1 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGCTCATATGGTGGATGAATGGGCTA
* *
30150029 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGTTTATATGGTGGATGAATGGGCTA
1 TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGCTCATATGGTGGATGAATGGGCTA
30150093 T
1 T
30150094 CATATATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (64 bp):
TTATAGATGCATCTATCAAAACCATAAAATATATAAATGGCTCATATGGTGGATGAATGGGCTA
Found at i:30166035 original size:45 final size:44
Alignment explanation
Indices: 30165928--30166174 Score: 278
Period size: 44 Copynumber: 5.6 Consensus size: 44
30165918 CATCGTAGCG
* * * * *
30165928 AATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* *
30165972 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACA
* *
30166017 AATCTTATCTCCCTGAAGTTGTACTGGAGCAGATTGAAGATATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * *
30166062 AATCTTATCTCTCTGAAATTGCAATAGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* ** * *
30166106 AATCTTATTTCGTTGAAGTTGCAATGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* **
30166150 AGTCTTATCTCGTTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
30166175 AAAGCAAACT
Statistics
Matches: 178, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
44 101 0.57
45 77 0.43
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:30168917 original size:49 final size:49
Alignment explanation
Indices: 30168858--30169171 Score: 280
Period size: 49 Copynumber: 6.7 Consensus size: 49
30168848 CATCAAATTC
* * * *
30168858 GATGCCATGTCCCAAAAAGGTCTTACACTAGCTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
*
30168907 GATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCG-GTG-T
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAG-GCT
* * * * *
30168955 CGATGCCATGTCCCAGACAGGTCTTACACT-G-ACACACA-A-C-AAGCT
1 -GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* * * *
30169000 GATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATATATCGAGGCT
* * * * * *
30169049 GATG-CATGTCCCATACATGTCTTACACTAGCTCTC--GTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* *
30169095 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
* *
30169141 GATG-CATGTCTCAAACATGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGTCTTACACTAGC
30169172 ACACATATCA
Statistics
Matches: 218, Mismatches: 34, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
44 30 0.14
45 3 0.01
46 74 0.34
47 5 0.02
48 30 0.14
49 76 0.35
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATATCGAGGCT
Found at i:30169113 original size:46 final size:46
Alignment explanation
Indices: 30168805--30169171 Score: 223
Period size: 49 Copynumber: 7.8 Consensus size: 46
30168795 ATGGGATAAG
* * *
30168805 ATGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCAC-ATCAA
1 ATGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCT--CTCTATC-A
* * * * * *
30168854 AT-TCGATGCCATGTCCCAAAAAGGTCTTACACTAGCTTTCATATATCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGC--TC-TCTATCA
* * * *
30168902 AGGCTGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC---TATCA
* * * * * *
30168951 GTGTCGATGCCATGTCCCAGACAGGTCTTACACT-GACACAC-AACA
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAG-CTCTCTATCA
* * * * *
30168996 A-GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCG
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGC-TCTCTA--TCA
* * *
30169044 AGGCCGATG-CATGTCCCATACATGTCTTACACTAGCTCTCGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC-TATCA
*
30169090 ATGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTC-AT-A
1 ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCTATCA
* * *
30169133 ATGTGGCTGATG-CATGTCTCAAACATGTCTTACACTAGC
1 A--T-GCCGATGCCATGTCCCAGACATGTCTTACACTAGC
30169172 ACACATATCA
Statistics
Matches: 249, Mismatches: 50, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 32 0.13
45 4 0.02
46 71 0.29
47 17 0.07
48 46 0.18
49 77 0.31
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCTATCA
Found at i:30169145 original size:92 final size:91
Alignment explanation
Indices: 30168807--30169176 Score: 290
Period size: 92 Copynumber: 4.0 Consensus size: 91
30168797 GGGATAAGAT
* * *
30168807 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAT--T--CGATGCCATGT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT--CTCAT-ATATCGTGGCGATG-CATGT
* * * * *
30168868 CCCAAAAAGGTCTTACACTAGCTTTCATATATCGAG
61 CCCAAACATGTCTTACACTAGC--ACACA-A-C-AA
* *
30168904 GCTGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCGGTGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATC-GTGGCGATG-CATGTCCC
* *
30168969 AGACAGGTCTTACACT-GACACACAACAA
64 AAACATGTCTTACACTAG-CACACAACAA
* * * * * *
30168997 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCCGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCT-CATATATCGTGG-CGATGCATGTCCC
* * * **
30169061 ATACATGTCTTACACTAGCTCTCGTCTCAA
64 AAACATGTCTTACACTAGCACAC--AACAA
*
