Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 36 of 208
Found at i:9979256 original size:21 final size:21
Alignment explanation
Indices: 9979230--9979298 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
9979220 GCTTCTCTCG
*
9979230 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
9979251 CTGCTTCTCTCGTTGTAGCCA
1 CTGCTTCTCTCGCTGCAGCCT
* * *
9979272 CTGCTTCCCTCGCTGCCGCGT
1 CTGCTTCTCTCGCTGCAGCCT
9979293 CTGCTT
1 CTGCTT
9979299 TAAGTTGCTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.03, C:0.41, G:0.22, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:9988028 original size:25 final size:25
Alignment explanation
Indices: 9987961--9988230 Score: 306
Period size: 25 Copynumber: 10.7 Consensus size: 25
9987951 ATAACTTATT
9987961 TATTATGTAAGTTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
*
9987986 TAAGTTATGTAAGCTATGTAAGTTGTG
1 T-A-TTATGTAAGTTATGTAAGTTGTG
* * *
9988013 TCTTATGAAACTTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
*
9988038 TATTATGTAAGTTATGTCAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
* * *
9988063 TATTATGAAACTTATGTAAGTTATG
1 TATTATGTAAGTTATGTAAGTTGTG
* * ** *
9988088 TCTTATGTAAGTGATGTAAAATATG
1 TATTATGTAAGTTATGTAAGTTGTG
*
9988113 TATTATGTAAGTTATGTCAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
* * *
9988138 TATTATGAAACTTATGTAAGTTATG
1 TATTATGTAAGTTATGTAAGTTGTG
* * ** *
9988163 TCTTATGTAAGTGATGTAAAATATG
1 TATTATGTAAGTTATGTAAGTTGTG
*
9988188 TATTATGTAAGTTATGTCAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
*
9988213 TATTATGTAAATTATGTA
1 TATTATGTAAGTTATGTA
9988231 TTATGTAAGT
Statistics
Matches: 200, Mismatches: 43, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
25 176 0.88
26 1 0.00
27 23 0.12
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.45
Consensus pattern (25 bp):
TATTATGTAAGTTATGTAAGTTGTG
Found at i:9988062 original size:50 final size:50
Alignment explanation
Indices: 9987961--9988300 Score: 293
Period size: 50 Copynumber: 7.1 Consensus size: 50
9987951 ATAACTTATT
* * *
9987961 TATTATGTAAGTTATGTAAGTTGTGTAAGTTATGTAAGCTATGTAAGTTGTG
1 TATTATGAAAGTTATGTAAGTTATGT-A-TTATGTAAGTTATGTAAGTTGTG
* * * *
9988013 TCTTATGAAACTTATGTAAGTTGTGTATTATGTAAGTTATGTCAGTTGTG
1 TATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
* * * ** *
9988063 TATTATGAAACTTATGTAAGTTATGTCTTATGTAAGTGATGTAAAATATG
1 TATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
* * * * * *
9988113 TATTATGTAAGTTATGTCAGTTGTGTATTATGAAACTTATGTAAGTTATG
1 TATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
* * * ** *
9988163 TCTTATGTAAGTGATGTAAAATATGTATTATGTAAGTTATGTCAGTTGTG
1 TATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
*
9988213 TATTAT----G-TA---AA-TTATGTATTATGTAAGTTATGTCAGTTGTG
1 TATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
*
9988254 TATTATG-----TA---AA-TTATGTATTATGTAAGTTATGTAATTTGTG
1 TATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
9988295 TATTAT
1 TATTAT
9988301 ATAACTTATT
Statistics
Matches: 249, Mismatches: 38, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
41 73 0.29
42 2 0.01
45 1 0.00
46 1 0.00
50 148 0.59
51 1 0.00
52 23 0.09
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.46
Consensus pattern (50 bp):
TATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG
Found at i:9988069 original size:41 final size:41
Alignment explanation
Indices: 9988024--9988328 Score: 288
Period size: 41 Copynumber: 7.8 Consensus size: 41
9988014 CTTATGAAAC
* *
9988024 TTATGTAAGTTGTGTATTATGTAAGTTATGTCAGTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
9988065 TTATG--AA--A---CTTATGTAAGTTATGTC--TTATGTAA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGT-A
* *
9988098 GTGATGTAAAATATGTATTATGTAAGTTATGTCAGTTGTGTA
1 -TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
9988140 TTATG--AA--A---CTTATGTAAGTTATGTC--TTATGTAA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGT-A
* *
9988173 GTGATGTAAAATATGTATTATGTAAGTTATGTCAGTTGTGTA
1 -TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
9988215 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* *
9988256 TTATGTAAATTATGTATTATGTAAGTTATGTAATTTGTGTA
1 TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
* * *
9988297 TTATATAACTTATTTAATTTATGTAAG-TATGT
1 TTATGTAAATTATGT-A-TTATGTAAGTTATGT
9988329 ATTATTATGT
Statistics
Matches: 220, Mismatches: 20, Indels: 47
0.77 0.07 0.16
Matches are distributed among these distances:
32 10 0.05
33 2 0.01
34 40 0.18
36 4 0.02
37 1 0.00
38 2 0.01
39 3 0.01
41 131 0.60
42 8 0.04
43 19 0.09
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (41 bp):
TTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGTGTA
Found at i:9988105 original size:75 final size:76
Alignment explanation
Indices: 9987961--9988320 Score: 426
Period size: 75 Copynumber: 4.7 Consensus size: 76
9987951 ATAACTTATT
* * * * *
9987961 TATTATGTAAGTTATGTAAGTTGTGTAAGTTATGTAAGC-TATGTAAGTTGTGTCTTATGAAACT
1 TATTATGTAAGTTATGTCAGTTGTGT-A-TTATGTAAACTTATGTAAGTTATGTCTTATGTAAGT
* ** *
9988025 TATGTAAGTTGTG
64 GATGTAAAATATG
9988038 TATTATGTAAGTTATGTCAGTTGTGTATTATG-AAACTTATGTAAGTTATGTCTTATGTAAGTGA
1 TATTATGTAAGTTATGTCAGTTGTGTATTATGTAAACTTATGTAAGTTATGTCTTATGTAAGTGA
9988102 TGTAAAATATG
66 TGTAAAATATG
9988113 TATTATGTAAGTTATGTCAGTTGTGTATTATG-AAACTTATGTAAGTTATGTCTTATGTAAGTGA
1 TATTATGTAAGTTATGTCAGTTGTGTATTATGTAAACTTATGTAAGTTATGTCTTATGTAAGTGA
9988177 TGTAAAATATG
66 TGTAAAATATG
* *
9988188 TATTATGTAAGTTATGTCAGTTGTGTATTATGTAAATTATGTATTATGTAAGTTATGTCAGTTGT
1 TATTATGTAAGTTATGTCAGTTGTGTATTATGT-AA--A---CTTATGTAAGTTATGTC--TTAT
* *
9988253 GT-A-TTATGTAAATTATG
58 GTAAGTGATGTAAAATATG
* * * * *
9988270 TATTATGTAAGTTATGTAATTTGTGTATTATAT-AACTTATTTAATTTATGT
1 TATTATGTAAGTTATGTCAGTTGTGTATTATGTAAACTTATGTAAGTTATGT
9988321 AAGTATGTAT
Statistics
Matches: 254, Mismatches: 19, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
74 3 0.01
75 156 0.61
76 1 0.00
77 27 0.11
78 1 0.00
79 1 0.00
80 1 0.00
82 58 0.23
83 1 0.00
84 5 0.02
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (76 bp):
TATTATGTAAGTTATGTCAGTTGTGTATTATGTAAACTTATGTAAGTTATGTCTTATGTAAGTGA
TGTAAAATATG
Found at i:9988243 original size:25 final size:26
Alignment explanation
Indices: 9987962--9988322 Score: 220
Period size: 25 Copynumber: 14.3 Consensus size: 26
9987952 TAACTTATTT
* *
9987962 ATTATGTAAGTTATGTAAGTTGTGTA
1 ATTATGTAAATTATGTAAGTTATGTA
** *
9987988 AGTTATGTAAGCTATGTAAGTTGTGT-
1 A-TTATGTAAATTATGTAAGTTATGTA
* *
9988014 CTTATG-AAACTTATGTAAGTTGTGT-
1 ATTATGTAAA-TTATGTAAGTTATGTA
* * *
9988039 ATTATGTAAGTTATGTCAGTTGTGT-
1 ATTATGTAAATTATGTAAGTTATGTA
9988064 ATTATG-AAACTTATGTAAGTTATGT-
1 ATTATGTAAA-TTATGTAAGTTATGTA
* * * **
9988089 CTTATGTAAGTGATGTAAAATATGT-
1 ATTATGTAAATTATGTAAGTTATGTA
* * *
9988114 ATTATGTAAGTTATGTCAGTTGTGT-
1 ATTATGTAAATTATGTAAGTTATGTA
9988139 ATTATG-AAACTTATGTAAGTTATGT-
1 ATTATGTAAA-TTATGTAAGTTATGTA
* * * **
9988164 CTTATGTAAGTGATGTAAAATATGT-
1 ATTATGTAAATTATGTAAGTTATGTA
* * *
9988189 ATTATGTAAGTTATGTCAGTTGTGT-
1 ATTATGTAAATTATGTAAGTTATGTA
9988214 ATTATGTAAATTATGT-A-TTATGTA
1 ATTATGTAAATTATGTAAGTTATGTA
* * *
9988238 AGTTATGTCAGTTGTGT-A-TTATGTAA
1 A-TTATGTAAATTATGTAAGTTATGT-A
9988264 ATTATGT--ATTATGTAAGTTATGTA
1 ATTATGTAAATTATGTAAGTTATGTA
** * * *
9988288 ATT-TGTGTATTATATAACTTATTTA
1 ATTATGTAAATTATGTAAGTTATGTA
9988313 ATTTATGTAA
1 A-TTATGTAA
9988323 GTATGTATTA
Statistics
Matches: 272, Mismatches: 47, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
23 13 0.05
24 13 0.05
25 209 0.77
26 11 0.04
27 26 0.10
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.46
Consensus pattern (26 bp):
ATTATGTAAATTATGTAAGTTATGTA
Found at i:9988259 original size:16 final size:16
Alignment explanation
Indices: 9987956--9988351 Score: 145
Period size: 16 Copynumber: 23.9 Consensus size: 16
9987946 TAGGAATAAC
*
9987956 TTATTTATTATGTAAG
1 TTATGTATTATGTAAG
*
9987972 TTATGTAAGTTGTGTAAG
1 TTATGT-A-TTATGTAAG
*
9987990 TTATGTAAGCTATGTAAG
1 TTATGT-A-TTATGTAAG
* * * *
9988008 TTGTGTCTTATGAAAC
1 TTATGTATTATGTAAG
*
9988024 TTATGTAAGTTGTGT-A-
1 TTATGT-A-TTATGTAAG
*
9988040 TTATGTAAGTTATGTCAG
1 TTATGT-A-TTATGTAAG
* * *
9988058 TTGTGTATTATGAAAC
1 TTATGTATTATGTAAG
*
9988074 TTATGTAAGTTATGT--C
1 TTATGT-A-TTATGTAAG
* *
9988090 TTATGTAAGTGATGTAAA
1 TTATGT-A-TTATGTAAG
*
9988108 ATATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
9988124 TTATGTCAGTTGTGT-A-
1 TTATGT-A-TTATGTAAG
*
9988140 TTATGAAACTTATGTAAG
1 TTATG-TA-TTATGTAAG
*
9988158 TTATGTCTTATGTAAG
1 TTATGTATTATGTAAG
* *
9988174 TGATGTAAAATATGT-A-
1 TTATGT--ATTATGTAAG
*
9988190 TTATGTAAGTTATGTCAG
1 TTATGT-A-TTATGTAAG
* *
9988208 TTGTGTATTATGTAAA
1 TTATGTATTATGTAAG
9988224 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
9988240 TTATGTCAGTTGTGT-A-
1 TTATGT-A-TTATGTAAG
9988256 TTATGTAAATTATGT-A-
1 TTATGT--ATTATGTAAG
*
9988272 TTATGTAAGTTATGTAAT
1 TTATGT-A-TTATGTAAG
* * *
9988290 TTGTGTATTATATAAC
1 TTATGTATTATGTAAG
*
9988306 TTATTTAATTTATGTAAG
1 TTATGT-A-TTATGTAAG
*
9988324 -TATGTATTAT-TATG
1 TTATGTATTATGTAAG
* *
9988338 TAATTTATTATGTA
1 TTATGTATTATGTA
9988352 GGATATTATC
Statistics
Matches: 294, Mismatches: 56, Indels: 60
0.72 0.14 0.15
Matches are distributed among these distances:
14 3 0.01
15 16 0.05
16 168 0.57
17 22 0.07
18 85 0.29
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:9988743 original size:9 final size:9
Alignment explanation
Indices: 9988731--9988883 Score: 67
Period size: 9 Copynumber: 17.9 Consensus size: 9
9988721 GTATGTATTA
*
9988731 TTATGTAAC
1 TTATGTAAG
* *
9988740 TTATTTAAT
1 TTATGTAAG
*
9988749 TTATGTAGG
1 TTATGTAAG
*
9988758 GTATGTAAG
1 TTATGTAAG
9988767 TTATGTAAG
1 TTATGTAAG
*
9988776 TTCTGT-A-
1 TTATGTAAG
*
9988783 TTATTTACA-
1 TTATGTA-AG
*
9988792 -CATGTAAG
1 TTATGTAAG
*
9988800 TTGTGT-A-
1 TTATGTAAG
9988807 TTATGTATTA-
1 TTATGTA--AG
*
9988817 TTATGTAAC
1 TTATGTAAG
*
9988826 TTATTTAAG
1 TTATGTAAG
*
9988835 TTATGCAAG
1 TTATGTAAG
*
9988844 TTATAT-A-
1 TTATGTAAG
* *
9988851 TTAAGTAGG
1 TTATGTAAG
9988860 TTATGTAAG
1 TTATGTAAG
9988869 TTATGT--G
1 TTATGTAAG
9988876 TTATGTAA
1 TTATGTAA
9988884 ATGAATATAT
Statistics
Matches: 105, Mismatches: 27, Indels: 24
0.67 0.17 0.15
Matches are distributed among these distances:
7 21 0.20
8 8 0.08
9 68 0.65
10 8 0.08
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9988770 original size:18 final size:17
Alignment explanation
Indices: 9988712--9988773 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
9988702 CTTATTTAAT
