Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 115 of 310
Found at i:36927289 original size:75 final size:75
Alignment explanation
Indices: 36927166--36927315 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
36927156 ATTATTGAAA
**
36927166 ATAAAAACCAAAATATATTGCAAGTGCCAAGACTTGAACCTTGGACCCCTTGCTTTCTTTATGGC
1 ATAAAAACCAAAATATATTAAAAGTGCCAAGACTTGAACCTTGGACCCCTTGCTTTCTTTATGGC
36927231 GTCACTTCCT
66 GTCACTTCCT
36927241 ATAAAAACCAAAATATATTAAAAGTGCCAAGACTTGAACCTTGGACCCCTTGCTTTCTTTATGGC
1 ATAAAAACCAAAATATATTAAAAGTGCCAAGACTTGAACCTTGGACCCCTTGCTTTCTTTATGGC
36927306 GTCACTTCCT
66 GTCACTTCCT
36927316 TGTCCCCTAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (75 bp):
ATAAAAACCAAAATATATTAAAAGTGCCAAGACTTGAACCTTGGACCCCTTGCTTTCTTTATGGC
GTCACTTCCT
Found at i:36932318 original size:40 final size:40
Alignment explanation
Indices: 36932240--36932460 Score: 313
Period size: 40 Copynumber: 5.5 Consensus size: 40
36932230 ACCCAAGTAT
* *
36932240 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
36932279 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
36932319 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
36932359 CTACGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
36932399 CTTCGGGACTTAGCCCGGATATAG-CAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
36932439 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
36932461 CATCCGAATA
Statistics
Matches: 164, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.07
40 152 0.93
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:36938241 original size:46 final size:46
Alignment explanation
Indices: 36938191--36938363 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 46
36938181 TGGTTGAGCA
36938191 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
36938237 TCCGAACTCATTGAGTTGAGTCCGAG-T---TTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
36938282 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
36938330 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36938364 GGGGTGGGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 4 0.04
46 55 0.52
47 25 0.24
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36938347 original size:93 final size:93
Alignment explanation
Indices: 36938188--36938357 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
36938178 GGATGGTTGA
36938188 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
36938253 TGAGTCCGAGTTTGTGAAATGTAACTAG
66 TGAGTCCGAGTTTGTGAAATGTAACTAG
* *
36938281 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCATTGAG
36938345 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
36938358 CACTTAGGGG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
TGAGTCCGAGTTTGTGAAATGTAACTAG
Found at i:36943776 original size:46 final size:46
Alignment explanation
Indices: 36943726--36943898 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
36943716 TGGTTGAGCA
36943726 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
36943772 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
36943817 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36943865 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36943899 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36943882 original size:93 final size:93
Alignment explanation
Indices: 36943723--36943893 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
36943713 GGATGGTTGA
* *
36943723 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
36943788 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
36943816 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
36943881 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
36943894 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:36947207 original size:46 final size:46
Alignment explanation
Indices: 36947157--36947329 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
36947147 TGGTTGAGCA
*
36947157 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
36947203 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
** *
36947248 CATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
36947296 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36947330 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 57 0.55
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:36947313 original size:93 final size:93
Alignment explanation
Indices: 36947154--36947324 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
36947144 GGATGGTTGA
* * *
36947154 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
36947219 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
36947247 GCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
36947312 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
36947325 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36950789 original size:29 final size:29
Alignment explanation
Indices: 36950726--36950793 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
36950716 TAATCAACCG
*
36950726 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTCAAACT
* **
36950755 CACACACTTAGTGCCATGCA-TATCAAGTT
1 CGCACACTTAGTGCCATGCACT-TCAAACT
36950784 CGCACACTTA
1 CGCACACTTA
36950794 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTCAAACT
Found at i:36950934 original size:29 final size:30
Alignment explanation
Indices: 36950895--36950973 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
36950885 CTTAATAATC
36950895 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
36950925 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
36950954 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
36950974 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:36950967 original size:174 final size:174
Alignment explanation
Indices: 36950441--36950942 Score: 934
Period size: 174 Copynumber: 2.9 Consensus size: 174
36950431 AACTCAAGGT
* *
36950441 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
36950506 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
36950571 ACTTTAAACT-GACACACTTAGTGCCATGCATATCAAGTTCGCAC
131 ACTTTAAACTCG-CACACTTAGTGCCATGCATATCAAGTTCGCAC
36950615 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
36950680 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
36950745 ACTTTAAACTCACACACTTAGTGCCATGCATATCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATATCAAGTTCGCAC
36950789 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
36950854 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
36950919 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCGCACACTTAGTGC
36950943 TGTACAATTT
Statistics
Matches: 318, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
174 318 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCGCACACTTAGTGCCATGCATATCAAGTTCGCAC
Found at i:36957519 original size:60 final size:60
Alignment explanation
Indices: 36957434--36957590 Score: 287
Period size: 60 Copynumber: 2.6 Consensus size: 60
36957424 TAACGAGACA
*
36957434 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTG
1 TGATTTTGTGT-A-ACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTG
36957496 TGATTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTG
1 TGATTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTG
36957556 TGATTTTGTGTAACCATGTCTGGGACATTGGCATC
1 TGATTTTGTGTAACCATGTCTGGGACATTGGCATC
36957591 GTTATGTGAT
Statistics
Matches: 94, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
60 83 0.88
61 1 0.01
62 10 0.11
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (60 bp):
TGATTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTG
Found at i:36957592 original size:41 final size:41
Alignment explanation
Indices: 36957535--36957631 Score: 185
Period size: 41 Copynumber: 2.4 Consensus size: 41
36957525 GGCATCATAT
*
36957535 TGGGACATTGGCATCGTTTTGTGATTTTGTGTAACCATGTC
1 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTC
36957576 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTC
1 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTC
36957617 TGGGACATTGGCATC
1 TGGGACATTGGCATC
36957632 ATATTGGGAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (41 bp):
TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTC
Found at i:36957640 original size:60 final size:60
Alignment explanation
Indices: 36957576--36957758 Score: 312
Period size: 60 Copynumber: 3.0 Consensus size: 60
36957566 TAACCATGTC
36957576 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATAT
1 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATAT
*
36957636 TGGGACATTGGCATCGTTTTGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATAT
1 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATAT
* *
36957696 TGGGACATTGGCATCGTTATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGGATCGATAT
1 TGGGACATTGGCATCGTTATGTGATTTTGTGT-A-ACCATGTCTGGGACATTGGCATC-ATAT
36957759 GTGATAACAT
Statistics
Matches: 116, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
60 89 0.77
61 1 0.01
62 22 0.19
63 4 0.03
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (60 bp):
TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATAT
Found at i:36957650 original size:101 final size:101
Alignment explanation
Indices: 36957475--36957691 Score: 425
Period size: 101 Copynumber: 2.1 Consensus size: 101
36957465 GGCATCATAT
*
