Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 35 of 199
Found at i:9927057 original size:45 final size:45
Alignment explanation
Indices: 9926988--9927884 Score: 1134
Period size: 45 Copynumber: 20.0 Consensus size: 45
9926978 GTTACTTCTG
* * *
9926988 TCTTCGATCTACTTCACTGCCAATACAGGAAGATAAGATCTGCTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * ***
9927033 TTTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCCATTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * * * *
9927078 TCTTCGATCTACTTTGCTACCAGTATAGGAAGCCCAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
9927123 TCTTCGATATACTTCGCTACCAATATAGGAAGATAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
9927168 TCTTTGATCTACTTCGCTGCCAATACAGGAAGTCCAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
9927213 TCTTTGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
*
9927258 TCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
9927303 TCTTCGATCTACTTCGCTACCAATATAAGAAGAAAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
9927348 TATTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
9927393 TCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
9927438 TCTTTGATCTACTTCGCTGTCAATACAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
9927483 TCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
9927528 TCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAAATATGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *
9927573 TATTCGATCTACTTCGCTACCAATATAGGAAGATAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
9927618 TCTTCGATCTATTTCGCTACCAATATAGGAAGACAAGATATGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
9927663 TCTTTGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * *
9927708 TCTTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGTTG
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
9927753 TTTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
9927798 TTTTCGATCTGCTTCGCT-CCAATACAAGAAGACAAGATCTGCT-
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
9927841 GC-TCTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCT
1 TCTTC-GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
9927885 GTTTTCACTG
Statistics
Matches: 737, Mismatches: 113, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
42 2 0.00
43 11 0.01
44 47 0.06
45 677 0.92
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:9929168 original size:47 final size:46
Alignment explanation
Indices: 9929109--9929197 Score: 133
Period size: 47 Copynumber: 1.9 Consensus size: 46
9929099 TTTATTTTTA
* * *
9929109 TTTTTTGGACTCAAAGTGCCCTTTGCGGGTTTTCACCTTGGTATTT
1 TTTTTTGAACTCAAAGAGCCCTTTGCAGGTTTTCACCTTGGTATTT
*
9929155 TTTTTTGAAACTCAAAGAGCGCTTTGCAGGTTTTCACCTTGGT
1 TTTTTTG-AACTCAAAGAGCCCTTTGCAGGTTTTCACCTTGGT
9929198 CCCTTCTCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
46 7 0.18
47 31 0.82
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (46 bp):
TTTTTTGAACTCAAAGAGCCCTTTGCAGGTTTTCACCTTGGTATTT
Found at i:9930332 original size:25 final size:25
Alignment explanation
Indices: 9930279--9930344 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
9930269 AAGAAAATCT
* *
9930279 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
9930304 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
9930329 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
9930345 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:9933956 original size:22 final size:22
Alignment explanation
Indices: 9933922--9934014 Score: 132
Period size: 22 Copynumber: 4.2 Consensus size: 22
9933912 CTCAATCCTT
** * *
9933922 TACGTTAGCCATGAGGGTTTAG
1 TACGTTAAACATGAGAGCTTAG
*
9933944 TTCGTTAAACATGAGAGCTTAG
1 TACGTTAAACATGAGAGCTTAG
9933966 TACGTTAAACATGAGAGCTTAG
1 TACGTTAAACATGAGAGCTTAG
*
9933988 TACGTGAAACATGAGAGCTTAG
1 TACGTTAAACATGAGAGCTTAG
9934010 TACGT
1 TACGT
9934015 ACTATCAACA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (22 bp):
TACGTTAAACATGAGAGCTTAG
Found at i:9935062 original size:22 final size:21
Alignment explanation
Indices: 9935027--9935124 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
9935017 AAAGGGTATC
* *
9935027 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
9935048 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
9935071 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
9935090 TGCATAT-ATCATGTCTAAGAT
1 TACAAATCAT-ATCTCTAAGAT
* *
9935111 TGCATATCATATCT
1 TACAAATCATATCT
9935125 AAGATTGCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 2 0.03
19 16 0.24
21 21 0.32
22 17 0.26
23 10 0.15
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:9935070 original size:23 final size:22
Alignment explanation
Indices: 9935027--9935084 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
9935017 AAAGGGTATC
* *
9935027 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9935048 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
9935071 TGCATATCATATCT
1 TACAAATCATATCT
9935085 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9935100 original size:21 final size:19
Alignment explanation
Indices: 9935063--9935137 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
9935053 AATCATATCT
9935063 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
9935082 TCTAAGATTGCATATATCATG
1 TCTAAGATTGC--ATATCATA
9935103 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9935122 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
9935138 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9935945 original size:15 final size:15
Alignment explanation
Indices: 9935925--9935981 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
9935915 ATTCAATATT
9935925 AATATTTTAATAATA
1 AATATTTTAATAATA
*
9935940 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
9935959 AATATATTAATAATA
1 AATATTTTAATAATA
*
9935974 AATGTTTT
1 AATATTTT
9935982 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9937618 original size:43 final size:43
Alignment explanation
Indices: 9937557--9937696 Score: 217
Period size: 43 Copynumber: 3.3 Consensus size: 43
9937547 TTATAGTAAT
* *
9937557 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCCTATCTCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTATCTCAC
* *
9937600 AAACGCCGCTAAAGGTCATGTTCTTTAACGGTGCTTTTCTCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTATCTCAC
** *
9937643 AAACGCCGCTAAACTTCATGTTCTTTAGCGGTGCTTCTCTCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTATCTCAC
9937686 AAACGCCGCTA
1 AAACGCCGCTA
9937697 TTGTTTGATG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTATCTCAC
Found at i:9938088 original size:21 final size:21
Alignment explanation
Indices: 9938046--9938092 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9938036 TGCTCTGCTT
*
9938046 TGCTTCCCTCGCTACCGTCTC
1 TGCTTCCCTCGCTACCGCCTC
* *
9938067 TGCTTCCCTCGCTGCTGCCTC
1 TGCTTCCCTCGCTACCGCCTC
9938088 TGCTT
1 TGCTT
9938093 TAAGTTGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.45, G:0.17, T:0.36
Consensus pattern (21 bp):
TGCTTCCCTCGCTACCGCCTC
Found at i:9939871 original size:25 final size:26
Alignment explanation
Indices: 9939819--9939880 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
9939809 TTTTACAATG
* * *
9939819 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAATT
*
9939845 ATTAAGTTATGCATAT-ATATAAATT
1 ATTAAGTTATGCAAATAATATAAATT
9939870 ATTAAGTTATG
1 ATTAAGTTATG
9939881 TAAGTTATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 18 0.56
26 14 0.44
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAATT
Found at i:9939886 original size:9 final size:9
Alignment explanation
Indices: 9939821--9939965 Score: 85
Period size: 9 Copynumber: 17.1 Consensus size: 9
9939811 TTACAATGAT
9939821 TAAGTTATG
1 TAAGTTATG
* * *
9939830 TAAATAATA
1 TAAGTTATG
*
9939839 TGAGTTAT-
1 TAAGTTATG
9939847 TAAGTTATG
1 TAAGTTATG
* *
9939856 -CA-TATATA
1 TAAGT-TATG
*
9939864 TAAATTAT-
1 TAAGTTATG
9939872 TAAGTTATG
1 TAAGTTATG
9939881 TAAGTTATG
1 TAAGTTATG
*
9939890 T-A-TTATA
1 TAAGTTATG
*
9939897 TAAGCTATG
1 TAAGTTATG
*
9939906 TAAGTTATT
1 TAAGTTATG
9939915 TAAGTTATG
1 TAAGTTATG
*
9939924 TAAGTTGTG
1 TAAGTTATG
9939933 T-A-TTATG
1 TAAGTTATG
* *
9939940 TTATTTATG
1 TAAGTTATG
*
9939949 T-A-CTATG
1 TAAGTTATG
9939956 TAAGTTATG
1 TAAGTTATG
9939965 T
1 T
9939966 GTATTATGTA
Statistics
Matches: 104, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
7 16 0.15
8 24 0.23
9 63 0.61
10 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:9939900 original size:25 final size:24
Alignment explanation
Indices: 9939867--9939913 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
9939857 ATATATATAA
*
9939867 ATTATTAAGTTATGTAAGTTATGT
1 ATTATTAAGCTATGTAAGTTATGT
9939891 ATTATATAAGCTATGTAAGTTAT
1 ATTAT-TAAGCTATGTAAGTTAT
9939914 TTAAGTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (24 bp):
ATTATTAAGCTATGTAAGTTATGT
Found at i:9939924 original size:34 final size:34
Alignment explanation
Indices: 9939841--9939925 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
9939831 AAATAATATG
* *
9939841 AGTTA-TTAAGTTATGCATATATATAAATTATTA
1 AGTTATTTAAGTTATGTATATATATAAACTATTA
* *
9939874 AGTTATGTAAGTTATGTAT-TATATAAGCTATGTA
1 AGTTATTTAAGTTATGTATATATATAAACTAT-TA
9939908 AGTTATTTAAGTTATGTA
1 AGTTATTTAAGTTATGTA
9939926 AGTTGTGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 15 0.33
34 30 0.67
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (34 bp):
AGTTATTTAAGTTATGTATATATATAAACTATTA
Found at i:9939963 original size:25 final size:25
Alignment explanation
Indices: 9939877--9939989 Score: 76
Period size: 25 Copynumber: 4.5 Consensus size: 25
9939867 ATTATTAAGT
*
9939877 TATGTAAGTTATG-TATTATAT-AAGC
1 TATGTAAGTTATGTTATT-TATGTA-C
* *
9939902 TATGTAAGTTAT-TTAAGTTATGTAAG
1 TATGTAAGTTATGTT-ATTTATGT-AC
*
9939928 T-TGTGTA-TTATGTTATTTATGTAC
1 TATGT-AAGTTATGTTATTTATGTAC
*
9939952 TATGTAAGTTATGTGTA-TTATGTAT
1 TATGTAAGTTATGT-TATTTATGTAC
*
9939977 TATGTATGTTATG
1 TATGTAAGTTATG
9939990 CATAATATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
24 3 0.04
25 58 0.83
26 8 0.11
27 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (25 bp):
TATGTAAGTTATGTTATTTATGTAC
Found at i:9939989 original size:16 final size:16
Alignment explanation
Indices: 9939902--9939983 Score: 69
Period size: 16 Copynumber: 5.0 Consensus size: 16
9939892 TTATATAAGC
*
9939902 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
9939920 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
9939936 TATGTTATTTATGTAC
1 TATGTAAGTTATGTAT
9939952 TATGTAAGTTATGTGTAT
1 TATGTAAGTTA--TGTAT
9939970 TATGT-A-TTATGTAT
1 TATGTAAGTTATGTAT
9939984 GTTATGCATA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
14 5 0.09
16 25 0.47
17 2 0.04
18 21 0.40
ACGTcount: A:0.28, C:0.01, G:0.18, T:0.52
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:9940022 original size:44 final size:44
Alignment explanation
Indices: 9939963--9940294 Score: 453
Period size: 44 Copynumber: 7.5 Consensus size: 44
9939953 ATGTAAGTTA
* *
9939963 TGTGTATTATGTATTATGTATGTTATGCATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
*
9940007 TGTGTAATATGTATTATGTACGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
* *
9940051 TGTGTATAATGTAAAAAATGTATTATGTATGTTATGTATAAAATTAATTAAGT