9988712 TTATGTAGGGTATGTATTA
1 TTATGTAGGGTATGTA--A
*** *
9988731 TTATGTAACTTATTTAA
1 TTATGTAGGGTATGTAA
9988748 TTTATGTAGGGTATGTAA
1 -TTATGTAGGGTATGTAA
9988766 GTTATGTA
1 -TTATGTA
9988774 AGTTCTGTAT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
17 1 0.03
18 20 0.61
19 12 0.36
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (17 bp):
TTATGTAGGGTATGTAA
Found at i:9989905 original size:14 final size:14
Alignment explanation
Indices: 9989886--9989915 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9989876 CACGAACAGC
9989886 AAGATGATTAACTA
1 AAGATGATTAACTA
9989900 AAGATGATTAACTA
1 AAGATGATTAACTA
9989914 AA
1 AA
9989916 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:9991451 original size:8 final size:7
Alignment explanation
Indices: 9991434--9991510 Score: 55
Period size: 7 Copynumber: 10.3 Consensus size: 7
9991424 TTTGGGATTT
9991434 AACCCTA
1 AACCCTA
9991441 AACCTCTA
1 AACC-CTA
9991449 AACCTCTA
1 AACC-CTA
9991457 AACCCTAA
1 AACCCT-A
* *
9991465 AATCTTA
1 AACCCTA
* *
9991472 AGCTACTA
1 AAC-CCTA
**
9991480 AATCGTTA
1 AA-CCCTA
9991488 AACCCTA
1 AACCCTA
9991495 AACCCTA
1 AACCCTA
9991502 AACCCTA
1 AACCCTA
9991509 AA
1 AA
9991511 ACCAACAACC
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
7 27 0.49
8 27 0.49
9 1 0.02
ACGTcount: A:0.43, C:0.32, G:0.03, T:0.22
Consensus pattern (7 bp):
AACCCTA
Found at i:9991464 original size:15 final size:15
Alignment explanation
Indices: 9991434--9991510 Score: 54
Period size: 15 Copynumber: 5.1 Consensus size: 15
9991424 TTTGGGATTT
9991434 AACC-CTAAACCTCTA
1 AACCTCTAAACC-CTA
9991449 AACCTCTAAACCCTA
1 AACCTCTAAACCCTA
* * *
9991464 AA-ATCTTAAGCTACTA
1 AACCTC-TAAAC-CCTA
*
9991480 AATCGT-TAAACCCTA
1 AA-CCTCTAAACCCTA
9991495 AACC-CTAAACCCTA
1 AACCTCTAAACCCTA
9991509 AA
1 AA
9991511 ACCAACAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
14 14 0.29
15 18 0.37
16 16 0.33
18 1 0.02
ACGTcount: A:0.43, C:0.32, G:0.03, T:0.22
Consensus pattern (15 bp):
AACCTCTAAACCCTA
Found at i:9991512 original size:15 final size:15
Alignment explanation
Indices: 9991434--9991513 Score: 56
Period size: 16 Copynumber: 5.3 Consensus size: 15
9991424 TTTGGGATTT
9991434 AACCCTAAACCTCT-A
1 AACCCTAAACC-CTAA
9991449 AACCTCTAAACCCTAA
1 AACC-CTAAACCCTAA
* * * *
9991465 AATCTTAAGCTACTAA
1 AACCCTAAAC-CCTAA
* **
9991481 ATCGTTAAACCCT-A
1 AACCCTAAACCCTAA
9991495 AACCCTAAACCCTAA
1 AACCCTAAACCCTAA
9991510 AACC
1 AACC
9991514 AACAACCAGA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 11 0.22
15 17 0.35
16 21 0.43
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.21
Consensus pattern (15 bp):
AACCCTAAACCCTAA
Found at i:9991663 original size:27 final size:27
Alignment explanation
Indices: 9991625--9991676 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
9991615 TTAAACCCAA
9991625 AACACCCTAATACCCTAACCCTAAATT
1 AACACCCTAATACCCTAACCCTAAATT
9991652 AACACCCTAATACCCTAACCCTAAA
1 AACACCCTAATACCCTAACCCTAAA
9991677 CCTACATCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.19
Consensus pattern (27 bp):
AACACCCTAATACCCTAACCCTAAATT
Found at i:9991696 original size:7 final size:7
Alignment explanation
Indices: 9991571--9991697 Score: 57
Period size: 7 Copynumber: 18.0 Consensus size: 7
9991561 AGTAAAGTAG
9991571 CCTAAAC
1 CCTAAAC
*
9991578 CCCAAAC
1 CCTAAAC
*
9991585 CTTAAAC
1 CCTAAAC
* *
9991592 CTTATAC
1 CCTAAAC
* *
9991599 CCCAGAC
1 CCTAAAC
9991606 TCCTAAAC
1 -CCTAAAC
*
9991614 CTTAAAC
1 CCTAAAC
*
9991621 CCAAAACAC
1 CC-TAA-AC
9991630 CCTAATAC
1 CCTAA-AC
9991638 CCT-AAC
1 CCTAAAC
9991644 CCTAAA-
1 CCTAAAC
*
9991650 -TTAACAC
1 CCTAA-AC
9991657 CCTAATAC
1 CCTAA-AC
9991665 CCT-AAC
1 CCTAAAC
9991671 CCTAAA-
1 CCTAAAC
* *
9991677 CCTACAT
1 CCTAAAC
*
9991684 CGTAAAC
1 CCTAAAC
9991691 CCTAAAC
1 CCTAAAC
9991698 TTTAAACTTT
Statistics
Matches: 89, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
5 3 0.03
6 16 0.18
7 44 0.49
8 22 0.25
9 4 0.04
ACGTcount: A:0.40, C:0.39, G:0.02, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:9991752 original size:90 final size:90
Alignment explanation
Indices: 9991655--9991858 Score: 392
Period size: 90 Copynumber: 2.3 Consensus size: 90
9991645 CTAAATTAAC
9991655 ACCCTAATACCCTAACCCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCC
1 ACCCTAATACCCTAACCCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCC
9991720 AAAAATACTAAACATTATATAATGA
66 AAAAATACTAAACATTATATAATGA
9991745 ACCCTAATACCCTAACCCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCC
1 ACCCTAATACCCTAACCCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCC
9991810 AAAAATACTAAACATTATATAATGA
66 AAAAATACTAAACATTATATAATGA
9991835 ACCCTAATACCCTATA-CCTAAACC
1 ACCCTAATACCCTA-ACCCTAAACC
9991859 AAATATGATT
Statistics
Matches: 113, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
90 112 0.99
91 1 0.01
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.26
Consensus pattern (90 bp):
ACCCTAATACCCTAACCCTAAACCTACATCGTAAACCCTAAACTTTAAACTTTACACTGTAATCC
AAAAATACTAAACATTATATAATGA
Found at i:10005180 original size:2 final size:2
Alignment explanation
Indices: 10005173--10005205 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10005163 AGTTGAAGTA
10005173 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10005206 AGTGTAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10008081 original size:19 final size:19
Alignment explanation
Indices: 10008057--10008129 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
10008047 AATCTCCAGG
*
10008057 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
10008076 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
10008095 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
10008114 GATATACAATCTTAGA
1 GATATACAATCTTAGA
10008130 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:10008672 original size:34 final size:34
Alignment explanation
Indices: 10008632--10008700 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
10008622 TTACAGTTCA
* *
10008632 AATTAGTCTTTTT-TCATTTTCTTTATTTTTTATT
1 AATTAGT-TTTTTATCATTTTCTTTATATTTAATT
* *
10008666 AATTAGTTTTTTATTATTTTTTTTATATTTAATT
1 AATTAGTTTTTTATCATTTTCTTTATATTTAATT
10008700 A
1 A
10008701 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.70
Consensus pattern (34 bp):
AATTAGTTTTTTATCATTTTCTTTATATTTAATT
Found at i:10008675 original size:15 final size:14
Alignment explanation
Indices: 10008654--10008707 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 14
10008644 TTCATTTTCT
10008654 TTATTTTTTATTAA
1 TTATTTTTTATTAA
10008668 TTAGTTTTTTATT-A
1 TTA-TTTTTTATTAA
*
10008682 TTTTTTTTATATTTAA
1 TTATTTTT-TA-TTAA
10008698 TTATTTTTTA
1 TTATTTTTTA
10008708 AAAAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 5 0.15
14 8 0.24
15 13 0.38
16 8 0.24
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (14 bp):
TTATTTTTTATTAA
Found at i:10008681 original size:11 final size:10
Alignment explanation
Indices: 10008653--10008707 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
10008643 TTTCATTTTC
10008653 TTTATT-TTT
1 TTTATTATTT
10008662 TATTAATTAGTTT
1 T-TT-ATTA-TTT
10008675 TTTATTATTT
1 TTTATTATTT
*
10008685 TTT-TTATAT
1 TTTATTATTT
*
10008694 TTAATTATTT
1 TTTATTATTT
10008704 TTTA
1 TTTA
10008708 AAAAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
9 8 0.22
10 16 0.43
11 7 0.19
12 2 0.05
13 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTATTATTT
Found at i:10008809 original size:18 final size:19
Alignment explanation
Indices: 10008777--10008814 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10008767 TAATTATTAT
*
10008777 TTTTATTTATTTATATGTA
1 TTTTATTTATCTATATGTA
10008796 TTTT-TTTATCTATATGTA
1 TTTTATTTATCTATATGTA
10008814 T
1 T
10008815 ATATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTATTTATCTATATGTA
Found at i:10008819 original size:22 final size:22
Alignment explanation
Indices: 10008764--10008826 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
10008754 TTGTAGTATA
*
10008764 ATATA-AT-TATTATTTTTATTT
1 ATATATATATATT-TTTTTATCT
* *
10008785 ATTTATATGTATTTTTTTATCT
1 ATATATATATATTTTTTTATCT
*
10008807 ATATGTATATATTTATTTTA
1 ATATATATATATTT-TTTTA
10008827 GTATACATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.12
22 21 0.62
23 9 0.26
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (22 bp):
ATATATATATATTTTTTTATCT
Found at i:10008821 original size:18 final size:18
Alignment explanation
Indices: 10008780--10008822 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10008770 TTATTATTTT
* *
10008780 TATTTATTTATATGTATT
1 TATTTATCTATATGTATA
*
10008798 TTTTTATCTATATGTATA
1 TATTTATCTATATGTATA
10008816 TATTTAT
1 TATTTAT
10008823 TTTAGTATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (18 bp):
TATTTATCTATATGTATA
Found at i:10011326 original size:24 final size:24
Alignment explanation
Indices: 10011299--10011344 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10011289 AGAACAATCC
*
10011299 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGGAAATGAAGGAGCAGCTT
* *
10011323 CAAAAGTAAATGAATGAGCAGC
1 CAAAAGGAAATGAAGGAGCAGC
10011345 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.26, T:0.13
Consensus pattern (24 bp):
CAAAAGGAAATGAAGGAGCAGCTT
Found at i:10015425 original size:44 final size:44
Alignment explanation
Indices: 10015372--10015558 Score: 116
Period size: 44 Copynumber: 4.2 Consensus size: 44
10015362 ACAGTGGAAT
10015372 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
* ** * * * ** * *
10015416 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-TAGTGGAGT
1 AGATTGAAGATTTCAGATCTTATCTCCCT-AAG-CAGTAGTGGAGC
* * * ** **
10015461 ACATTGAAG---CCAGTAAT-TCTA-CTTCCCTAGGCAACAGTGGAAT
1 AGATTGAAGATTTCAG--ATCT-TATC-TCCCTAAGCAGTAGTGGAGC
10015504 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
*
10015548 AGATCGAAGAT
1 AGATTGAAGAT
10015559 GGCGAATTTT
Statistics
Matches: 105, Mismatches: 26, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
42 3 0.03
43 19 0.18
44 61 0.58
45 18 0.17
46 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGC
Found at i:10015457 original size:132 final size:132
Alignment explanation
Indices: 10015276--10016043 Score: 1310
Period size: 132 Copynumber: 5.8 Consensus size: 132
10015266 CTACATTGAC
* *
10015276 AGTGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
10015341 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
10015406 GT
131 GT
*
10015408 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
10015473 GTAATTCTACTTCCCTAGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
66 GTAATTCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
10015537 AGT
130 AGT
*
10015540 AGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
10015605 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
10015670 GT
131 GT
* * *
10015672 GGTGGAGCAGATCGAAAATGGCGGATTTGACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* *
10015737 GTAATTCTACTTCTCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAACA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
10015802 GT
131 GT
* *
10015804 AGTAGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * *
10015869 ATAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
10015934 GT
131 GT
*
10015936 AGTGGAGCAGATCGAAGATGGCGGATTTTACATCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* *
10016001 GTAA-TCATA-TCTCCCTGGTCAGCAGTGGAATA-AGTTGAAGATT
66 GTAATTC-TACT-TCCCTGGACAACAGTGGAATAGA-TTGAAGATT
10016044 GTAAGTCCTA
Statistics
Matches: 601, Mismatches: 30, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
131 6 0.01
132 593 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:10018430 original size:39 final size:38
Alignment explanation
Indices: 10018365--10018439 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
10018355 CAGACATGTC
*
10018365 AATATTTAATTATTTTTTTAATTTAATAATATTTAAAA
1 AATATTTAATTATATTTTTAATTTAATAATATTTAAAA
* *
10018403 AATATTT-TTTATATTTTTAATAATTAATAATTTTTAA
1 AATATTTAATTATATTTTTAAT--TTAATAATATTTAA
10018440 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 12 0.38
38 7 0.22
39 13 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (38 bp):
AATATTTAATTATATTTTTAATTTAATAATATTTAAAA
Found at i:10019615 original size:55 final size:56
Alignment explanation
Indices: 10019554--10019678 Score: 175
Period size: 55 Copynumber: 2.3 Consensus size: 56
10019544 TCCCTCAAAC
10019554 CCTTTTACTTTCCCCAAAA-AAATTTTACTTCTCCTCAAA-CCCCCCAAACTTTTTT
1 CCTTTTACTTTCCCCAAAATAAATTTTACTTC-CCTCAAACCCCCCCAAACTTTTTT
** * *
10019609 CCTTTTAC-CCCCCCAAAATAACTTTTACTTCCCTCAAACCCCCCCAAATTTTTTT
1 CCTTTTACTTTCCCCAAAATAAATTTTACTTCCCTCAAACCCCCCCAAACTTTTTT
*
10019664 CCTTTTGCTTTCCCC
1 CCTTTTACTTTCCCC
10019679 TAGTGTAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
54 15 0.25
55 41 0.68
56 4 0.07
ACGTcount: A:0.23, C:0.38, G:0.01, T:0.38
Consensus pattern (56 bp):
CCTTTTACTTTCCCCAAAATAAATTTTACTTCCCTCAAACCCCCCCAAACTTTTTT
Found at i:10021102 original size:2 final size:2
Alignment explanation
Indices: 10021095--10021119 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10021085 TAATACCCTT
10021095 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
10021120 TTCGGCTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10026936 original size:14 final size:13
Alignment explanation
Indices: 10026911--10026951 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
10026901 AATAAATATA
10026911 TATTTTTTATTTT
1 TATTTTTTATTTT
10026924 TATTTTTTAATTTT
1 TATTTTTT-ATTTT
*
10026938 TGATTTTTGATTTT
1 T-ATTTTTTATTTT
10026952 AAAATACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 11 0.44
15 6 0.24
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:10029947 original size:22 final size:20
Alignment explanation
Indices: 10029908--10029947 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
10029898 ATTATTGATA
*
10029908 AATTGATGAATTATGCTTGG
1 AATTGATGAATTAAGCTTGG
10029928 AATTGATAGATATTAAGCTT
1 AATTGAT-GA-ATTAAGCTT
10029948 AGATCACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (20 bp):
AATTGATGAATTAAGCTTGG
Found at i:10031142 original size:45 final size:45
Alignment explanation
Indices: 10031076--10031204 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 45
10031066 ATATGCTAAG
* *
10031076 ATGAGTAAGACCATAACTGAAAGATGCTACGACATCATGATA-AA
1 ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATAGAA
* * *
10031120 TATGAGTAAGACCTTAGTTGAAAGATTCTATGACATCATGATAGAA
1 -ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATAGAA
* * *
10031166 ATGAGTAAGACCATGGCTGAAAAATGCTATGAAATCATG
1 ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATG
10031205 TGAAAGTACA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 70 0.97
46 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATAGAA
Found at i:10036559 original size:25 final size:26
Alignment explanation
Indices: 10036525--10036575 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
10036515 GTTGTAAATC
10036525 AGAAAAATATCTCTAGA-AATTTTCT
1 AGAAAAATATCTCTAGAGAATTTTCT
* * *
10036550 AGAATAATATTTTTAGAGAATTTTCT
1 AGAAAAATATCTCTAGAGAATTTTCT
10036576 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (26 bp):
AGAAAAATATCTCTAGAGAATTTTCT
Found at i:10038285 original size:30 final size:30
Alignment explanation
Indices: 10038249--10038312 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
10038239 GAATAAAATG
10038249 CTCACTTTGACTCTTTTACAAGATTATAGA
1 CTCACTTTGACTCTTTTACAAGATTATAGA
* * *
10038279 CTCACTTTGATTCTTTTACAGGATTATAGG
1 CTCACTTTGACTCTTTTACAAGATTATAGA
10038309 CTCA
1 CTCA
10038313 TTTAGATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (30 bp):
CTCACTTTGACTCTTTTACAAGATTATAGA
Found at i:10044539 original size:20 final size:20
Alignment explanation
Indices: 10044514--10044556 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
10044504 TGCATATTTG
10044514 GTGTGATGGTTGGCTAAGTC
1 GTGTGATGGTTGGCTAAGTC
10044534 GTGTGATGGTTGGCTAAGTC
1 GTGTGATGGTTGGCTAAGTC
10044554 GTG
1 GTG
10044557 CTATGCACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.42, T:0.35
Consensus pattern (20 bp):
GTGTGATGGTTGGCTAAGTC
Found at i:10051584 original size:17 final size:17
Alignment explanation
Indices: 10051549--10051584 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10051539 ATAGCCTAGA
*
10051549 CCGTGTGTCATACACGG
1 CCGTGTGTCACACACGG
*
10051566 CCGTGTGTCACACATGG
1 CCGTGTGTCACACACGG
10051583 CC
1 CC
10051585 ATGCGGCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (17 bp):
CCGTGTGTCACACACGG
Found at i:10052283 original size:3 final size:3
Alignment explanation
Indices: 10052264--10052315 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
10052254 AATAAACTAA
*
10052264 AAT AAA AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10052311 AAT AA
1 AAT AA
10052316 CCAACCATCC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10055226 original size:17 final size:17
Alignment explanation
Indices: 10055206--10055297 Score: 125
Period size: 17 Copynumber: 5.5 Consensus size: 17
10055196 TATATTATTT
10055206 TATTATATAATATAATA
1 TATTATATAATATAATA
*
10055223 TATTATATAATATTATTA
1 TATTATATAATA-TAATA
*
10055241 TATAATATAATATAATA
1 TATTATATAATATAATA
*
10055258 TATAATATAATATAATA
1 TATTATATAATATAATA
*
10055275 TATTATAT--TATATTA
1 TATTATATAATATAATA
10055290 TATTATAT
1 TATTATAT
10055298 TGTCTTATAT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
15 14 0.20
17 40 0.58
18 15 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTATATAATATAATA
Found at i:10055230 original size:30 final size:30
Alignment explanation
Indices: 10055196--10055295 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
10055186 TTATGTTTTA
*
10055196 TATATTATTTTATTATATAATATAATATAT
1 TATATTATATTATTATATAATATAATATAT
*
10055226 TATATAATATTATTATATAATATAATATA-
1 TATATTATATTATTATATAATATAATATAT
* * *
10055255 -ATA-TATAATATAATATAATATATTATAT
1 TATATTATATTATTATATAATATAATATAT
10055283 TATATTATATTAT
1 TATATTATATTAT
10055296 ATTGTCTTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 20 0.33
28 3 0.05
29 3 0.05
30 34 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TATATTATATTATTATATAATATAATATAT
Found at i:10055297 original size:5 final size:5
Alignment explanation
Indices: 10055196--10055312 Score: 91
Period size: 5 Copynumber: 24.0 Consensus size: 5
10055186 TTATGTTTTA
* *
10055196 TATAT TAT-T T-TAT TATAT AATATAA TATAT TATAT AATA- T-TAT TATAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT TATAT
* * * * * *
10055244 AATAT AATAT AATA- TATAA TATAA TATAA TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* *
10055293 TATAT TGTCT TATAT TATAT
1 TATAT TATAT TATAT TATAT
10055313 AAATTAAATA
Statistics
Matches: 94, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
3 3 0.03
4 8 0.09
5 79 0.84
7 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:10056471 original size:21 final size:21
Alignment explanation
Indices: 10056445--10056503 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
10056435 GGCTTTGCCG
*
10056445 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCAT
* **
10056466 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCAT
*
10056487 TTCAGGCACTTATATGT
1 ATCAGGCACTT-TATGT
10056504 TGTATACTGA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCAT
Found at i:10062772 original size:6 final size:6
Alignment explanation
Indices: 10062761--10062799 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
10062751 AGTCCATTTG
10062761 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
10062800 CTTAGACTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:10069754 original size:13 final size:14
Alignment explanation
Indices: 10069722--10069753 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10069712 GTGTCATGCC
10069722 AAAAATCCAAAAAT
1 AAAAATCCAAAAAT
*
10069736 AAAAATCCAAAACT
1 AAAAATCCAAAAAT
10069750 AAAA
1 AAAA
10069754 TGATCCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAATCCAAAAAT
Found at i:10071301 original size:17 final size:17
Alignment explanation
Indices: 10071275--10071309 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10071265 AATAAACTAA
*
10071275 AATAAAAATAACAAATT
1 AATAAAAATAAAAAATT
*
10071292 AATAACAATAAAAAATT
1 AATAAAAATAAAAAATT
10071309 A
1 A
10071310 TTAGCCATCC
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:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAAATAAAAAATT
Found at i:10074562 original size:13 final size:13
Alignment explanation
Indices: 10074546--10074598 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
10074536 TTTAAACCAA
10074546 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* ***
10074559 ACTTTTCCACCTC
1 ACTTTTCAAAAGC
10074572 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
10074585 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
10074598 A
1 A
10074599 TTGCCAAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:10074564 original size:26 final size:26
Alignment explanation