30169091 TGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGCTGATGCATGTCTC
1 -GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCGTGGC-GATGCATGTCCC
30169153 AAACATGTCTTACACTAGCACACA
64 AAACATGTCTTACACTAGCACACA
30169177 TATCACCCAA
Statistics
Matches: 227, Mismatches: 32, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
91 1 0.00
92 62 0.27
93 51 0.22
94 37 0.16
95 8 0.04
96 18 0.08
97 21 0.09
98 29 0.13
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (91 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATATATCGTGGCGATGCATGTCCCAA
ACATGTCTTACACTAGCACACAACAA
Found at i:30169787 original size:20 final size:20
Alignment explanation
Indices: 30169762--30169800 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30169752 GAAATTTCAA
30169762 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
30169782 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
30169801 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:30171144 original size:20 final size:20
Alignment explanation
Indices: 30171119--30171158 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30171109 AAAGGTTTTT
30171119 TTATTTTTTTTATTTTCAAA
1 TTATTTTTTTTATTTTCAAA
30171139 TTATTTTTTTTATTTTCAAA
1 TTATTTTTTTTATTTTCAAA
30171159 GGGCTTTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTTTTTATTTTCAAA
Found at i:30178514 original size:46 final size:46
Alignment explanation
Indices: 30178447--30178537 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
30178437 CTGGAATTCA
30178447 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
1 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
30178493 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATG
1 ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATG
30178538 TTAAAAGGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (46 bp):
ATCAATAAAACGATTAATGAATTTGTTCCTTTGAAGAAAACAATGC
Found at i:30180898 original size:16 final size:16
Alignment explanation
Indices: 30180877--30180918 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
30180867 GAGTGTAAAG
30180877 AAAATTAGAAGAGTAA
1 AAAATTAGAAGAGTAA
*
30180893 AAAATT-GAAAGGGTAA
1 AAAATTAG-AAGAGTAA
30180909 AAAATTAGAA
1 AAAATTAGAA
30180919 AAATGGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (16 bp):
AAAATTAGAAGAGTAA
Found at i:30185710 original size:46 final size:43
Alignment explanation
Indices: 30185624--30185793 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 43
30185614 CATAGCCATA
*
30185624 TCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTAG
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
*
30185670 TCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 TCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAG
* *
30185715 GCTGATGTATGTCCCAGACATGTCTTACACT-AGCAC-TCGTCTGAATG
1 TC-GATGCATGTCCCAGACATGTCTTACACTGA-CACATC-TC-G-A-G
* *
30185762 CCGATGCCATATCCCAGACATGGTCTTACACT
1 TCGATG-CATGTCCCAGACAT-GTCTTACACT
30185794 AGCTCACAAT
Statistics
Matches: 106, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
43 2 0.02
44 16 0.15
45 17 0.16
46 47 0.44
47 14 0.13
48 10 0.09
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (43 bp):
TCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:30191361 original size:19 final size:19
Alignment explanation
Indices: 30191339--30191375 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30191329 TAATATATTC
*
30191339 ATAATATTTTTATATTTTT
1 ATAATATTTTTAAATTTTT
*
30191358 ATAATTTTTTTAAATTTT
1 ATAATATTTTTAAATTTT
30191376 AAATTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATAATATTTTTAAATTTTT
Found at i:30208852 original size:25 final size:24
Alignment explanation
Indices: 30208774--30208857 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 24
30208764 TTTTTACATA
* * *
30208774 TTTTTTTAATTTAGTAATAAAGATT
1 TTTTTTTAATTTAATATTTAA-ATT
30208799 TTTTTTTAATTTAATATTTCATTAGAATT
1 TTTTTTTAATTTAATA--T--TTA-AATT
30208828 TTTTTTCTAATTTAATATTTAAATT
1 TTTTTT-TAATTTAATATTTAAATT
30208853 TTTTT
1 TTTTT
30208858 AGTTTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
25 24 0.48
26 3 0.06
28 1 0.02
29 11 0.22
30 11 0.22
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (24 bp):
TTTTTTTAATTTAATATTTAAATT
Found at i:30209431 original size:57 final size:57
Alignment explanation
Indices: 30209344--30209525 Score: 213
Period size: 57 Copynumber: 3.2 Consensus size: 57
30209334 AAAAGGTTAG
* * *
30209344 GTACCAAAATGGACAAAAAAAACATAGGTACCAAATTAAGAAAACGTGTCAAGTTTAA
1 GTACCAAATTGGA-AAAAAAAACTTAGGTACCAAATTAAGAAAACATGTCAAGTTTAA
* * ** *
30209402 GTACCAAATTGGATAAAAAAACTTAGGTACC-AATTTAGTAAATTATGTTAAGTTTAA
1 GTACCAAATTGGAAAAAAAAACTTAGGTACCAAATTAAG-AAAACATGTCAAGTTTAA
* ** * *
30209459 GTACCAAATTAGAAAAAAAAACTTAAATACCAAATTAAGAAAACATATCAAATTTAA
1 GTACCAAATTGGAAAAAAAAACTTAGGTACCAAATTAAGAAAACATGTCAAGTTTAA
*
30209516 ATACCAAATT
1 GTACCAAATT
30209526 TTTATTATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
56 6 0.06
57 79 0.77
58 18 0.17