36957475 TGGGACATTGGCATCGTTTTGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGA
1 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGA
36957540 CATTGGCATCGTTTTGTGATTTTGTGTAACCATGTC
66 CATTGGCATCGTTTTGTGATTTTGTGTAACCATGTC
36957576 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGA
1 TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGA
36957641 CATTGGCATCGTTTTGTGATTTTGTGTAACCATGTC
66 CATTGGCATCGTTTTGTGATTTTGTGTAACCATGTC
36957677 TGGGACATTGGCATC
1 TGGGACATTGGCATC
36957692 ATATTGGGAC
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 115 1.00
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.38
Consensus pattern (101 bp):
TGGGACATTGGCATCGTTATGTGATTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGA
CATTGGCATCGTTTTGTGATTTTGTGTAACCATGTC
Found at i:36957713 original size:161 final size:165
Alignment explanation
Indices: 36957434--36957800 Score: 591
Period size: 161 Copynumber: 2.3 Consensus size: 165
36957424 TAACGAGACA
36957434 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTGTGA
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTGTGA
* *
36957499 TTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTGTGATTTTG
66 TTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTATGTGATTTCG
*
36957564 TGT-A-ACCATGTCTGGGACATTGGCATCGTTATG
131 TGTAAGACCATGTCTGGGACATTGGCATCGATATG
*
36957597 TGATTTTGTGT-A-ACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTGTGA
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTGTGA
36957660 TTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTATGTGATTTCG
66 TTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTATGTGATTTCG
*
36957725 TGTAAGACCATGTCTGGGACATTGGGATCGATATG
131 TGTAAGACCATGTCTGGGACATTGGCATCGATATG
* ** * * * *
36957760 TGATAACATGAAAGACCATATCTGGGATA-TGGCATTATATT
1 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATATT
36957801 TGCTATATGT
Statistics
Matches: 187, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
161 117 0.63
162 2 0.01
163 43 0.23
164 12 0.06
165 13 0.07
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.36
Consensus pattern (165 bp):
TGATTATGTGTAAGACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTTTGTGA
TTTTGTGTAACCATGTCTGGGACATTGGCATCATATTGGGACATTGGCATCGTTATGTGATTTCG
TGTAAGACCATGTCTGGGACATTGGCATCGATATG
Found at i:36957760 original size:43 final size:43
Alignment explanation
Indices: 36957691--36957794 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 43
36957681 ACATTGGCAT
* ** * *
36957691 CATAT-TGGGACATTGGCATCGTTATGTGATTTCGTGTAAGAC
1 CATATCTGGGACATTGGCATCGATATGTGATAACATGAAAGAC
* *
36957733 CATGTCTGGGACATTGGGATCGATATGTGATAACATGAAAGAC
1 CATATCTGGGACATTGGCATCGATATGTGATAACATGAAAGAC
*
36957776 CATATCTGGGATA-TGGCAT
1 CATATCTGGGACATTGGCAT
36957795 TATATTTGCT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 9 0.18
43 42 0.82
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (43 bp):
CATATCTGGGACATTGGCATCGATATGTGATAACATGAAAGAC
Found at i:36963209 original size:67 final size:67
Alignment explanation
Indices: 36963088--36963241 Score: 256
Period size: 67 Copynumber: 2.3 Consensus size: 67
36963078 CACCACAGAA
* *
36963088 ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCGGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
36963153 AG
66 AG
*
36963155 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCAGATACAGATAT-TGTGGCGAGGCCAC
36963219 CAG
65 CAG
*
36963222 ATTGCAACGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
36963242 ACACTTCCTC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 8 0.10
67 74 0.90
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.18
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATAGTGACGAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
AG
Found at i:36963219 original size:27 final size:26
Alignment explanation
Indices: 36963171--36963222 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
36963161 GCGAGGCTGC
*
36963171 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
36963197 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
36963223 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36971390 original size:55 final size:55
Alignment explanation
Indices: 36971310--36971434 Score: 162
Period size: 55 Copynumber: 2.3 Consensus size: 55
36971300 GTTAATTTAA
* *
36971310 CAGGTTCGACCACGGGTGTTCCACACGGGCATGTCAAACACCCGT-TCTGTTTTGG
1 CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGT-TGTTTTGG
* * ** *
36971365 CAGGCTCGACCACGGTTCTTTCACACGGGCATGTCGCACACCTGTGTTGTTTTGG
1 CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGTTGTTTTGG
*
36971420 CAGGCTTGACCACGG
1 CAGGCTCGACCACGG
36971435 CCATATAGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 60 0.98
56 1 0.02
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.26
Consensus pattern (55 bp):
CAGGCTCGACCACGGGTCTTCCACACGGGCATGTCAAACACCCGTGTTGTTTTGG
Found at i:36975069 original size:14 final size:15
Alignment explanation
Indices: 36975045--36975073 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36975035 AGGTATCAAA
36975045 ACAATAATTAAGAAC
1 ACAATAATTAAGAAC
36975060 ACAA-AATTAAGAAC
1 ACAATAATTAAGAAC
36975074 TAGTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (15 bp):
ACAATAATTAAGAAC
Found at i:36976874 original size:24 final size:26
Alignment explanation
Indices: 36976842--36976901 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 26
36976832 TCATTGATGG
* *
36976842 TGAATTGGTTATTTAGGTACA-G-TT
1 TGAAATGGTTATTAAGGTACATGTTT
* *
36976866 TGAAATGGTAATTAATGTACATGTTT
1 TGAAATGGTTATTAAGGTACATGTTT
*
36976892 TTAAATGGTT
1 TGAAATGGTT
36976902 TGGTTTGATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 17 0.61
25 1 0.04
26 10 0.36
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (26 bp):
TGAAATGGTTATTAAGGTACATGTTT
Found at i:36984843 original size:46 final size:46
Alignment explanation
Indices: 36984671--36984840 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 46
36984661 TGTAACCCGC
* * *
36984671 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGAAT
* * *
36984717 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-GGA-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAT-TCGA-AT
* *** *
36984763 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAAT
36984810 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
36984841 TTCAGATGCC
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 61 0.60
47 29 0.29
48 5 0.05
49 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGAAT
Found at i:36984979 original size:50 final size:50
Alignment explanation
Indices: 36984913--36985013 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
36984903 CGGGACCTTT
* *
36984913 TTCCTAATCATGTGTCTCAACCATCTTC-AAGGAATGCCAGATACCGATAC
1 TTCCCAATCATATGTCTCAACCATCTTCTAAGGAATGCC-GATACCGATAC
* *
36984963 TTCCCAATCATATGTCTCAACCATGTTCTATGGAATGCCGATACCGATAC
1 TTCCCAATCATATGTCTCAACCATCTTCTAAGGAATGCCGATACCGATAC
36985013 T
1 T
36985014 CGGTAGTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 37 0.80
51 9 0.20
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (50 bp):
TTCCCAATCATATGTCTCAACCATCTTCTAAGGAATGCCGATACCGATAC
Found at i:36987385 original size:15 final size:15
Alignment explanation
Indices: 36987361--36987408 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
36987351 AGGAAACTGA
36987361 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
36987376 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
36987390 AATAAAGAAACCCAAG
1 -ATAAAGAAATCCAAG
36987406 ATA
1 ATA
36987409 CGATACTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:36990480 original size:93 final size:93
Alignment explanation
Indices: 36990373--36990544 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
36990363 GCCCATAAGT
* * *
36990373 GAACTCGGACTCAACTCAATGAGCTC-GAGCGTTTGCAGCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAATGAGCTCGGA-CATTCGCAGCCATAAGTGAACTCGGACTCAACTCA
36990437 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
36990466 GAACTCAGACTCAACTCAATGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAATGAGCTCGGACATTCGCAGCCATAAGTGAACTCGGACTCAACTCAA
*
36990531 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
36990545 CAAATATCCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAATGAGCTCGGACATTCGCAGCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:36990524 original size:46 final size:46
Alignment explanation
Indices: 36990365--36990536 Score: 136
Period size: 46 Copynumber: 3.7 Consensus size: 46
36990355 TGTAACCCGC
* * * * * *
36990365 CCATAAGTGAACTCGGACTCAACTCAATGAG-CTCGAGCGTTTGCAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGA-CATTCGCAT
* * *
36990411 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGC-A--T
* *** * *
36990457 ACATCTCTCGAACTCAGACTCAACTCAATGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
36990504 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
36990537 CGGATGCCCA
Statistics
Matches: 95, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 57 0.60
47 30 0.32
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
Found at i:36990672 original size:49 final size:49
Alignment explanation
Indices: 36990598--36990694 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
36990588 AAGGTTCAAC
* *