1 TGTG--T-AT-T-----ATGTATTATGTACGTTATGTATAATATTAATTAAGT
9940104 TGTGTATTATG---TA--T--GTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
*
9940141 TGTGTATTATGTATTATGTACGTTATGTATAATATAAATTAAGT
1 TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
*
9940185 TGTGCATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
9940229 TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
1 TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
9940273 TGTGTATTATGTAAGTTATGTA
1 TGTGTATTATGT-A-TTATGTA
9940295 AGAAATGTAT
Statistics
Matches: 259, Mismatches: 11, Indels: 34
0.85 0.04 0.11
Matches are distributed among these distances:
37 33 0.13
39 1 0.00
40 2 0.01
41 2 0.01
42 1 0.00
44 167 0.64
45 1 0.00
46 8 0.03
47 1 0.00
48 1 0.00
49 1 0.00
50 2 0.01
51 1 0.00
53 38 0.15
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (44 bp):
TGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGT
Found at i:9940034 original size:53 final size:50
Alignment explanation
Indices: 9939965--9940126 Score: 158
Period size: 53 Copynumber: 3.2 Consensus size: 50
9939955 GTAAGTTATG
9939965 TGTATTATGTATTATGTATGTTATGCATAATATTAATTAAGTTGTGTAATA
1 TGTATTATGTATTATGTATGTTATG-ATAATATTAATTAAGTTGTGTAATA
**
9940016 TGTATTATGTA-CGT-TATG---T-ATAATATTAATTAAGTTGTGT-ATAA
1 TGTATTATGTATTATGTATGTTATGATAATATTAATTAAGTTGTGTAAT-A
** * *
9940060 TGTAAAAAATGTATTATGTATGTTATGTATAAAATTAATTAAGTTGTGTATTA
1 TGT--ATTATGTATTATGTATGTTATG-ATAATATTAATTAAGTTGTGTAATA
9940113 TGTATGTTATGTAT
1 TGTA--TTATGTAT
9940127 AATATTAATT
Statistics
Matches: 88, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
43 2 0.02
44 25 0.28
46 7 0.08
47 1 0.01
48 4 0.05
49 4 0.05
50 1 0.01
51 13 0.15
53 30 0.34
54 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (50 bp):
TGTATTATGTATTATGTATGTTATGATAATATTAATTAAGTTGTGTAATA
Found at i:9940175 original size:178 final size:166
Alignment explanation
Indices: 9939924--9940294 Score: 505
Period size: 178 Copynumber: 2.2 Consensus size: 166
9939914 TTAAGTTATG
*
9939924 TAAGTTGTGTATTATGTTAT-TTATGTACTATGTAAGTTATGTGTATTATGTATTATGTATGTTA
1 TAAGTTGTGTATTATG-TATGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTACGTTA
* *
9939988 TGCATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATGTATAATATTAATTAAGTTG
65 TGCATAATATAAATTAAGTTGTGCAATATGTATTATGTACGTTATGTATAATATTAATTAAGTTG
*
9940053 TGTATAATGTAAAAAATGTATTATGTATGTTATGTATAAAATTAAT
130 TG--T-AT-T-----ATGTATTATGTACGTTATGTATAAAATTAAT
*
9940099 TAAGTTGTGTATTATGTATGTTATGTA-TAATATTAA-TTAAGTTGTGTATTATGTATTATGTAC
1 TAAGTTGTGTATTATGTATGTTATGTACT-AT-GTAAGTT-A--TGTGTATTATGTATTATGTAC
* *
9940162 GTTATGTATAATATAAATTAAGTTGTGCATTATGTATTATGTACGTTATGTATAATATTAATTAA
61 GTTATGCATAATATAAATTAAGTTGTGCAATATGTATTATGTACGTTATGTATAATATTAATTAA
*
9940227 GTTGTGTATTATGTATTATGTACGTTATGTATAATATTAAT
126 GTTGTGTATTATGTATTATGTACGTTATGTATAAAATTAAT
*
9940268 TAAGTTGTGTATTATGTAAGTTATGTA
1 TAAGTTGTGTATTATGTATGTTATGTA
9940295 AGAAATGTAT
Statistics
Matches: 181, Mismatches: 9, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
169 55 0.30
174 5 0.03
175 29 0.16
176 5 0.03
178 87 0.48
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (166 bp):
TAAGTTGTGTATTATGTATGTTATGTACTATGTAAGTTATGTGTATTATGTATTATGTACGTTAT
GCATAATATAAATTAAGTTGTGCAATATGTATTATGTACGTTATGTATAATATTAATTAAGTTGT
GTATTATGTATTATGTACGTTATGTATAAAATTAAT
Found at i:9940293 original size:9 final size:9
Alignment explanation
Indices: 9940279--9940421 Score: 61
Period size: 9 Copynumber: 16.2 Consensus size: 9
9940269 AAGTTGTGTA
9940279 TTATGTAAG
1 TTATGTAAG
9940288 TTATGTAAG
1 TTATGTAAG
**
9940297 AAATGT-A-
1 TTATGTAAG
9940304 TTATGTAAG
1 TTATGTAAG
*
9940313 TTGTGT-A-
1 TTATGTAAG
* *
9940320 TAATGTTAG
1 TTATGTAAG
**
9940329 TTATCAAAG
1 TTATGTAAG
9940338 TTATGT-A-
1 TTATGTAAG
*
9940345 CTATGTAATTAG
1 TTATGT-A--AG
*
9940357 TTATTTAAG
1 TTATGTAAG
9940366 TTATGTAAG
1 TTATGTAAG
*
9940375 TTGTGT-A-
1 TTATGTAAG
9940382 TTATGTAAG
1 TTATGTAAG
*
9940391 TTAT-TATG
1 TTATGTAAG
9940399 TTATTATGTAAG
1 ---TTATGTAAG
*
9940411 TTATGCAAG
1 TTATGTAAG
9940420 TT
1 TT
9940422 TATATATAAG
Statistics
Matches: 97, Mismatches: 22, Indels: 30
0.65 0.15 0.20
Matches are distributed among these distances:
7 18 0.19
8 10 0.10
9 56 0.58
11 6 0.06
12 7 0.07
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9940303 original size:25 final size:25
Alignment explanation
Indices: 9940275--9940394 Score: 102
Period size: 25 Copynumber: 4.7 Consensus size: 25
9940265 AATTAAGTTG
*
9940275 TGTATTATGTAAGTTATGTAAGAAA
1 TGTATTATGTAAGTTATGTAAGTAA
*
9940300 TGTATTATGTAAGTTGTGT-A-TAA
1 TGTATTATGTAAGTTATGTAAGTAA
**
9940323 TGTTAGTTATCAAAGTTATGTACTATGTAA
1 TG-TA-TTATGTAAGTTATGTA--A-GTAA
* **
9940353 T-TAGTTATTTAAGTTATGTAAGTTG
1 TGTA-TTATGTAAGTTATGTAAGTAA
9940378 TGTATTATGTAAGTTAT
1 TGTATTATGTAAGTTAT
9940395 TATGTTATTA
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
23 4 0.05
24 3 0.04
25 45 0.58
26 3 0.04
28 18 0.23
30 4 0.05
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (25 bp):
TGTATTATGTAAGTTATGTAAGTAA
Found at i:9940318 original size:41 final size:41
Alignment explanation
Indices: 9940268--9940421 Score: 138
Period size: 41 Copynumber: 3.8 Consensus size: 41
9940258 TAATATTAAT
**
9940268 TAAGTTGTGTATTATGTAAGTTATGTAAGAAATGTATTATG
1 TAAGTTGTGTATTATGTAAGTTATGTAAGTTATGTATTATG
* * ** *
9940309 TAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTACTATG
1 TAAGTTGTGTATTATGTAAGTTATGTAAGTTATGTATTATG
*
9940350 TAA-TTAGT-TA-T-T-TAAGTTATGTAAGTTGTGTATTATG
1 TAAGTT-GTGTATTATGTAAGTTATGTAAGTTATGTATTATG
* *
9940387 TAAGTTATTATGTTATTATGTAAGTTATGCAAGTT
1 TAAG---TTGTG-TATTATGTAAGTTATGTAAGTT
9940422 TATATATAAG
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
37 23 0.26
38 1 0.01
40 5 0.06
41 41 0.47
42 2 0.02
43 1 0.01
44 1 0.01
45 14 0.16
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (41 bp):
TAAGTTGTGTATTATGTAAGTTATGTAAGTTATGTATTATG
Found at i:9940387 original size:37 final size:36
Alignment explanation
Indices: 9940335--9940415 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 36
9940325 TTAGTTATCA
9940335 AAGTTATGTACTATGTAA-TTAGTTAT-TTAAGTTATGT
1 AAGTTATGTACTATGTAAGTTA-TTATGTT-A-TTATGT
* *
9940372 AAGTTGTGTATTATGTAAGTTATTATGTTATTATGT
1 AAGTTATGTACTATGTAAGTTATTATGTTATTATGT
9940408 AAGTTATG
1 AAGTTATG
9940416 CAAGTTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
36 13 0.33
37 21 0.54
38 5 0.13
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (36 bp):
AAGTTATGTACTATGTAAGTTATTATGTTATTATGT
Found at i:9940432 original size:12 final size:12
Alignment explanation
Indices: 9940417--9940444 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9940407 TAAGTTATGC
9940417 AAGTTTATATAT
1 AAGTTTATATAT
9940429 AAGTTTATATAT
1 AAGTTTATATAT
9940441 AAGT
1 AAGT
9940445 GTAAATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:9941679 original size:7 final size:7
Alignment explanation
Indices: 9941631--9941676 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
9941621 TAAAGTGATA
*
9941631 CCAAACT
1 CCAATCT
9941638 CCAATCT
1 CCAATCT
9941645 CCAATCT
1 CCAATCT
9941652 CCAATCT
1 CCAATCT
9941659 CCAATCT
1 CCAATCT
*
9941666 CCAACCT
1 CCAATCT
9941673 CCAA
1 CCAA
9941677 CCTACACATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.22
Consensus pattern (7 bp):
CCAATCT
Found at i:9942695 original size:84 final size:84
Alignment explanation
Indices: 9942480--9942669 Score: 301
Period size: 84 Copynumber: 2.3 Consensus size: 84
9942470 TTCATGAAGC
* * *
9942480 GAAACGGTGCCGCATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAATGCCACTAG
1 GAAACGGTGCCGCTTTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAT
* *
9942545 AAGATTTTATTCTAGTAGA
66 AAGATTTTATTCCAGTACA
**
9942564 GAAACGGCACCG-TATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTA
1 GAAACGGTGCCGCT-TTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTA
9942628 TAAGATTTTATTCCAGTACA
65 TAAGATTTTATTCCAGTACA
9942648 GAAACGGTGCCGCTTTGGCAAA
1 GAAACGGTGCCGCTTTGGCAAA
9942670 TTTTAATAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
84 94 0.99
85 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (84 bp):
GAAACGGTGCCGCTTTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAT
AAGATTTTATTCCAGTACA
Found at i:9942703 original size:84 final size:84
Alignment explanation
Indices: 9942493--9942714 Score: 243
Period size: 84 Copynumber: 2.6 Consensus size: 84
9942483 ACGGTGCCGC
* * * * * *
9942493 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAATGCCACTAGAAGATTTTATTCT
1 ATTGGCAAACATTAATTAAATCTTGCAGCGTTTTCCTAAAAAACGCCACTATAAGATTTTATTCC
*
9942558 AGTAGAGAAACGGCACCGT
66 AGTACAGAAACGGCACCGT
* * *
9942577 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTATAAGATTTTATTCC
1 ATTGGCAAACATTAATTAAATCTTGCAGCGTTTTCCTAAAAAACGCCACTATAAGATTTTATTCC
**
9942642 AGTACAGAAACGGTGCCGCT
66 AGTACAGAAACGGCACCG-T
** * * *
9942662 -TTGGCAAATTTTAA-TAAATATTTGCAGCGTTTTCAC-CAAAAACGCCACAATAA
1 ATTGGCAAACATTAATTAAAT-CTTGCAGCGTTTTC-CTAAAAAACGCCACTATAA
9942715 TTTTCATTCC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
83 3 0.02
84 116 0.96
85 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (84 bp):
ATTGGCAAACATTAATTAAATCTTGCAGCGTTTTCCTAAAAAACGCCACTATAAGATTTTATTCC
AGTACAGAAACGGCACCGT
Found at i:9943220 original size:89 final size:88
Alignment explanation
Indices: 9943117--9943437 Score: 421
Period size: 89 Copynumber: 3.5 Consensus size: 88
9943107 TATAAAGAAC
* * * *
9943117 TTATTTAATATATAAATTAAAAAGTACTAATTAGTCTAAATCTTAAACCCTAACTTGACCTCAAA
1 TTATTTAATATATAAATTAAAAA-CACTAATTAATCTAAACCCTAAACCCTAACTTGACCTCAAA
9943182 TTCCTAACCCCTAACCCCTAAACT
65 TTCCTAACCCCTAACCCCTAAACT
* *
9943206 TTATTTAATATATAAATTAAAAACACTAATTAATCTAAACCCTAAACCCTAAACTCGACCCCAAA
1 TTATTTAATATATAAATTAAAAACACTAATTAATCTAAACCCTAAACCCT-AACTTGACCTCAAA
* *
9943271 TCCCTAACCCTTAACCCCTAAACT
65 TTCCTAACCCCTAACCCCTAAACT
* *
9943295 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAACCTGATCCT-AA
1 TTATTTAATATATAAATT-AAAAACACTAATTAATCTAAACCCTAAACCCTAACTTGA-CCTCAA
*
9943359 ATCCCTAACCCTTAACCCCTAACCCCTAAACC
64 AT---T---CC-TAACCCCTAACCCCTAAACT
9943391 TTATTTAATATAT-AATTAAAACACACTAATTAATCTAAACCCTAAAC
1 TTATTTAATATATAAATTAAAA-ACACTAATTAATCTAAACCCTAAAC
9943438 TTTAACCTAA
Statistics
Matches: 206, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
88 23 0.11
89 84 0.41
90 33 0.16
94 4 0.02
95 31 0.15
96 31 0.15
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (88 bp):
TTATTTAATATATAAATTAAAAACACTAATTAATCTAAACCCTAAACCCTAACTTGACCTCAAAT
TCCTAACCCCTAACCCCTAAACT
Found at i:9943504 original size:12 final size:12
Alignment explanation
Indices: 9943487--9943511 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9943477 CTCTTAACAT
9943487 CTAACCCCTAAC
1 CTAACCCCTAAC
9943499 CTAACCCCTAAC
1 CTAACCCCTAAC
9943511 C
1 C
9943512 CTGACCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:9943578 original size:14 final size:15
Alignment explanation
Indices: 9943559--9943592 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
9943549 CTTAAACCAG
9943559 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
9943573 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
9943588 AATCC
1 AATCC
9943593 ATAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:9944367 original size:114 final size:114
Alignment explanation