Indices: 10074535--10074590 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
10074525 AACACTCAAA
10074535 TTTTAAACCAAACTTTTCAAAAGCAC
1 TTTTAAACCAAACTTTTCAAAAGCAC
** **
10074561 TTTTCCACCTCACTTTTCAAAAGCAC
1 TTTTAAACCAAACTTTTCAAAAGCAC
10074587 TTTT
1 TTTT
10074591 CAAAAGCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.38
Consensus pattern (26 bp):
TTTTAAACCAAACTTTTCAAAAGCAC
Found at i:10075736 original size:10 final size:10
Alignment explanation
Indices: 10075710--10075761 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
10075700 TGCAAATCTG
*
10075710 TCAAAAATAA
1 TCAAAATTAA
10075720 TCAAAATTAA
1 TCAAAATTAA
10075730 TCAAAATTTATTA
1 TCAAAA-TTA--A
10075743 T-AAAATTAA
1 TCAAAATTAA
*
10075752 TTAAAATTAA
1 TCAAAATTAA
10075762 ACATGTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
9 2 0.05
10 23 0.62
11 6 0.16
12 4 0.11
13 2 0.05
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:10076468 original size:5 final size:5
Alignment explanation
Indices: 10076460--10076504 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
10076450 CTTCTCTTCT
10076460 TTTTC TTTT- TTTTC TTTTC TTTTC -TTT- TTTTC TTTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
10076505 ATGAGCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
4 14 0.38
5 23 0.62
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (5 bp):
TTTTC
Found at i:10076487 original size:18 final size:18
Alignment explanation
Indices: 10076460--10076504 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
10076450 CTTCTCTTCT
10076460 TTTTCTTTTTTTTCTTTTC
1 TTTTC-TTTTTTTCTTTTC
10076479 TTTTCTTTTTTTCTTTTC
1 TTTTCTTTTTTTCTTTTC
10076497 TTTT-TTTT
1 TTTTCTTTT
10076505 ATGAGCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 4 0.15
18 17 0.65
19 5 0.19
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTCTTTTTTTCTTTTC
Found at i:10082485 original size:10 final size:11
Alignment explanation
Indices: 10082471--10082511 Score: 57
Period size: 10 Copynumber: 3.7 Consensus size: 11
10082461 TCGAAAATGA
10082471 TCAAAATTAA-
1 TCAAAATTAAT
10082481 TCAAAATTAAT
1 TCAAAATTAAT
*
10082492 TATAAAATTAAT
1 T-CAAAATTAAT
10082504 TCAAAATT
1 TCAAAATT
10082512 CAAAATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 10 0.37
11 7 0.26
12 10 0.37
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
TCAAAATTAAT
Found at i:10085039 original size:13 final size:14
Alignment explanation
Indices: 10085001--10085043 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
10084991 AAAATTCAAT
10085001 ATAATAACATAATTAA
1 ATAATAA-AT-ATTAA
10085017 ATAATAAATATTAA
1 ATAATAAATATTAA
*
10085031 TTAAT-AATATTAA
1 ATAATAAATATTAA
10085044 CGGACTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.31
14 9 0.35
15 2 0.08
16 7 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAAATATTAA
Found at i:10085326 original size:14 final size:14
Alignment explanation
Indices: 10085307--10085333 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10085297 TAAGTTTGAA
10085307 AGTGCTCTAGTAGT
1 AGTGCTCTAGTAGT
10085321 AGTGCTCTAGTAG
1 AGTGCTCTAGTAG
10085334 CACCTCCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (14 bp):
AGTGCTCTAGTAGT
Found at i:10090078 original size:11 final size:12
Alignment explanation
Indices: 10090062--10090092 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
10090052 CATATATGTT
10090062 TTCAAATACA-A
1 TTCAAATACAGA
10090073 TTCAAATACAGA
1 TTCAAATACAGA
10090085 TTCAAATA
1 TTCAAATA
10090093 TAACCTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (12 bp):
TTCAAATACAGA
Found at i:10094317 original size:73 final size:73
Alignment explanation
Indices: 10094198--10094344 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
10094188 AATATGTTAG
* *
10094198 TAATGGCATGTACATAAAGACTTAGAACCTTGAGGATTTTGTAATTATTTGTTTTATGCTAATAA
1 TAATGGCATGTACATAAAGACTTAGAACCTTAACGATTTTGTAATTATTTGTTTTATGCTAATAA
10094263 GTAAAAAA
66 GTAAAAAA
*
10094271 TAATGGCATGTACATAAAGGCTTAGAACCTTAACGATTTTGTAATTATTTGTTTTATGCTAATAA
1 TAATGGCATGTACATAAAGACTTAGAACCTTAACGATTTTGTAATTATTTGTTTTATGCTAATAA
10094336 GTAAAAAA
66 GTAAAAAA
10094344 T
1 T
10094345 GAATTTAAAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (73 bp):
TAATGGCATGTACATAAAGACTTAGAACCTTAACGATTTTGTAATTATTTGTTTTATGCTAATAA
GTAAAAAA
Found at i:10095338 original size:93 final size:93
Alignment explanation
Indices: 10095179--10095460 Score: 449
Period size: 93 Copynumber: 3.0 Consensus size: 93
10095169 GGACTTATCC
* * * * * *
10095179 TGTTTACATGAAATACAAGCACAGCAAATTTGCTC-TACTAATTTAAGCATGTTAGGTAAAAAAT
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
*
10095243 TGCTCATGTAAGATGTCATAAGCCTTAG
66 TGCTCATGTAAGATGTCATAAGTCTTAG
*
10095271 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTGTGCATGTTAGGTAAAAAAT
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
10095336 TGCTCATGTAAGATGTCATAAGTCTTAG
66 TGCTCATGTAAGATGTCATAAGTCTTAG
* *
10095364 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTTGTACTAATTTATACATGTTAGGTAAAAAAA
1 TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGT--AAAAA
10095429 ATTGCTCATGTAAGATGTCATAAGTCTTAG
64 ATTGCTCATGTAAGATGTCATAAGTCTTAG
10095459 TG
1 TG
10095461 ATACCAAAAT
Statistics
Matches: 176, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
92 30 0.17
93 109 0.62
95 37 0.21
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (93 bp):
TGTTTACAAGGAATACAAGTAGAGCAAATTTTCTCGTACTAATTTATGCATGTTAGGTAAAAAAT
TGCTCATGTAAGATGTCATAAGTCTTAG
Found at i:10095791 original size:27 final size:27
Alignment explanation
Indices: 10095740--10095791 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10095730 AAGCACACAG
*
10095740 AACAAACACAAACTTGAAAATGAAACA
1 AACAAACACAAACTTGAAAAAGAAACA
*
10095767 AACAAACTCAAACTT-AACAAAGAAA
1 AACAAACACAAACTTGAA-AAAGAAA
10095792 AAAATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.63, C:0.19, G:0.06, T:0.12
Consensus pattern (27 bp):
AACAAACACAAACTTGAAAAAGAAACA
Found at i:10103730 original size:55 final size:55
Alignment explanation
Indices: 10103664--10103777 Score: 228
Period size: 55 Copynumber: 2.1 Consensus size: 55
10103654 ATTTTCACTT
10103664 TTTATAGAATATCGGTGCTAGAAAGGTTAGCTAATATGTTAACTCATAGTTCTTA
1 TTTATAGAATATCGGTGCTAGAAAGGTTAGCTAATATGTTAACTCATAGTTCTTA
10103719 TTTATAGAATATCGGTGCTAGAAAGGTTAGCTAATATGTTAACTCATAGTTCTTA
1 TTTATAGAATATCGGTGCTAGAAAGGTTAGCTAATATGTTAACTCATAGTTCTTA
10103774 TTTA
1 TTTA
10103778 GAGAGAAACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (55 bp):
TTTATAGAATATCGGTGCTAGAAAGGTTAGCTAATATGTTAACTCATAGTTCTTA
Found at i:10104520 original size:16 final size:16
Alignment explanation
Indices: 10104501--10104534 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10104491 CTCAATAACT
10104501 TTAATCACTTCAATAA
1 TTAATCACTTCAATAA
10104517 TTAATCACTTCAATAA
1 TTAATCACTTCAATAA
10104533 TT
1 TT
10104535 TAATACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAATCACTTCAATAA
Found at i:10124166 original size:28 final size:28
Alignment explanation
Indices: 10124135--10124190 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
10124125 TTCTTTTCCT
* *
10124135 TAGATCGCCAAAAATGCCTCCATTTTCA
1 TAGATCACCAAAAAGGCCTCCATTTTCA
* * *
10124163 TAGATTACCATAAAGGCTTCCATTTTCA
1 TAGATCACCAAAAAGGCCTCCATTTTCA
10124191 CACATTTTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
TAGATCACCAAAAAGGCCTCCATTTTCA
Found at i:10126624 original size:3 final size:3
Alignment explanation
Indices: 10126616--10126660 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
10126606 TTTATGCAAT
10126616 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
10126661 GAAAAAATGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10131623 original size:233 final size:233
Alignment explanation
Indices: 10131216--10131681 Score: 932
Period size: 233 Copynumber: 2.0 Consensus size: 233
10131206 GTCAATATGC
10131216 ACGACTTCCTTATGGTTGAATCCTTGAATATTGAGAAGTATAGAGTTTGATACTATCCCTTTCTT
1 ACGACTTCCTTATGGTTGAATCCTTGAATATTGAGAAGTATAGAGTTTGATACTATCCCTTTCTT
10131281 TAAAGTAAAGGTATATCTAAGAAAAAGGTGAAAAATGGATGAAATAAAACAGAAGTTAGGTTAGG
66 TAAAGTAAAGGTATATCTAAGAAAAAGGTGAAAAATGGATGAAATAAAACAGAAGTTAGGTTAGG
10131346 CAGGCTGTTTTTTTATAACTATTGCATTACAGGAAAAGTGTGTAGGTGCTCCAGGCTTGTGCCTG
131 CAGGCTGTTTTTTTATAACTATTGCATTACAGGAAAAGTGTGTAGGTGCTCCAGGCTTGTGCCTG
10131411 ACCAAATGAGCCTCACCCGAAAGGGTTTGAGGTGCTTT
196 ACCAAATGAGCCTCACCCGAAAGGGTTTGAGGTGCTTT
10131449 ACGACTTCCTTATGGTTGAATCCTTGAATATTGAGAAGTATAGAGTTTGATACTATCCCTTTCTT
1 ACGACTTCCTTATGGTTGAATCCTTGAATATTGAGAAGTATAGAGTTTGATACTATCCCTTTCTT
10131514 TAAAGTAAAGGTATATCTAAGAAAAAGGTGAAAAATGGATGAAATAAAACAGAAGTTAGGTTAGG
66 TAAAGTAAAGGTATATCTAAGAAAAAGGTGAAAAATGGATGAAATAAAACAGAAGTTAGGTTAGG
10131579 CAGGCTGTTTTTTTATAACTATTGCATTACAGGAAAAGTGTGTAGGTGCTCCAGGCTTGTGCCTG
131 CAGGCTGTTTTTTTATAACTATTGCATTACAGGAAAAGTGTGTAGGTGCTCCAGGCTTGTGCCTG
10131644 ACCAAATGAGCCTCACCCGAAAGGGTTTGAGGTGCTTT
196 ACCAAATGAGCCTCACCCGAAAGGGTTTGAGGTGCTTT
10131682 TGTTCTCTAC
Statistics
Matches: 233, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 233 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (233 bp):
ACGACTTCCTTATGGTTGAATCCTTGAATATTGAGAAGTATAGAGTTTGATACTATCCCTTTCTT
TAAAGTAAAGGTATATCTAAGAAAAAGGTGAAAAATGGATGAAATAAAACAGAAGTTAGGTTAGG
CAGGCTGTTTTTTTATAACTATTGCATTACAGGAAAAGTGTGTAGGTGCTCCAGGCTTGTGCCTG
ACCAAATGAGCCTCACCCGAAAGGGTTTGAGGTGCTTT
Found at i:10133621 original size:20 final size:19
Alignment explanation
Indices: 10133598--10133694 Score: 61
Period size: 22 Copynumber: 4.6 Consensus size: 19
10133588 AAAATTTATT
10133598 AAATTTATAAAAAATATTAA
1 AAATTTATAAAAAA-ATTAA
*
10133618 AAATTTAT-TAAAAATTAA
1 AAATTTATAAAAAAATTAA
*
10133636 AAATATATATATATAAAATGTATA
1 AAAT-T-TATA-AAAAAAT-TA-A
* *
10133660 GAAATGTAGAAAAAAATTTATA
1 -AAATTTATAAAAAAA-TTA-A
10133682 AAATTTTATAAAA
1 AAA-TTTATAAAA
10133695 TTATAAGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
18 9 0.15
19 5 0.08
20 11 0.18
21 3 0.05
22 21 0.35
23 6 0.10
24 1 0.02
25 4 0.07
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AAATTTATAAAAAAATTAA
Found at i:10133632 original size:11 final size:11
Alignment explanation
Indices: 10133588--10133633 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
10133578 TAAAAATGAT
10133588 AAAATTTATT-
1 AAAATTTATTA
10133598 -AAATTTA-TA
1 AAAATTTATTA
*
10133607 AAAA-ATATTA
1 AAAATTTATTA
10133617 AAAATTTATTA
1 AAAATTTATTA
10133628 AAAATT
1 AAAATT
10133634 AAAAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
8 1 0.03
9 9 0.30