36990598 GGGACCTTTTTCCCAATCATGTGTCTCAACCATCTTCTACGGAATGCCT
1 GGGACATTTTTCCCAATCATATGTCTCAACCATCTTCTACGGAATGCCT
* *
36990647 GGGACATTTTTCCCAATCATATGTCTCAACCATGTTCTATGGAATGCC
1 GGGACATTTTTCCCAATCATATGTCTCAACCATCTTCTACGGAATGCC
36990695 GATACCGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (49 bp):
GGGACATTTTTCCCAATCATATGTCTCAACCATCTTCTACGGAATGCCT
Found at i:36991238 original size:79 final size:79
Alignment explanation
Indices: 36991147--36991304 Score: 271
Period size: 79 Copynumber: 2.0 Consensus size: 79
36991137 GGCAACATCA
* * *
36991147 AATTCTCCCTCTAACATGTACTTATGACTATTAGGTATTTTTACCGATTAAGCCCTTTTGCTAGT
1 AATTCTCACTCTAACATATACTTATGACTATTAGGTATTTTTACCGATTAAGCCCTTTCGCTAGT
*
36991212 TTTCGCTTAAAACC
66 TTTCACTTAAAACC
*
36991226 AATTCTCACTCTAACATATACTTATGACTATTAGGTATTTTTACCGATTAAGCCCTTTCGCTCGT
1 AATTCTCACTCTAACATATACTTATGACTATTAGGTATTTTTACCGATTAAGCCCTTTCGCTAGT
36991291 TTTCACTTAAAACC
66 TTTCACTTAAAACC
36991305 GAATAGCACA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (79 bp):
AATTCTCACTCTAACATATACTTATGACTATTAGGTATTTTTACCGATTAAGCCCTTTCGCTAGT
TTTCACTTAAAACC
Found at i:37003043 original size:11 final size:11
Alignment explanation
Indices: 37003029--37003053 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37003019 CCTAAAGATG
37003029 AAATAAAATAA
1 AAATAAAATAA
37003040 AAATAAAATAA
1 AAATAAAATAA
37003051 AAA
1 AAA
37003054 ATAGATTTTA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:37009415 original size:19 final size:18
Alignment explanation
Indices: 37009374--37009417 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
37009364 GGCCGTGTTG
37009374 ATTTC-CCATGTTGGCCC
1 ATTTCTCCATGTTGGCCC
*
37009391 ATTTTCTCCATTTTCGGCCC
1 A-TTTCTCCATGTT-GGCCC
37009411 ATTTCTC
1 ATTTCTC
37009418 ACTCTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 12 0.52
20 6 0.26
ACGTcount: A:0.11, C:0.34, G:0.11, T:0.43
Consensus pattern (18 bp):
ATTTCTCCATGTTGGCCC
Found at i:37015800 original size:21 final size:22
Alignment explanation
Indices: 37015759--37015802 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
37015749 TTCCTCCTTC
*
37015759 TCTTCTTCTCTTCTTGATTCTT
1 TCTTCTTCTCTTCATGATTCTT
37015781 TCTT-TTCTCTTCAATG-TTCTT
1 TCTTCTTCTCTTC-ATGATTCTT
37015802 T
1 T
37015803 TTTGTGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.07, C:0.25, G:0.05, T:0.64
Consensus pattern (22 bp):
TCTTCTTCTCTTCATGATTCTT
Found at i:37025969 original size:51 final size:52
Alignment explanation
Indices: 37025890--37025992 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 52
37025880 TTTGGGCAAT
* * *
37025890 TGATCTTTGAGCATTCAGATTTGGGTACAAGGGT-TTTCCTCTCTTTCCCTC
1 TGATCTTTGAGCAATCAGATTTGAGTACAAGGGTCTTTCCTATCTTTCCCTC
* *
37025941 TGATCTTTGATCAATCAGATTTGAGTACAAGGTTCTTTCCTATCTTTCCCTC
1 TGATCTTTGAGCAATCAGATTTGAGTACAAGGGTCTTTCCTATCTTTCCCTC
37025993 ACATTTAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 30 0.65
52 16 0.35
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (52 bp):
TGATCTTTGAGCAATCAGATTTGAGTACAAGGGTCTTTCCTATCTTTCCCTC
Found at i:37039922 original size:27 final size:27
Alignment explanation
Indices: 37039892--37039955 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
37039882 CACGAGCGTG
*
37039892 TGGGCCTATTTGGGCCGAGAAGGGCTT
1 TGGGCCCATTTGGGCCGAGAAGGGCTT
*
37039919 TGGGCCCATTTGGGTCGAGAAGGGCTT
1 TGGGCCCATTTGGGCCGAGAAGGGCTT
*
37039946 TAGGCCCATT
1 TGGGCCCATT
37039956 CGTATTGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.20, G:0.38, T:0.27
Consensus pattern (27 bp):
TGGGCCCATTTGGGCCGAGAAGGGCTT
Found at i:37040022 original size:26 final size:27
Alignment explanation
Indices: 37039993--37040118 Score: 96
Period size: 27 Copynumber: 4.7 Consensus size: 27
37039983 TTAGTTTACC
37039993 AAATTACTAAAATACCCTCAG-TTGTA
1 AAATTACTAAAATACCCTCAGTTTGTA
* * * * *
37040019 AAATTACCAAAGTATCCTCGGTTTATA
1 AAATTACTAAAATACCCTCAGTTTGTA
** * *
37040046 AAATTACCCAAATATCCT-TGATTTGTA
1 AAATTACTAAAATACCCTCAG-TTTGTA
* *
37040073 AAATTA-TCGAAATACCCTCAGTTTGCA
1 AAATTACT-AAAATACCCTCAGTTTGTA
* *
37040100 AAAATACTGAAATACCCTC
1 AAATTACTAAAATACCCTC
37040119 GATTTACAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
26 18 0.22
27 60 0.75
28 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCAGTTTGTA
Found at i:37040051 original size:27 final size:27
Alignment explanation
Indices: 37040017--37040132 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 27
37040007 CCCTCAGTTG
*
37040017 TAAAATTA-CCAAAGTATCCTCGGTTTA
1 TAAAATTACCCAAA-TATCCTCGATTTA
* *
37040044 TAAAATTACCCAAATATCCTTGATTTG
1 TAAAATTACCCAAATATCCTCGATTTA
* * * *
37040071 TAAAATTATCGAAATACCCTC-AGTTTG
1 TAAAATTACCCAAATATCCTCGA-TTTA
* * ** *
37040098 CAAAAATACTGAAATACCCTCGATTTA
1 TAAAATTACCCAAATATCCTCGATTTA
*
37040125 CAAAATTA
1 TAAAATTA
37040133 GTGTTTTACC
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.01
27 66 0.90
28 6 0.08
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TAAAATTACCCAAATATCCTCGATTTA
Found at i:37040142 original size:27 final size:27
Alignment explanation
Indices: 37040112--37040467 Score: 400
Period size: 27 Copynumber: 13.2 Consensus size: 27
37040102 AATACTGAAA
*
37040112 TACCCTCGATTTACAAAATTAGTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
37040139 TACCCTCGATTGA-AAGAATTACCGTTT
1 TACCCTCGATTTACAA-AATTACTGTTT
* * *
37040166 TACCCTCGATTGACAGAATTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* *
37040193 TAACCTCGATTGA-AAGAATTACTGTTT
1 TACCCTCGATTTACAA-AATTACTGTTT
* *
37040220 TAACATCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* *
37040247 TACCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
*
37040274 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
37040301 TACCCTCAATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
37040328 TACCCTCGATTGACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
37040355 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
37040382 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
37040409 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
37040436 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
37040463 TACCC
1 TACCC
37040468 CTAGGGTGTT
Statistics
Matches: 287, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.02
27 276 0.96
28 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:37040170 original size:81 final size:81
Alignment explanation
Indices: 37040112--37040467 Score: 452
Period size: 81 Copynumber: 4.4 Consensus size: 81
37040102 AATACTGAAA
* * *
37040112 TACCCTCGATTTACAAAATTAGTGTTTTACCCTCGATTGA-AAGAATTACCGTTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAA-AATTACCGTTTTACCCTCGAT
*
37040176 TGACAGAATTATCATTT
65 TGACAGAATTATGATTT
* * * * * *
37040193 TAACCTCGATTGA-AAGAATTACTGTTTTAACATCGATTTACAAAATTATCGTTTTACCCTCGAT
1 TACCCTCGATTTACAA-AATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGAT
* *
37040257 TTATAGAATTATCG-TTT
65 TGACAGAATTAT-GATTT
* * *
37040274 TACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
37040339 GACAGAATTACT-ATTT
66 GACAGAATTA-TGATTT
*
37040355 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
* *
37040420 TACAGAATTACCG-TTT
66 GACAGAATTA-TGATTT
* *
37040436 TACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACTATTTTACCC
37040468 CTAGGGTGTT
Statistics
Matches: 241, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 234 0.97
82 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
GACAGAATTATGATTT
Found at i:37040982 original size:31 final size:31
Alignment explanation
Indices: 37040947--37041019 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
37040937 TTGCATTCAC
* * *
37040947 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTGATACTG
*
37040978 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATACTG
37041009 ATTCTGATTCT
1 ATTCTGATTCT
37041020 TATTGTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATACTG
Found at i:37040986 original size:6 final size:6
Alignment explanation
Indices: 37040947--37041040 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
37040937 TTGCATTCAC
* * *
37040947 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
37040996 -TCACCTG ATTCTG ATTCTG ATTCTT ATTGTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
37041041 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:37049137 original size:19 final size:18
Alignment explanation
Indices: 37049104--37049139 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
37049094 AACTTGGCAC
*
37049104 CATAATCATTTAATTCAA
1 CATAATCAATTAATTCAA
37049122 CATAATTCAATTAATTCA
1 CATAA-TCAATTAATTCA
37049140 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (18 bp):
CATAATCAATTAATTCAA
Found at i:37056425 original size:40 final size:40
Alignment explanation
Indices: 37056301--37056465 Score: 165
Period size: 40 Copynumber: 4.1 Consensus size: 40
37056291 CGGAATTTAA
** * *
37056301 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCAGGACTTAGC
* * * *
37056341 CCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGC
* *
37056381 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGA-CTTAGC
* * *
37056421 CCGGATATGGTCACTTAGCACAAA-GCCTTCAGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCAGGACTTAGC
37056461 CCGGA
1 CCGGA
37056466 CATCATTCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 90 0.86