Indices: 9944167--9944512 Score: 478
Period size: 114 Copynumber: 3.0 Consensus size: 114
9944157 GCGGCGCCTC
* * * * *
9944167 CTCAAAAACGCCGCTAAAGACTTGAGAATTAGC-AGCGCTTTATTAAAAACGTCGCTAAATCCCC
1 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGA-CGCTTTCTTAAAAACGCCGCTAAATCCCC
* * * * * * *
9944231 AAAAGCTAAGAAAATGACGTCGTTGAGCTTAGGTTCTTCTGCGGTGCTTT
65 GAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGTGCTTT
*
9944281 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACACTTTCTTAAAAACGCCGCTAAATCCCCG
1 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCG
* *
9944346 AAAGCTCAGAAAACGGCGTCGTTGGGTTTAGGTTTTTTTGCGGCGCTTT
66 AAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGTGCTTT
* * * *
9944395 CTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAGTCCCCG
1 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCG
* * *
9944460 AAATCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTACGGTGCTTT
66 AAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGTGCTTT
9944509 CTCA
1 CTCA
9944513 GGGCATTAGC
Statistics
Matches: 206, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
114 205 1.00
115 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (114 bp):
CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCG
AAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGTGCTTT
Found at i:9944591 original size:95 final size:95
Alignment explanation
Indices: 9944420--9944593 Score: 267
Period size: 95 Copynumber: 1.8 Consensus size: 95
9944410 AAAGCCCTAA
* * * *
9944420 GCATTAGCGGCGCTTACTTAAAAACGCCGCTAAGTCCCCGAAATCTCAAAAAACGGCGTCGTTGG
1 GCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACGGCATCGTTGG
*
9944485 GCTTAGGTTTTTTTACGGTGCTTTCTCAGG
66 GCTTAGATTTTTTTACGGTGCTTTCTCAGG
* **
9944515 GCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATTGCCAAAAGCTCAAAAAACGGCATCGTTGG
1 GCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACGGCATCGTTGG
*
9944580 GTTTAGATTTTTTT
66 GCTTAGATTTTTTT
9944594 TTGTGGCGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 70 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (95 bp):
GCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACGGCATCGTTGG
GCTTAGATTTTTTTACGGTGCTTTCTCAGG
Found at i:9956016 original size:29 final size:30
Alignment explanation
Indices: 9955974--9956030 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
9955964 TATACCACAT
* * *
9955974 TCAAACTTGTATGTGTATAATTGCACAAAA
1 TCAAAATTGTATGTATAGAATTGCACAAAA
*
9956004 TCAAAATT-TATGTATCGAATTGCACAA
1 TCAAAATTGTATGTATAGAATTGCACAA
9956031 TAAATTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (30 bp):
TCAAAATTGTATGTATAGAATTGCACAAAA
Found at i:9956129 original size:17 final size:17
Alignment explanation
Indices: 9956109--9956146 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9956099 CAATTTAATT
*
9956109 ATAAATGTTTATGGATG
1 ATAAATGATTATGGATG
*
9956126 ATAAATGATTATGTATG
1 ATAAATGATTATGGATG
9956143 ATAA
1 ATAA
9956147 TAAACTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (17 bp):
ATAAATGATTATGGATG
Found at i:9961862 original size:33 final size:32
Alignment explanation
Indices: 9961805--9961866 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
9961795 TAATTTTTTG
9961805 TTTTATATTTTTAAATTTATTTTAACAAAATC
1 TTTTATATTTTTAAATTTATTTTAACAAAATC
*
9961837 TTTTATAATTTTTGAATATTA-TTTAACAAA
1 TTTTAT-ATTTTTAAAT-TTATTTTAACAAA
9961867 GTTTCAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 6 0.22
33 18 0.67
34 3 0.11
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (32 bp):
TTTTATATTTTTAAATTTATTTTAACAAAATC
Found at i:9962289 original size:17 final size:18
Alignment explanation
Indices: 9962267--9962307 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9962257 ACGTATTTAG
9962267 ATATATTTAAA-AAT-AGA
1 ATATATTTAAATAATGA-A
9962284 ATATA-TTAAATAATGAA
1 ATATATTTAAATAATGAA
9962301 ATATATT
1 ATATATT
9962308 ATTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.24
17 14 0.67
18 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
ATATATTTAAATAATGAA
Found at i:9965132 original size:18 final size:18
Alignment explanation
Indices: 9965109--9965145 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9965099 AAACATTGAA
9965109 GCATTGTTTACCTTAACC
1 GCATTGTTTACCTTAACC
9965127 GCATTGTTTACCTTAACC
1 GCATTGTTTACCTTAACC
9965145 G
1 G
9965146 AAATAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.38
Consensus pattern (18 bp):
GCATTGTTTACCTTAACC
Found at i:9995349 original size:17 final size:18
Alignment explanation
Indices: 9995327--9995364 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
9995317 AATAATAATA
*
9995327 ATAATATGTT-TTACGAT
1 ATAATATGTTCTTAAGAT
9995344 ATAATATGTTCTTAAGAT
1 ATAATATGTTCTTAAGAT
9995362 ATA
1 ATA
9995365 GTACAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (18 bp):
ATAATATGTTCTTAAGAT
Found at i:9996803 original size:30 final size:30
Alignment explanation
Indices: 9996769--9996827 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
9996759 ACCATGAAGG
9996769 CTCTTCTCACAAT-AGAACCAGCCAAAAAGC
1 CTCTTCTCAC-ATCAGAACCAGCCAAAAAGC
* * *
9996799 CTCTTCTTACATCAGAATCAGCCACAAAG
1 CTCTTCTCACATCAGAACCAGCCAAAAAG
9996828 GCTTCTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.20
Consensus pattern (30 bp):
CTCTTCTCACATCAGAACCAGCCAAAAAGC
Found at i:9996906 original size:29 final size:29
Alignment explanation
Indices: 9996867--9997000 Score: 142
Period size: 29 Copynumber: 4.6 Consensus size: 29
9996857 CTTCCACTTG
* *
9996867 TAACATATTCCGCCACTAGGGCTTACATA
1 TAACAGATTCCGCCACTAGGGCTCACATA
*
9996896 TAATAGATTCCGCCACTAGGGCTCACATA
1 TAACAGATTCCGCCACTAGGGCTCACATA
* * * *
9996925 TAACATATTCAGCCACAAAGGCCTCCACATA
1 TAACAGATTCCGCCAC-TAGGGCT-CACATA
** *
9996956 TAACAGATTTTGCCACTAGGACTCACATA
1 TAACAGATTCCGCCACTAGGGCTCACATA
* *
9996985 TAACATATTCAGCCAC
1 TAACAGATTCCGCCAC
9997001 AAACTATAAC
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
29 58 0.67
30 10 0.11
31 19 0.22
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (29 bp):
TAACAGATTCCGCCACTAGGGCTCACATA
Found at i:9996964 original size:60 final size:60
Alignment explanation
Indices: 9996891--9997003 Score: 190
Period size: 60 Copynumber: 1.9 Consensus size: 60
9996881 ACTAGGGCTT
* *
9996891 ACATATAATAGATTCCGCCACTAGGGCTCACATATAACATATTCAGCCACAAAGGCCTCC
1 ACATATAACAGATTCCGCCACTAGGACTCACATATAACATATTCAGCCACAAAGGCCTCC
**
9996951 ACATATAACAGATTTTGCCACTAGGACTCACATATAACATATTCAGCCACAAA
1 ACATATAACAGATTCCGCCACTAGGACTCACATATAACATATTCAGCCACAAA
9997004 CTATAACACC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (60 bp):
ACATATAACAGATTCCGCCACTAGGACTCACATATAACATATTCAGCCACAAAGGCCTCC
Found at i:9998757 original size:25 final size:25
Alignment explanation
Indices: 9998723--9998774 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9998713 AGAAAAAGTA
9998723 ACAAAAATTTGGAAACAGGGGTCAT
1 ACAAAAATTTGGAAACAGGGGTCAT
9998748 ACAAAAATTTGGAAACAGGGGTCAT
1 ACAAAAATTTGGAAACAGGGGTCAT
9998773 AC
1 AC
9998775 GGCCTTATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.19
Consensus pattern (25 bp):
ACAAAAATTTGGAAACAGGGGTCAT
Found at i:10007381 original size:35 final size:33
Alignment explanation
Indices: 10007319--10007388 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
10007309 TACATATTCA
10007319 TCAAACACCACTTGAAAACATCCTATATATATT
1 TCAAACACCACTTGAAAACATCCTATATATATT
10007352 TCAAACACCACTTGAAAACATCCTATATATATT
1 TCAAACACCACTTGAAAACATCCTATATATATT
10007385 TCAA
1 TCAA
10007389 CCACAAATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.30
Consensus pattern (33 bp):
TCAAACACCACTTGAAAACATCCTATATATATT
Found at i:10007710 original size:41 final size:41
Alignment explanation
Indices: 10007658--10007926 Score: 279
Period size: 41 Copynumber: 6.6 Consensus size: 41
10007648 GCATTTAGGT
* *
10007658 GTACCGAAGTACAAATAGGGGCACATATGTGCAATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAAGG
* * * * * **
10007699 GTACCGTAGTACAAAGAGTGGTACGTATGTGCAATT-TGGAG
1 GTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAAG-G
* *
10007740 GTACCGAAGTACAAACAGGGGCACGTATGTGTAATTCAAGG
1 GTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAAGG
* * * *
10007781 GTACCAAAGTACAAACAGGAGCACGTATTTGCAATTCAAGG
1 GTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAAGG
* * * * * *
10007822 GTACCAAAGTACAAACACGAGCACATATGTGTAATTTAGGG
1 GTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAAGG
* * * *
10007863 GTACTGAAATACAAACAAGGGCACATATGTGCAATTTAAGG
1 GTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAAGG
* *
10007904 GTATCGAAGTACAAACAAGGGCA
1 GTACCGAAGTACAAACAGGGGCA
10007927 TGTTTGTGCA
Statistics
Matches: 193, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 2 0.01
41 190 0.98
42 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (41 bp):
GTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAAGG
Found at i:10007754 original size:82 final size:81
Alignment explanation
Indices: 10007646--10007926 Score: 307
Period size: 82 Copynumber: 3.4 Consensus size: 81
10007636 AGGCACAAAA
* * *
10007646 GTGC-ATTT-AGGTGTACCGAAGTACAAATAGGGGCACATATGTGCAATTCAGGGGTACCGTAGT
1 GTGCAATTTAAGG-GTACCGAAGTACAAACAGGGGCACATATGTGTAATTCAGGGGTACCGAAGT
* *
10007709 ACAAAGAGTGGTACGTAT
65 ACAAAAAG-GGCACGTAT
* * * *
10007727 GTGCAATTT-GGAGGTACCGAAGTACAAACAGGGGCACGTATGTGTAATTCAAGGGTACCAAAGT
1 GTGCAATTTAAG-GGTACCGAAGTACAAACAGGGGCACATATGTGTAATTCAGGGGTACCGAAGT
*
10007791 ACAAACAGGAGCACGTAT
65 ACAAAAAGG-GCACGTAT
* * * * * * * *
10007809 TTGCAATTCAAGGGTACCAAAGTACAAACACGAGCACATATGTGTAATTTAGGGGTACTGAAATA
1 GTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTAATTCAGGGGTACCGAAGTA
*
10007874 CAAACAAGGGCACATAT
66 CAAA-AAGGGCACGTAT
* *
10007891 GTGCAATTTAAGGGTATCGAAGTACAAACAAGGGCA
1 GTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCA
10007927 TGTTTGTGCA
Statistics
Matches: 166, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
81 5 0.03
82 156 0.94
83 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (81 bp):
GTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTAATTCAGGGGTACCGAAGTA
CAAAAAGGGCACGTAT
Found at i:10007937 original size:123 final size:123
Alignment explanation
Indices: 10007631--10007939 Score: 317
Period size: 123 Copynumber: 2.5 Consensus size: 123
10007621 ACCGGAGTCT
* * * * * *
10007631 AAACAA-GGCACAAAAGTGC-ATTT-AGGTGTACCGAAGTACAAATAGGGGCACATATGTGCAAT
1 AAACAAGGGCACATATGTGCAATTTAAGG-GTACCGAAGTACAAACAAGGGCACGTTTGTGCAAT
* ** * * * * *
10007693 TCAGGGGTACCGTAGTACAAAGAGTGGTACGTATGTGCAATTTGGAGGTACCGAAGTAC
65 TCAAGGGTACCAAAGTACAAACAGTAGCACATATGTGCAATTTGGAGGTACCGAAATAC
* * * * *
10007752 AAACAGGGGCACGTATGTGTAATTCAAGGGTACCAAAGTACAAAC-AGGAGCACGTATT-TGCAA
1 AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAAGG-GCACGT-TTGTGCAA
* *
10007815 TTCAAGGGTACCAAAGTACAAACACG-AGCACATATGTGTAATTTAGG-GGTACTGAAATAC
64 TTCAAGGGTACCAAAGTACAAACA-GTAGCACATATGTGCAATTT-GGAGGTACCGAAATAC
* *
10007875 AAACAAGGGCACATATGTGCAATTTAAGGGTATCGAAGTACAAACAAGGGCATGTTTGTGCAATT
1 AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAAGGGCACGTTTGTGCAATT
10007940 AAACAATAAT
Statistics
Matches: 151, Mismatches: 28, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
121 5 0.03
122 13 0.09
123 123 0.81
124 10 0.07
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.22
