Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 53 of 135
Found at i:14588914 original size:17 final size:17
Alignment explanation
Indices: 14588892--14588924 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14588882 CTATTCTCTT
14588892 TTTTTCACGAATTTTTC
1 TTTTTCACGAATTTTTC
14588909 TTTTTCACGAATTTTT
1 TTTTTCACGAATTTTT
14588925 TTTCAAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTTCACGAATTTTTC
Found at i:14589987 original size:32 final size:32
Alignment explanation
Indices: 14589951--14590045 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
14589941 GCTATCCATA
* *
14589951 CATGTACCTGAAATATATTAATCAGCTAATTG
1 CATGTACCTGAAACACATTAATCAGCTAATTG
* *
14589983 CATGTAACTGAAACACATTAATTAGCTAATTG
1 CATGTACCTGAAACACATTAATCAGCTAATTG
* *
14590015 CACGTACTTGAAACACATTAATCAGCTAATT
1 CATGTACCTGAAACACATTAATCAGCTAATT
14590046 AATTTCGGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (32 bp):
CATGTACCTGAAACACATTAATCAGCTAATTG
Found at i:14591887 original size:3 final size:3
Alignment explanation
Indices: 14591879--14591922 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14591869 CCATATCAGA
14591879 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14591923 ACTAGCTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14595939 original size:8 final size:8
Alignment explanation
Indices: 14595926--14595956 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
14595916 ACAACCCAAA
14595926 TTTTATTT
1 TTTTATTT
14595934 TTTTATTT
1 TTTTATTT
14595942 TTTTATTT
1 TTTTATTT
*
14595950 ATTTATT
1 TTTTATT
14595957 AAATAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTATTT
Found at i:14600578 original size:8 final size:8
Alignment explanation
Indices: 14600565--14600595 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
14600555 TTCTTGCATT
14600565 TGCATTCA
1 TGCATTCA
14600573 TGCATTCA
1 TGCATTCA
14600581 TGCATTCA
1 TGCATTCA
14600589 TTGCATT
1 -TGCATT
14600596 ATCATACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (8 bp):
TGCATTCA
Found at i:14608914 original size:40 final size:40
Alignment explanation
Indices: 14608829--14609527 Score: 461
Period size: 39 Copynumber: 17.3 Consensus size: 40
14608819 GTTACACCTC
*
14608829 CAATCTTTTACCCTAACTATG-GGGC-AGATTGAAGA-AAT
1 CAATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACAAT
*
14608867 CCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCAT
1 -CAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
* * *
14608908 CGATCTTTTACCTCTTTTTACCCCGATCATGGGGC-AGATTGAAGA-AAT
1 CAATCTTTTACC-C----TA-ACC-A-GA--GGGCAAGATTGAAGACAAT
* *
14608956 CAAATCTTTTACACTAACCAGAGGGCAAGATTGAAGACCAT
1 C-AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
* *
14608997 CGATCTTTTACCCT-ATCATG-GGGC-AGATTGAAGA-AAT
1 CAATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACAAT
*
14609034 CAAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCAT
1 C-AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
* ** *
14609075 CCGATCTTTTACCCCGATCATG-GGGC-AGATTGAAGA-AAT
1 -CAATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACAAT
* *
14609114 CAAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCAT
1 C-AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
* ** * * *
14609155 CCGATCTTTTACCCCGATCA-TGGG-ACAGATTAAAGA-AAT
1 -CAATCTTTTACCCTAACCAGAGGGCA-AGATTGAAGACAAT
* *
14609194 CTATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCAT
1 CAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
* ** *
14609234 CCGATCTTTTACCCCGATCATG-GGGC-AGATTGAAGA-AAT
1 -CAATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACAAT
* *