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (57 bp):
GTACCAAATTGGAAAAAAAAACTTAGGTACCAAATTAAGAAAACATGTCAAGTTTAA
Found at i:30209489 original size:26 final size:30
Alignment explanation
Indices: 30209455--30209525 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
30209445 TATGTTAAGT
*
30209455 TTAAGTACCAAATT-AGAAAA-A-A-AAAC
1 TTAAATACCAAATTAAGAAAACATACAAAC
*
30209481 TTAAATACCAAATTAAGAAAACATATCAAAT
1 TTAAATACCAAATTAAGAAAACATA-CAAAC
30209512 TTAAATACCAAATT
1 TTAAATACCAAATT
30209526 TTTATTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 13 0.34
27 6 0.16
28 1 0.03
29 1 0.03
31 17 0.45
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (30 bp):
TTAAATACCAAATTAAGAAAACATACAAAC
Found at i:30215282 original size:37 final size:37
Alignment explanation
Indices: 30215241--30215490 Score: 446
Period size: 37 Copynumber: 6.8 Consensus size: 37
30215231 TTTGAGTACT
30215241 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
30215278 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
30215315 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
30215352 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
30215389 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
30215426 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
30215463 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
30215491 TAGCTTCAGC
Statistics
Matches: 208, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 208 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:30215562 original size:45 final size:46
Alignment explanation
Indices: 30215453--30215576 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
30215443 GTGATAAGTG
* *
30215453 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
30215499 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
30215544 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
30215577 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:30223992 original size:37 final size:37
Alignment explanation
Indices: 30223951--30224126 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
30223941 TTTGAGTACT
30223951 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
30223988 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
30224025 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
30224062 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
30224099 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
30224127 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:30224198 original size:45 final size:46
Alignment explanation
Indices: 30224089--30224212 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
30224079 GTGATAAGTG
* *
30224089 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
30224135 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
30224180 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
30224213 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:30228092 original size:30 final size:30
Alignment explanation
Indices: 30228034--30228092 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
30228024 ATTTTCAAGG
**
30228034 CTAGGGGCAAAATGATCATTTTGTCAAAGT
1 CTAGGGGCAAAATGATCATTTTACCAAAGT
* * *
30228064 CTAGGGTCAAAATGGTCTTTTTACCAAAG
1 CTAGGGGCAAAATGATCATTTTACCAAAG
30228093 ATATGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGATCATTTTACCAAAGT
Found at i:30228543 original size:47 final size:48
Alignment explanation
Indices: 30228486--30228654 Score: 190
Period size: 47 Copynumber: 3.6 Consensus size: 48
30228476 AGAGACAGTA
30228486 TAAGACCATGTCTAGGACATAGCATCGGTATTGAGACGAGTGCTAGTG
1 TAAGACCATGTCTAGGACATAGCATCGGTATTGAGACGAGTGCTAGTG
* ** * *
30228534 TAAGA-CATGTCTGGGACAT-GCATCGACCACATT-ATGA-GAG-AC-AGTA
1 TAAGACCATGTCTAGGACATAGCATCG---GTATTGA-GACGAGTGCTAGTG
30228580 TAAGACCATGTCTAGGACATAGCATCGGTATTGAGACGAGTGCTAGTG
1 TAAGACCATGTCTAGGACATAGCATCGGTATTGAGACGAGTGCTAGTG
* *
30228628 TAAGA-CATGTCTGGGACATGGCATCGG
1 TAAGACCATGTCTAGGACATAGCATCGG
30228655 CACAAATATG
Statistics
Matches: 99, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
45 5 0.05
46 18 0.18
47 48 0.48
48 23 0.23
49 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATAGCATCGGTATTGAGACGAGTGCTAGTG
Found at i:30228594 original size:94 final size:94
Alignment explanation
Indices: 30228433--30228653 Score: 433
Period size: 94 Copynumber: 2.3 Consensus size: 94
30228423 ACTTGTGTGA
30228433 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGACAGTATAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGACAGTATAAGACCATGTC
30228498 TAGGACATAGCATCGGTATTGAGACGAGT
66 TAGGACATAGCATCGGTATTGAGACGAGT
30228527 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGACAGTATAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGACAGTATAAGACCATGTC
30228592 TAGGACATAGCATCGGTATTGAGACGAGT
66 TAGGACATAGCATCGGTATTGAGACGAGT
30228621 GCTAGTGTAAGACATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCG
30228654 GCACAAATAT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 120 0.95