Consensus pattern (123 bp):
AAACAAGGGCACATATGTGCAATTTAAGGGTACCGAAGTACAAACAAGGGCACGTTTGTGCAATT
CAAGGGTACCAAAGTACAAACAGTAGCACATATGTGCAATTTGGAGGTACCGAAATAC
Found at i:10012798 original size:54 final size:54
Alignment explanation
Indices: 10012726--10012868 Score: 157
Period size: 54 Copynumber: 2.6 Consensus size: 54
10012716 CTCACATGAC
*
10012726 GCCATAGTCCCG-GACTAGGTCTTGCACTATGTGGTC-TTCATATCCCCATAGGAT
1 GCCATAGT-CCGAGACTAGGTCTTGCACTATATGGTCTTTC-TATCCCCATAGGAT
* * * *
10012780 GCCATAGTCCGAGTCTAGGTC-TGACACTATATGGTCTTTCTGTCCCTATATGAT
1 GCCATAGTCCGAGACTAGGTCTTG-CACTATATGGTCTTTCTATCCCCATAGGAT
* * * *
10012834 GCCATAATCCTAGACTAGGTCTTACACTTTATGGT
1 GCCATAGTCCGAGACTAGGTCTTGCACTATATGGT
10012869 ATTCTTGTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
53 5 0.07
54 66 0.88
55 4 0.05
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (54 bp):
GCCATAGTCCGAGACTAGGTCTTGCACTATATGGTCTTTCTATCCCCATAGGAT
Found at i:10013000 original size:15 final size:16
Alignment explanation
Indices: 10012976--10013010 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10012966 CATGCAACTT
10012976 ATGCACAGACTCT-TC
1 ATGCACAGACTCTATC
*
10012991 ATGCAGAGACTCTATC
1 ATGCACAGACTCTATC
10013007 ATGC
1 ATGC
10013011 TTTCAGACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (16 bp):
ATGCACAGACTCTATC
Found at i:10018643 original size:15 final size:16
Alignment explanation
Indices: 10018607--10018644 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
10018597 TTATATTGCA
10018607 TATATATATGTTAACT
1 TATATATATGTTAACT
*
10018623 TAATATATAT-TTAAGT
1 T-ATATATATGTTAACT
10018639 TATATA
1 TATATA
10018645 ATGATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 7 0.35
17 8 0.40
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (16 bp):
TATATATATGTTAACT
Found at i:10022353 original size:11 final size:11
Alignment explanation
Indices: 10022333--10022439 Score: 117
Period size: 11 Copynumber: 10.4 Consensus size: 11
10022323 TAAAAATTAA
10022333 AAAAAGTATTTT
1 AAAAA-TATTTT
10022345 AAAAATATTTT
1 AAAAATATTTT
10022356 --AAA-A--TT
1 AAAAATATTTT
10022362 AAAAATATTTT
1 AAAAATATTTT
10022373 AAAAAGTATTTT
1 AAAAA-TATTTT
10022385 AAAAATATTTT
1 AAAAATATTTT
10022396 --AAA-A--TT
1 AAAAATATTTT
10022402 AAAAATATTTT
1 AAAAATATTTT
10022413 AAAAAGTATTTT
1 AAAAA-TATTTT
10022425 AAAAATATTTT
1 AAAAATATTTT
10022436 AAAA
1 AAAA
10022440 TTATAAAAAA
Statistics
Matches: 83, Mismatches: 0, Indels: 25
0.77 0.00 0.23
Matches are distributed among these distances:
6 4 0.05
8 8 0.10
9 8 0.10
11 36 0.43
12 27 0.33
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:10022365 original size:17 final size:17
Alignment explanation
Indices: 10022343--10022416 Score: 94
Period size: 17 Copynumber: 4.0 Consensus size: 17
10022333 AAAAAGTATT
10022343 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
10022360 TTAAAAATATTTTAAAAAGTA
1 TTAAAAATATTTT--AAA--A
10022381 TTTTAAAAATATTTTAAAA
1 --TTAAAAATATTTTAAAA
10022400 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
10022417 AGTATTTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
17 30 0.59
19 4 0.08
21 4 0.08
23 13 0.25
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:10022384 original size:40 final size:40
Alignment explanation
Indices: 10022333--10022447 Score: 221
Period size: 40 Copynumber: 2.9 Consensus size: 40
10022323 TAAAAATTAA
10022333 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAATATTTT
10022373 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAATATTTT
10022413 AAAAAGTATTTTAAAAATATTTTAAAATTATAAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTA-AAAA
10022448 AATTAAAACA
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
40 70 0.95
41 4 0.05
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (40 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAATATTTT
Found at i:10022403 original size:29 final size:29
Alignment explanation
Indices: 10022371--10022428 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
10022361 TAAAAATATT
10022371 TTAAAAAGTATTTTAAAAA-TATTTTAAAA
1 TTAAAAA-TATTTTAAAAAGTATTTTAAAA
10022400 TTAAAAATATTTTAAAAAGTATTTTAAAA
1 TTAAAAATATTTTAAAAAGTATTTTAAAA
10022429 ATATTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (29 bp):
TTAAAAATATTTTAAAAAGTATTTTAAAA
Found at i:10022571 original size:32 final size:33
Alignment explanation
Indices: 10022535--10022605 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
10022525 ATTTTCTAAA
*
10022535 CGGGCCTCATTTTTTTACCC-AA-GCCCATATTT
1 CGGGCCT-ATATTTTTACCCAAACGCCCATATTT
*
10022567 CGGGCCTATATTTTTACCCAAACCTCCCATATTT
1 CGGGCCTATATTTTTACCCAAA-CGCCCATATTT
10022601 CGGGC
1 CGGGC
10022606 GGGCAGTCGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 11 0.32
32 9 0.26
34 14 0.41
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (33 bp):
CGGGCCTATATTTTTACCCAAACGCCCATATTT
Found at i:10025433 original size:27 final size:27
Alignment explanation
Indices: 10025367--10025451 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
10025357 GACTGAAATA
* * *
10025367 CCCTTGAAAGGTAAAATGAACGAAATA
1 CCCTTGTAAGGTAAAATGAACGTAATG
* * * *
10025394 CCCCTATATGGTAAAATGATCGTAATG
1 CCCTTGTAAGGTAAAATGAACGTAATG
* * *
10025421 CCCTTGTAGGGTAATATGACCGTAATG
1 CCCTTGTAAGGTAAAATGAACGTAATG
10025448 CCCT
1 CCCT
10025452 GGTGGGAATA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
CCCTTGTAAGGTAAAATGAACGTAATG
Found at i:10025562 original size:24 final size:23
Alignment explanation
Indices: 10025496--10025568 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 23
10025486 AAATGATTAT
* *
10025496 TTTGTCTGTGGTTAAATGAATGA
1 TTTGTCTGTGTTTGAATGAATGA
* *
10025519 TTTGTCTGTGTTTGGTATGACTGA
1 TTTGTCTGTGTTT-GAATGAATGA
*
10025543 TTTGTCTGTGATTTGAATGATTGA
1 TTTGTCTGTG-TTTGAATGAATGA
10025567 TT
1 TT
10025569 CTGAGCATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 12 0.29
24 27 0.64
25 3 0.07
ACGTcount: A:0.19, C:0.05, G:0.26, T:0.49
Consensus pattern (23 bp):
TTTGTCTGTGTTTGAATGAATGA
Found at i:10025670 original size:27 final size:27
Alignment explanation
Indices: 10025632--10025696 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
10025622 ATGGAGGAAG
10025632 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
*
10025657 TCACTGTTACTGGTGGCTTGGGCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
10025685 TACTGTTACTGG
1 TACTGTTACTGG
10025697 CAGCTTTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:10025722 original size:26 final size:26
Alignment explanation
Indices: 10025684--10025749 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
10025674 TTGGGCACAT
* *
10025684 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTGTTGCTGGCAGCTTTGCTGCG
10025710 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTGTTGCTGGCAGCTTTGCTGCG
* *
10025736 ATACTATTGATGGC
1 ATACTGTTGCTGGC
10025750 TTTGTGCCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (26 bp):
ATACTGTTGCTGGCAGCTTTGCTGCG
Found at i:10025875 original size:96 final size:96
Alignment explanation
Indices: 10025737--10025927 Score: 285
Period size: 96 Copynumber: 2.0 Consensus size: 96
10025727 TTTGCTGCGA
* *
10025737 TACTATTGATGGCTTTGTGCCGATCATATAATCATTATTGATGGTTGTGTGCTGATCATATTACC
1 TACTACTGATGGCTTTGTGCCGATCATATAATCATTACTGATGGTTGTGTGCTGATCATATTACC
* * *
10025802 ATTACTGATGGCTGTGTGCCTATTATATTAC
66 ACTACTGATGGCTGTGTGCCAATCATATTAC
* *
10025833 TACTACTGATGGCTTTGTGCTGATCATACTACT-ATTACTGATGGTTGTGTGCTGATCATATTAC
1 TACTACTGATGGCTTTGTGCCGATCATA-TAATCATTACTGATGGTTGTGTGCTGATCATATTAC
* *
10025897 TACTACTGATGGCTTTGTGCCAATCATATTA
65 CACTACTGATGGCTGTGTGCCAATCATATTA
10025928 TTGTACTTGT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 82 0.96
97 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (96 bp):
TACTACTGATGGCTTTGTGCCGATCATATAATCATTACTGATGGTTGTGTGCTGATCATATTACC
ACTACTGATGGCTGTGTGCCAATCATATTAC
Found at i:10025898 original size:32 final size:32
Alignment explanation
Indices: 10025743--10025927 Score: 207
Period size: 32 Copynumber: 5.8 Consensus size: 32
10025733 GCGATACTAT
* * *
10025743 TGATGGCTTTGTGCCGATCATA-TAATCATTAT
1 TGATGGCTTTGTGCTGATCATATTACT-ATTAC
*
10025775 TGATGG-TTGTGTGCTGATCATATTACCATTAC
1 TGATGGCTT-TGTGCTGATCATATTACTATTAC
* * *
10025807 TGATGGCTGTGTGCCT-ATTATATTACTACTAC
1 TGATGGCTTTGTG-CTGATCATATTACTATTAC
*
10025839 TGATGGCTTTGTGCTGATCATACTACTATTAC
1 TGATGGCTTTGTGCTGATCATATTACTATTAC
*
10025871 TGATGG-TTGTGTGCTGATCATATTACTACTAC
1 TGATGGCTT-TGTGCTGATCATATTACTATTAC
**
10025903 TGATGGCTTTGTGCCAATCATATTA
1 TGATGGCTTTGTGCTGATCATATTA
10025928 TTGTACTTGT
Statistics
Matches: 130, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
31 6 0.05
32 117 0.90
33 7 0.05
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.41
Consensus pattern (32 bp):
TGATGGCTTTGTGCTGATCATATTACTATTAC
Found at i:10027090 original size:19 final size:19
Alignment explanation
Indices: 10027068--10027105 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10027058 TCAATCATCC
10027068 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
10027087 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
10027106 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:10028743 original size:18 final size:18
Alignment explanation
Indices: 10028720--10028761 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10028710 TGGGATATTA
*
10028720 AGTGAAAATATCT-TAGAG
1 AGTGAAAATAGCTCTAG-G
10028738 AGTG-AAATAGCTCTAGG
1 AGTGAAAATAGCTCTAGG
10028755 AGTGAAA
1 AGTGAAA
10028762 CTTGGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (18 bp):
AGTGAAAATAGCTCTAGG
Found at i:10036019 original size:56 final size:50
Alignment explanation
Indices: 10035928--10036219 Score: 239
Period size: 50 Copynumber: 5.7 Consensus size: 50
10035918 GGTAAAAAGA
* * *
10035928 TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C----AG-TGATGAGAGG
* * *
10035984 TCTCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGTGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAGTGATGAGAGG
* * *
10036034 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAGTGATGAGAGG
** * * * **
10036084 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCG-GTATGAGAAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAGTG-ATGAGAGG
* * * * * * * * * **
10036134 TCCCATGTAAGATCATATCTGGGATATGACATTGG--TAGTACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAGT-GATGAGAGG
*
10036183 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
10036220 TGTTATTATC
Statistics
Matches: 193, Mismatches: 38, Indels: 15
0.78 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.18
50 122 0.63
51 1 0.01
55 1 0.01
56 33 0.17
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAGTGATGAGAGG
Found at i:10036123 original size:100 final size:100
Alignment explanation
Indices: 10035928--10036212 Score: 304
Period size: 100 Copynumber: 2.8 Consensus size: 100
10035918 GGTAAAAAGA
* * *
10035928 TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCTCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATGAAAGGTCCCATGTA
* * * *
10035993 AGAGCATGTCTGGGACATGGCGTTGGCACC-GTGATGAGAGG
60 AGACCATGTCTGGGACATGGCATGGGCACCGGT-ATGAGAAG
* **
10036034 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAAAGGTCCCCCGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAGGTCCCATGTAAGACCA
*