14609273 CAAATCTTTTACCCTAA-CATAGGGCAAGATTGAAGACCAT
1 C-AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
* ** *
14609313 CCGATC-TTTACCCGCGATCATG-GGGC-AGATTGAAG--AAT
1 -CAATCTTTTACCC-TAACCA-GAGGGCAAGATTGAAGACAAT
* *
14609351 CTAATCTTTTACCCTAACCAGAAGGCAAGATTGAAGACCAT
1 C-AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
* * * * *
14609392 CCGATCTTTTACCCCT-CCCGATCATGGGGAAAATTGAAGA-AAT
1 -CAATCTTTTA-CCCTAACC-A-GA-GGGCAAGATTGAAGACAAT
* *
14609435 CTAATCTTTTACCCTAACCAAAGGGC-AGATTGAAGACCAT
1 C-AATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
14609475 CAGATCTTTTA-CCTAGACCATGA-GGCAA-ATTGAA-ACAAT
1 CA-ATCTTTTACCCTA-ACCA-GAGGGCAAGATTGAAGACAAT
14609514 CTAATCTTTTACCC
1 C-AATCTTTTACCC
14609528 CTAAAGTTAT
Statistics
Matches: 517, Mismatches: 80, Indels: 125
0.72 0.11 0.17
Matches are distributed among these distances:
37 5 0.01
38 59 0.11
39 148 0.29
40 143 0.28
41 83 0.16
42 17 0.03
43 15 0.03
44 14 0.03
45 2 0.00
46 2 0.00
47 1 0.00
48 5 0.01
49 19 0.04
50 4 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (40 bp):
CAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACAAT
Found at i:14609144 original size:158 final size:159
Alignment explanation
Indices: 14608831--14609527 Score: 978
Period size: 158 Copynumber: 4.3 Consensus size: 159
14608821 TACACCTCCA
* *
14608831 ATCTTTTACCCTAACTATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAG
1 ATCTTTTACCCTATC-ATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAAG
*
14608896 ATTGAAGACCATCGATCTTTTACCTCTTTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAAT
65 ATTGAAGACCATC---C---GA--TC-TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAAT
*
14608961 CTTTTACACTAACCAGAGGGCAAGATTGAAGACCAT-CG
121 CTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCG
*
14608999 ATCTTTTACCCTATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGA
1 ATCTTTTACCCTATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAAGA
14609064 TTGAAGACCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCT
66 TTGAAGACCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCT
*
14609129 AACTAGAGGGCAAGATTGAAGACCATCCG
131 AACCAGAGGGCAAGATTGAAGACCATCCG
* * *
14609158 ATCTTTTACCCCGATCATGGGACAGATTAAAGAAATCT-ATCTTTTACCCTAACCAGAGGGCAAG
1 ATCTTTTA-CCCTATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAAG
14609222 ATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCC
65 ATTGAAGACCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCC
*
14609287 TAA-CATAGGGCAAGATTGAAGACCATCCG
130 TAACCAGAGGGCAAGATTGAAGACCATCCG
* *
14609316 ATC-TTTACCCGCGATCATGGGGCAGATTGAAG-AATCTAATCTTTTACCCTAACCAGAAGGCAA
1 ATCTTTTA-CC-CTATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAA
* * *
14609379 GATTGAAGACCATCCGATCTTTTACCCCTCCCGATCATGGGGAAAATTGAAGAAATCTAATCTTT
64 GATTGAAGACCATCCGATCTTTTA---C-CCCGATCATGGGGCAGATTGAAGAAATCAAATCTTT
* *
14609444 TACCCTAACCAAAGGGC-AGATTGAAGACCATCAG
125 TACCCTAACCAGAGGGCAAGATTGAAGACCATCCG
* * *
14609478 ATCTTTTA-CCTAGACCATGAGGCAAATTGAA-ACAATCTAATCTTTTACCC
1 ATCTTTTACCCT--ATCATGGGGCAGATTGAAGA-AATCTAATCTTTTACCC
14609528 CTAAAGTTAT
Statistics
Matches: 492, Mismatches: 23, Indels: 33
0.90 0.04 0.06
Matches are distributed among these distances:
157 12 0.02
158 166 0.34
159 106 0.22
160 26 0.05
161 3 0.01
162 75 0.15
163 28 0.06
164 1 0.00
167 61 0.12
168 14 0.03
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (159 bp):
ATCTTTTACCCTATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAAGA
TTGAAGACCATCCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCT
AACCAGAGGGCAAGATTGAAGACCATCCG
Found at i:14609248 original size:79 final size:80