10 9 0.30
11 11 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAATTTATTA
Found at i:10133634 original size:18 final size:20
Alignment explanation
Indices: 10133598--10133644 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
10133588 AAAATTTATT
10133598 AAATTTATAAAAAATATTAA
1 AAATTTATAAAAAATATTAA
*
10133618 AAATTTAT-TAAAA-ATTAA
1 AAATTTATAAAAAATATTAA
*
10133636 AAATATATA
1 AAATTTATA
10133645 TATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.50
19 4 0.17
20 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTTATAAAAAATATTAA
Found at i:10133638 original size:29 final size:29
Alignment explanation
Indices: 10133588--10133700 Score: 81
Period size: 31 Copynumber: 3.7 Consensus size: 29
10133578 TAAAAATGAT
*
10133588 AAAATTTATTAAATTTATAAAAAATATTA
1 AAAATTTATTAAAATTATAAAAAATATTA
10133617 AAAATTTATTAAAAATTA-AAAATATATATATA
1 AAAATTTATT-AAAATTATAAAA-A-ATAT-TA
* *
10133649 TAAAATGTA-TAGAAATGTAGAAAAAA-ATTTA
1 -AAAATTTATTA-AAAT-TATAAAAAATA-TTA
10133680 TAAAATTT-TATAAAATTATAA
1 -AAAATTTAT-TAAAATTATAA
10133701 GAAAGTTATA
Statistics
Matches: 69, Mismatches: 4, Indels: 21
0.73 0.04 0.22
Matches are distributed among these distances:
29 14 0.20
30 11 0.16
31 19 0.28
32 11 0.16
33 10 0.14
34 4 0.06
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATTTATTAAAATTATAAAAAATATTA
Found at i:10133684 original size:10 final size:10
Alignment explanation
Indices: 10133588--10133716 Score: 63
Period size: 10 Copynumber: 12.6 Consensus size: 10
10133578 TAAAAATGAT
10133588 AAAATTTAT-
1 AAAATTTATA
*
10133597 TAAATTTATA
1 AAAATTTATA
*
10133607 AAAA-ATATTA
1 AAAATTTA-TA
10133617 AAAATTTATTA
1 AAAATTTA-TA
10133628 AAAA-TTA-A
1 AAAATTTATA
10133636 AAATATATATATA
1 AAA-AT-T-TATA
*
10133649 TAAAATGTATA
1 -AAAATTTATA
* * *
10133660 GAAATGTAGAAA
1 AAAAT-T-TATA
10133672 AAAATTTATA
1 AAAATTTATA
*
10133682 AAATTTTAT-
1 AAAATTTATA
10133691 AAAA-TTATA
1 AAAATTTATA
*
10133700 AGAAAGTTATA
1 A-AAATTTATA
10133711 AAAATT
1 AAAATT
10133717 GTAAAGAAAT
Statistics
Matches: 91, Mismatches: 15, Indels: 27
0.68 0.11 0.20
Matches are distributed among these distances:
8 8 0.09
9 15 0.16
10 33 0.36
11 21 0.23
12 8 0.09
13 3 0.03
14 3 0.03
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (10 bp):
AAAATTTATA
Found at i:10134251 original size:88 final size:86
Alignment explanation
Indices: 10134137--10134364 Score: 244
Period size: 87 Copynumber: 2.6 Consensus size: 86
10134127 ACGATCAAAT
* * *
10134137 GACCTTTTTGATA-AATTTAACAGTTCAAGTACGCAATTGAGTGAAAAAAATGTAGGGGCTTAAT
1 GACCTTTTTGATACATTTTAAAAGTTCAAGTAC-CAATTGAGTGAAAAAAA--AAGGGGCTTAAT
* * *
10134201 T-TTTTTTTTTGAAAAATTTTGAG
63 TGCTTTTTTTTGAAAAAGTTTGAA
* * * *
10134224 GGCCTTTTTTATACATTTTAAAAGTTCAATTACCTAATTGAGAGAAAAAAAAAGGGGCTTAATTG
1 GACCTTTTTGATACATTTTAAAAGTTCAAGTACC-AATTGAGTGAAAAAAAAAGGGGCTTAATTG
*
10134289 CTTTTTTTTGAAATAGTTTGAA
65 CTTTTTTTTGAAAAAGTTTGAA
* * * * *
10134311 GACATTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTAAAAACAAAAA
1 GACCTTTTTGATACATTTTAAAAGTTCAAGTA-CCAATTGAGTGAAAA-AAAAA
10134365 AATAATTAAT
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
86 12 0.10
87 66 0.57
88 38 0.33
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (86 bp):
GACCTTTTTGATACATTTTAAAAGTTCAAGTACCAATTGAGTGAAAAAAAAAGGGGCTTAATTGC
TTTTTTTTGAAAAAGTTTGAA
Found at i:10135004 original size:125 final size:124
Alignment explanation
Indices: 10134775--10135197 Score: 569
Period size: 125 Copynumber: 3.4 Consensus size: 124
10134765 CGTGGACGCA
* * * *** * *
10134775 AAGAATTTGTGAAATCGCACCCTCCTGGACGTAATTTTGCTAGAGTTGGTCCTGAAAGAAATAAT
1 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAA-AAATAAT
* *
10134840 TTCGATTTTACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAG
65 TTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAG
* *
10134900 AAGAATTTGTTAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATTATT
1 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATT
* * * **
10134965 TCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAACGCTTCAAGTAGGATGCTATT-TGAG
66 TCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTACCAGGATGCT-TTATGAG
* * * * * * *
10135025 AAGCATTTCTGAAATTGCCCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAAT
1 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATAAT
* *
10135090 TTCAAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAGATGCTTTATGAG
65 TTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAG
10135150 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
1 AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
10135198 CATGTTTGAG
Statistics
Matches: 255, Mismatches: 39, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
124 35 0.14
125 181 0.71
126 39 0.15
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (124 bp):
AAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATT
TCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAG
Found at i:10137783 original size:45 final size:45
Alignment explanation
Indices: 10137719--10137806 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
10137709 GTTTATTACA
* * *
10137719 TCAAATAAACTTCTATTTTATTACATCAAATAATATCGAAATAAC
1 TCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
10137764 TCAAAAAAATTTCTATTTTATTACATAAAATAATATCAAAATA
1 TCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATA
10137807 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.36
Consensus pattern (45 bp):
TCAAAAAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:10138248 original size:18 final size:18
Alignment explanation
Indices: 10138225--10138261 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10138215 GACTTGGAAA
*
10138225 ATGATACATATAAGGGTT
1 ATGATACATATAAGAGTT
10138243 ATGATACATATAAGAGTT
1 ATGATACATATAAGAGTT
10138261 A
1 A
10138262 GGAAATGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (18 bp):
ATGATACATATAAGAGTT
Found at i:10140121 original size:22 final size:22
Alignment explanation
Indices: 10140096--10140160 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 22
10140086 TTAAATATGG
10140096 ATTTGAGAGAAAGTTTGA-AGGA
1 ATTTGAGAGAAA-TTTGAGAGGA
10140118 ATTTGAGAGCAAA-TTGAGAGGA
1 ATTTGAGAG-AAATTTGAGAGGA
*
10140140 AATTGAGAGAAAATTTGAGAG
1 ATTTGAGAG-AAATTTGAGAG
10140161 AGGATTAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 4 0.11
22 24 0.63
23 10 0.26
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTTGAGAGGA
Found at i:10140132 original size:12 final size:11
Alignment explanation
Indices: 10140096--10140161 Score: 66
Period size: 11 Copynumber: 5.9 Consensus size: 11
10140086 TTAAATATGG
10140096 ATTTGAGAGAA
1 ATTTGAGAGAA
*
10140107 AGTTTGA-AGGA
1 A-TTTGAGAGAA
10140118 ATTTGAGAGCAA
1 ATTTGAGAG-AA
10140130 A-TTGAGAGGAA
1 ATTTGAGA-GAA
10140141 A-TTGAGAGAAA
1 ATTTGAGAG-AA
10140152 ATTTGAGAGA
1 ATTTGAGAGA
10140162 GGATTAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
10 6 0.13
11 26 0.55
12 15 0.32
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:10140634 original size:29 final size:28
Alignment explanation
Indices: 10140602--10140662 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
10140592 AAAAGCCTTT
* *
10140602 TTTTTTTAAAATTTACCGAAATGGGCCGA
1 TTTTTTGAAAATTTACCGAAATGAGCC-A
** *
10140631 TTTTTTGATTATTTACCGGAATGAGCCA
1 TTTTTTGAAAATTTACCGAAATGAGCCA
10140659 TTTT
1 TTTT
10140663 CTGCGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTTTGAAAATTTACCGAAATGAGCCA
Found at i:10150271 original size:23 final size:24
Alignment explanation
Indices: 10150226--10150271 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
10150216 TAACCCTCTT
*
10150226 GAGCTTCCCATTATATGGTTCTTGC
1 GAGCTTCCCATTATA-GGCTCTTGC
*
10150251 GAGCTTCCCGTTATA-GCTCTT
1 GAGCTTCCCATTATAGGCTCTT
10150272 CGGAGCGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
25 14 0.74
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (24 bp):
GAGCTTCCCATTATAGGCTCTTGC
Found at i:10153446 original size:22 final size:22
Alignment explanation
Indices: 10153422--10153462 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10153412 TTAATTCTAA
10153422 AAAAT-AGAAAATAATTTTTTT
1 AAAATGAGAAAATAATTTTTTT
*
10153443 AAAATGATAAAATAATTTTT
1 AAAATGAGAAAATAATTTTT
10153463 CCCTGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
AAAATGAGAAAATAATTTTTTT
Found at i:10157847 original size:21 final size:21
Alignment explanation
Indices: 10157812--10157862 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
10157802 TATTACATGT
* *
10157812 TATTTTTAA-ACATACATCTG
1 TATTTTAAATACATACATCTA
10157832 TATTTTAAATACATACATCTA
1 TATTTTAAATACATACATCTA
10157853 TATTTTAAAT
1 TATTTTAAAT
10157863 CTGTGGTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTTTAAATACATACATCTA
Found at i:10161261 original size:16 final size:16
Alignment explanation
Indices: 10161250--10161280 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10161240 TTAAATTTTT
10161250 TTTTTTAAAAATTTAA
1 TTTTTTAAAAATTTAA
*
10161266 TTTTTTAATAATTTA
1 TTTTTTAAAAATTTA
10161281 TTTAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTTAAAAATTTAA
Found at i:10174189 original size:2 final size:2
Alignment explanation
Indices: 10174182--10174211 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10174172 AGTACACATA
10174182 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10174212 GCATGTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10175070 original size:19 final size:19
Alignment explanation
Indices: 10175032--10175070 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10175022 AATACTTTAA
*
10175032 AAAATATTTTTTTATTTTT
1 AAAATATTTTTTTATGTTT
*
10175051 AAAATATTTTTTTGTGTTT
1 AAAATATTTTTTTATGTTT
10175070 A
1 A
10175071 TTAAAAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
AAAATATTTTTTTATGTTT
Found at i:10178204 original size:487 final size:484
Alignment explanation
Indices: 10177295--10178260 Score: 1499
Period size: 487 Copynumber: 2.0 Consensus size: 484
10177285 TAGTGGATAG
* *
10177295 TTGGTGTATATTTTTATGTGCATAATGTGTAATAAGTTTAATTAAATTAACATAAAGTATAATTT
1 TTGGTGTATATTTTTATGTGCATAATGTGTAATAAGTTCAATTAAAATAACATAAAGTATAATTT
* * * *
10177360 ATAATAATATTAAACAAATAAAATGTAAAGAGAAGAAAAGATGGTGACCATCTTTTCTTCTCCAA
66 ATAATAATATTAAACAAATAAAATGGAAAGAAAAGAAAAGATGGTCACCATATTTTCTTCTCCAA
* * *
10177425 CCGAACCATCAAAAGAAAAAGGGGAGAAGCCATTGTTTTAACTTTAAGAGAGTTTGCCATTGCAT
131 CCGAACCACCAAAAGAAAAAAGGGAGAAGCCATTGTTTTAACTTCAAGAGAGTTTGCCATTGCAT
* * * *