10036099 TGTCTGGGACATGGCATGGGCACCGGTATGAGAAT
66 TGTCTGGGACATGGCATGGGCACCGGTATGAGAAG
* * * * * * * * **
10036134 TCCCATGTAAGATCATATCTGGGATATGACATTGGTAGT-ACAAGAAACATCCCATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAGGTCCCATGTAAGACCA
10036198 TGTCTGGGACATGGC
66 TGTCTGGGACATGGC
10036213 TTTGGCATGT
Statistics
Matches: 154, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
99 34 0.22
100 78 0.51
101 2 0.01
103 4 0.03
105 1 0.01
106 35 0.23
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (100 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAAAGGTCCCATGTAAGACCA
TGTCTGGGACATGGCATGGGCACCGGTATGAGAAG
Found at i:10040707 original size:25 final size:25
Alignment explanation
Indices: 10040654--10040713 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
10040644 GTGGTCCACC
* *
10040654 TTTTTTAAAAATATATTTTTTTTTA
1 TTTTTTAAAAATATATTTCTTCTTA
*
10040679 TTTTTTAATAAATCTATTTCTTCTT-
1 TTTTTTAA-AAATATATTTCTTCTTA
*
10040704 TTTTTCAAAA
1 TTTTTTAAAA
10040714 TTTTTAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 15 0.50
26 13 0.43
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTTAAAAATATATTTCTTCTTA
Found at i:10040708 original size:26 final size:25
Alignment explanation
Indices: 10040654--10040708 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
10040644 GTGGTCCACC
*
10040654 TTTTTTAAAAATATATTTTTTTTTA
1 TTTTTTAAAAATATATTTTTCTTTA
*
10040679 TTTTTTAATAAATCTATTTCTTCTTT-
1 TTTTTTAA-AAATATATTT-TTCTTTA
10040705 TTTT
1 TTTT
10040709 CAAAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 13 0.50
27 5 0.19
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTTTAAAAATATATTTTTCTTTA
Found at i:10046605 original size:47 final size:47
Alignment explanation
Indices: 10046536--10046631 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
10046526 CACACTTTGT
10046536 AAAATGATCCACTATCACCCAAACTGAATCCTTCTTGAGATGGAGTC
1 AAAATGATCCACTATCACCCAAACTGAATCCTTCTTGAGATGGAGTC
10046583 AAAATGATCCACTATCACCCAAACTGAATCCTTCTTGAGATGGAGTC
1 AAAATGATCCACTATCACCCAAACTGAATCCTTCTTGAGATGGAGTC
10046630 AA
1 AA
10046632 TGACAAATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (47 bp):
AAAATGATCCACTATCACCCAAACTGAATCCTTCTTGAGATGGAGTC
Found at i:10053464 original size:28 final size:27
Alignment explanation
Indices: 10053413--10053466 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
10053403 CTGATACTGA
*
10053413 TTCTGTAATGGGCTTAGGTCCACCTGG
1 TTCTGTAATGGGCTAAGGTCCACCTGG
10053440 TTCTGTTAATGGGCTAAGG-CTCACCTG
1 TTCTG-TAATGGGCTAAGGTC-CACCTG
10053467 ATACTATGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (27 bp):
TTCTGTAATGGGCTAAGGTCCACCTGG
Found at i:10058696 original size:102 final size:103
Alignment explanation
Indices: 10058532--10058758 Score: 366
Period size: 102 Copynumber: 2.2 Consensus size: 103
10058522 GTGGATTTCA
* * *
10058532 CACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACTT
1 CACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGAGGGAATCAGCACTT
* * *
10058597 AGCAACCCCC-TTCACATTTCAGATGCGGTGGAATCAG
66 AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAG
* **
10058634 CACTTAGCAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGAGGGAATCAGCACTT
1 CACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGAGGGAATCAGCACTT
10058699 AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAG
66 AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAG
10058737 CACTTAGCAACCACCAATGAAT
1 CACTTAGCAACCACCAATGAAT
10058759 CGNNNNNNNN
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 69 0.60
103 46 0.40
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (103 bp):
CACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGAGGGAATCAGCACTT
AGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAG
Found at i:10062750 original size:19 final size:19
Alignment explanation
Indices: 10062700--10062756 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
10062690 AAATGTAACA
* *
10062700 ACTAAATTAAAAACAAAATT
1 ACTAAATTAATAA-AAAATG
* **
10062720 ATTAAAAAAATAAAAAATG
1 ACTAAATTAATAAAAAATG
10062739 ACTAAATTAATAGAAAAA
1 ACTAAATTAATA-AAAAA
10062757 AAAGTTTTCC
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (19 bp):
ACTAAATTAATAAAAAATG
Found at i:10069752 original size:61 final size:61
Alignment explanation
Indices: 10069657--10069803 Score: 188
Period size: 61 Copynumber: 2.4 Consensus size: 61
10069647 AAGAGAAGTA
* * * *
10069657 TACTAAATGTTAATGAATGCCTTTGTGGTAAAACTCTGGACAGGAAAACATTTGTGGT-GAG
1 TACTAAATGTTAAGGAACGCCTTTGGGGTAAAACTATGGACAGGAAAACATTTGT-GTCGAG
* * * *
10069718 TACTAAATGTTACGGAACGCCTTTGGGGTAAAACTATGGACATGAAAGCCTTTGTGTCGAG
1 TACTAAATGTTAAGGAACGCCTTTGGGGTAAAACTATGGACAGGAAAACATTTGTGTCGAG
* *
10069779 TATTAAATGTTAAGGAACGTCTTTG
1 TACTAAATGTTAAGGAACGCCTTTG
10069804 TGGAAAGAGT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 2 0.03
61 72 0.97
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (61 bp):
TACTAAATGTTAAGGAACGCCTTTGGGGTAAAACTATGGACAGGAAAACATTTGTGTCGAG
Found at i:10071636 original size:7 final size:7
Alignment explanation
Indices: 10071552--10071635 Score: 114
Period size: 7 Copynumber: 12.0 Consensus size: 7
10071542 TAAAATTAAT
*
10071552 AATTGGG
1 AATTGAG
*
10071559 AATTGGG
1 AATTGAG
10071566 AATTGAG
1 AATTGAG
10071573 AATTGAG
1 AATTGAG
10071580 AATTGAG
1 AATTGAG
10071587 AATTGAG
1 AATTGAG
10071594 AATTGAG
1 AATTGAG
10071601 AATTGAG
1 AATTGAG
10071608 AATTGAG
1 AATTGAG
* *
10071615 GAGTGAG
1 AATTGAG
*
10071622 GATTGAG
1 AATTGAG
*
10071629 TATTGAG
1 AATTGAG
10071636 TTGAAAAGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 72 1.00
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.29
Consensus pattern (7 bp):
AATTGAG
Found at i:10072514 original size:13 final size:13
Alignment explanation
Indices: 10072496--10072520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10072486 AAATTTTTAT
10072496 TATTTATTATTTC
1 TATTTATTATTTC
10072509 TATTTATTATTT
1 TATTTATTATTT
10072521 ATCTTAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTATTATTTC
Found at i:10082263 original size:18 final size:18
Alignment explanation
Indices: 10082237--10082298 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 18
10082227 TTATTATAAA
*
10082237 TTATGATAATTCCTATTT
1 TTATTATAATTCCTATTT
*
10082255 TTATTATAATT--TATATA
1 TTATTATAATTCCTAT-TT
*
10082272 TTGTTA-AATTCCTA-TT
1 TTATTATAATTCCTATTT
10082288 TTATTATAATT
1 TTATTATAATT
10082299 TACATACTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
16 13 0.37
17 10 0.29
18 12 0.34
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATTATAATTCCTATTT
Found at i:10085100 original size:57 final size:58
Alignment explanation
Indices: 10085007--10085121 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 58
10084997 GGTAAAATGG
10085007 GATTTTTAGCTCATATGTGTTCAGAATTTCGTTAACATTGTATTCGAAAATGTTTTTT
1 GATTTTTAGCTCATATGTGTTCAGAATTTCGTTAACATTGTATTCGAAAATGTTTTTT
10085065 GATTTTTAGCTCATATGT-TTCAGAATTTCGTTAACATTGTATTCGAAAATGTTTTTT
1 GATTTTTAGCTCATATGTGTTCAGAATTTCGTTAACATTGTATTCGAAAATGTTTTTT
10085122 ACTATGGTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 39 0.68
58 18 0.32
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (58 bp):
GATTTTTAGCTCATATGTGTTCAGAATTTCGTTAACATTGTATTCGAAAATGTTTTTT
Found at i:10089825 original size:16 final size:15
Alignment explanation
Indices: 10089800--10089851 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
10089790 TTAAATTATT
10089800 ATTTAATATAAAATA
1 ATTTAATATAAAATA
**
10089815 ATTTAAATATAATTTA
1 ATTT-AATATAAAATA
*
10089831 TTTTTAATATAAATATA
1 -ATTTAATATAAA-ATA
10089848 ATTT
1 ATTT
10089852 TCAATTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
15 4 0.14
16 19 0.68
17 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTAATATAAAATA
Found at i:10093435 original size:25 final size:25
Alignment explanation
Indices: 10093399--10093482 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
10093389 ATCTGGAAAT
*
10093399 CCTTTGTAGTGAATTCTCTAAAAAG
1 CCTTTGTGGTGAATTCTCTAAAAAG
* *
10093424 CCTTTGTGGTGAATTCTCTAGAAAT
1 CCTTTGTGGTGAATTCTCTAAAAAG
** *
10093449 CCTTTGTGGCAAATCCTCTAAAAAG
1 CCTTTGTGGTGAATTCTCTAAAAAG
*
10093474 CCTATGTGG
1 CCTTTGTGG
10093483 CTACCTCTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (25 bp):
CCTTTGTGGTGAATTCTCTAAAAAG
Found at i:10096187 original size:6 final size:6
Alignment explanation
Indices: 10096176--10096202 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10096166 GTTGACAAAG
10096176 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
10096203 TAGAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:10097234 original size:30 final size:32
Alignment explanation
Indices: 10097200--10097260 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
10097190 TTCTGTAACT
* *
10097200 TTTCAATTTGGCCC-ATTTTCTTGTT-TTTTG
1 TTTCAATTTAGCCCAATTTGCTTGTTCTTTTG
10097230 TTTCAATTTAGCCCAATTTGCTTGTTCTTTT
1 TTTCAATTTAGCCCAATTTGCTTGTTCTTTT
10097261 TTTGAACTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 13 0.48
31 10 0.37
32 4 0.15
ACGTcount: A:0.13, C:0.18, G:0.11, T:0.57
Consensus pattern (32 bp):
TTTCAATTTAGCCCAATTTGCTTGTTCTTTTG
Found at i:10099441 original size:20 final size:20
Alignment explanation
Indices: 10099416--10099501 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
10099406 TTGTACGGGA
10099416 TTGCACTTCTGTGCCTCTGT
1 TTGCACTTCTGTGCCTCTGT
10099436 TTGCACTT-TAGTGCCTCTGT
1 TTGCACTTCT-GTGCCTCTGT
** * *
10099456 TTATACTTC-GATGTCTCTAT
1 TTGCACTTCTG-TGCCTCTGT
* * *
10099476 TTGCACTACGGTGCCTCTGA
1 TTGCACTTCTGTGCCTCTGT
10099496 TTGCAC
1 TTGCAC
10099502 AATCGTGCCT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
19 2 0.04
20 49 0.94
21 1 0.02
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGCACTTCTGTGCCTCTGT
Found at i:10103781 original size:70 final size:70
Alignment explanation
Indices: 10103663--10103802 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
10103653 CAAACATACT
*
10103663 TGATTAAATTTCATATCAAAACATTCCCTAAATGATCACTTTGCAAACATGGC-AACACATACCA
1 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACAT-GCTAACACATACCA
10103727 CTTTGG
65 CTTTGG
* *
10103733 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGTAAACATGCTAGCACATACCAC
1 TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACATGCTAACACATACCAC
10103798 TTTGG
66 TTTGG
10103803 CCATAAAACC
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 2 0.03
70 64 0.97
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (70 bp):
TGATTAAATTTCATATCAAAACATGCCCTAAATGATCACTTTGCAAACATGCTAACACATACCAC
TTTGG
Found at i:10105291 original size:29 final size:29
Alignment explanation
Indices: 10105229--10105352 Score: 176
Period size: 29 Copynumber: 4.2 Consensus size: 29
10105219 GTGTGCTAAA
** *
10105229 CGATGGTCGAAACCATCTCTCTTTTTTTAAT
1 CGATGGTCGAAACCATC-C-CTTTTCATATT
10105260 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
10105289 CGATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
10105318 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
10105347 CGATGG
1 CGATGG
10105353 GCGTCAATAC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
29 68 0.79
30 1 0.01
31 17 0.20
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:10115158 original size:45 final size:45
Alignment explanation