Alignment explanation
Indices: 14608923--14609527 Score: 920
Period size: 79 Copynumber: 7.6 Consensus size: 80
14608913 TTTTACCTCT
*
14608923 TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACACTAACCAGAGGGCAAGATT
1 TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATT
14608988 GAAGACCAT-CGATC
66 GAAGACCATCCGATC
*
14609002 TTTTA-CCCTATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATT
1 TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATT
14609066 GAAGACCATCCGATC
66 GAAGACCATCCGATC
*
14609081 TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACTAGAGGGCAAGATT
1 TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATT
14609146 GAAGACCATCCGATC
66 GAAGACCATCCGATC
* * *
14609161 TTTTACCCCGATCATGGGACAGATTAAAGAAATC-TATCTTTTACCCTAACCAGAGGGCAAGATT
1 TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATT
14609225 GAAGACCATCCGATC
66 GAAGACCATCCGATC
*
14609240 TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAA-CATAGGGCAAGATT
1 TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATT
14609304 GAAGACCATCCGATC
66 GAAGACCATCCGATC
* *
14609319 -TTTACCCGCGATCATGGGGCAGATTGAAG-AATCTAATCTTTTACCCTAACCAGAAGGCAAGAT
1 TTTTACCC-CGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGAT
14609382 TGAAGACCATCCGATC
65 TGAAGACCATCCGATC
* * * *
14609398 TTTTACCCCTCCCGATCATGGGGAAAATTGAAGAAATCTAATCTTTTACCCTAACCAAAGGGC-A
1 TTTTA---C-CCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAA
*
14609462 GATTGAAGACCATCAGATC
62 GATTGAAGACCATCCGATC
** * * * *
14609481 TTTTACCTAGACCATGAGGCAAATTGAA-ACAATCTAATCTTTTACCC
1 TTTTACCCCGATCATGGGGCAGATTGAAGA-AATCAAATCTTTTACCC
14609528 CTAAAGTTAT
Statistics
Matches: 489, Mismatches: 25, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
78 93 0.19
79 200 0.41
80 123 0.25
83 44 0.09
84 29 0.06
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (80 bp):
TTTTACCCCGATCATGGGGCAGATTGAAGAAATCAAATCTTTTACCCTAACCAGAGGGCAAGATT
GAAGACCATCCGATC
Found at i:14610042 original size:8 final size:8
Alignment explanation
Indices: 14610029--14610061 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
14610019 TACAACCCAA
14610029 ATTTTATT
1 ATTTTATT
14610037 ATTTTATT
1 ATTTTATT
14610045 ATTTTATT
1 ATTTTATT
14610053 -TATTTATT
1 AT-TTTATT
14610061 A
1 A
14610062 AATAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.04
8 22 0.96
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:14614617 original size:23 final size:24
Alignment explanation
Indices: 14614582--14614632 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
14614572 GTCATAGACC
** *
14614582 AAAAGAACCTGTAGGAATCAAA-T
1 AAAAGAAAATGTAGAAATCAAATT
*
14614605 AAAAGAAAATGTAGAAATTAAATT
1 AAAAGAAAATGTAGAAATCAAATT
14614629 AAAA
1 AAAA
14614633 ACAAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.61, C:0.06, G:0.14, T:0.20
Consensus pattern (24 bp):
AAAAGAAAATGTAGAAATCAAATT
Found at i:14619580 original size:18 final size:19
Alignment explanation
Indices: 14619553--14619588 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14619543 AAATAACAAT
14619553 TTATTATAATTATATATTA
1 TTATTATAATTATATATTA
*
14619572 TTATT-TAATTATTTATT
1 TTATTATAATTATATATT
14619589 TAAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATAATTATATATTA
Found at i:14619586 original size:31 final size:31
Alignment explanation
Indices: 14619563--14619626 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 31
14619553 TTATTATAAT
14619563 TATATATTATTATTTAATTATTTATTTAAAAA
1 TATATATTA-TATTTAATTATTTATTTAAAAA
14619595 TATATATTATATTTAAAATT-TTTA-TTAAAAA
1 TATATATTATATTT--AATTATTTATTTAAAAA
14619626 T
1 T