10177490 GGTAAAGATTTCAAAATACGTTTTTGTAAATTTTATGTTTTTTGAGATCCTGAGAGCTTGATTTA
196 GGTAAAGATTTCAAAACACGTTTTCGTAAATTTTATGTTTTTTAAGATCCTCAGAGCTTGATTTA
* * * *
10177555 GCTAACTCGGGTACCAATTTGTACAACTGCTAAAGTTTTAAAAATTTTCCATAGTTGATTTCTTG
261 GCTAACTCGGATACCAATTTGTAAAACTGCTAAAGTTTTAAAAAGTTTCAATAGTTGATTTCTTG
10177620 AAGTTCTTGATGTTAAATTGTTAGATTTTAAGCTTAGAAATGAAAAAGGACTAGTTTGTAAAGTT
326 AAGTTCTTGATGTTAAATTGTTAGATTTTAAGCTTAGAAATGAAAAAGGACTAGTTTGTAAAGTT
*
10177685 TAATTGCTAGTTTTTTATACAGGGACTAAAGTGTGTAAATT-TCAAAATTGATGATGAATTTTTG
391 TAATTGCTAGTTTTTTATACAGGGACTAAAGTGTGTAAATTAT-AAAATTGATGATGAATTTTTA
10177749 TAATTATAGATAATAGA-GGTTGTATATGA
455 TAATTATAGATAATAGAGGGTTGTATATGA
*
10177778 TTGGTGTATATTTTTATGTTCATAATGTGTAATAAGTTCAATTAAAATAACATAAAGTATAATTT
1 TTGGTGTATATTTTTATGTGCATAATGTGTAATAAGTTCAATTAAAATAACATAAAGTATAATTT
* * *
10177843 ATAATAATATTAAACAAATAAAAATGGAAATAAAAGAAAATATGGTCACCATATTTTCTTCTTCA
66 ATAATAATATTAAACAAAT-AAAATGGAAAGAAAAGAAAAGATGGTCACCATATTTTCTTCTCCA
*
10177908 ACCGAATCACCAAAAGAAAAAAAAGGGAGAAGCCATTGTTTTAACTTCAAGAGAGTTTGACCATT
130 ACCGAACCACCAAAAG--AAAAAAGGGAGAAGCCATTGTTTTAACTTCAAGAGAGTTTG-CCATT
*** *
10177973 GCATGGTAAAGATTTTGGAACCCGTTTTCGTAAATTTTATG-TTTTTAAGAT-CTCATGAGCTTG
192 GCATGGTAAAGATTTCAAAACACGTTTTCGTAAATTTTATGTTTTTTAAGATCCTCA-GAGCTTG
* *
10178036 ATTTAGCTAACTCGGATACCAATTTGTAAAACTGTTAAAGTTTTAAAAAGTTTCAATGGTTGATT
256 ATTTAGCTAACTCGGATACCAATTTGTAAAACTGCTAAAGTTTTAAAAAGTTTCAATAGTTGA-T
* * * * *
10178101 TTTTTGACGTTTTTGATGTTAAATTGTTAGGTTTTAAGCTTAGAAATGAAAAATGACTAGTTTGT
320 TTCTTGAAGTTCTTGATGTTAAATTGTTAGATTTTAAGCTTAGAAATGAAAAAGGACTAGTTTGT
** *
10178166 AAAGTTTAATTGCTAGTTTTTTATTTAGGGACTAAAGTGTGTAAATTATGAAATTGATGATGAAT
385 AAAGTTTAATTGCTAGTTTTTTATACAGGGACTAAAGTGTGTAAATTATAAAATTGATGATGAAT
*
10178231 TTTTATAATTATAGATCATAGAGGGTTGTA
450 TTTTATAATTATAGATAATAGAGGGTTGTA
10178261 CAAGGATGAA
Statistics
Matches: 437, Mismatches: 38, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
483 81 0.19
484 52 0.12
485 3 0.01
486 112 0.26
487 181 0.41
488 8 0.02
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (484 bp):
TTGGTGTATATTTTTATGTGCATAATGTGTAATAAGTTCAATTAAAATAACATAAAGTATAATTT
ATAATAATATTAAACAAATAAAATGGAAAGAAAAGAAAAGATGGTCACCATATTTTCTTCTCCAA
CCGAACCACCAAAAGAAAAAAGGGAGAAGCCATTGTTTTAACTTCAAGAGAGTTTGCCATTGCAT
GGTAAAGATTTCAAAACACGTTTTCGTAAATTTTATGTTTTTTAAGATCCTCAGAGCTTGATTTA
GCTAACTCGGATACCAATTTGTAAAACTGCTAAAGTTTTAAAAAGTTTCAATAGTTGATTTCTTG
AAGTTCTTGATGTTAAATTGTTAGATTTTAAGCTTAGAAATGAAAAAGGACTAGTTTGTAAAGTT
TAATTGCTAGTTTTTTATACAGGGACTAAAGTGTGTAAATTATAAAATTGATGATGAATTTTTAT
AATTATAGATAATAGAGGGTTGTATATGA
Found at i:10178887 original size:20 final size:20
Alignment explanation
Indices: 10178862--10178911 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
10178852 CGCTTGTACA
10178862 TGTTTGCACTTTGATGCCTC
1 TGTTTGCACTTTGATGCCTC
* *
10178882 TGTTTGCACTTTGGTGCCTT
1 TGTTTGCACTTTGATGCCTC
*
10178902 TGTTTTCACT
1 TGTTTGCACT
10178912 ACGGTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.22, G:0.20, T:0.50
Consensus pattern (20 bp):
TGTTTGCACTTTGATGCCTC
Found at i:10186178 original size:27 final size:26
Alignment explanation
Indices: 10186119--10186178 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
10186109 AATAATATTG
*
10186119 TATTATTTATTTTACATTTAGTCTTTT
1 TATTA-TTATTTTACATTTAGGCTTTT
* *
10186146 TTTTATTATTTTATATTTAGGCTTTT
1 TATTATTATTTTACATTTAGGCTTTT
10186172 TAATTAT
1 T-ATTAT
10186179 AAAATAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (26 bp):
TATTATTATTTTACATTTAGGCTTTT
Found at i:10187133 original size:40 final size:41
Alignment explanation
Indices: 10187089--10187168 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
10187079 ATTCAATACA
*
10187089 AAAATATATATTATAATTAT--TTGTGTTTTTTTAATATAAT
1 AAAATATATATTATAATTATGGTAGTG-TTTTTTAATATAAT
* *
10187129 AAAATATTTATTATATTTATGGTAGTGTTTTTTAATATAA
1 AAAATATATATTATAATTATGGTAGTGTTTTTTAATATAA
10187169 ATTATTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 18 0.51
41 13 0.37
42 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (41 bp):
AAAATATATATTATAATTATGGTAGTGTTTTTTAATATAAT
Found at i:10188988 original size:4 final size:4
Alignment explanation
Indices: 10188981--10189024 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
10188971 TATGTAGTGG
* *
10188981 ATAA ATAA ATAA ATAA ATGA ATAA ATAA ATCAA ACAA ATGAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA AT-AA AT
10189025 TATAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:10189063 original size:16 final size:16
Alignment explanation
Indices: 10189042--10189072 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10189032 AATGCAAGAA
10189042 ATGTATGGATGTACAC
1 ATGTATGGATGTACAC
*
10189058 ATGTATGTATGTACA
1 ATGTATGGATGTACA
10189073 TATAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (16 bp):
ATGTATGGATGTACAC
Found at i:10203275 original size:30 final size:29
Alignment explanation
Indices: 10203210--10203293 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 29
10203200 ACGGGTAGAG
* *
10203210 ACACGAGCGTGTGTTTTAGCCATGTATGAC
1 ACACGGGCGTGTGTTTT-GCCGTGTATGAC
10203240 ACACGGGCGTGTGTTTTGCCCGTGTATGAC
1 ACACGGGCGTGTGTTTTG-CCGTGTATGAC
* *
10203270 ACAC-GGCATGTGGTTTGGCCGTGT
1 ACACGGGCGTGT-GTTTTGCCGTGT
10203294 GTCCCCTGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.27
30 35 0.73
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (29 bp):
ACACGGGCGTGTGTTTTGCCGTGTATGAC
Found at i:10203291 original size:29 final size:30
Alignment explanation
Indices: 10203232--10203293 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
10203222 GTTTTAGCCA
* *
10203232 TGTATGACACACGGGCGTGTGTTTTGCCCG
1 TGTATGACACACGGGCATGTGGTTTGCCCG
*
10203262 TGTATGACACAC-GGCATGTGGTTTGGCCG
1 TGTATGACACACGGGCATGTGGTTTGCCCG
10203291 TGT
1 TGT
10203294 GTCCCCTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.31
Consensus pattern (30 bp):
TGTATGACACACGGGCATGTGGTTTGCCCG
Found at i:10212135 original size:41 final size:40
Alignment explanation
Indices: 10212019--10212167 Score: 158
Period size: 41 Copynumber: 3.7 Consensus size: 40
10212009 CACCGACACG
* ** * *
10212019 AAGCCTGCTAGGC-CTAAAGCCTGATTTGGTACACCGGCAT
1 AAGCCTGCTAGGCAC-AAAGCCTGAATTAATTCACCGGAAT
* * * *
10212059 GAAGCCTGCTAGACATAAA-TCTGAAATAATTCACCGGTAAT
1 -AAGCCTGCTAGGCACAAAGCCTGAATTAATTCACCGG-AAT
10212100 AAGCCTGCTAGGCACAAAGCCTGAATTAATTCACCGGCAAT
1 AAGCCTGCTAGGCACAAAGCCTGAATTAATTCACCGG-AAT
*
10212141 AAGCCTGCTAAGCACAAAGCCTGAATT
1 AAGCCTGCTAGGCACAAAGCCTGAATT
10212168 TCACTGATAC
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 28 0.31
41 62 0.69
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (40 bp):
AAGCCTGCTAGGCACAAAGCCTGAATTAATTCACCGGAAT
Found at i:10215829 original size:15 final size:15
Alignment explanation
Indices: 10215811--10215847 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
10215801 TCAGCTGTGT
10215811 GTGACACAAGGCCAG
1 GTGACACAAGGCCAG
*
10215826 GTGACACAAGGGCAG
1 GTGACACAAGGCCAG
10215841 GTGACAC
1 GTGACAC
10215848 GGCCGTGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.35, T:0.08
Consensus pattern (15 bp):
GTGACACAAGGCCAG
Found at i:10220180 original size:21 final size:21
Alignment explanation
Indices: 10220154--10220193 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10220144 TTTGGGTGGA
10220154 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
10220175 TCAGCTCTCACGAGCTTCT
1 TCAGCTCTCACGAGCTTCT
10220194 ATTCGTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.33
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:10223112 original size:30 final size:31
Alignment explanation
Indices: 10223078--10223139 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
10223068 AGAAATTTAG
* *
10223078 TGATTAAATCGAAAAA-ATT-TTATAATTAAA
1 TGATTAAAAC-AAAAACATTCTCATAATTAAA
10223108 TGATTAAAACAAAAACATTCTCATAATTAAA
1 TGATTAAAACAAAAACATTCTCATAATTAAA
10223139 T
1 T
10223140 ATCATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.18
30 12 0.43
31 11 0.39
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (31 bp):
TGATTAAAACAAAAACATTCTCATAATTAAA
Found at i:10233416 original size:46 final size:46
Alignment explanation
Indices: 10233346--10233504 Score: 176
Period size: 46 Copynumber: 3.5 Consensus size: 46
10233336 CAGGGCTTAA
* * *
10233346 TATTTTTGTATTCTCAAGTTCGCAATAG-ATGCAGGAACTTGGAACC
1 TATTCTTGTATTCTCAAGTCCGCAAT-GTATGCAGGAGCTTGGAACC
* * * *
10233392 TATTTTTGTATTCTCAAGTCCGCAATGTATGTAGGAGCTCGAAACC
1 TATTCTTGTATTCTCAAGTCCGCAATGTATGCAGGAGCTTGGAACC
* * * * * *
10233438 TAATCCTATATTCTCGAGTACGCAACGTATGCAGGAGCTTGGAACC
1 TATTCTTGTATTCTCAAGTCCGCAATGTATGCAGGAGCTTGGAACC
*
10233484 TATTCTTGTATTCTCGAGTCC
1 TATTCTTGTATTCTCAAGTCC
10233505 ACAACATATG
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
45 1 0.01
46 92 0.99
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (46 bp):
TATTCTTGTATTCTCAAGTCCGCAATGTATGCAGGAGCTTGGAACC
Found at i:10233530 original size:46 final size:46
Alignment explanation
Indices: 10233388--10233531 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 46
10233378 AGGAACTTGG
* * * * *
10233388 AACCTATTTTTGTATTCTCAAGTCCGCAATGTATGTAGGAGCTCGA
1 AACCTATTCTTGTATTCTCGAGTCCGCAACGTATGCAGGAGTTCGA
* * * * *
10233434 AACCTAATCCTATATTCTCGAGTACGCAACGTATGCAGGAGCTT-GG
1 AACCTATTCTTGTATTCTCGAGTCCGCAACGTATGCAGGAG-TTCGA
* * * *
10233480 AACCTATTCTTGTATTCTCGAGTCCACAACATATGCAGTAGTTCAA
1 AACCTATTCTTGTATTCTCGAGTCCGCAACGTATGCAGGAGTTCGA
10233526 AACCTA
1 AACCTA
10233532 GTCAAACTCA
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
45 2 0.03
46 74 0.96
47 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (46 bp):
AACCTATTCTTGTATTCTCGAGTCCGCAACGTATGCAGGAGTTCGA
Found at i:10235274 original size:20 final size:19
Alignment explanation
Indices: 10235222--10235274 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
10235212 ACAATATTGA
10235222 TTTACCAATATTTATAAGAC
1 TTTA-CAATATTTATAAGAC
* *
10235242 TTTACTAAAATTTATAAGAT
1 TTTAC-AATATTTATAAGAC
10235262 TTTATCAATATTT
1 TTTA-CAATATTT
10235275 CCAAATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (19 bp):
TTTACAATATTTATAAGAC
Found at i:10235585 original size:20 final size:20
Alignment explanation
Indices: 10235520--10235578 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
10235510 ATCGGCTTAT
*
10235520 CAAAATATCTAAGAATTTAC
1 CAAAATATCTAACAATTTAC
* * * * *
10235540 CTATATATCCAACGACTTAC
1 CAAAATATCTAACAATTTAC
10235560 CAAAATATCTAACAATTTA
1 CAAAATATCTAACAATTTA
10235579 TCGAAATTTA