41 11 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGC
Found at i:37058939 original size:39 final size:40
Alignment explanation
Indices: 37058831--37059055 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
37058821 TTGAATGATG
* * * *
37058831 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
37058871 TCCGGACTAGGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37058911 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
37058950 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37058990 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37059031 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37059056 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37059069 original size:40 final size:40
Alignment explanation
Indices: 37058912--37059074 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
37058902 GATACTAATT
* ** *
37058912 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* * ** *
37058950 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
37058990 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
37059031 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
37059071 CCGG
1 CCGG
37059075 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 10 0.09
40 99 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:37059073 original size:80 final size:80
Alignment explanation
Indices: 37058905--37059088 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 80
37058895 TGTGCGAGAT
* * *
37058905 ACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
** *
37058969 GCAATTGTGCGAGTT
66 GCAATTGAACGAGTG
* *
37058984 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA
*
37059048 GGCATTTGAACGAG-G
65 GGCAATTGAACGAGTG
* * *
37059063 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
37059089 TACGTGATTT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 30 0.33
80 58 0.64
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
GCAATTGAACGAGTG
Found at i:37059728 original size:292 final size:292
Alignment explanation
Indices: 37059200--37059787 Score: 1124
Period size: 292 Copynumber: 2.0 Consensus size: 292
37059190 TGAGCCCTTA
37059200 CAAA-TAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTAAGTTGATCTTTTGTGT
1 CAAAGTAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTAAGTTGATCTTTTGTGT
37059264 ATGTACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATATGAAATTATC
66 ATGTACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATATGAAATTATC
37059329 CGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATTCCTTGCTCAAAACTTACTAAGCA
131 CGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATTCCTTGCTCAAAACTTACTAAGCA
* *
37059394 TAAAATGCTTACTCCGTTTCATTGCTCCTCTGTTTTATAGATTTTGGTTCTCCATCTATCGGACT
196 TAAAATGCTTACTCCGTTTCATTGCTCCTCTGTTTTATAGATTTTGGTTCTCCAGCTATCAGACT
37059459 CGGGATCTTGAAGTCAAAGTCACCCACACTAT
261 CGGGATCTTGAAGTCAAAGTCACCCACACTAT
37059491 CAAAGTAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTAAGTTGATCTTTTGTGT
1 CAAAGTAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTAAGTTGATCTTTTGTGT
37059556 ATGTACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATATGAAATTATC
66 ATGTACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATATGAAATTATC
37059621 CGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATTCCTTGCTCAAAACTTACTAAGCA
131 CGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATTCCTTGCTCAAAACTTACTAAGCA
37059686 TAAAATGCTTACTCCGTTTCATTGCTCCTCTGTTTTATAGATTTTGGTTCTCCAGCTATCAGACT
196 TAAAATGCTTACTCCGTTTCATTGCTCCTCTGTTTTATAGATTTTGGTTCTCCAGCTATCAGACT
* * *
37059751 CGGGATTTTGAAGTCGAAGTCGCCCACACTAT
261 CGGGATCTTGAAGTCAAAGTCACCCACACTAT
37059783 CAAAG
1 CAAAG
37059788 CCCCCCCTTT
Statistics
Matches: 291, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
291 4 0.01
292 287 0.99
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (292 bp):
CAAAGTAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTAAGTTGATCTTTTGTGT
ATGTACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATATGAAATTATC
CGTTTAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATTCCTTGCTCAAAACTTACTAAGCA
TAAAATGCTTACTCCGTTTCATTGCTCCTCTGTTTTATAGATTTTGGTTCTCCAGCTATCAGACT
CGGGATCTTGAAGTCAAAGTCACCCACACTAT
Found at i:37070232 original size:49 final size:49
Alignment explanation
Indices: 37070163--37070434 Score: 426
Period size: 49 Copynumber: 5.6 Consensus size: 49
37070153 GAAATGATAG
37070163 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
37070212 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
37070261 TAGGGCCTAATGGCCGATGTGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGA--TGTGATGAATGTGAAAGTGTATATATATGTGA
*
37070310 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
37070359 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
37070406 TAAGGCCTAATGGCCGATGTGATGAATGT
1 TAAGGCCTAATGGCCGATGTGATGAATGT
37070435 AACACCCCGG
Statistics
Matches: 203, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
47 52 0.26
49 132 0.65
51 19 0.09
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:37071916 original size:39 final size:40
Alignment explanation
Indices: 37071799--37071983 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
37071789 GCTACTCGTT
* *
37071799 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
37071839 CAATTGCCTTCGGGACTTAACCCGGACTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
37071879 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
37071918 CAAATGCCTTC-GGATCTTAGTCC-GTATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
37071959 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37071984 CATCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 36 0.30
40 70 0.58
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:37079783 original size:40 final size:40
Alignment explanation
Indices: 37079738--37080070 Score: 285
Period size: 40 Copynumber: 8.6 Consensus size: 40
37079728 GCTCCTCGTT
*
37079738 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* * * *
37079778 TAAATGCCTTCGGGACTTAACCAGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
37079818 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
*
37079857 CAAATGCCTTCGGG-CTTTAGTCCGG--ATAG---TT----
1 CAAATGCCTTCGGGAC-TTAGCCCGGTTATAGTAATTCGCA
*
37079888 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* * *
37079928 CAAATGCCTTCGAGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
37079968 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
37080007 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTTACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAG-TAATTCGCA
37080048 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
37080071 ATAGCATTCA
Statistics
Matches: 241, Mismatches: 27, Indels: 51
0.76 0.08 0.16
Matches are distributed among these distances:
31 21 0.09
32 1 0.00
33 4 0.02
35 1 0.00
36 3 0.01
38 7 0.03
39 77 0.32
40 115 0.48
41 11 0.05
42 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:37079953 original size:71 final size:70
Alignment explanation
Indices: 37079818--37080020 Score: 214
Period size: 71 Copynumber: 2.8 Consensus size: 70
37079808 GTAACTCGCA
* * **
37079818 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTTAGTCCGGA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTTAACCCGGA
37079883 TAGTT
66 TAGTT
*
37079888 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGAGAC-TTAACC
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCG-GACTTTAACC
37079950 CGGATTTAGTAACT
62 CGGA--TAGT---T
*
37079964 CGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA
1 ----CAAATGCCTTCGGGCATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA
37080021 TCTTAGTCCG
Statistics
Matches: 111, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
70 15 0.14
71 38 0.34
72 4 0.04
73 4 0.04
76 1 0.01
78 4 0.04
79 30 0.27
80 15 0.14
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (70 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTTAACCCGGA
TAGTT
Found at i:37079992 original size:110 final size:110
Alignment explanation
Indices: 37079779--37079992 Score: 315
Period size: 110 Copynumber: 1.9 Consensus size: 110
37079769 TAATTCGCAT
* * *
37079779 AAATGCCTTCGGGACTTAACCAGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 AAATGCCTTCGGGACATAACCAGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAA
* *
37079844 TTAGTATCTCGCACAAATGCCTTCGGGCTTTAGTCCGGATAGTTC
66 TTAGTAACTCGCACAAATGCCTTCGGGCTTTAGCCCGGATAGTTC
* * *
37079889 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCGG
1 AAATGCCTTCGGGACATAACCAGGATT-TAGTAACTCGCACAAATGCCTTCG-GACTTAACCCGG
*
37079953 ATTTAGTAACTCGCACAAATGCCTTCGGGC-TTAGCCCGGA
64 AATTAGTAACTCGCACAAATGCCTTCGGGCTTTAGCCCGGA
37079993 ATTAGTATCT
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
109 2 0.02
110 53 0.57
111 38 0.41
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (110 bp):
AAATGCCTTCGGGACATAACCAGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAA
TTAGTAACTCGCACAAATGCCTTCGGGCTTTAGCCCGGATAGTTC
Found at i:37080006 original size:150 final size:150
Alignment explanation
Indices: 37079735--37080034 Score: 548
Period size: 150 Copynumber: 2.0 Consensus size: 150
37079725 ATAGCTCCTC
* *
37079735 GTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCATAAATGCCTTCGGGACTTAACC
1 GTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGAGACTTAACC
37079800 AGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCC
66 AGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCC
*
37079865 TTCGG-GCTTTAGTCCGGATA
131 TTCGGATC-TTAGTCCGGATA
37079885 GTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGAGACTTAACC
1 GTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGAGACTTAACC
*
37079950 CGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCC
66 AGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCC
37080015 TTCGGATCTTAGTCCGGATA
131 TTCGGATCTTAGTCCGGATA
37080035 TTGTTACTTA
Statistics
Matches: 145, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
150 144 0.99
151 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (150 bp):
GTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGAGACTTAACC
AGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCC
TTCGGATCTTAGTCCGGATA
Found at i:37080032 original size:79 final size:82
Alignment explanation
Indices: 37079888--37080071 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 82
37079878 CCGGATAGTT
* *
37079888 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
*
37079952 GAT-TTAGTAAC-TCGCA
66 GATATT-GTAACTTAGCA
**
37079968 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCG-GATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGAGA-CTTAACC
*
37080029 CGGATATTGTTACTTAGCA
64 CGGATATTGTAACTTAGCA
37080048 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37080072 TAGCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 13 0.14
79 57 0.62
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
GATATTGTAACTTAGCA
Found at i:37088489 original size:9 final size:10
Alignment explanation
Indices: 37088482--37088538 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
37088472 AAGAGAAAAT
37088482 AAAGAAAAGA
1 AAAGAAAAGA
37088492 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
37088504 AAAGAAGA-A
1 AAAGAAAAGA
37088513 AAAGAAAATGA
1 AAAGAAAA-GA
37088524 AATA-AAAAGA
1 AA-AGAAAAGA
37088534 AAAGA
1 AAAGA
37088539 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:37088506 original size:6 final size:5
Alignment explanation
Indices: 37088482--37088538 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
37088472 AAGAGAAAAT
*
37088482 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
37088529 AAAGA AAAGA
1 AAAGA AAAGA
37088539 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:37088513 original size:15 final size:14
Alignment explanation
Indices: 37088482--37088538 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
37088472 AAGAGAAAAT
37088482 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
37088498 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
37088513 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
37088529 AAAGAAAAGA
1 AAAGAAAAGA
37088539 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:37088615 original size:12 final size:12
Alignment explanation
Indices: 37088607--37088631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37088597 TTTGAAAAGC
37088607 AAAAAGAAAATG
1 AAAAAGAAAATG
37088619 AAAAAGAAAATG
1 AAAAAGAAAATG
37088631 A
1 A
37088632 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:37088628 original size:18 final size:18
Alignment explanation
Indices: 37088601--37088656 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
37088591 AAACCCTTTG
37088601 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
37088620 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
37088638 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
37088655 AA
1 AA
37088657 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:37088641 original size:30 final size:31
Alignment explanation
Indices: 37088607--37088688 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
37088597 TTTGAAAAGC
*
37088607 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
37088637 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
37088667 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
37088689 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:37091690 original size:38 final size:38
Alignment explanation
Indices: 37091639--37091712 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
37091629 ACCTTCCGCT
*
37091639 TATTCTAATCCATTATTTTACTTTTATTACTAAAATTG
1 TATTCTAATCCATTATTTTACATTTATTACTAAAATTG
37091677 TATTCTAATCCATTATTTTACATTTATTACTAAAAT
1 TATTCTAATCCATTATTTTACATTTATTACTAAAAT
37091713 CCGAGGCACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.01, T:0.51
Consensus pattern (38 bp):
TATTCTAATCCATTATTTTACATTTATTACTAAAATTG
Found at i:37092278 original size:20 final size:20
Alignment explanation
Indices: 37092255--37092308 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
37092245 AGTTTTTCCC
*
37092255 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
37092275 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
37092295 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
37092309 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:37092290 original size:30 final size:30
Alignment explanation
Indices: 37092255--37092328 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
37092245 AGTTTTTCCC
37092255 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
37092285 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
37092315 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
37092329 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:37092318 original size:20 final size:20
Alignment explanation
Indices: 37092255--37092319 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
37092245 AGTTTTTCCC
* * * *
37092255 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
37092275 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
37092294 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
37092315 AGCTC
1 AGCTC
37092320 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:37093827 original size:52 final size:52
Alignment explanation
Indices: 37093749--37093847 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
37093739 CAATCAACTA
*
37093749 AGCCGGATCACATAATTTGGTATCAGAGCTACTAAAACGAGGAATGCACCCG
1 AGCCGGATCACATAATTTGGTATCAGAGCTACTAAAACGAGAAATGCACCCG
*
37093801 AGCCGGATCACATCATTTGGTATCAGAGCTACTAAAACGAGAAATGC
1 AGCCGGATCACATAATTTGGTATCAGAGCTACTAAAACGAGAAATGC
37093848 CGACATTCGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (52 bp):
AGCCGGATCACATAATTTGGTATCAGAGCTACTAAAACGAGAAATGCACCCG
Found at i:37094029 original size:19 final size:19
Alignment explanation
Indices: 37093976--37094031 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
37093966 TATTAGATTT
*
37093976 AAAAAAAAAGAGAATAAATTC
1 AAAAAAAAAG-GAA-AAAATC
**
37093997 -AAAAAAAATTAAAAAATC
1 AAAAAAAAAGGAAAAAATC
37094015 AAAAAAAAAGGAAAAAA
1 AAAAAAAAAGGAAAAAA
37094032 AAGAAGTGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.17
19 16 0.55
20 8 0.28
ACGTcount: A:0.79, C:0.04, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAAAAAGGAAAAAATC
Found at i:37094030 original size:20 final size:20
Alignment explanation
Indices: 37093976--37094032 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
37093966 TATTAGATTT
* *
37093976 AAAAAAAAAGAGAATAAATTC
1 AAAAAAAAAG-GAAAAAAATC
**
37093997 -AAAAAAAA-TTAAAAAATC
1 AAAAAAAAAGGAAAAAAATC
37094015 AAAAAAAAAGGAAAAAAA
1 AAAAAAAAAGGAAAAAAA
37094033 AGAAGTGACA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
18 6 0.21
19 8 0.29
20 14 0.50
ACGTcount: A:0.79, C:0.04, G:0.07, T:0.11
Consensus pattern (20 bp):
AAAAAAAAAGGAAAAAAATC
Found at i:37095089 original size:6 final size:6
Alignment explanation
Indices: 37095061--37095200 Score: 64
Period size: 6 Copynumber: 22.3 Consensus size: 6
37095051 CCATTGAGCG
* * * * * * *
37095061 AGAAAA GGAAAA AGAGAT TGAAAA AGAAAT TGAAAGA AAACAAA AAGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAA-A AGA-AAA A-GAAAA
* * * * * * ** *
37095112 CGAAAA AGAAAA AGAAAT TGCAAA AGAAAA AGAAAT CGAAAA AGTGAG
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
* *
37095160 AGAAAA AGAAAA TGAAGAAA AGAAAA TTGAAAA AGAAAA AG
1 AGAAAA AGAAAA AG-A-AAA AGAAAA -AGAAAA AGAAAA AG
37095201 CGAAAAAAGA
Statistics
Matches: 92, Mismatches: 36, Indels: 12
0.66 0.26 0.09
Matches are distributed among these distances:
6 72 0.78
7 13 0.14
8 7 0.08
ACGTcount: A:0.69, C:0.03, G:0.20, T:0.08
Consensus pattern (6 bp):
AGAAAA
Found at i:37095089 original size:18 final size:18
Alignment explanation
Indices: 37095062--37095155 Score: 86
Period size: 18 Copynumber: 5.4 Consensus size: 18
37095052 CATTGAGCGA
* * *
37095062 GAAAAGGAAAAAGAGATT
1 GAAAAAGAAAAAGAAATC
**
37095080 GAAAAAGAAATTGAAA--
1 GAAAAAGAAAAAGAAATC
* *
37095096 G-AAAACAAAAAGAAAAC
1 GAAAAAGAAAAAGAAATC
*
37095113 GAAAAAGAAAAAGAAATT
1 GAAAAAGAAAAAGAAATC
*
37095131 GCAAAAGAAAAAGAAATC
1 GAAAAAGAAAAAGAAATC
37095149 GAAAAAG
1 GAAAAAG
37095156 TGAGAGAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
15 11 0.18
16 1 0.02
17 1 0.02
18 47 0.78
ACGTcount: A:0.69, C:0.04, G:0.19, T:0.07
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAATC
Found at i:37095109 original size:11 final size:12
Alignment explanation
Indices: 37095093--37095212 Score: 75