14619627 TATTTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 13 0.43
32 13 0.43
33 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TATATATTATATTTAATTATTTATTTAAAAA
Found at i:14619599 original size:32 final size:30
Alignment explanation
Indices: 14619552--14619626 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 30
14619542 AAAATAACAA
* *
14619552 TTTATTATAATTATATATTATTATTT-AATT
1 TTTATTAAAAATATATATTA-TATTTAAATT
14619582 ATTTATTTAAAAATATATATTATATTTAAAATT
1 -TTTA-TTAAAAATATATATTATATTT-AAATT
14619615 TTTATTAAAAAT
1 TTTATTAAAAAT
14619627 TATTTGTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 17 0.44
32 18 0.46
33 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTATTAAAAATATATATTATATTTAAATT
Found at i:14619620 original size:18 final size:19
Alignment explanation
Indices: 14619580--14619621 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14619570 TATTATTTAA
14619580 TTATT-TATTTAAAAATAT
1 TTATTATATTTAAAAATAT
* *
14619598 ATATTATATTT-AAAATTT
1 TTATTATATTTAAAAATAT
14619616 TTATTA
1 TTATTA
14619622 AAAATTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATATTTAAAAATAT
Found at i:14626865 original size:3 final size:3
Alignment explanation
Indices: 14626857--14626895 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
14626847 CAGGACAACA
*
14626857 TCT TCT TCT TTT TCT TCT TCT T-T TCTT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT
14626896 ACCTCAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TCT
Found at i:14626877 original size:15 final size:16
Alignment explanation
Indices: 14626857--14626895 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
14626847 CAGGACAACA
14626857 TCTTCTTCTT-TTTCT
1 TCTTCTTCTTCTTTCT
14626872 TCTTCTT-TTCTTTCT
1 TCTTCTTCTTCTTTCT
14626887 TCTTCTTCT
1 TCTTCTTCT
14626896 ACCTCAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 19 0.86
16 1 0.05
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTTCTTCTTCTTTCT
Found at i:14633050 original size:18 final size:18
Alignment explanation
Indices: 14633011--14633064 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
14633001 CATTCGAACC
14633011 TGTGACTGCATCTAGG-TA
1 TGTGACTGCATCT-GGTTA
*
14633029 TGTGACTGCATCTGGTTT
1 TGTGACTGCATCTGGTTA
14633047 TGTGA-TCGCATCTGGTTA
1 TGTGACT-GCATCTGGTTA
14633065 GGCTGCGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 3 0.09
18 29 0.91
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.39
Consensus pattern (18 bp):
TGTGACTGCATCTGGTTA
Found at i:14636677 original size:52 final size:51
Alignment explanation
Indices: 14636457--14636682 Score: 139
Period size: 52 Copynumber: 4.5 Consensus size: 51
14636447 CAAAACTTTG
* *
14636457 TTTAAAAATTTAAACTTTTTTCTTTAAAATCACTAAAAAACAGATTTTTATT
1 TTTAAAAATATAAACTTTTTTCTTTAAAAT-AATAAAAAACAGATTTTTATT
* * * ** * * * **
14636509 TTTTAAAATATAAACTTTCTCCTTT--TTTAATGAAAATC--ACTACT-TT
1 TTTAAAAATATAAACTTTTTTCTTTAAAATAATAAAAAACAGATTTTTATT
* * ** * **
14636555 CTTAAAAATCTAAACTTTTATT-TCGAAATAGTAA-AAAAATATCAAAACTTTA--
1 TTTAAAAATATAAACTTTT-TTCTTTAAA-A-TAATAAAAA-A-CAGATTTTTATT
*
14636607 TTTAAAAATTTAAA-TTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATT
1 TTTAAAAATATAAACTTTTTTCTTTAAAATAA-TAAAAAACAGATTTTTATT
14636658 TTTAAAAATATAAACTTTTTTCTTT
1 TTTAAAAATATAAACTTTTTTCTTT
14636683 TTAAATGAAA
Statistics
Matches: 123, Mismatches: 35, Indels: 32
0.65 0.18 0.17
Matches are distributed among these distances:
46 18 0.15
47 4 0.03
49 21 0.17
50 8 0.07
51 27 0.22
52 43 0.35
53 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.45
Consensus pattern (51 bp):
TTTAAAAATATAAACTTTTTTCTTTAAAATAATAAAAAACAGATTTTTATT