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (20 bp):
CAAAATATCTAACAATTTAC
Found at i:10235644 original size:40 final size:40
Alignment explanation
Indices: 10235557--10235645 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
10235547 TCCAACGACT
* * ** *
10235557 TACCAAAATATCTAACAATTTATCGAAATTTATATTGTTT
1 TACCAATATATCTAACAACTTATCGAAATTTATATCATTA
*
10235597 TACCAATATATCTAACAACTTATC-AATATTTCTATCATTA
1 TACCAATATATCTAACAACTTATCGAA-ATTTATATCATTA
*
10235637 TATCAATAT
1 TACCAATAT
10235646 TTATGAGGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.05
40 39 0.95
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (40 bp):
TACCAATATATCTAACAACTTATCGAAATTTATATCATTA
Found at i:10235762 original size:20 final size:20
Alignment explanation
Indices: 10235739--10235814 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
10235729 TTTTTTTAAA
*
10235739 GATTTACCAATATTTCTAAG
1 GATTTACCAAAATTTCTAAG
* * *
10235759 GA-TTCCCAAAATATCTAAC
1 GATTTACCAAAATTTCTAAG
10235778 GATTTACCAAAATTTCTAAG
1 GATTTACCAAAATTTCTAAG
10235798 GATTTACCAAAATTTCT
1 GATTTACCAAAATTTCT
10235815 GTCATTTTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.31
20 33 0.69
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (20 bp):
GATTTACCAAAATTTCTAAG
Found at i:10235824 original size:40 final size:40
Alignment explanation
Indices: 10235739--10236407 Score: 223
Period size: 40 Copynumber: 16.4 Consensus size: 40
10235729 TTTTTTTAAA
*
10235739 GATTTACCAATATTTCTAAGGA-TTCCCAAAATATCTAAC
1 GATTTACCAATATTTCTAAGGATTTACCAAAATATCTAAC
* * **
10235778 GATTTACCAAAATTTCTAAGGATTTACCAAAATTTCTGTC
1 GATTTACCAATATTTCTAAGGATTTACCAAAATATCTAAC
* * * *
10235818 -ATTTTACCAATATTTATGA-GACTTTACCAAAA-ATTTAAA
1 GA-TTTACCAATATTTCTAAGGA-TTTACCAAAATATCTAAC
* ***
10235857 GATTTTATCAATATTT-TCAAATTTTCTAAACCTTATACCAAGTAT-TAAC
1 GA-TTTACCAATATTTCT-AAGGATT-T--ACC--A-A--AA-TATCTAAC
* * * *
10235906 -AATTACCAAAATTTCTATA--ACTTTACCATAATATCTAAG
1 GATTTACCAATATTTCTA-AGGA-TTTACCAAAATATCTAAC
* *
10235945 GATTTACCAATATTTCTAAGGATTTACCAATATTTCTAA-
1 GATTTACCAATATTTCTAAGGATTTACCAAAATATCTAAC
* **** * * * *
10235984 GCATTTACCCAA-AATTCTATCTTTTTTACCAATATTTATGA-
1 G-ATTTA-CCAATATTTCTA-AGGATTTACCAAAATATCTAAC
* * * *
10236025 GACTTTACCAATATTT-TCAA--TTTTTCTAAACACTATACCAAGTC
1 GA-TTTACCAATATTTCT-AAGGATTTACCAAA-A-TAT-CTAA--C
* * * * * *
10236069 ATAATAATTACTAAAATTTCT-ATGACTTTACCAAAATGTCTAAT
1 --GAT--TTACCAATATTTCTAAGGA-TTTACCAAAATATCTAAC
* * *
10236113 AATTTACCAAAATTTCTAAGGATTTACCAATATATCTAAC
1 GATTTACCAATATTTCTAAGGATTTACCAAAATATCTAAC
*
10236153 AATTTACCAATAATTT-TAAGGATTTACCAAAATATCTAAC
1 GATTTACCAAT-ATTTCTAAGGATTTACCAAAATATCTAAC
* * ** * * * *
10236193 -AGTTTTCCAAAATTTCTATCGATTTACCAATACT-TGTGAG
1 GA-TTTACCAATATTTCTAAGGATTTACCAA-AATATCTAAC
* *
10236233 GTTTTACCAATATTTCTAAGGATTTACCAATATATCTAA-
1 GATTTACCAATATTTCTAAGGATTTACCAAAATATCTAAC
* * * * *
10236272 TAGTTTACCAAAATTTCTAAGAATTTACCGATATATCTAAC
1 GA-TTTACCAATATTTCTAAGGATTTACCAAAATATCTAAC
* * * * * *
10236313 AAATTACCAAAAAATT-TAAAG-TGTTACCAAAACATCTAAC
1 GATTTACC-AATATTTCTAAGGAT-TTACCAAAATATCTAAC
* * * * *
10236353 AATTTACCAAAATTT-TCAATGTTTTATCAAAATATCTAAC
1 GATTTACCAATATTTCT-AAGGATTTACCAAAATATCTAAC
*
10236393 GATTTACCAAAATTT
1 GATTTACCAATATTT
10236408 TTATTGAATT
Statistics
Matches: 477, Mismatches: 97, Indels: 111
0.70 0.14 0.16
Matches are distributed among these distances:
38 10 0.02
39 49 0.10
40 307 0.64
41 48 0.10
42 4 0.01
43 3 0.01
44 3 0.01
45 2 0.00
46 7 0.01
47 25 0.05
48 7 0.01
49 10 0.02
50 2 0.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (40 bp):
GATTTACCAATATTTCTAAGGATTTACCAAAATATCTAAC
Found at i:10235863 original size:20 final size:20
Alignment explanation
Indices: 10235780--10235863 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
10235770 TATCTAACGA
*
10235780 TTTACCAAAATTTCTAAGGA-
1 TTTACCAAAATTTATAA-GAT
* ***
10235800 TTTACCAAAATTTCTGTCAT
1 TTTACCAAAATTTATAAGAT
* * *
10235820 TTTACCAATATTTATGAGAC
1 TTTACCAAAATTTATAAGAT
10235840 TTTACCAAAAATTTA-AAGAT
1 TTTACC-AAAATTTATAAGAT
10235860 TTTA
1 TTTA
10235864 TCAATATTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 1 0.02
20 43 0.84
21 7 0.14
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTACCAAAATTTATAAGAT
Found at i:10235991 original size:60 final size:60
Alignment explanation
Indices: 10235908--10236311 Score: 212
Period size: 60 Copynumber: 6.6 Consensus size: 60
10235898 GTATTAACAA
* * *
10235908 TTACCAAAATTTCTATA-ACTTTACCATAATATCTAAGGATTTACCAATATTTCTAAGGA-T
1 TTACCAATATTTCTA-AGAATTTACCAAAATATCTAAGGATTTACCAATATTTCTAA-GACT
* **** * *
10235968 TTACCAATATTTCTAAGCATTTACCCAAAAT-TCTATCTTTTTTACCAATATTTATGAGACT
1 TTACCAATATTTCTAAGAATTTA-CCAAAATATCTA-AGGATTTACCAATATTTCTAAGACT
* * * * * * * * *
10236029 TTACCAATATTT-TCA-ATTTTTCTAAACACTATACCAAGTCATAATAATTACTAAAATTTCTAT
1 TTACCAATATTTCTAAGAATTTACCAAA-A-TAT-CTAAG----GAT--TTACCAATATTTCTAA
10236092 GACT
57 GACT
* * * * * * *
10236096 TTACCAAAATGTCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAAT
1 TTACCAATATTTCTAAGAATTTACCAAAATATCTAAGGATTTACCAATATTTCTAAGACT
* * * * *
10236156 TTACCAATAATTT-TAAGGATTTACCAAAATATCTAA-CAGTTTTCCAAAATTTCTATCGA-T
1 TTACCAAT-ATTTCTAAGAATTTACCAAAATATCTAAGGA-TTTACCAATATTTCTA-AGACT
* * * ** * * * * *
10236216 TTACCAATACTTGTGAGGTTTTACCAATATTTCTAAGGATTTACCAATATATCTAATAGT
1 TTACCAATATTTCTAAGAATTTACCAAAATATCTAAGGATTTACCAATATTTCTAAGACT
* * *
10236276 TTACCAAAATTTCTAAGAATTTACCGATATATCTAA
1 TTACCAATATTTCTAAGAATTTACCAAAATATCTAA
10236312 CAAATTACCA
Statistics
Matches: 252, Mismatches: 70, Indels: 44
0.69 0.19 0.12
Matches are distributed among these distances:
58 4 0.02
59 10 0.04
60 151 0.60
61 40 0.16
62 4 0.02
65 1 0.00
66 4 0.02
67 27 0.11
68 3 0.01
69 8 0.03
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (60 bp):
TTACCAATATTTCTAAGAATTTACCAAAATATCTAAGGATTTACCAATATTTCTAAGACT
Found at i:10236002 original size:20 final size:20
Alignment explanation
Indices: 10235939--10235992 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
10235929 TACCATAATA
10235939 TCTAAGGATTTACCAATATT
1 TCTAAGGATTTACCAATATT
10235959 TCTAAGGATTTACCAATATT
1 TCTAAGGATTTACCAATATT
*
10235979 TCTAAGCATTTACC
1 TCTAAGGATTTACC
10235993 CAAAATTCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
TCTAAGGATTTACCAATATT
Found at i:10236065 original size:168 final size:168
Alignment explanation
Indices: 10235764--10236184 Score: 486
Period size: 168 Copynumber: 2.5 Consensus size: 168
10235754 CTAAGGATTC
*
10235764 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAAAATTTCT--GTCATTTTA-CC
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATTTCTAAG-CA-TTTACCC
* * *
10235826 AATATTTATGAGACTTTACCAAAAATTTAAAGATTTTATCAATATTTTCAAATTTTCTAAACCTT
64 AAAATTTATGAGACTTTACCAAAAATTTAAAGACTTTACCAATATTTTCAAATTTTCTAAACCTT
10235891 ATACCAAGT-ATTAACAATTACCAAAATTTCTATAACTTTA
129 ATACCAAGTCA-TAACAATTACCAAAATTTCTATAACTTTA
* * *
10235931 CCATAATATCTAAGGATTTACCAATATTTCTAAGGATTTACCAATATTTCTAAGCATTTACCCAA
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATTTCTAAGCATTTACCCAA
**** * * *
10235996 AATTCTAT-CTTTTTTACC-AATATTTATGAGACTTTACCAATATTTTCAATTTTTCTAAACAC-
66 AATT-TATGAGACTTTACCAAAAATTTA-AAGACTTTACCAATATTTTCAAATTTTCTAAAC-CT
* * *
10236058 TATACCAAGTCATAATAATTACTAAAATTTCTATGACTTTA
128 TATACCAAGTCATAACAATTACCAAAATTTCTATAACTTTA
* ** *
10236099 CCAAAATGTCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAA-CAATTTA-CCA
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATTTCTAAGC-ATTTACCCA
*
10236162 ATAATTT-TAAGGA-TTTACCAAAA
65 A-AATTTATGA-GACTTTACCAAAA
10236185 TATCTAACAG
Statistics
Matches: 215, Mismatches: 27, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
166 1 0.00
167 70 0.33
168 138 0.64
169 6 0.03
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.38
Consensus pattern (168 bp):
CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATTTCTAAGCATTTACCCAA
AATTTATGAGACTTTACCAAAAATTTAAAGACTTTACCAATATTTTCAAATTTTCTAAACCTTAT
ACCAAGTCATAACAATTACCAAAATTTCTATAACTTTA
Found at i:10236180 original size:80 final size:80
Alignment explanation
Indices: 10236095--10236707 Score: 357
Period size: 80 Copynumber: 7.6 Consensus size: 80
10236085 TTTCTATGAC
*
10236095 TTTACCAAAATGTCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTAC
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTAC
10236160 CAATAATTTTAAGGA
66 CAATAATTTTAAGGA
* * * ** * * ***
10236175 TTTACCAAAATATCTAACAGTTTTCCAAAATTTCTATCGATTTACCAATACT-TGTGAGGTTTTA
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATA-TATCTAACAATTTA
10236239 CCAAT-ATTTCTAAGGA
65 CCAATAATTT-TAAGGA
* * * * *
10236255 TTTACCAATATATCTAATAGTTTACCAAAATTTCTAAGAATTTACCGATATATCTAACAAATTAC
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTAC
* * *
10236320 CAAAAAATTTAAAG-
66 CAATAATTTTAAGGA
* * * * * * *
10236334 TGTTACCAAAACATCTAACAATTTACCAAAATTT-TCAATGTTTTATCAAAATATCTAACGATTT
1 T-TTACCAAAATATCTAATAATTTACCAAAATTTCT-AAGGATTTACCAATATATCTAACAATTT
**
10236398 ACCAA-AATTTTTATTGA
64 ACCAATAA-TTTTAAGGA
* * * * * * * * * ** * * *
10236415 ATTACCAATATTTATGAGACTTTACCAATATTTTCTAA-AATTTTACTGATATTTTTAA-ATTTT
1 TTTACCAAAATATCTAATAATTTACCAA-AATTTCTAAGGA-TTTACCAATATATCTAACA-ATT
* *
10236478 CTAAACCTTATACCAAGTTTTAA-CA
63 -T--ACC--A-A-TAA-TTTTAAGGA
* * * * * * * * * *
10236503 ATTACCGAAATTTCT-ATGACTTTACCAAAATATCTAAGGATATACTAGTATATCTAACATTTTC
1 TTTACCAAAATATCTAAT-AATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTA
10236567 CCAAT-ATTTCTAAGGA
65 CCAATAATTT-TAAGGA
* * * * * * * **
10236583 TTTACCAAAATGTCTAATGATTTACTAAAATTTTTAAGGATTTACCAAAATATTTGATGATTTAC
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTAC
* *
10236648 TAATATTTTTAAGGA
66 CAATAATTTTAAGGA
* * * *
10236663 ATTACCAACATATTTAACAATTTACCAAAATTTCTATA-GATTTAC
1 TTTACCAAAATATCTAATAATTTACCAAAATTTCTA-AGGATTTAC
10236708 GAAAATTTAT
Statistics
Matches: 398, Mismatches: 107, Indels: 56
0.71 0.19 0.10
Matches are distributed among these distances:
78 3 0.01
79 13 0.03
80 286 0.72
81 30 0.08
82 3 0.01
84 5 0.01
86 2 0.01
87 24 0.06
88 25 0.06
89 7 0.02
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (80 bp):
TTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTAC
CAATAATTTTAAGGA
Found at i:10236363 original size:20 final size:20
Alignment explanation
Indices: 10236095--10236405 Score: 180
Period size: 20 Copynumber: 15.6 Consensus size: 20
10236085 TTTCTATGAC
* *
10236095 TTTACCAAAATGTCTAATAA
1 TTTACCAAAATATCTAACAA
* **
10236115 TTTACCAAAATTTCTAAGGA
1 TTTACCAAAATATCTAACAA
*