95 6 0.05
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGACAGTATAAGACCATGTC
TAGGACATAGCATCGGTATTGAGACGAGT
Found at i:30231749 original size:93 final size:93
Alignment explanation
Indices: 30231606--30231958 Score: 519
Period size: 93 Copynumber: 3.8 Consensus size: 93
30231596 GACGAGCGCT
* * *
30231606 AGTGTAAGA-CATGTCTAGGACATCATGCATCAGCCTTGAGACGTAAGCCAGTGTAAGACATGTC
1 AGTGTAAGACCATGTCTGGGACAT--GGCATC-GACTTGAGACGTAAGCCAGTGTAAGACATGTC
*
30231670 TAGGACATGCATCGGCTACGAGATGATAGTC
63 TGGGACATGCATCGGCTACGAGATGATAGTC
* * ** *
30231701 AGTGTAAGACCATATCTGGGACACGGCATCGACTTGAGATATAAGCCAGTTTAAGACATGTCTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTGG
30231766 GACATGCATCGGCTACGAGATGATAGTC
66 GACATGCATCGGCTACGAGATGATAGTC
*
30231794 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAAACGTAAGCCAGTGTAAGACATGTCTGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTGG
* * *
30231859 GACATGCATTGGCTAAGAGATGATAGTT
66 GACATGCATCGGCTACGAGATGATAGTC
* * *
30231887 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCCAGTGTAAGACCGTGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGA-CATGTCTG
30231952 GGACATG
65 GGACATG
30231959 GTATCGGTAC
Statistics
Matches: 234, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
93 195 0.83
94 19 0.08
95 9 0.04
96 11 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTGG
GACATGCATCGGCTACGAGATGATAGTC
Found at i:30231849 original size:140 final size:140
Alignment explanation
Indices: 30231606--30231964 Score: 340
Period size: 140 Copynumber: 2.6 Consensus size: 140
30231596 GACGAGCGCT
* * * * * *
30231606 AGTGTAAGA-CATGTCTAGGACATCATGCATCAGCCTTGAGACGTAAGCCAGTGTAAGA-CATGT
1 AGTGTAAGACCATGTCTGGGACAT--GGCATC-GACTCGAGATGTGAGCCAGTGTAAGACCATGT
* * * * * *
30231669 CTAGGACAT-GCATCGGCTACGAGATG-ATAGTCAGTGTAAGACCATATCTGGGACACGGCATCG
63 CTGGGACATGGCATCGACT-TGAAACGTA-AGCCAGTGTAAGA-CATATCTGGGACA-GGCATCG
*
30231732 ACT-TGAGAT-ATAAGCC
124 ACTAAGAGATGAT-AGCC
* * *
30231748 AGTTTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-AGTCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGATG-TGAGCCAGTGTAAGACCATGTC
* * * *
30231810 TGGGACATGGCATCGACTTGAAACGTAAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTAA
64 TGGGACATGGCATCGACTTGAAACGTAAGCCAGTGTAAGACATATCTGGGACAGGCATCGACTAA
**
30231875 GAGATGATAGTT
129 GAGATGATAGCC
* *
30231887 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCCAGTGTAAGACCGTGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGTGAGCCAGTGTAAGACCATGTCTG
*
30231952 GGACATGGTATCG
66 GGACATGGCATCG
30231965 GTACCTTACC
Statistics
Matches: 182, Mismatches: 25, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
138 10 0.05
139 50 0.27
140 84 0.46
141 17 0.09
142 21 0.12
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATGTGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGACTTGAAACGTAAGCCAGTGTAAGACATATCTGGGACAGGCATCGACTAAGA
GATGATAGCC
Found at i:30231957 original size:47 final size:46
Alignment explanation
Indices: 30231606--30231964 Score: 336
Period size: 47 Copynumber: 7.7 Consensus size: 46
30231596 GACGAGCGCT
* * * *
30231606 AGTGTAAGA-CATGTCTAGGACATCATGCATCAGCCTTGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACAT--GGCATC-GACTTGAGATGT-AGCC
* * * *
30231655 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
* * *
30231701 AGTGTAAGACCATATCTGGGACACGGCATCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* * * *
30231748 AGTTTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
* *
30231794 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAAACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* * * **
30231841 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTAAGAGATGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATG-TAGCC
30231887 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGT-AGCC
* *
30231934 AGTGTAAGACCGTGTCTGGGACATGGTATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
30231965 GTACCTTACC
Statistics
Matches: 257, Mismatches: 38, Indels: 32
0.79 0.12 0.10
Matches are distributed among these distances:
45 18 0.07
46 82 0.32
47 111 0.43
48 23 0.09
49 23 0.09
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAGCC
Found at i:30237471 original size:91 final size:94
Alignment explanation
Indices: 30237304--30237474 Score: 242
Period size: 91 Copynumber: 1.9 Consensus size: 94
30237294 CTTGTGTGAA
* *
30237304 CTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATTAGAGTCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATTAGAGTCAGTGTAAGACCATGTCA
* *
30237369 GGGGCTTGGCATCGGTATTGAGACGAATG
66 GGGACATGGCATCGGTATTGAGACGAATG
* * *
30237398 CTAGTGTAAGACATGTCTGGGACAT-CATCGGCTACGA-GA-T-GTGTCAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATTAGAGTCAGTGTAAGACCATGTC
30237459 AGGGACATGGCATCGG
65 AGGGACATGGCATCGG
30237475 CACATATATG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 33 0.48
92 1 0.01
93 9 0.13
94 26 0.38