Indices: 10115094--10115181 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
10115084 ACAGATACTC
* *
10115094 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAAGGATGTCA
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAAGGATGTCA
*
10115139 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAAGGATGT
10115182 TCGGTTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAAGGATGTCA
Found at i:10115248 original size:51 final size:52
Alignment explanation
Indices: 10115183--10115327 Score: 163
Period size: 51 Copynumber: 2.8 Consensus size: 52
10115173 CAATGATGTT
* *
10115183 CGGTTCACATAGTAGCTTGCACATAGTACTACACATGTGACCATTACCA-TC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTC
* * * *
10115234 CGGTACGCATAGTAGCCTGCACATATTACTACACATGCGACC--TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTC
* * * *
10115284 CGGTACACGTATTAGCCTGCACATAGGT-TTACACACGTGACCAT
1 CGGTACACATAGTAGCCTGCACATA-GTACTACACATGTGACCAT
10115328 CACTTTCACT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
49 4 0.05
50 35 0.45
51 38 0.49
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (52 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTC
Found at i:10117988 original size:20 final size:20
Alignment explanation
Indices: 10117946--10117988 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
10117936 GGGCACAAAT
* * *
10117946 GTGCAAACAGGGGCACTGTA
1 GTGCAAACAGGGACACCGAA
*
10117966 GTGCGAACAGGGACACCGAA
1 GTGCAAACAGGGACACCGAA
10117986 GTG
1 GTG
10117989 TATTCAAAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.21, G:0.37, T:0.12
Consensus pattern (20 bp):
GTGCAAACAGGGACACCGAA
Found at i:10123292 original size:51 final size:51
Alignment explanation
Indices: 10123218--10123328 Score: 186
Period size: 51 Copynumber: 2.2 Consensus size: 51
10123208 AGAAAGAAAG
*
10123218 AAAATTGAAGAGAAAAAAGGAGAGGAAGAGGGCGAACGGCTAGGGTAGGGA
1 AAAATTGAAGAGAAAAAAGGAGAGGAAGAGGACGAACGGCTAGGGTAGGGA
* * *
10123269 AAAATTGAAGAGAAAAGAGGAGAGGAAGAGGATGAATGGCTAGGGTAGGGA
1 AAAATTGAAGAGAAAAAAGGAGAGGAAGAGGACGAACGGCTAGGGTAGGGA
10123320 AAAATTGAA
1 AAAATTGAA
10123329 TTAAAGGCTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.47, C:0.04, G:0.39, T:0.11
Consensus pattern (51 bp):
AAAATTGAAGAGAAAAAAGGAGAGGAAGAGGACGAACGGCTAGGGTAGGGA
Found at i:10124767 original size:27 final size:27
Alignment explanation
Indices: 10124745--10125242 Score: 508
Period size: 27 Copynumber: 18.4 Consensus size: 27
10124735 GAGGTATAAC
10124745 AGTCATTTTACCCTATAGGGGTATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
* * * *
10124772 GGTCATTTTAACCTATGGGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTT
* *
10124799 AGTCATTTTATCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
*
10124826 AGTCATTTTATCCTAT-GGAGGTATTTT
1 AGTCATTTTACCCTATAGG-GGTATTTT
* *
10124853 GGTCATTTTACCCTATAGGGATATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
* * *
10124880 GGTCATTTTACCCTATAAGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTT
* *
10124907 AGTTATTTTACCTTAT-GGGGATATTTT
1 AGTCATTTTACCCTATAGGGG-TATTTT
* * *
10124934 GGTCATTTTACCCTATAAGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTT
* * * *
10124961 AGTTATTTTACCTTATGGGGGTGTTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
*
10124988 AGTCATTTTACCCTATAGGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTT
* * * *
10125015 AGTCATTCTATCTTAT-GAGGGCATTTT
1 AGTCATTTTACCCTATAG-GGGTATTTT
*
10125042 AGTCATTTTACCCTATAGGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTT
10125069 AGTCATTTTACCCTAT-GGGGCTATTTT
1 AGTCATTTTACCCTATAGGGG-TATTTT
*
10125096 -GATCATTTTACCCTATGGGGGTATTTT
1 AG-TCATTTTACCCTATAGGGGTATTTT
* * * *
10125123 GGTCATTTTACCTTATGGGGGTATTTC
1 AGTCATTTTACCCTATAGGGGTATTTT
* * *
10125150 AATAATTTTACCTTAT-GGAGGTA-TTT
1 AGTCATTTTACCCTATAGG-GGTATTTT
* *
10125176 CGATCATTTTACCCTGT-GGAGGTATTTT
1 AG-TCATTTTACCCTATAGG-GGTATTTT
* *
10125204 GGTCATTTTACCCTATAGAGGTATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
*
10125231 GGTCATTTTACC
1 AGTCATTTTACC
10125243 TATTTTGGGG
Statistics
Matches: 397, Mismatches: 60, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.04
27 366 0.92
28 16 0.04
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.45
Consensus pattern (27 bp):
AGTCATTTTACCCTATAGGGGTATTTT
Found at i:10124822 original size:81 final size:80
Alignment explanation
Indices: 10124744--10125242 Score: 566
Period size: 81 Copynumber: 6.2 Consensus size: 80
10124734 AGAGGTATAA
* *
10124744 CAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTAACCTATGGGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACCCTAT-GGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
*
10124809 TCCTATGGGGGTATTT
65 CCCTATGGGGGTATTT
* * * * *
10124825 TAGTCATTTTATCCTATGGAGGTATTTTGGTCATTTTACCCTATAGGGATATTTTGGTCATTTTA
1 CAGTCATTTTACCCTATGG-GGTATTTTGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
**
10124890 CCCTATAAGGGTATTT
65 CCCTATGGGGGTATTT
* * ** * *
10124906 CAGTTATTTTACCTTATGGGGATATTTTGGTCATTTTACCCTATAAGGGTATTTCAGTTATTTTA
1 CAGTCATTTTACCCTATGGGG-TATTTTGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
* *
10124971 CCTTATGGGGGTGTTT
65 CCCTATGGGGGTATTT
* ** * * * * *
10124987 TAGTCATTTTACCCTATAGGGGTATTTCAGTCATTCTATCTTATGAGGGCATTTTAGTCATTTTA
1 CAGTCATTTTACCCTAT-GGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
*
10125052 CCCTATAGGGGTATTT
65 CCCTATGGGGGTATTT
* *
10125068 CAGTCATTTTACCCTATGGGGCTATTTTGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTA
1 CAGTCATTTTACCCTATGGGG-TATTTTGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
*
10125133 CCTTATGGGGGTATTT
65 CCCTATGGGGGTATTT
* * * * * * * *
10125149 CAATAATTTTACCTTATGGAGGTATTTCGATCATTTTACCCTGTGGAGGTATTTTGGTCATTTTA
1 CAGTCATTTTACCCTATGG-GGTATTTTGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
* *
10125214 CCCTATAGAGGTATTT
65 CCCTATGGGGGTATTT
**
10125230 TGGTCATTTTACC
1 CAGTCATTTTACC
10125243 TATTTTGGGG
Statistics
Matches: 350, Mismatches: 63, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
80 8 0.02
81 336 0.96
82 6 0.02
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (80 bp):
CAGTCATTTTACCCTATGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTAC
CCTATGGGGGTATTT
Found at i:10136794 original size:2 final size:2
Alignment explanation
Indices: 10136787--10136819 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10136777 TTTGAATAAA
10136787 TC TC TC TC 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 TC TC TC TC T
10136820 TTTAAAACAC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10140784 original size:21 final size:21
Alignment explanation
Indices: 10140747--10140801 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
10140737 AATCATATCT
10140747 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
10140766 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
10140787 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
10140802 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:10141416 original size:44 final size:44
Alignment explanation
Indices: 10141359--10141692 Score: 166
Period size: 44 Copynumber: 7.7 Consensus size: 44
10141349 ATGTGATCTA
* ** *
10141359 CTCCACTGTAACTTCAGATAGATAAGATCT-GCGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAGCGGCTTTAATCCG
* ** *
10141403 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGCGGCTTTAATCCG
** ** * * *
10141447 CTCCACTGCAACTTCAGGGAGATAAGATTCTCAATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGC-GGCTTTAATCCG
** * *** * *
10141492 C-CTCACTGCAACTTCA-AAAGGATAGGACTT-GATTAC-TTACTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTAG-CGGCTTTAATCCG
* * ** * *
10141536 CCCCACTGCAACTTCAGGGAGATAAGACTAGATGC---CATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGCGGCTTTAATCCG
* * * * **
10141577 CT-CTCTACAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAGCGGCTTTAATCCG
* ** * *
10141620 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTATTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGCGGCTTTAATCCG
*
10141664 CTCCACTACAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
10141693 CGCCATCTTC
Statistics
Matches: 221, Mismatches: 54, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
40 22 0.10
41 6 0.03
43 11 0.05
44 149 0.67
45 31 0.14
46 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGCGGCTTTAATCCG
Found at i:10141507 original size:45 final size:44
Alignment explanation
Indices: 10141397--10141692 Score: 196
Period size: 44 Copynumber: 6.8 Consensus size: 44
10141387 CTGCGGTTTT
* * ** *
10141397 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAAGCTTC
* *
10141441 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTCAATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-AAGCTTC
* ** * *
10141486 AGTCTGC-CTCACTGCAACTTCA-AAAGGATAGGACTTGATTA-CTT-
1 AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATAAGCTTC
* * * * *
10141530 ACTCTGCCCCACTGCAACTTCAGGGAGATAAGACTAGATGC--C
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAAGCTTC
* * * * * * *
10141572 -ATCTGCT-CTCTACAACTTCAGAGAGATAAGATCTGTGA-TTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATAAGCTTC
* * ** *
10141614 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAAGCTTC
* *
10141658 ATTCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
10141693 CGCCATCTTC
Statistics
Matches: 191, Mismatches: 46, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
40 21 0.11
41 6 0.03
42 1 0.01
43 10 0.05
44 116 0.61
45 33 0.17
46 3 0.02
47 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATAAGCTTC
Found at i:10141638 original size:84 final size:85
Alignment explanation
Indices: 10141438--10141643 Score: 226
Period size: 84 Copynumber: 2.4 Consensus size: 85
10141428 GATTATTGGC
*
10141438 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTCAATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TCTCAATC-TCAGTCTGCCTCACTACAA
*
10141503 CTTCAAAAGGATAGGACTTGAT
64 CTTCAAAAGGATAAGACTTGAT
* * *
10141525 TACTTACTCTGCCCCACTGCAACTTCAGGGAGATAAGA-CT-AGATGC-CA-TCTG-CTCTCTAC
1 T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTCA-AT-CTCAGTCTGCCTCACTAC
*
10141585 AACTTC-AGAGAGATAAGATCTGTGAT
62 AACTTCAAAAG-GATAAGA-CT-TGAT
*
10141611 TTTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATA
10141644 GGATTATTGG
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
83 3 0.03
84 47 0.46
85 6 0.06
86 8 0.08
87 5 0.05
88 1 0.01
89 33 0.32
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (85 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTCAATCTCAGTCTGCCTCACTACAACT
TCAAAAGGATAAGACTTGAT
Found at i:10141778 original size:95 final size:97
Alignment explanation
Indices: 10141651--10141888 Score: 223
Period size: 100 Copynumber: 2.4 Consensus size: 97
10141641 ATAGGATTAT
* * * * ** *
10141651 TGGCTTTATTCTGCTCCACTACAACTTCAGGGAGATAAGATTC-GCCAT-CTTCAGTATTTTAAA
1 TGGCTTCAATCTGTTCCACTACACCGCCAGGGAGATAAGATTCTGCCATGCTTCAATATTTTAAA
* *
10141714 TTGCAATGTTGGGGAAACAAGATTCTCTGTCG
66 TTGCAATGTTGGGGAAACAAGATTCACCGTCG
*** *
10141746 TGGCTTCAATCTGTTCCACTACACCGCCAGGGA-AGTAAGATTCACTGTTGTGGCTTCAATCTTT
1 TGGCTTCAATCTGTTCCACTACACCGCCAGGGAGA-TAAGATT--CTGCCAT-GCTTCAATATTT
* * **
10141810 TTAATTGCAATGTTGGGGAAATAAGATTCACCGTTT
62 TAAATTGCAATGTTGGGGAAACAAGATTCACCGTCG