Period size: 12 Copynumber: 9.6 Consensus size: 12
37095083 AAAGAAATTG
37095093 AAAGAAAAC-AA
1 AAAGAAAACGAA
37095104 AAAGAAAACGAA
1 AAAGAAAACGAA
*
37095116 AAAGAAAAAGAA
1 AAAGAAAACGAA
**
37095128 ATTGCAAAA-GAA
1 AAAG-AAAACGAA
*
37095140 AAAGAAATCGAA
1 AAAGAAAACGAA
* *
37095152 AAAGTGAGA-GAA
1 AAAG-AAAACGAA
*
37095164 AAAGAAAATGAAGA
1 AAAGAAAACG-A-A
*
37095178 AAAGAAAATTGAA
1 AAAGAAAA-CGAA
37095191 AAAGAAAAAGCGAAA
1 AAAG-AAAA-CG-AA
37095206 AAAGAAA
1 AAAGAAA
37095213 TTGAAAGAGA
Statistics
Matches: 86, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
11 14 0.16
12 35 0.41
13 11 0.13
14 18 0.21
15 8 0.09
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (12 bp):
AAAGAAAACGAA
Found at i:37095146 original size:81 final size:83
Alignment explanation
Indices: 37095061--37095215 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 83
37095051 CCATTGAGCG
* ** * *
37095061 AGAAAAGGAAAAAGAGATTGAAAAAGAAATTGAAAGAAAACAAAA-AGAAAACGAAAAA-G-AAA
1 AGAAAACGAAAAAGAGAGAGAAAAAGAAAATG-AAGAAAACAAAATAGAAAAAGAAAAACGAAAA
37095123 AAGAAATTGCAAAAGAAAA
65 AAGAAATTGCAAAAGAAAA
* * * *
37095142 AGAAATCGAAAAAGTGAGAGAAAAAGAAAATGAAGAAAAGAAAATTGAAAAAGAAAAAGCGAAAA
1 AGAAAACGAAAAAGAGAGAGAAAAAGAAAATGAAGAAAACAAAATAGAAAAAGAAAAA-CGAAAA
37095207 AAGAAATTG
65 AAGAAATTG
37095216 AAAGAGAGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
80 11 0.18
81 37 0.61
83 1 0.02
84 12 0.20
ACGTcount: A:0.68, C:0.03, G:0.20, T:0.08
Consensus pattern (83 bp):
AGAAAACGAAAAAGAGAGAGAAAAAGAAAATGAAGAAAACAAAATAGAAAAAGAAAAACGAAAAA
AGAAATTGCAAAAGAAAA
Found at i:37095182 original size:14 final size:13
Alignment explanation
Indices: 37095161--37095198 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
37095151 AAAAGTGAGA
37095161 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
37095173 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
37095188 GAAAAAGAAAA
1 GAAAAAGAAAA
37095199 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:37095212 original size:21 final size:21
Alignment explanation
Indices: 37095162--37095212 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
37095152 AAAGTGAGAG
*
37095162 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
37095183 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
37095204 AAAAAGAAA
1 AAAAAGAAA
37095213 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:37095252 original size:33 final size:33
Alignment explanation
Indices: 37095215--37095277 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
37095205 AAAAGAAATT
37095215 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
37095248 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
37095278 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:37097227 original size:19 final size:20
Alignment explanation
Indices: 37097203--37097241 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
37097193 TCGATTTAGC
37097203 TCACA-TGAGCTTGTTGAGA
1 TCACAGTGAGCTTGTTGAGA
37097222 TCACATGTGAGCTTGTTGAG
1 TCACA-GTGAGCTTGTTGAG
37097242 CTGAGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (20 bp):
TCACAGTGAGCTTGTTGAGA
Found at i:37098097 original size:20 final size:20
Alignment explanation
Indices: 37098074--37098120 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
37098064 GGGTTAAGAT
*
37098074 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
37098094 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
37098114 TGAGCTG
1 TGAGCTG
37098121 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:37099846 original size:48 final size:48
Alignment explanation
Indices: 37099791--37099896 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
37099781 TTGTCTTTTC
*
37099791 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
37099839 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
37099887 TTTCTTTTTC
1 TTTCTTTTTC
37099897 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:37100938 original size:11 final size:10
Alignment explanation
Indices: 37100924--37100963 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
37100914 ACTTTTCACT
37100924 TTTTTTTGTTC
1 TTTTTTT-TTC
*
37100935 TTTTCTTTTAC
1 TTTT-TTTTTC
37100946 TTTTTTTTTC
1 TTTTTTTTTC
37100956 TTTTTTTT
1 TTTTTTTT
37100964 GCTCACTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 13 0.50
11 10 0.38
12 3 0.12
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:37100961 original size:23 final size:24
Alignment explanation
Indices: 37100915--37100978 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 24
37100905 ACTCGCAATA
37100915 CTTTTCACTTTTTTTTGTTCTTTT
1 CTTTTCACTTTTTTTTGTTCTTTT
37100939 CTTTT-AC-TTTTTTT-TTCTTTT
1 CTTTTCACTTTTTTTTGTTCTTTT
*
37100960 TTTTGCTCACTTCTTTTTT
1 CTTT--TCACTT-TTTTTT
37100979 TTTTGAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 10 0.29
22 7 0.21
23 3 0.09
24 7 0.21
25 1 0.03
26 6 0.18
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (24 bp):
CTTTTCACTTTTTTTTGTTCTTTT
Found at i:37100962 original size:24 final size:24
Alignment explanation
Indices: 37100915--37100978 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
37100905 ACTCGCAATA
*
37100915 CTTTTCACTTTTTTTTGTTCTTTT
1 CTTTTCACTTTTTTTTCTTCTTTT
37100939 CTTTT-ACTTTTTTTTTCTT-TTTT
1 CTTTTCAC-TTTTTTTTCTTCTTTT
*
37100962 -TTGCTCACTTCTTTTTT
1 CTT-TTCACTT-TTTTTT
37100979 TTTTGAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 2 0.06
23 9 0.26
24 23 0.68
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (24 bp):
CTTTTCACTTTTTTTTCTTCTTTT
Found at i:37104503 original size:24 final size:24
Alignment explanation
Indices: 37104476--37104524 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
37104466 GAACGTATAC
*
37104476 CTAAACATATATTCTTGAATCAAA
1 CTAAAAATATATTCTTGAATCAAA
37104500 CTAAAAATATATTCTTGAATCAAA
1 CTAAAAATATATTCTTGAATCAAA
37104524 C
1 C
37104525 ATTCAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (24 bp):
CTAAAAATATATTCTTGAATCAAA
Found at i:37110024 original size:31 final size:31
Alignment explanation
Indices: 37109986--37110046 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
37109976 ATTATTGATG
*
37109986 GTGAAAGTTGCTCGAACATAGCCAGCACGAA
1 GTGAAAGTTGCTCAAACATAGCCAGCACGAA
*
37110017 GTGAAAGTTGCTTAAACATAGCCAGCACGA
1 GTGAAAGTTGCTCAAACATAGCCAGCACGA
37110047 CGATGGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (31 bp):
GTGAAAGTTGCTCAAACATAGCCAGCACGAA
Found at i:37118961 original size:23 final size:22
Alignment explanation
Indices: 37118909--37118961 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
37118899 TCCACGTCTT
*
37118909 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
37118931 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
37118954 TTTCTTTT
1 TTTCTTTT
37118962 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:37122360 original size:22 final size:22
Alignment explanation
Indices: 37122332--37122375 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
37122322 TTTTGAACCA
*
37122332 TTACCATTTTGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
37122354 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
37122376 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:37123993 original size:19 final size:18
Alignment explanation
Indices: 37123969--37124008 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
37123959 ATTAAAGCAG
37123969 ACATATTAAACACATTTAA
1 ACATATTAAACACA-TTAA
*
37123988 ACATATTAAACATATTAA
1 ACATATTAAACACATTAA
37124006 ACA
1 ACA
37124009 CTTAACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (18 bp):
ACATATTAAACACATTAA
Found at i:37124104 original size:19 final size:19
Alignment explanation
Indices: 37124077--37124164 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 19
37124067 TCCAGCACTA
37124077 AATTAACTAAGATGAACTT
1 AATTAACTAAGATGAACTT
* *
37124096 AATTTACTAACATGAA--T
1 AATTAACTAAGATGAACTT
* * * *
37124113 AATTTATTCCAG--CAACTT
1 AATTAACT-AAGATGAACTT
*
37124131 AATTAACTAAGATGAACTC
1 AATTAACTAAGATGAACTT
37124150 AATTAACTAAGATGA
1 AATTAACTAAGATGA
37124165 GTAATTTATT
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
16 2 0.04
17 10 0.19
18 8 0.15
19 33 0.62
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (19 bp):
AATTAACTAAGATGAACTT
Found at i:37124141 original size:54 final size:54
Alignment explanation
Indices: 37124063--37124190 Score: 204
Period size: 54 Copynumber: 2.4 Consensus size: 54
37124053 CATCATTAGA
* * *
37124063 TTATTCCAGC-ACTAAATTAACTAAGATGAACTTAATTTACTAACATGAATAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAACATGAATAAT
* *
37124116 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAACATGAATAAT
37124170 TTATTCCAGCAACTTAATTAA
1 TTATTCCAGCAACTTAATTAA
37124191 TTAAACTAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 10 0.14
54 59 0.86
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAACATGAATAAT
Found at i:37127400 original size:54 final size:54
Alignment explanation
Indices: 37127318--37127470 Score: 200
Period size: 53 Copynumber: 2.9 Consensus size: 54
37127308 ATTAGGGTTT
* *
37127318 AAGGATATCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATATCAAGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGC
* * * *
37127372 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGC
1 AAGGATATCAAGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGC
* * * * *
37127425 AAGTATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT
1 AAGGATATCAAGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTT
37127471 AAAAAGGAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 44 0.52
54 41 0.48
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATATCAAGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTCACAAGGC
Found at i:37128344 original size:14 final size:14
Alignment explanation
Indices: 37128325--37128369 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
37128315 AACTCATCTT
*
37128325 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
37128339 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
37128352 AATTTAATTTAATG
1 AGTTTAATTTAATG
37128366 AGTT
1 AGTT
37128370 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:37129480 original size:29 final size:29
Alignment explanation
Indices: 37129447--37129506 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
37129437 ATAACCAAAC
* *
37129447 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
37129476 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
37129505 CT
1 CT
37129507 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:37129499 original size:15 final size:15
Alignment explanation
Indices: 37129453--37129500 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
37129443 AAACCTACAA
*
37129453 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
37129468 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
37129482 AAACTTCATATCCAT
1 AAACTTCATATCCAT
37129497 AAAC
1 AAAC
37129501 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:37132163 original size:35 final size:33
Alignment explanation
Indices: 37132118--37132200 Score: 89
Period size: 35 Copynumber: 2.5 Consensus size: 33
37132108 AATCTTACAA
* * *
37132118 TCTTTCTCTTTTTC-ATTTTCTTTTTCTTTCATGT
1 TCTTTTTCTTTTTCTA-TTTCATTTTCTATCAT-T
37132152 GTCTTTTTCTTTTTCTATTTCATTTTCTATCATT
1 -TCTTTTTCTTTTTCTATTTCATTTTCTATCATT
37132186 TCTTTTT-TTTCTTCT
1 TCTTTTTCTTT-TTCT
37132201 CTCAATTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
32 3 0.07
33 11 0.26
34 1 0.02
35 27 0.63
36 1 0.02
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.71
Consensus pattern (33 bp):
TCTTTTTCTTTTTCTATTTCATTTTCTATCATT
Found at i:37133500 original size:51 final size:51
Alignment explanation
Indices: 37133429--37133530 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
37133419 TTCAATTTCA
37133429 CCTATTTCTTTCTTTTCTTTTTTTACCGCCCAAATCCCTAATCTTCCAATT
1 CCTATTTCTTTCTTTTCTTTTTTTACCGCCCAAATCCCTAATCTTCCAATT
37133480 CCTATTTCTTTCTTTTCTTTTTTTACCGCCCAAATCCCTAATCTTCCAATT
1 CCTATTTCTTTCTTTTCTTTTTTTACCGCCCAAATCCCTAATCTTCCAATT
37133531 AAAAAATCTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.18, C:0.31, G:0.02, T:0.49
Consensus pattern (51 bp):
CCTATTTCTTTCTTTTCTTTTTTTACCGCCCAAATCCCTAATCTTCCAATT
Found at i:37135848 original size:56 final size:55
Alignment explanation
Indices: 37135732--37135849 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
37135722 TGCATGCTTT
* * * *
37135732 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
37135786 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
37135842 CATTAAAT
1 CATTAAAT
37135850 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:37139335 original size:15 final size:16
Alignment explanation
Indices: 37139296--37139336 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
37139286 AACAACACTC
37139296 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
37139312 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
37139326 CTTTCTTTTTC
1 CTTTCTTTTTC
37139337 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:37139531 original size:17 final size:15
Alignment explanation
Indices: 37139494--37139532 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
37139484 TATCTCCCAC
37139494 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
37139510 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
37139527 TCATTT
1 TCATTT
37139533 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:37146417 original size:28 final size:28
Alignment explanation
Indices: 37146379--37146527 Score: 255
Period size: 28 Copynumber: 5.4 Consensus size: 28
37146369 TGTACACCAG
37146379 TAAGTGTGCGAGTTTGATTATGTAGCAC
1 TAAGTGTGCGAGTTTGATTATGTAGCAC
37146407 TAAGTGTGCGAGTTTGATTATGTAGCAC
1 TAAGTGTGCGAGTTTGATTATGTAGCAC
*
37146435 TAAGTGTGCGAGCTTGATTATGTAGCAC
1 TAAGTGTGCGAGTTTGATTATGTAGCAC
*
37146463 TAAGTGTGCGAGTTTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATGTAGCAC
*
37146491 TAAGTGTGCGAG-TTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATGTAGCAC
*
37146518 TGAGTGTGCG
1 TAAGTGTGCG
37146528 GACTTAATAT
Statistics
Matches: 117, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.21
28 93 0.79
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
TAAGTGTGCGAGTTTGATTATGTAGCAC
Found at i:37148892 original size:17 final size:17
Alignment explanation
Indices: 37148870--37148904 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37148860 GTTCGGGGCA
*
37148870 TAAAAAAAATTTACTTT
1 TAAAAAAAATTTAATTT
*
37148887 TAAAAAAATTTTAATTT
1 TAAAAAAAATTTAATTT
37148904 T
1 T
37148905 CTCACATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAAAAAAATTTAATTT
Found at i:37153560 original size:30 final size:28
Alignment explanation
Indices: 37153526--37153581 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
37153516 AGTCGAAAAA
* *
37153526 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
37153556 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
37153582 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:37154613 original size:48 final size:48
Alignment explanation
Indices: 37154542--37154636 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
37154532 AAAAGGTTCA
*
37154542 GAAGGTTTAAAAAGGGCAGCGCCTATGAAGAAGAAAGAACTAGAAGCT
1 GAAGGTTTAAAAAGGGCAGCGCCTATGAAGAAGAAAGAACCAGAAGCT
37154590 GAAGGTTTAAAAAGGGCAGCGCCTATGAAGAAGAAAGAACCAGAAGC
1 GAAGGTTTAAAAAGGGCAGCGCCTATGAAGAAGAAAGAACCAGAAGC
37154637 CCATATGGTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.44, C:0.14, G:0.29, T:0.13
Consensus pattern (48 bp):
GAAGGTTTAAAAAGGGCAGCGCCTATGAAGAAGAAAGAACCAGAAGCT
Found at i:37160794 original size:41 final size:41
Alignment explanation
Indices: 37160749--37160830 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
37160739 AGATGGATGG
*
37160749 GAAAGAGGTGTTGAATCCAGTGAACTCAGATGCTGTGAAGA
1 GAAAGAGGTGTCGAATCCAGTGAACTCAGATGCTGTGAAGA
*
37160790 GAAAGAGTTGTCGAATCCAGTGAACTCAGATGCTGTGAAGA
1 GAAAGAGGTGTCGAATCCAGTGAACTCAGATGCTGTGAAGA
37160831 AATATTATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.22
Consensus pattern (41 bp):
GAAAGAGGTGTCGAATCCAGTGAACTCAGATGCTGTGAAGA
Found at i:37161831 original size:71 final size:70
Alignment explanation
Indices: 37161732--37161894 Score: 188
Period size: 71 Copynumber: 2.3 Consensus size: 70
37161722 CTTTTCAAGG
* * *
37161732 AAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCAAGACACGCTAAGGTATTTTTAATTTAT
37161797 GTTTT
66 GTTTT
** * *
37161802 CAAAATCAACTCATATTGAT-AGA-AGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTTTAGTT
1 -AAAATCAACTCATATTG-TGAGAGA-TGAGTTGAGCCTCAAGACACGCTAAGGTATTTTTAATT
37161865 TATGTTTT
63 TATGTTTT
** *
37161873 -AAATTGACTCATATTGCGAGAG
1 AAAATCAACTCATATTGTGAGAG
37161895 GTAAGTTAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
69 17 0.22
70 1 0.01
71 59 0.76
72 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (70 bp):
AAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCAAGACACGCTAAGGTATTTTTAATTTAT
GTTTT
Found at i:37162015 original size:122 final size:121
Alignment explanation
Indices: 37161786--37162082 Score: 515
Period size: 122 Copynumber: 2.4 Consensus size: 121
37161776 GTTGAGGTAT
*
37161786 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGATAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTCTTGTTTTTCAAAATCAACTCATATTG-TAGAAGTGAGTTGAGCCTCGGGGCACGCT
37161850 AAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTAAGTTAAGCC
65 AAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTAAGTTAAGCC
*
37161907 TTTTAATTCTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTCTTGTTTTTCAAAATCAACTCATATTG-TAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * *
37161972 GAGGTATTTTTAGTTTATGTTTTAAATTGGCTCATATTGCGAGAGGTGAGTTAAGCC
65 AAGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTAAGTTAAGCC
37162029 TTTTAATTCTTGTTTTTCAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCT
1 TTTTAATTCTTGTTTTTCAAAATCAACTCATATTGT-AGAAGTGAGTTGAGCCT
37162083 TTGCTCACGT
Statistics
Matches: 167, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
121 12 0.07
122 155 0.93
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (121 bp):
TTTTAATTCTTGTTTTTCAAAATCAACTCATATTGTAGAAGTGAGTTGAGCCTCGGGGCACGCTA
AGGTATTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTAAGTTAAGCC
Found at i:37162215 original size:72 final size:72
Alignment explanation
Indices: 37162051--37162266 Score: 236
Period size: 72 Copynumber: 2.9 Consensus size: 72
37162041 TTTTTCAAAA
* * ** ** * *
37162051 TCAACTCATATTGTGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCGATTTCTGC
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC--GCTGAGGTATTTTCAATTTCTG-