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATTAGAGTCAGTGTAAGACCATGTCA
GGGACATGGCATCGGTATTGAGACGAATG
Found at i:30240303 original size:26 final size:25
Alignment explanation
Indices: 30240273--30240361 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 25
30240263 TTGTTATTAA
30240273 ATTTTAATAAGATTATTATTAAACAT
1 ATTTTAATAA-ATTATTATTAAACAT
** * *
30240299 ATTTTAATAAAAAATAATTTAATCAT
1 ATTTTAATAAATTATTA-TTAAACAT
* * *
30240325 ATTTTAACATAATTATTATTAAATAA
1 ATTTTAATA-AATTATTATTAAACAT
*
30240351 AATTTAATAAA
1 ATTTTAATAAA
30240362 ATAATATATG
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
25 6 0.12
26 37 0.77
27 5 0.10
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (25 bp):
ATTTTAATAAATTATTATTAAACAT
Found at i:30240340 original size:52 final size:54
Alignment explanation
Indices: 30240284--30240432 Score: 142
Period size: 52 Copynumber: 2.7 Consensus size: 54
30240274 TTTTAATAAG
* *
30240284 ATTATTATTAAACATATTTTAATAAAAAATA-AT-TTAATCATATT-TTAACATA
1 ATTATTATTAAA-ATATTTTAATAAAAAATATATATTAATAACATTCTTAACATA
* * *
30240336 ATTATTATTAAATAAAATTTAATAAAATAATATATGAATTAATAACATTCTTAATATA
1 ATTATTATTAAA-ATATTTTAATAAAA-AATATAT--ATTAATAACATTCTTAACATA
* *
30240394 ATTATTATTAAAATATGAATTAATAAAAAACATAATATT
1 ATTATTATTAAAATAT--TTTAATAAAAAATAT-ATATT
30240433 TAGTCAGAGG
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
52 24 0.31
53 4 0.05
54 2 0.03
57 14 0.18
58 23 0.29
59 11 0.14
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (54 bp):
ATTATTATTAAAATATTTTAATAAAAAATATATATTAATAACATTCTTAACATA
Found at i:30245300 original size:37 final size:37
Alignment explanation
Indices: 30245221--30245296 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
30245211 ACAACTTCAT
*
30245221 ATTGCTATCCAAAAACAAGAATCATCACATCAACACA
1 ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
*
30245258 ATTGCTATCCAAAAACAATAATCATCACATC-ACAAA
1 ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
30245294 ATT
1 ATT
30245297 TGCTCAACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 7 0.19
37 30 0.81
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.22
Consensus pattern (37 bp):
ATTGCTATCCAAAAACAAGAATCATCACATCAACAAA
Found at i:30245702 original size:20 final size:20
Alignment explanation
Indices: 30245677--30245718 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30245667 TCAAGTGACA
* *
30245677 AAAATTCAAGCAGAAGAGTC
1 AAAATTCAAACAGAAAAGTC
30245697 AAAATTCAAACAGAAAAGTC
1 AAAATTCAAACAGAAAAGTC
30245717 AA
1 AA
30245719 TATGCAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAATTCAAACAGAAAAGTC
Found at i:30247832 original size:11 final size:11
Alignment explanation
Indices: 30247816--30247856 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
30247806 CTACAGACAC
30247816 ATTCGACAATG
1 ATTCGACAATG
*
30247827 ATTCGATAATG
1 ATTCGACAATG
30247838 ATTCGACAATG
1 ATTCGACAATG
30247849 ATTCGACA
1 ATTCGACA
30247857 TTTGAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (11 bp):
ATTCGACAATG
Found at i:30262678 original size:23 final size:23
Alignment explanation
Indices: 30262647--30262692 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30262637 TGCTTGCCTT
*
30262647 TAAGTAATAAACATGCAAGAAAA
1 TAAGAAATAAACATGCAAGAAAA
*
30262670 TAAGAAATAAACATGTAAGAAAA
1 TAAGAAATAAACATGCAAGAAAA
30262693 GAAAATGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (23 bp):
TAAGAAATAAACATGCAAGAAAA
Found at i:30264204 original size:19 final size:19
Alignment explanation
Indices: 30264183--30264228 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
30264173 ATTAAACTAA
30264183 AAAAATAAA-AATCATTCC
1 AAAAATAAAGAATCATTCC
30264201 AAAAATAAAGAATCATTCC
1 AAAAATAAAGAATCATTCC
30264220 AAAAATAAA
1 AAAAATAAA
30264229 TTAAGTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAATAAAGAATCATTCC
Found at i:30264329 original size:12 final size:12
Alignment explanation
Indices: 30264314--30264352 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30264304 TTTACCCGTT
30264314 TCTTTCTCTGGA
1 TCTTTCTCTGGA
*
30264326 TCTTTCTCAGGA
1 TCTTTCTCTGGA
* *
30264338 TCTTCCTCTGAA
1 TCTTTCTCTGGA
30264350 TCT
1 TCT
30264353 GCCTTTCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.13, C:0.28, G:0.13, T:0.46
Consensus pattern (12 bp):
TCTTTCTCTGGA
Found at i:30268497 original size:19 final size:19
Alignment explanation
Indices: 30268473--30268517 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
30268463 TGAAACAGGG
* *
30268473 AAGGAATGAAGGAAA-AAGA
1 AAGGAAAGAAAGAAAGAA-A
30268492 AAGGAAAGAAAGAAAGAAA
1 AAGGAAAGAAAGAAAGAAA
30268511 AAGGAAA
1 AAGGAAA
30268518 AATTGGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAGAAA
Found at i:30269747 original size:20 final size:20
Alignment explanation
Indices: 30269706--30269748 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
30269696 ATGATTGTTA
* *
30269706 ATATCAATATTTATATAAAT
1 ATATCAATATTTAAAGAAAT
30269726 ATAT-AATATTTAAAGAAGAT
1 ATATCAATATTTAAAGAA-AT
30269746 ATA
1 ATA