* * *
10141846 TAGCTTCAATCTGTTTCATTACACCGCCAGAGGAG-TAAGATTC
1 TGGCTTCAATCTGTTCCACTACACCGCCAG-GGAGATAAGATTC
10141889 ACTGTCGTGG
Statistics
Matches: 115, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
94 1 0.01
95 34 0.30
97 1 0.01
98 3 0.03
100 73 0.63
101 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (97 bp):
TGGCTTCAATCTGTTCCACTACACCGCCAGGGAGATAAGATTCTGCCATGCTTCAATATTTTAAA
TTGCAATGTTGGGGAAACAAGATTCACCGTCG
Found at i:10141829 original size:50 final size:50
Alignment explanation
Indices: 10141707--10141857 Score: 140
Period size: 50 Copynumber: 3.0 Consensus size: 50
10141697 ATCTTCAGTA
* * *
10141707 TTTTAAATTGCAATGTTGGGGAAACAAGATTCTCTGTCGTGGCTTCAATC
1 TTTTAAATTGCAATGTTGGGGAAATAAGATTCACTGTTGTGGCTTCAATC
* ** * * ** *** *
10141757 TGTTCCACTACACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATC
1 TTTTAAATTGCAATGTTGGGGAAATAAGATTCACTGTTGTGGCTTCAATC
* * * *
10141807 TTTTTAATTGCAATGTTGGGGAAATAAGATTCACCGTTTTAGCTTCAATC
1 TTTTAAATTGCAATGTTGGGGAAATAAGATTCACTGTTGTGGCTTCAATC
10141857 T
1 T
10141858 GTTTCATTAC
Statistics
Matches: 73, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (50 bp):
TTTTAAATTGCAATGTTGGGGAAATAAGATTCACTGTTGTGGCTTCAATC
Found at i:10141836 original size:100 final size:100
Alignment explanation
Indices: 10141707--10141905 Score: 283
Period size: 100 Copynumber: 2.0 Consensus size: 100
10141697 ATCTTCAGTA
* * *
10141707 TTTTAAATTGCAATGTTGGGGAAACAAGATTCTCTGTCGTGGCTTCAATCTGTTCCACTACACCG
1 TTTTAAATTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
10141772 CCAG-GGAAGTAAGATTCACTGTTGTGGCTTCAATC
66 CCAGAGG-AGTAAGATTCACTGTCGTGGCTTCAATC
* * ** * *
10141807 TTTTTAATTGCAATGTTGGGGAAATAAGATTCACCGTTTTAGCTTCAATCTGTTTCATTACACCG
1 TTTTAAATTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
10141872 CCAGAGGAGTAAGATTCACTGTCGTGGTTTCAAT
66 CCAGAGGAGTAAGATTCACTGTCGTGGCTTCAAT
10141906 TTGCTCCACT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 85 0.98
101 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (100 bp):
TTTTAAATTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCG
CCAGAGGAGTAAGATTCACTGTCGTGGCTTCAATC
Found at i:10141904 original size:50 final size:50
Alignment explanation
Indices: 10141732--10141905 Score: 170
Period size: 50 Copynumber: 3.5 Consensus size: 50
10141722 TTGGGGAAAC
* * *
10141732 AAGATTCTCTGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGGGAAGT
1 AAGATTCACTGTCGTGGCTTCAATCTGTTTCATTACACCGCCAGGGAAGT
* * * * ** *** *
10141782 AAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAAT
1 AAGATTCACTGTCGTGGCTTCAATCTGTTTCATTACACCGCCAGGGAAGT
* ** *
10141832 AAGATTCACCGTTTTAGCTTCAATCTGTTTCATTACACCGCCAGAGG-AGT
1 AAGATTCACTGTCGTGGCTTCAATCTGTTTCATTACACCGCCAG-GGAAGT
*
10141882 AAGATTCACTGTCGTGGTTTCAAT
1 AAGATTCACTGTCGTGGCTTCAAT
10141906 TTGCTCCACT
Statistics
Matches: 93, Mismatches: 30, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
50 91 0.98
51 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (50 bp):
AAGATTCACTGTCGTGGCTTCAATCTGTTTCATTACACCGCCAGGGAAGT
Found at i:10141978 original size:45 final size:45
Alignment explanation
Indices: 10141927--10142068 Score: 180
Period size: 45 Copynumber: 3.2 Consensus size: 45
10141917 TAATGCTAAA
*
10141927 GAGATAGGACTTTGTGATTTTCAGCCTATTCTACTGCTGACCAGG
1 GAGATAGGACTTTGTGATTTTCAACCTATTCTACTGCTGACCAGG
**** *
10141972 GAGATAGGA-TTCACAATCTTCAACCTATT-TCACTGCTGACCAGG
1 GAGATAGGACTTTGTGATTTTCAACCTATTCT-ACTGCTGACCAGG
* * *
10142016 GAGATAGGACTTTGTGATTTTCAACCTATTCCACTTCTGACTAGG
1 GAGATAGGACTTTGTGATTTTCAACCTATTCTACTGCTGACCAGG
10142061 GAGATAGG
1 GAGATAGG
10142069 GCTGGGGTAA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.01
44 36 0.45
45 43 0.54
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (45 bp):
GAGATAGGACTTTGTGATTTTCAACCTATTCTACTGCTGACCAGG
Found at i:10142181 original size:88 final size:88
Alignment explanation
Indices: 10142079--10142476 Score: 606
Period size: 88 Copynumber: 4.5 Consensus size: 88
10142069 GCTGGGGTAA
* * * * * *
10142079 TCGATCTGTTTCACTGTCGGTGTAGGAAGGCAAGATCTACTATTTCTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
10142144 CCAAGGG-GGCAAGGCTGGTGTCT
66 CC-AGGGAGGCAAGGCTGGTGTCT
*
10142167 TCGATCTGCTTCACTGTCGGCT-CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
1 TCGATCTGCTTCGCTGTCGG-TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
10142231 CCCA-GGAGGC-AGGCTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * * * * *
10142253 TTGAACTACTTCGCTGTCGGTACAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCTGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
10142318 CAAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
10142341 TCGATATGCTTCGCTGTCGGTGCAGGAAGGCAATATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
10142406 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
10142429 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
10142477 CTGATCTGCT
Statistics
Matches: 282, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
85 1 0.00
86 73 0.26
87 10 0.04
88 197 0.70
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:10142382 original size:174 final size:176
Alignment explanation
Indices: 10142092--10142476 Score: 607
Period size: 174 Copynumber: 2.2 Consensus size: 176
10142082 ATCTGTTTCA
* * * *
10142092 CTGTCGGTGTAGGAAGGCAAGATCTACTATTTCTAACCTGCTCCGCTGCAACCCAAGGGGGCAAG
1 CTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAAGGGGGCAAG
*
10142157 GCTGGTGTCTTCGATCTGCTTCACTGTCGGCTCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
66 GCTGGTGTCTTCGATATGCTTCACTGTCGGCTCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
*
10142222 CCGCTACAACCCA-GGAGGC-AGGCTGGTGTCTTTGAACTACTTCG
131 CCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGAACTACTTCG
* * *
10142266 CTGTCGGTACAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCTGCTACAA-CCAAGGGAGGCAA
1 CTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAAGGG-GGCAA
* *
10142330 GGCTGGTGTCTTCGATATGCTTCGCTGTCGG-TGCAGGAAGGCAATATCTGCTATTTTTAACCTG
65 GGCTGGTGTCTTCGATATGCTTCACTGTCGGCT-CAGGAAGGCAAGATCTGCTATTTTTAACCTG
* *
10142394 CTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
129 CTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGAACTACTTCG
10142442 CTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
1 CTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
10142477 CTGATCTGCT
Statistics
Matches: 192, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
173 8 0.04
174 123 0.64
175 6 0.03
176 55 0.29
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (176 bp):
CTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAAGGGGGCAAG
GCTGGTGTCTTCGATATGCTTCACTGTCGGCTCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
CCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGAACTACTTCG
Found at i:10142460 original size:44 final size:44
Alignment explanation
Indices: 10142324--10142462 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
10142314 CAACCAAGGG
*
10142324 AGGCAAGGCTGGTGTCTTCGATATGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
** * * * ** * * * **** *
10142368 AGGCAATATCTGCTATTTTTAACCTGCTCCGCT-ACAACCCAGGG
1 AGGCAA-GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
10142412 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
10142456 AGGCAAG
1 AGGCAAG
10142463 ATCTGCTATT
Statistics
Matches: 62, Mismatches: 31, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
43 17 0.27
44 29 0.47
45 16 0.26
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
Found at i:10148274 original size:16 final size:17
Alignment explanation
Indices: 10148249--10148288 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10148239 GGTAATAGCT
10148249 AAAATAATAT-GAAATAA
1 AAAATAATATAG-AATAA
10148266 AAAAT-ATATAGAAT-A
1 AAAATAATATAGAATAA
10148281 AAAATAAT
1 AAAATAAT
10148289 TTATTACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
AAAATAATATAGAATAA
Found at i:10149160 original size:21 final size:21
Alignment explanation
Indices: 10149123--10149177 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
10149113 AATCATATCT
10149123 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
10149142 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
10149163 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
10149178 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
21 22 0.67
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:10159642 original size:24 final size:23
Alignment explanation
Indices: 10159611--10159683 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
10159601 AGACTGATGT
10159611 TGGGTATGCCACAATCTATGTAG
1 TGGGTATGCCACAATCTATGTAG
* * *
10159634 TGGGATATGCTATAAAGACTGATGT--
1 TGGG-TATGCCA-CAA-TCT-ATGTAG
10159659 TGGGTATGCCACAATCTATGTAG
1 TGGGTATGCCACAATCTATGTAG
10159682 TG
1 TG
10159684 AGATATGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
21 4 0.11
22 2 0.05
23 8 0.21
24 12 0.32
25 6 0.16
26 2 0.05
27 4 0.11
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (23 bp):
TGGGTATGCCACAATCTATGTAG
Found at i:10159666 original size:48 final size:48
Alignment explanation
Indices: 10159595--10159690 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
10159585 AAAGGTTGTA
*
10159595 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGGGATATG
1 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGAGATATG
10159643 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGAGATATG
1 CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGAGATATG
10159691 ATTGATCAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (48 bp):
CTATAAAGACTGATGTTGGGTATGCCACAATCTATGTAGTGAGATATG
Found at i:10163914 original size:35 final size:35
Alignment explanation
Indices: 10163860--10164050 Score: 95
Period size: 35 Copynumber: 5.4 Consensus size: 35
10163850 ATAGATGTGT
* **
10163860 GCCCAACACTAGTCAGATAAACTGACGAAAGTTGC
1 GCCCAACGCTAGTTGGATAAACTGACGAAAGTTGC
* * *
10163895 GCCCAACGCTAGTTGGATAAA-TCGACAAATAATTAGTGA
1 GCCCAACGCTAGTTGGATAAACT-GAC-GA-AAGT--TGC
* * ** * * *
10163934 GCCCAGCTCTAGTTGGATAAACAAACGATATTTGT
1 GCCCAACGCTAGTTGGATAAACTGACGAAAGTTGC
* * * *
10163969 GCCCTACGCTAGTTGGACAAA-TCGACGAATG-TGT
1 GCCCAACGCTAGTTGGATAAACT-GACGAAAGTTGC
* * *
10164003 GCCCAACACTA-TT-CATATAATCTGACAAAAGTTGC
1 GCCCAACGCTAGTTGGATA-AA-CTGACGAAAGTTGC
10164038 GCCCAACGCTAGT
1 GCCCAACGCTAGT
10164051 CGAATGAACC
Statistics
Matches: 114, Mismatches: 30, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
32 2 0.02
33 4 0.04
34 19 0.17
35 57 0.50
36 2 0.02
37 6 0.05
38 1 0.01
39 23 0.20
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (35 bp):
GCCCAACGCTAGTTGGATAAACTGACGAAAGTTGC
Found at i:10164135 original size:20 final size:21
Alignment explanation
Indices: 10164095--10164139 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
10164085 AATCCATAAA
10164095 ATCACATTTCATAATCTCAAT
1 ATCACATTTCATAATCTCAAT
10164116 ATCACATTTCATAA-CTCAAT
1 ATCACATTTCATAATCTCAAT
10164136 ATCA
1 ATCA
10164140 AATTCACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (21 bp):
ATCACATTTCATAATCTCAAT
Found at i:10164152 original size:37 final size:36
Alignment explanation
Indices: 10164111--10164202 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
10164101 TTTCATAATC
*
10164111 TCAATATCACATTTCAT-AACTCAATATCAAATTCACT