** *
37162116 T-TTTCAAAATA
63 TGTTT--TGATT
* * * *
37162127 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTGT
37162192 TTTGATT
66 TTTGATT
*
37162199 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTGT
37162264 TTT
66 TTT
37162267 TTCCAATTTC
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
72 65 0.54
73 1 0.01
74 22 0.18
76 33 0.27
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.38
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTGT
TTTGATT
Found at i:37162275 original size:18 final size:18
Alignment explanation
Indices: 37162248--37162283 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
37162238 CGCTGAGGTA
37162248 TTTTCAATTTCTG-TTTT
1 TTTTCAATTTCTGCTTTT
37162265 TTTTCCAATTTCTGCTTTT
1 TTTT-CAATTTCTGCTTTT
37162284 CAAAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTCAATTTCTGCTTTT
Found at i:37167431 original size:16 final size:15
Alignment explanation
Indices: 37167407--37167454 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
37167397 TAATTATTAT
*
37167407 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
37167423 TATTTTAATATTTTA
1 TATTTTAATATTTTA
37167438 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
37167454 T
1 T
37167455 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:37167442 original size:7 final size:8
Alignment explanation
Indices: 37167407--37167458 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
37167397 TAATTATTAT
*
37167407 TATTCTAA
1 TATTTTAA
*
37167415 TATTTTGA
1 TATTTTAA
37167423 TATTTTAA
1 TATTTTAA
37167431 TATTTT-A
1 TATTTTAA
37167438 TATTTTATA
1 TATTTTA-A
*
37167447 TATTTTAT
1 TATTTTAA
37167455 TATT
1 TATT
37167459 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:37170230 original size:43 final size:42
Alignment explanation
Indices: 37170157--37170273 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 42
37170147 GTACAATGCC
* * *
37170157 AACATCCTAGAC-GTGGTCTTACATGTAATCAAATATCGATGCT
1 AACATCCTAGACAG-GGTCTTACACGAAATCAAATA-CGAAGCT
*
37170200 -ACTATTCTAGACAGGGTCTTACACGAAATCAAATACGAAGCT
1 AAC-ATCCTAGACAGGGTCTTACACGAAATCAAATACGAAGCT
* * *
37170242 AACGTCCCAGACATGGTCTTACACGTAAATCA
1 AACATCCTAGACAGGGTCTTACACG-AAATCA
37170274 TAAGTTGATG
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
42 26 0.42
43 35 0.56
44 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (42 bp):
AACATCCTAGACAGGGTCTTACACGAAATCAAATACGAAGCT
Found at i:37170265 original size:42 final size:43
Alignment explanation
Indices: 37170208--37170311 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 43
37170198 CTACTATTCT
* *
37170208 AGACAGGGTCTTACACGAAATCA-AA-TACGAAGCTAACGTCCC
1 AGACATGGTCTTACACGAAATCATAAGT-CGAAGCCAACGTCCC
* *
37170250 AGACATGGTCTTACACGTAAATCATAAGTTGATGCCAACGTCCC
1 AGACATGGTCTTACACG-AAATCATAAGTCGAAGCCAACGTCCC
*
37170294 AGACGTGGTCTTACACGA
1 AGACATGGTCTTACACGA
37170312 TAACACATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 16 0.30
43 7 0.13
44 30 0.56
45 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (43 bp):
AGACATGGTCTTACACGAAATCATAAGTCGAAGCCAACGTCCC
Found at i:37174636 original size:19 final size:20
Alignment explanation
Indices: 37174606--37174662 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
37174596 AACTTTAAAT
37174606 TTATTCCTATATTTATTA-TA
1 TTATT-CTATATTTATTATTA
37174626 TTATTCTATATATATATTATTA
1 TTATTCTATAT-T-TATTATTA
*
37174648 TTATTTTAT-TTTATT
1 TTATTCTATATTTATT
37174663 TTAATTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 10 0.30
20 7 0.21
21 6 0.18
22 10 0.30
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTCTATATTTATTATTA
Found at i:37174754 original size:19 final size:18
Alignment explanation
Indices: 37174702--37174766 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
37174692 AGATTATTTT
*
37174702 TATTATTTTTAATTATATA
1 TATTATTTTT-CTTATATA
* *
37174721 TATTATTATTACTTATTATG
1 TATTATT-TTTCTTA-TATA
*
37174741 TATTATTTTTCTTA-AAA
1 TATTATTTTTCTTATATA
37174758 TATTATTTT
1 TATTATTTT
37174767 ACATCTCTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 10 0.26
19 16 0.42
20 12 0.32
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTATTTTTCTTATATA
Found at i:37174764 original size:3 final size:3
Alignment explanation
Indices: 37174618--37174747 Score: 64
Period size: 3 Copynumber: 43.7 Consensus size: 3
37174608 ATTCCTATAT
*
37174618 TTA TTA -TA TTA TT- CTA TATA TATA TTA TTA TTA TT- TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA
** *
37174661 TT- TTAA TT- TTA CTT- TTA -TA TTA TATA TTA -TA AGA TTA TTT TTA
1 TTA TT-A TTA TTA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
*
37174704 TTA TTT TTAA TTA -TA TATA TTA TTA TTA CTTA TTA TGTA TTA TT
1 TTA TTA TT-A TTA TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA TT
37174748 TTTCTTAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
2 19 0.19
3 56 0.56
4 25 0.25
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37177973 original size:20 final size:20
Alignment explanation
Indices: 37177948--37177993 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
37177938 AGTTTTTAGA
*
37177948 TTTATTATGACAAATTAAAT
1 TTTATTATGACAAATTAAAC
37177968 TTTATTATGACAAATTAAAC
1 TTTATTATGACAAATTAAAC
37177988 TTTATT
1 TTTATT
37177994 TTATAACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTATTATGACAAATTAAAC
Found at i:37179401 original size:21 final size:21
Alignment explanation
Indices: 37179377--37179417 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37179367 TTTAGGGATA
37179377 AAAAATAAATAATA-AATTTTT
1 AAAAATAAA-AATATAATTTTT
*
37179398 AAAAATTAAAATATAATTTT
1 AAAAATAAAAATATAATTTT
37179418 ATTATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATAAAAATATAATTTTT
Found at i:37179413 original size:22 final size:21
Alignment explanation
Indices: 37179375--37179417 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
37179365 ATTTTAGGGA
37179375 TAAAAAATAAATAATAAATTTT
1 TAAAAAATAAATAAT-AATTTT
*
37179397 TAAAAATTAAA-ATATAATTTT
1 TAAAAAATAAATA-ATAATTTT
37179418 ATTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAATAAATAATAATTTT
Found at i:37181970 original size:29 final size:29
Alignment explanation
Indices: 37181928--37181986 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
37181918 CCAAATTGTG
*
37181928 TGACTTATCAAACCAAGTTTTCACATTAA
1 TGACTTATCAAACCAAGCTTTCACATTAA
37181957 TGACTTATCAAACCAAGCTTTCACATTAA
1 TGACTTATCAAACCAAGCTTTCACATTAA
37181986 T
1 T
37181987 ATGAGAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (29 bp):
TGACTTATCAAACCAAGCTTTCACATTAA
Found at i:37184433 original size:92 final size:92
Alignment explanation
Indices: 37184236--37184418 Score: 307
Period size: 92 Copynumber: 2.0 Consensus size: 92
37184226 TTTTAAACAT
* * * *
37184236 AAAATTAG-AAAATGAGTAAAAACTCTTGTAAAAAATTTGATCTCTCCAAAATAAGTGAAAATTA
1 AAAATTAGAAAAATAAGTAAAAACTCTTGTAAAAAATTTGACCTCTCCAAAATAAGCGAAAAATA
37184300 TTCCTTCTCTATTCCAAAAATAAGTCA
66 TTCCTTCTCTATTCCAAAAATAAGTCA
37184327 AAAATTAGAAAAATAAGTAAAAACTCTTGT-AAAAATTATGACCTCTCCAAAATAAGCGAAAAAT
1 AAAATTAGAAAAATAAGTAAAAACTCTTGTAAAAAATT-TGACCTCTCCAAAATAAGCGAAAAAT
37184391 ATTCCTTCTCTATTCCAAAAATAAGTCA
65 ATTCCTTCTCTATTCCAAAAATAAGTCA
37184419 TGAGAATGGT
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
91 15 0.17
92 71 0.83
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (92 bp):
AAAATTAGAAAAATAAGTAAAAACTCTTGTAAAAAATTTGACCTCTCCAAAATAAGCGAAAAATA
TTCCTTCTCTATTCCAAAAATAAGTCA
Found at i:37187970 original size:33 final size:33
Alignment explanation
Indices: 37187928--37187991 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
37187918 ATGTTATAAA
*
37187928 CATGCATGCATTGATAGAGTGAATTTAAGAGAT
1 CATGCATGCATTGATAGACTGAATTTAAGAGAT
37187961 CATGCATGCATTGATAGACTGAATTTAAGAG
1 CATGCATGCATTGATAGACTGAATTTAAGAG
37187992 GGCGTAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (33 bp):
CATGCATGCATTGATAGACTGAATTTAAGAGAT
Found at i:37199103 original size:27 final size:28
Alignment explanation
Indices: 37199056--37199108 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
37199046 AAAATAGGAG
* *
37199056 AAATAATATATTTGGTAATAATAATATA
1 AAATAATATATATGGTAATAAAAATATA
37199084 AAATAATA-ATAT-GTACATAAAAATA
1 AAATAATATATATGGTA-ATAAAAATA
37199109 CATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 3 0.14
27 11 0.50
28 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (28 bp):
AAATAATATATATGGTAATAAAAATATA
Found at i:37199444 original size:39 final size:39
Alignment explanation
Indices: 37199358--37199444 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
37199348 TTTAAAATAT
* * *
37199358 ATATATGTATATATAATAGCATTTAAGAATATATACATA
1 ATATATATATATATAATAGCATTAAAAAATATATACATA
* * *
37199397 AGAAATATATA-ACTAATGGCATTAAAAAATATATACATA
1 ATATATATATATA-TAATAGCATTAAAAAATATATACATA
37199436 ATATATATA
1 ATATATATA
37199445 AAATACCAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (39 bp):
ATATATATATATATAATAGCATTAAAAAATATATACATA
Found at i:37206534 original size:6 final size:6
Alignment explanation
Indices: 37206523--37206558 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
37206513 TAGGTTTCCA
37206523 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
37206559 GAAACTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Done.