30269749 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATCAATATTTAAAGAAAT
Found at i:30271803 original size:42 final size:42
Alignment explanation
Indices: 30271734--30271848 Score: 101
Period size: 42 Copynumber: 2.7 Consensus size: 42
30271724 AAGTGCTTAA
* *
30271734 AGAAACCCATAAGGGTTGAA-TGAAAGCTCGTA-AGAACTGAAT
1 AGAAACCCAT-AGGGTTAAACAG-AAGCTCGTATAGAACTGAAT
* * * *
30271776 GGAAACCCATGAGGGTTTAACAGAAGCTC-AATAGAGCTGAAT
1 AGAAACCCAT-AGGGTTAAACAGAAGCTCGTATAGAACTGAAT
* *
30271818 AGAAACTCATATGAGTTAAACAGAAGCTCGT
1 AGAAACCCATA-GGGTTAAACAGAAGCTCGT
30271849 GAGAGCTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 55 0.95
43 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (42 bp):
AGAAACCCATAGGGTTAAACAGAAGCTCGTATAGAACTGAAT
Found at i:30274907 original size:35 final size:35
Alignment explanation
Indices: 30274855--30274926 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
30274845 ACACTTTTGC
30274855 AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
1 AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
*
30274890 AATAGAGT-CTTTCGAATTTGTGCAATCTAAAGGAT
1 AATAGAGTCCTTT-GAATTTGTGCAACCTAAAGGAT
30274925 AA
1 AA
30274927 GAAAAATGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (35 bp):
AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
Found at i:30280048 original size:22 final size:24
Alignment explanation
Indices: 30280005--30280048 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30279995 AAACCTTAAG
*
30280005 AAACGTGCCAAAGACAGTAGACAT
1 AAACGTGCCAAAGACAGCAGACAT
30280029 AAACGTGCC-AA-ACAGCAGAC
1 AAACGTGCCAAAGACAGCAGAC
30280049 CTAATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 2 0.11
24 9 0.47
ACGTcount: A:0.45, C:0.25, G:0.20, T:0.09
Consensus pattern (24 bp):
AAACGTGCCAAAGACAGCAGACAT
Found at i:30280289 original size:12 final size:13
Alignment explanation
Indices: 30280272--30280301 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
30280262 AAAATTACTA
30280272 AAAATTAAAAA-T
1 AAAATTAAAAATT
30280284 AAAATTAAAAATT
1 AAAATTAAAAATT
30280297 AAAAT
1 AAAAT
30280302 ATTTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:30290360 original size:68 final size:68
Alignment explanation
Indices: 30290241--30290367 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
30290231 CTTTCCAAGG
**
30290241 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
30290306 TTC
66 TTC
** *
30290309 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
30290368 GTTTATAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
67 1 0.02
68 52 0.98
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
TTC
Found at i:30290728 original size:76 final size:75
Alignment explanation
Indices: 30290426--30290765 Score: 415
Period size: 76 Copynumber: 4.5 Consensus size: 75
30290416 TTTGTTTTTC
*
30290426 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
30290490 TGTTGTTAAAAAA
65 TGTT-TT-AAAAA
** *
30290503 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
30290568 GTTTT---CA
66 GTTTTAAAAA
* * * * *
30290575 AAATTCAACTTATATTGCGAG-GAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
30290639 TATTTTCAAAAA
65 TGTTTT-AAAAA
* *
30290651 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
*
30290715 TCTGTTTT-TAAA
63 TCTGTTTTAAAAA
* *
30290727 AAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
30290766 ATTACACACT
Statistics
Matches: 229, Mismatches: 23, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
72 63 0.28
75 1 0.00
76 77 0.34
77 61 0.27
78 27 0.12
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAAA
Found at i:30290785 original size:76 final size:73
Alignment explanation
Indices: 30290408--30290765 Score: 395
Period size: 72 Copynumber: 4.8 Consensus size: 73
30290398 GAGTTAAGCC
* * *
30290408 TTTT-AATTTTTGTTTTT-CAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
30290471 CTGAGGTAA
66 CTGAGGT-A
* **
30290480 TTTT-AATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGA
1 TTTTCAATTTCTGTT-TT---TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
30290544 CACGCTGAGGTA
62 CACGCTGAGGTA
* * * * * *
30290556 ATTTCAATTTCTG-TTTTCAAAATTCAACTTATATTGCGAG-GAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCAGGACAC
*
30290619 GTTGAGGTA
65 GCTGAGGTA
* * *
30290628 TTTTCAATTTCTATTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTT
1 TTTTCAATTTCTGTTTT---TAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
*
30290692 CACATGCTGAGGTA
61 -ACACGCTGAGGTA
*
30290706 TTTTCAATTTCTGTTTTTAAAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGTTTTTAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
30290766 ATTACACACT
Statistics
Matches: 242, Mismatches: 27, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
72 72 0.30
73 5 0.02
75 8 0.03
76 71 0.29
77 59 0.24
78 27 0.11
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:30291207 original size:88 final size:87
Alignment explanation
Indices: 30290987--30291233 Score: 291