1 TCAATATC-CA-TTAATCAACTCAATATCAAATTCACT
* * *
10164148 TCAATTATCTATTAATCAACTCAGTATCACATTCACT
1 TCAA-TATCCATTAATCAACTCAATATCAAATTCACT
*
10164185 TCAATTATCTATTAATCA
1 TCAA-TATCCATTAATCA
10164203 TTCATTAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
36 4 0.08
37 41 0.84
38 4 0.08
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (36 bp):
TCAATATCCATTAATCAACTCAATATCAAATTCACT
Found at i:10176374 original size:37 final size:37
Alignment explanation
Indices: 10176324--10176396 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
10176314 TATCATTCAA
10176324 CATCATTTTAACAAATCAATTTATAAAGAGCAATCAC
1 CATCATTTTAACAAATCAATTTATAAAGAGCAATCAC
*
10176361 CATCATTTTAACAAGTCAATTTATAAAGAGCAATCA
1 CATCATTTTAACAAATCAATTTATAAAGAGCAATCA
10176397 AGAAATAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (37 bp):
CATCATTTTAACAAATCAATTTATAAAGAGCAATCAC
Found at i:10184407 original size:81 final size:81
Alignment explanation
Indices: 10184268--10184424 Score: 296
Period size: 81 Copynumber: 1.9 Consensus size: 81
10184258 GTAAATTTTT
*
10184268 AAGCAACCTATGTACATGCTCCTAACCAATCACTTGTATATCTACAAGCTCAATCACACAAAAGA
1 AAGCAACCTATGTACATGCTCCTAACCAATCACTTGTATATCTACAAGCTCAAGCACACAAAAGA
10184333 AAAAAAATCAACTTTC
66 AAAAAAATCAACTTTC
*
10184349 AAGCAACCTATGTACATGCTCCTAACCAATCACTTGTATATTTACAAGCTCAAGCACACAAAAGA
1 AAGCAACCTATGTACATGCTCCTAACCAATCACTTGTATATCTACAAGCTCAAGCACACAAAAGA
10184414 AAAAAAATCAA
66 AAAAAAATCAA
10184425 TGAAAAAAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.22
Consensus pattern (81 bp):
AAGCAACCTATGTACATGCTCCTAACCAATCACTTGTATATCTACAAGCTCAAGCACACAAAAGA
AAAAAAATCAACTTTC
Found at i:10185743 original size:16 final size:16
Alignment explanation
Indices: 10185719--10185755 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10185709 GAATCATATG
*
10185719 GGGTCGAAAACATGTA
1 GGGTTGAAAACATGTA
*
10185735 GGGTTGAAAACATGTG
1 GGGTTGAAAACATGTA
10185751 GGGTT
1 GGGTT
10185756 TCTGGAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.08, G:0.38, T:0.24
Consensus pattern (16 bp):
GGGTTGAAAACATGTA
Found at i:10193027 original size:187 final size:180
Alignment explanation
Indices: 10192702--10193120 Score: 630
Period size: 187 Copynumber: 2.3 Consensus size: 180
10192692 TGTAACAAAA
* *
10192702 TTTTT-TCTCTCATTTTCTCTCTTGCCAAACACCACTTTTT-TTCTTCAAAACATATGGTTGGTT
1 TTTTTCTCTCTCATTTTCTCTCTTGCCAAACACCA-TTTTTCTTCTTCAAAACACATGGTTGGCT
* *
10192765 CATTTCATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAAC
65 CATTTCATCTACAAGAATTTCCATCACCATGATTATAATCATGCTTTTGTGCAATTTTTGTAAAC
* * * * *
10192830 CCACACCACACTTTCAGCTTAAAATTATTGGTTTTTTCCCTCCATTGTCGGCTGCCAT
130 CCACACCACACTTGCAACTTAAAATCA-----TTTTT-CC-CCATTGTCAGCTACCAT
10192888 TTTTTCTCTCTCATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTC
1 TTTTTCTCTCTCATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTC
10192953 ATTTCATCTACAAGAATTTCCATCACCATGATTATAATCATGCTTTTGTGCAATTTTTGTAAACC
66 ATTTCATCTACAAGAATTTCCATCACCATGATTATAATCATGCTTTTGTGCAATTTTTGTAAACC
*
10193018 CATACCACACTTGCAACTTAAAATCATTTTTCCCCATTGTCAGCTACCAT
131 CACACCACACTTGCAACTTAAAATCATTTTTCCCCATTGTCAGCTACCAT
* *
10193068 TTTTTCTCT-T-ATTTTCTCTCTTGTCAAACACCATTTTTCTTCTTCTAAACACA
1 TTTTTCTCTCTCATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACA
10193121 ACATCTGGTT
Statistics
Matches: 219, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
178 41 0.19
179 1 0.00
180 24 0.11
181 2 0.01
182 5 0.02
186 10 0.05
187 136 0.62
ACGTcount: A:0.24, C:0.25, G:0.08, T:0.42
Consensus pattern (180 bp):
TTTTTCTCTCTCATTTTCTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACACATGGTTGGCTC
ATTTCATCTACAAGAATTTCCATCACCATGATTATAATCATGCTTTTGTGCAATTTTTGTAAACC
CACACCACACTTGCAACTTAAAATCATTTTTCCCCATTGTCAGCTACCAT
Found at i:10193439 original size:14 final size:15
Alignment explanation
Indices: 10193410--10193442 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10193400 ATCAACAATT
10193410 AAAG-GGGAAGAGAG
1 AAAGAGGGAAGAGAG
10193424 AAAGAGGGAAGA-AG
1 AAAGAGGGAAGAGAG
10193438 AAAGA
1 AAAGA
10193443 AAATGGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (15 bp):
AAAGAGGGAAGAGAG
Found at i:10195282 original size:3 final size:3
Alignment explanation
Indices: 10195274--10195306 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10195264 TAAATCATCG
10195274 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
10195307 GCGACAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:10196720 original size:315 final size:315
Alignment explanation
Indices: 10196142--10197216 Score: 1583
Period size: 315 Copynumber: 3.4 Consensus size: 315
10196132 GATGATAAGT
* ** *
10196142 ATCAATAGTTAGTGGATAGACTCAATTGTATCGAATCTGCTTCTACACCATCTATGCAT-GGGGG
1 ATCAATACTTAGTGGATAGACTCAACCGTATCGAATCTGCTTCTACACCATCTATGCATAGGGTG
* * * *
10196206 AGACAAGCCGCTTTCCCACTATATCAATAATCTGAATGAGGATATAAATTATGTC-AGGAATAGG
66 AGACAAACCG-TTTTCCACTATATCAATAATCTGGATGAGGATGTAAATTATGTCGA-GAATA-G
** * *
10196270 GGTGGAAACCCTTATTTGAATACATATAATCCCAGCTAGAGACATCACCCAAATCTGAGGTGGGG
128 GGTGGAAACCCTTATTCAAATACATATAATCCCAGCTAGAGAGATCACCCAAATCTGAGATGGGG
* * * * * * *
10196335 GAAATAATGAGAAGGTACTAATTTAAATCAAGTTAAAAACAATAATTAACAACCTTCTTATTTTC
193 GAAACAAGGAGCAGGTAGTAATTTAAATCAAGTTGAAAACAATAATTACCAACCTTCTTATTTGC
* *
10196400 AGAAAACCCAAGATAGATTCAACCCAAATGACCATAATGTATGTAGTCAACCCAAATG
258 AGAAAACCCAAGATAGGTTCAACCTAAATGACCATAATGTATGTAGTCAACCCAAATG
*
10196458 ATCAATACTTAGTGGATAGACTCAACCGTATCGAATCTGCTTCTACACCATCTATGCAT-GGGTT
1 ATCAATACTTAGTGGATAGACTCAACCGTATCGAATCTGCTTCTACACCATCTATGCATAGGGTG
* *
10196522 A-ACAAACTCATTTTCCACTATATCAATAATCTGGCTGAGGATGTAAATTATGTC-AGGAATAGG
66 AGACAAAC-CGTTTTCCACTATATCAATAATCTGGATGAGGATGTAAATTATGTCGA-GAATAGG
* *
10196585 TGTGGAAACCCTTATTCAAATACATATAATCCTAGCTAGAGAGATCACCCAAATTTGAGATGGGG
129 -GTGGAAACCCTTATTCAAATACATATAATCCCAGCTAGAGAGATCACCCAAATCTGAGATGGGG
* *
10196650 GAAACAAGGAGCAGGTAGTAATTTAAATCAAGTTGAAAATAACAATTACCAACCTTCTTATTTGC
193 GAAACAAGGAGCAGGTAGTAATTTAAATCAAGTTGAAAACAATAATTACCAACCTTCTTATTTGC
*
10196715 AGAAAACCC-AGTATAGGTTCAACCTAAATGACCATAATGTATCTAGTCAACCCAAATG
258 AGAAAACCCAAG-ATAGGTTCAACCTAAATGACCATAATGTATGTAGTCAACCCAAATG
* * *
10196773 ATCAGTACTTAGTGGATAGACTCAACCGTACCGAATCTGCTTCTACACCATCTATGCATGGGGT-
1 ATCAATACTTAGTGGATAGACTCAACCGTATCGAATCTGCTTCTACACCATCTATGCATAGGGTG
* * * * *
10196837 TGACAAACTGCTTTTCCACTATATCAATAATTTGGCTGAGGATGTAAATTATGTCGAGAGTAAGG
66 AGACAAACCG-TTTTCCACTATATCAATAATCTGGATGAGGATGTAAATTATGTCGAGAAT-AGG
**
10196902 GTGGAAACCCTTATTCAAATACATATAATCCCAGCTAGAGAGATCACCCAAATCTGAGATAAGGG
129 GTGGAAACCCTTATTCAAATACATATAATCCCAGCTAGAGAGATCACCCAAATCTGAGATGGGGG
* *
10196967 AAACAAGAAGCAGGTAGTAATTTAAATCAAGTTGAAAACAGTAATTACCAACCTTCTTATTTGCA
194 AAACAAGGAGCAGGTAGTAATTTAAATCAAGTTGAAAACAATAATTACCAACCTTCTTATTTGCA
* *
10197032 GAAAACCCAATATAGGTTCAACCTAAATGACCATAATGTACGTAGTCAACCCAAATG
259 GAAAACCCAAGATAGGTTCAACCTAAATGACCATAATGTATGTAGTCAACCCAAATG
*
10197089 ATCAATAGTT-GTGGATAGACTCAACCGTATCGAATCTGCTTCTACACCATCTATGCATAGGG-G
1 ATCAATACTTAGTGGATAGACTCAACCGTATCGAATCTGCTTCTACACCATCTATGCATAGGGTG
* *
10197152 AGACAAACCGGTTTTCCACTATATCAATAATTTGGATGATGATGTAAATTATGTCGAGAATAGGG
66 AGACAAACC-GTTTTCCACTATATCAATAATCTGGATGAGGATGTAAATTATGTCGAGAATAGGG
10197217 ATGAGGATGA
Statistics
Matches: 692, Mismatches: 56, Indels: 24
0.90 0.07 0.03
Matches are distributed among these distances:
314 8 0.01
315 379 0.55
316 300 0.43
317 5 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (315 bp):
ATCAATACTTAGTGGATAGACTCAACCGTATCGAATCTGCTTCTACACCATCTATGCATAGGGTG
AGACAAACCGTTTTCCACTATATCAATAATCTGGATGAGGATGTAAATTATGTCGAGAATAGGGT
GGAAACCCTTATTCAAATACATATAATCCCAGCTAGAGAGATCACCCAAATCTGAGATGGGGGAA
ACAAGGAGCAGGTAGTAATTTAAATCAAGTTGAAAACAATAATTACCAACCTTCTTATTTGCAGA
AAACCCAAGATAGGTTCAACCTAAATGACCATAATGTATGTAGTCAACCCAAATG
Found at i:10205450 original size:16 final size:17
Alignment explanation
Indices: 10205431--10205468 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
10205421 CTCTTGAAAT
10205431 TTATTTT-TCTTTTA-TG
1 TTATTTTGT-TTTTATTG
10205447 TTATTTTGTTTTTATTG
1 TTATTTTGTTTTTATTG
10205464 TTATT
1 TTATT
10205469 ACTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (17 bp):
TTATTTTGTTTTTATTG
Found at i:10210322 original size:12 final size:12
Alignment explanation
Indices: 10210284--10210325 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10210274 GAGATGACCA
10210284 GAGAGATTTGAG
1 GAGAGATTTGAG
* *
10210296 GAGGGATATT-TG
1 GAGAGAT-TTGAG
10210308 GAGAGATTTGAG
1 GAGAGATTTGAG
10210320 GAGAGA
1 GAGAGA
10210326 ATATTGGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:10210332 original size:24 final size:24
Alignment explanation
Indices: 10210284--10210330 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
10210274 GAGATGACCA
*
10210284 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGGAGGAATATTTG
10210308 GAGAGATTTGAGGAGAGAATATT
1 GAGAGATTTGAGGAG-GAATATT
10210331 GGGATTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.28
Consensus pattern (24 bp):
GAGAGATTTGAGGAGGAATATTTG
Found at i:10211077 original size:27 final size:27
Alignment explanation
Indices: 10211000--10211431 Score: 496
Period size: 27 Copynumber: 16.1 Consensus size: 27
10210990 CGATTTATAC
*
10211000 ACCGAAATACCCCCATAGGGTAAAATA
1 ACCGAAATACCCCCATAGGGTAAAATG
**
10211027 ATTGAAATA-CCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* **
10211053 ACCGAAATACACTTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* *
10211080 ACCAAAATACCCTCCATAGGGTAAAATA
1 ACCGAAATACCC-CCATAGGGTAAAATG
* *
10211108 ACCGGAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* *
10211135 ACCGAAATACCCCCATAGGGTAGAATA
1 ACCGAAATACCCCCATAGGGTAAAATG
* * *
10211162 ACTGAAATGCCCCCATAGGGTAAAATA
1 ACCGAAATACCCCCATAGGGTAAAATG
** *
10211189 ACTAAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
** *
10211216 ATTGAAATAACCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* *
10211243 ACCGAAATACCCCTATAGGATAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
*
10211270 ACCGAAATACCCCTCATAAGGTAAAATG
1 ACCGAAATACCCC-CATAGGGTAAAATG
** *
10211298 A-C--AATACCCTTATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
* * *
10211322 ATCAAAATA-CCCCATAGGGTAACATG
1 ACCGAAATACCCCCATAGGGTAAAATG
** *
10211348 ACCGAAATACCCAAATAGGGTGAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
10211375 ACCGAAATGACCCCCATAGGGTAAAATG
1 ACCGAAAT-ACCCCCATAGGGTAAAATG
*
10211403 ACCGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATG
10211430 AC
1 AC
10211432 TATTATACCC
Statistics
Matches: 341, Mismatches: 56, Indels: 16
0.83 0.14 0.04
Matches are distributed among these distances:
24 12 0.04
25 8 0.02
26 43 0.13
27 220 0.65
28 58 0.17
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
ACCGAAATACCCCCATAGGGTAAAATG
Found at i:10211716 original size:26 final size:26
Alignment explanation
Indices: 10211665--10211745 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
10211655 TTTGTCACAT
* * * *
10211665 ATACTGTTACTGGCAACTTTGTTGCG
1 ATACTATTACTGGCAGCTCTGCTGCG
*
10211691 ATACTGA-TGCTGGCAGCTCTGCTGCG
1 ATACT-ATTACTGGCAGCTCTGCTGCG
* * *
10211717 ATGCTATTATTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTCTGCTGCG
10211743 ATA
1 ATA
10211746 TTGGTGTGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTCTGCTGCG
Done.