10236135 TTTACCAATATATCTAACAA
1 TTTACCAAAATATCTAACAA
* **
10236155 TTTACCAATAAT-TTTAAGGA
1 TTTACCAA-AATATCTAACAA
*
10236175 TTTACCAAAATATCTAACAG
1 TTTACCAAAATATCTAACAA
* * * *
10236195 TTTTCCAAAATTTCTATCGA
1 TTTACCAAAATATCTAACAA
* * * ***
10236215 TTTACCAATACT-TGTGAGGT
1 TTTACCAA-AATATCTAACAA
* * **
10236235 TTTACCAATATTTCTAAGGA
1 TTTACCAAAATATCTAACAA
* * *
10236255 TTTACCAATATATCTAATAG
1 TTTACCAAAATATCTAACAA
* *
10236275 TTTACCAAAATTTCTAAGAA
1 TTTACCAAAATATCTAACAA
* *
10236295 TTTACCGATATATCTAACAA
1 TTTACCAAAATATCTAACAA
* * * *
10236315 ATTACCAAAAAATTTAA-AG
1 TTTACCAAAATATCTAACAA
*
10236334 TGTTACCAAAACATCTAACAA
1 T-TTACCAAAATATCTAACAA
* ***
10236355 TTTACCAAAAT-TTTCAATGT
1 TTTACCAAAATATCT-AACAA
* *
10236375 TTTATCAAAATATCTAACGA
1 TTTACCAAAATATCTAACAA
10236395 TTTACCAAAAT
1 TTTACCAAAAT
10236406 TTTTATTGAA
Statistics
Matches: 219, Mismatches: 64, Indels: 16
0.73 0.21 0.05
Matches are distributed among these distances:
19 7 0.03
20 204 0.93
21 8 0.04
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.36
Consensus pattern (20 bp):
TTTACCAAAATATCTAACAA
Found at i:10236590 original size:20 final size:20
Alignment explanation
Indices: 10236504--10236715 Score: 119
Period size: 20 Copynumber: 10.6 Consensus size: 20
10236494 GTTTTAACAA
* *
10236504 TTACCGAAATTTCT-ATGACT
1 TTACCAAAATTTCTAAGGA-T
*
10236524 TTACCAAAATATCTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* * ** * *
10236544 ATACTAGTATATCTAA-CATT
1 TTACCAAAATTTCTAAGGA-T
* *
10236564 TTCCCAATATTTCTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* *
10236584 TTACCAAAATGTCTAATGAT
1 TTACCAAAATTTCTAAGGAT
* *
10236604 TTACTAAAATTTTTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* *
10236624 TTACCAAAATATT-TGATGAT
1 TTACCAAAAT-TTCTAAGGAT
* * * *
10236644 TTACTAATATTTTTAAGGAA
1 TTACCAAAATTTCTAAGGAT
* **
10236664 TTACCAACATATT-TAACAAT
1 TTACCAAAAT-TTCTAAGGAT
10236684 TTACCAAAATTTCTATA-GAT
1 TTACCAAAATTTCTA-AGGAT
*
10236704 TTACGAAAATTT
1 TTACCAAAATTT
10236716 ATGAGATTTT
Statistics
Matches: 146, Mismatches: 38, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
19 5 0.03
20 132 0.90
21 9 0.06
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (20 bp):
TTACCAAAATTTCTAAGGAT
Found at i:10236713 original size:80 final size:80
Alignment explanation
Indices: 10236561--10236736 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
10236551 TATATCTAAC
* * * ** * *
10236561 ATTTTCCCAATATTTCTAAGGATTTACCAAAATGTCTAATGATTTACTAAAATTTTTAAGGATTT
1 ATTTTACCAATATTTCTAAGGAATTACCAAAATATCTAACAATTTACCAAAATTTCTAAGGATTT
10236626 ACCAAAATATT-TGATG
66 ACCAAAAT-TTATGA-G
* * * *
10236642 A-TTTACTAATATTTTTAAGGAATTACCAACATATTTAACAATTTACCAAAATTTCTATA-GATT
1 ATTTTACCAATATTTCTAAGGAATTACCAAAATATCTAACAATTTACCAAAATTTCTA-AGGATT
*
10236705 TACGAAAATTTATGAG
65 TACCAAAATTTATGAG
10236721 ATTTTACCAATATTTC
1 ATTTTACCAATATTTC
10236737 CAAAATTTCT
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
79 4 0.05
80 72 0.92
81 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (80 bp):
ATTTTACCAATATTTCTAAGGAATTACCAAAATATCTAACAATTTACCAAAATTTCTAAGGATTT
ACCAAAATTTATGAG
Found at i:10236724 original size:19 final size:20
Alignment explanation
Indices: 10236567--10236736 Score: 72
Period size: 20 Copynumber: 8.5 Consensus size: 20
10236557 TAACATTTTC
*
10236567 CCAATATTTCTA-AGGATTTA
1 CCAAAATTTCTATA-GATTTA
*
10236587 CCAAAATGTCTA-ATGATTTA
1 CCAAAATTTCTATA-GATTTA
* *
10236607 CTAAAATTTTTA-AGGATTTA
1 CCAAAATTTCTATA-GATTTA
10236627 CCAAAATATT-TGAT-GATTTA
1 CCAAAAT-TTCT-ATAGATTTA
* * * *
10236647 CTAATATTTTTA-AGGAATTA
1 CCAAAATTTCTATA-GATTTA
* *
10236667 CCAACATATT-TA-ACAATTTA
1 CCAAAAT-TTCTATA-GATTTA
10236687 CCAAAATTTCTATAGATTTA
1 CCAAAATTTCTATAGATTTA
*
10236707 CGAAAA-TT-TATGAGATTTTA
1 CCAAAATTTCTAT-AGA-TTTA
*
10236727 CCAATATTTC
1 CCAAAATTTC
10236737 CAAAATTTCT
Statistics
Matches: 116, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
18 3 0.03
19 10 0.09
20 95 0.82
21 8 0.07
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (20 bp):
CCAAAATTTCTATAGATTTA
Found at i:10244802 original size:26 final size:26
Alignment explanation
Indices: 10244766--10244826 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
10244756 AACATAGGAA
10244766 GAGAAAATATTTTCTTTACTTTTAGT
1 GAGAAAATATTTTCTTTACTTTTAGT
* *
10244792 GAGAAGATATTTTCTTTACTTTTAAT
1 GAGAAAATATTTTCTTTACTTTTAGT
*
10244818 GGGAAAATA
1 GAGAAAATA
10244827 ACACTTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (26 bp):
GAGAAAATATTTTCTTTACTTTTAGT
Found at i:10247200 original size:2 final size:2
Alignment explanation
Indices: 10247193--10247252 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
10247183 GTGATTGGTA
10247193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
10247235 AT AT CT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
10247253 GTTCTGTTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10247534 original size:21 final size:21
Alignment explanation
Indices: 10247470--10247593 Score: 81
Period size: 21 Copynumber: 5.9 Consensus size: 21
10247460 GTTTAACTCA
10247470 TATGAGTTTCCGTTCAGCT-T
1 TATGAGTTTCCGTTCAGCTCT
* * * *
10247490 TATTGAGCTTCTGCTT-AACCCT
1 TA-TGAGTTTCCG-TTCAGCTCT
*
10247512 TATGGGTTTCCGTTCAGCTCT
1 TATGAGTTTCCGTTCAGCTCT
* * * * *
10247533 TACGAGCTTCCGTTCAACCCG
1 TATGAGTTTCCGTTCAGCTCT
* *
10247554 TATGAGTTTCTGTTTAGCTCT
1 TATGAGTTTCCGTTCAGCTCT
* **
10247575 CATGAGTTTCTATTCAGCT
1 TATGAGTTTCCGTTCAGCT
10247594 TTTGAGCTTC
Statistics
Matches: 75, Mismatches: 25, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
20 4 0.05
21 66 0.88
22 5 0.07
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (21 bp):
TATGAGTTTCCGTTCAGCTCT
Found at i:10247540 original size:42 final size:41
Alignment explanation
Indices: 10247443--10247574 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 41
10247433 CTTTTTGTTT
* * *
10247443 AGCTCTCACGAGCATCTGTTTAACTCATATGAGTTTCCGTTC
1 AGCTCTTACGAGCTTCTG-TTAACCCATATGAGTTTCCGTTC
* * *
10247485 AGCT-TTATTGAGCTTCTGCTTAACCCTTATGGGTTTCCGTTC
1 AGCTCTTA-CGAGCTTCTG-TTAACCCATATGAGTTTCCGTTC
* * * *
10247527 AGCTCTTACGAGCTTCCGTTCAACCCGTATGAGTTTCTGTTT
1 AGCTCTTACGAGCTTCTGTT-AACCCATATGAGTTTCCGTTC
10247569 AGCTCT
1 AGCTCT
10247575 CATGAGTTTC
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 4 0.05
42 67 0.91
43 3 0.04
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (41 bp):
AGCTCTTACGAGCTTCTGTTAACCCATATGAGTTTCCGTTC
Found at i:10253351 original size:27 final size:27
Alignment explanation
Indices: 10253321--10253372 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10253311 GGTGATCCAT
* *
10253321 ACAGGGAATGCCACAAAGGCGATTCCC
1 ACAGAGAACGCCACAAAGGCGATTCCC
*
10253348 ACAGAGTACGCCACAAAGGCGATTC
1 ACAGAGAACGCCACAAAGGCGATTC
10253373 ATTTAGAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.29, G:0.25, T:0.12
Consensus pattern (27 bp):
ACAGAGAACGCCACAAAGGCGATTCCC
Found at i:10253380 original size:27 final size:27
Alignment explanation
Indices: 10253330--10253394 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
10253320 TACAGGGAAT
*
10253330 GCCACAAAGGCGATTCCCACAGAGTAC
1 GCCACAAAGGCGATTCACACAGAGTAC
***
10253357 GCCACAAAGGCGATTCATTTAGAGTAC
1 GCCACAAAGGCGATTCACACAGAGTAC
*
10253384 GCCTCAAAGGC
1 GCCACAAAGGC
10253395 TGACTTGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.29, G:0.23, T:0.15
Consensus pattern (27 bp):
GCCACAAAGGCGATTCACACAGAGTAC
Found at i:10254637 original size:45 final size:45
Alignment explanation
Indices: 10254573--10254659 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
10254563 CTTTTTTTAC
* * *
10254573 CATGATGCCATAGCGTCTTTCAGCCATGGTCTTACTCATTTTCGT
1 CATGATGCCATAGCATCTTTCAACCATGATCTTACTCATTTTCGT
** * *
10254618 CATGATGTTATAGCATCTTTCAACTATGATCTTACTTATTTT
1 CATGATGCCATAGCATCTTTCAACCATGATCTTACTCATTTT
10254660 TACACCTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (45 bp):
CATGATGCCATAGCATCTTTCAACCATGATCTTACTCATTTTCGT
Found at i:10261751 original size:24 final size:24
Alignment explanation
Indices: 10261715--10261763 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
10261705 GACGAAAACA
*
10261715 AAGTCGAAGGTGGGGATGAAGATG
1 AAGTCGAAGGTGGAGATGAAGATG
10261739 AAGTCG-AGAGTGGAGATGAAGATG
1 AAGTCGAAG-GTGGAGATGAAGATG
10261763 A
1 A
10261764 TTATAAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.37, C:0.04, G:0.43, T:0.16
Consensus pattern (24 bp):
AAGTCGAAGGTGGAGATGAAGATG
Found at i:10265846 original size:37 final size:40
Alignment explanation
Indices: 10265753--10265890 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 40
10265743 AACACACCAG
* *
10265753 TTTGGCACCCAGTGCCTCATTGGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGTCTCATTGGATAAATCGAAGTAATAA
* * *
10265793 TTTGACACCCAGTGTCTCTTTGGTTAAATCGAAGT-A-AA
1 TTTGGCACCCAGTGTCTCATTGGATAAATCGAAGTAATAA
*** * **
10265831 -TTGGCACCCAGTGTCTCATCAAATTAATCCGAAGTAGGAA
1 TTTGGCACCCAGTGTCTCATTGGATAAAT-CGAAGTAATAA
* *
10265871 ATTGACACCCAGTGTCTCAT
1 TTTGGCACCCAGTGTCTCAT
10265891 CGACTCGAAG
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 21 0.26
38 8 0.10
39 1 0.01
40 32 0.40
41 18 0.22
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (40 bp):
TTTGGCACCCAGTGTCTCATTGGATAAATCGAAGTAATAA
Found at i:10266802 original size:23 final size:21
Alignment explanation
Indices: 10266769--10266813 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
10266759 CTTCTTCCTT
10266769 TCTTTCATTTTTT-CTTTTCTG
1 TCTTTCATTTTTTGC-TTTCTG
10266790 TCTTTCATTTTTTTTGCTTTCTG
1 TCTTTCA--TTTTTTGCTTTCTG
10266813 T
1 T
10266814 TTCGTTTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
23 13 0.62
24 1 0.05
ACGTcount: A:0.04, C:0.18, G:0.07, T:0.71
Consensus pattern (21 bp):
TCTTTCATTTTTTGCTTTCTG
Found at i:10271981 original size:3 final size:3
Alignment explanation
Indices: 10271973--10271999 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10271963 TGATGCCATC
10271973 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
10272000 TCCATGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:10274023 original size:15 final size:15
Alignment explanation
Indices: 10274005--10274040 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
10273995 ATTTTTGCAT
10274005 CAGCAGCAACAACAG
1 CAGCAGCAACAACAG
*
10274020 CAGCAGCAACAGCAG
1 CAGCAGCAACAACAG
10274035 CAGCAG
1 CAGCAG
10274041 TTGCTCCAAA
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:0.42, C:0.33, G:0.25, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAG
Done.