Period size: 88 Copynumber: 2.8 Consensus size: 87
30290977 TGTTTTAATT
* *
30290987 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--TCGAGGTATTTTCAATT--TCT
* * *
30291051 CTTTTGATTTCTGTTTTTCAAAAAAAA
62 GTTTTCATTTATGTTTTT-AAAAAAAA
* *
30291078 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATCGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATCGAGGTATTTTCAATTTCTGTTT
* *
30291143 TCATTATTATGTTTTT-GAAAGAA
66 TCA-T-TTATGTTTTTAAAAAAAA
** * * *
30291166 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATCGAGGTATTTTCAATTTCTGTTT
30291231 TCA
66 TCA
30291234 AAATTCAACT
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
87 1 0.01
88 71 0.52
89 16 0.12
90 9 0.07
91 40 0.29
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (87 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATCGAGGTATTTTCAATTTCTGTTT
TCATTTATGTTTTTAAAAAAAA
Found at i:30291350 original size:73 final size:72
Alignment explanation
Indices: 30291166--30291419 Score: 384
Period size: 73 Copynumber: 3.5 Consensus size: 72
30291156 TTTGAAAGAA
*
30291166 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
30291231 TCAAAAT
66 TCAAAAT
*
30291238 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
30291303 TTCAAAAT
65 TTCAAAAT
* * *
30291311 TCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT-
** *
30291376 TAAAAAAAAA
65 T--TCAAAAT
30291386 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
30291420 GTTCACATGT
Statistics
Matches: 167, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
72 62 0.37
73 69 0.41
74 3 0.02
75 33 0.20
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:30292226 original size:93 final size:93
Alignment explanation
Indices: 30292116--30292300 Score: 343
Period size: 93 Copynumber: 2.0 Consensus size: 93
30292106 ACTACCCCAA
*
30292116 CCCATTAACCTAAACTCAGCATTCAGAAACCCTAATCCCACTAACCCTAGCCACCTACCCCCCAC
1 CCCATTAACCTAAACTCAGCATTCAGAAACCCTAATCCCACTAACCCTAGACACCTACCCCCCAC
30292181 TTGCCCACTTGCGCCGAACACCACCATC
66 TTGCCCACTTGCGCCGAACACCACCATC
*
30292209 CCCATTAACCTAAACTCAGCATTTAGAAACCCTAATCCCACTAACCCTAGACACCTACCCCCCAC
1 CCCATTAACCTAAACTCAGCATTCAGAAACCCTAATCCCACTAACCCTAGACACCTACCCCCCAC
*
30292274 TTGCCCACTTGCGCTGAACACCACCAT
66 TTGCCCACTTGCGCCGAACACCACCAT
30292301 GTCGGCTACC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.30, C:0.44, G:0.08, T:0.18
Consensus pattern (93 bp):
CCCATTAACCTAAACTCAGCATTCAGAAACCCTAATCCCACTAACCCTAGACACCTACCCCCCAC
TTGCCCACTTGCGCCGAACACCACCATC
Found at i:30292463 original size:141 final size:141
Alignment explanation
Indices: 30292209--30292489 Score: 535
Period size: 141 Copynumber: 2.0 Consensus size: 141
30292199 CACCACCATC
*
30292209 CCCATTAACCTAAACTCAGCATTTAGAAACCCTAATCCCACTAACCCTAGACACCTACCCCCCAC
1 CCCATTAACCTAAACTCAGCATTCAGAAACCCTAATCCCACTAACCCTAGACACCTACCCCCCAC
*
30292274 TTGCCCACTTGCGCTGAACACCACCATGTCGGCTACCACGCCCCATGCTTCTGCCAACACCATCC
66 TTGCCCACTTGCGCCGAACACCACCATGTCGGCTACCACGCCCCATGCTTCTGCCAACACCATCC
30292339 CCGCATGCCTA
131 CCGCATGCCTA
*
30292350 CCCATTAACCTAAACTCAGCATTCAGAAACCCTAATCCCACTAACCCTAGCCACCTACCCCCCAC
1 CCCATTAACCTAAACTCAGCATTCAGAAACCCTAATCCCACTAACCCTAGACACCTACCCCCCAC
30292415 TTGCCCACTTGCGCCGAACACCACCATGTCGGCTACCACGCCCCATGCTTCTGCCAACACCATCC
66 TTGCCCACTTGCGCCGAACACCACCATGTCGGCTACCACGCCCCATGCTTCTGCCAACACCATCC
30292480 CCGCATGCCT
131 CCGCATGCCT
30292490 GGCACCTCCA
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 137 1.00
ACGTcount: A:0.26, C:0.45, G:0.11, T:0.19
Consensus pattern (141 bp):
CCCATTAACCTAAACTCAGCATTCAGAAACCCTAATCCCACTAACCCTAGACACCTACCCCCCAC
TTGCCCACTTGCGCCGAACACCACCATGTCGGCTACCACGCCCCATGCTTCTGCCAACACCATCC
CCGCATGCCTA
Found at i:30296594 original size:13 final size:13
Alignment explanation
Indices: 30296576--30296605 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30296566 TTCTTGTAAA
30296576 CATTTCACATAAC
1 CATTTCACATAAC
*
30296589 CATTTCATATAAC
1 CATTTCACATAAC
30296602 CATT
1 CATT
30296606 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCACATAAC
Found at i:30296758 original size:46 final size:46
Alignment explanation
Indices: 30296704--30296870 Score: 255
Period size: 46 Copynumber: 3.6 Consensus size: 46
30296694 TGCTATAGTG
* *
30296704 TCTTTCAACCATGGTCTTATTCATTTTC-TGTCATGTTGCCATCGTA
1 TCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTTGCCATGGTA
**
30296750 TCTTTCAACCATGGTCTTATTCATTTCATGTCACCCTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
*
30296796 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
**
30296842 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTATTCATTTCAT
30296871 ATCAGAGAGC
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.04
46 107 0.96
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
Found at i:30300711 original size:20 final size:20
Alignment explanation
Indices: 30300670--30300712 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
30300660 ATACAATTTT
* *
30300670 TTTATTTTTCTAACATGAAA
1 TTTATTTATCTAAAATGAAA
30300690 TTTATTTAT-TAAAATGATAA
1 TTTATTTATCTAAAATGA-AA
30300710 TTT
1 TTT
30300713 TATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTATTTATCTAAAATGAAA
Found at i:30309019 original size:21 final size:22
Alignment explanation
Indices: 30308973--30309025 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
30308963 TGCAGGGCTC
* *
30308973 ACACGCCCATGTGATCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
30308995 ACACGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
*
30309016 ACACACCCGT
1 ACACGCCCGT
30309026 AATGGAGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:30334200 original size:43 final size:43
Alignment explanation
Indices: 30334132--30334226 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
30334122 TCCTAGATAG
* * *
30334132 GGTCTTACACGTATTCGATTAACAATGCCAATGTCCCAAACAT
1 GGTCTTACACGTAATCGATAAACAATGCCAATATCCCAAACAT
30334175 GGTCTTACACGTAATC-ATAATACAATGCCAATATCCCAAACAT
1 GGTCTTACACGTAATCGATAA-ACAATGCCAATATCCCAAACAT
30334218 GGTCTTACA
1 GGTCTTACA
30334227 TGTTATCACA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 3 0.06
43 45 0.94
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATCGATAAACAATGCCAATATCCCAAACAT
Found at i:30338218 original size:21 final size:21
Alignment explanation
Indices: 30338194--30338233 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30338184 ATTTAACATC
*
30338194 AATTTAATACAATTCATATTT
1 AATTCAATACAATTCATATTT
*
30338215 AATTCAATCCAATTCATAT
1 AATTCAATACAATTCATAT
30338234 CTTAGGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTCAATACAATTCATATTT
Found at i:30338584 original size:23 final size:23
Alignment explanation
Indices: 30338557--30338604 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
30338547 AATTAATCCC
30338557 TAAGATAGCTAGATTAAAGCTAT
1 TAAGATAGCTAGATTAAAGCTAT
30338580 TAAGATAGCTAGATTAAAGCTAT
1 TAAGATAGCTAGATTAAAGCTAT
30338603 TA
1 TA
30338605 TGATCTCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (23 bp):
TAAGATAGCTAGATTAAAGCTAT
Found at i:30341356 original size:21 final size:21
Alignment explanation
Indices: 30341332--30341386 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
30341322 GTCATAGAGA
30341332 CACACGGGCGTGTCCCTAAAC
1 CACACGGGCGTGTCCCTAAAC
*
30341353 CACACGGGCGTGTCTCTAAAC
1 CACACGGGCGTGTCCCTAAAC
*
30341374 CACACGGGTGTGT
1 CACACGGGCGTGT
30341387 GGTACTGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (21 bp):
CACACGGGCGTGTCCCTAAAC
Found at i:30342033 original size:29 final size:29
Alignment explanation
Indices: 30341991--30342046 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
30341981 GAGCAGTAGG
30341991 AACTATACCTACTATGACTTCTACTCCGA
1 AACTATACCTACTATGACTTCTACTCCGA
30342020 AACTATACCTACTATGACTTCTACTCC
1 AACTATACCTACTATGACTTCTACTCC
30342047 TACTACTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.32, G:0.05, T:0.32
Consensus pattern (29 bp):
AACTATACCTACTATGACTTCTACTCCGA
Found at i:30344938 original size:28 final size:28
Alignment explanation
Indices: 30344896--30344967 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
30344886 ATCTTCGATG
30344896 TCTCGCACACTAAGTGCCATACTTAATA
1 TCTCGCACACTAAGTGCCATACTTAATA
* * *
30344924 TCTCGCACACCAAGTGCCGTTCTTAATA
1 TCTCGCACACTAAGTGCCATACTTAATA
* *
30344952 TTTCGCATACTAAGTG
1 TCTCGCACACTAAGTG
30344968 TCACACATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTTAATA
Found at i:30345024 original size:46 final size:45
Alignment explanation
Indices: 30344954--30345102 Score: 182
Period size: 46 Copynumber: 3.4 Consensus size: 45
30344944 TCTTAATATT
* * *
30344954 TCGCATACTAAGTGTCACACATATATATAGCCGAAGCTATCTCAAA
1 TCGCACACCAAGTGCCACA-ATATATATAGCCGAAGCTATCTCAAA
*
30345000 TCGCACACCAAGTGCCACATATATATATAGTCGAAGCTATCTCAAA
1 TCGCACACCAAGTGCCACA-ATATATATAGCCGAAGCTATCTCAAA
*
30345046 TCGCACACCAAGTGCCAC---AT-T-TAGCCGAAGCTATTTCAAA
1 TCGCACACCAAGTGCCACAATATATATAGCCGAAGCTATCTCAAA
* *
30345086 CCGCACACTAAGTGCCA
1 TCGCACACCAAGTGCCA
30345103 TTCATAGCCG
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 32 0.34
41 1 0.01
42 2 0.02
46 59 0.63
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (45 bp):
TCGCACACCAAGTGCCACAATATATATAGCCGAAGCTATCTCAAA
Found at i:30345111 original size:40 final size:40
Alignment explanation
Indices: 30344980--30345113 Score: 137
Period size: 40 Copynumber: 3.2 Consensus size: 40
30344970 ACACATATAT
*
30344980 ATAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCACATATATAT
1 ATAGCCGAAGCTATCTCAAATCGCACACCAAGTG-C-C--AT-T-C
*
30345026 ATAGTCGAAGCTATCTCAAATCGCACACCAAGTGCCA--C
1 ATAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTC
* * *
30345064 ATTTAGCCGAAGCTATTTCAAACCGCACACTAAGTGCCATTC
1 A--TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTC
30345106 ATAGCCGA
1 ATAGCCGA
30345114 TATGTCGTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
38 1 0.01
40 39 0.50
42 3 0.04
44 1 0.01
45 1 0.01
46 33 0.42
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTC
Done.