Found at i:14636764 original size:149 final size:151
Alignment explanation
Indices: 14636390--14636756 Score: 578
Period size: 149 Copynumber: 2.4 Consensus size: 151
14636380 TGATTAAAAC
* *
14636390 AAAATCACTACTTTACTTCAAAATCAAAATTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
* * *
14636455 TGTTTAAAAATTTAAACTTTTTTCTTTAAAATCACTAAAAAACAGATTTTTATTTTTTAAAATAT
66 TATTTAAAAATTTAAACTTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATAT
*
14636520 AAACTTTCTCCTTTTTTAATG
131 AAACTTTCTCCTTTTTAAATG
*
14636541 AAAATCACTACTTT-CTTAAAAATCTAAACTTTTATTTCGAAATAG-TAAAAAAATATCAAAACT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAA-ATCAAAACT
14636604 TTATTTAAAAATTTAAA-TTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATA
65 TTATTTAAAAATTTAAACTTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATA
* *
14636668 TAAACTTTTTTCTTTTTAAATG
130 TAAACTTTCTCCTTTTTAAATG
* * * *
14636690 AAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCAAAATTGCTTAAAAAAAACCAAAACT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAG-TTAAAAAAAATCAAAACT
14636755 TT
65 TT
14636757 TCCAAAATCA
Statistics
Matches: 199, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
149 86 0.43
150 81 0.41
151 24 0.12
152 8 0.04
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (151 bp):
AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
TATTTAAAAATTTAAACTTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTAAAAATAT
AAACTTTCTCCTTTTTAAATG
Found at i:14637187 original size:3 final size:3
Alignment explanation
Indices: 14637179--14637218 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
14637169 AACCCTAAAT
14637179 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14637219 GATGATGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14637223 original size:3 final size:3
Alignment explanation
Indices: 14637217--14637263 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
14637207 AATAATAATA
* * *
14637217 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG CTG CTG CTG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
14637264 AATAGTAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.28, C:0.06, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:14637280 original size:18 final size:18
Alignment explanation
Indices: 14637259--14637302 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
14637249 GCTGCTGATG
14637259 ATGATAATAGTAATAATA
1 ATGATAATAGTAATAATA
*
14637277 ATGATAATAGTAATGATA
1 ATGATAATAGTAATAATA
*
14637295 ATAATAAT
1 ATGATAAT
14637303 TTGGGCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (18 bp):
ATGATAATAGTAATAATA
Found at i:14637296 original size:6 final size:6
Alignment explanation
Indices: 14637179--14637302 Score: 54
Period size: 6 Copynumber: 20.7 Consensus size: 6
14637169 AACCCTAAAT
* * * * * * *
14637179 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATGA TGATGA
1 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA
* * * ** * ** * *
14637227 TGATGA TGATGA TGATGA TGCTGC TGCTGA TGATGA TAAT-A GTAATAA
1 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA -TAATGA
*
14637275 TAATGA TAAT-A GTAATGA TAATAA TAAT
1 TAATGA TAATGA -TAATGA TAATGA TAAT
14637303 TTGGGCCTTT
Statistics
Matches: 105, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
5 2 0.02
6 101 0.96
7 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.34
Consensus pattern (6 bp):
TAATGA
Found at i:14637807 original size:42 final size:42
Alignment explanation
Indices: 14637741--14638199 Score: 553
Period size: 42 Copynumber: 10.9 Consensus size: 42
14637731 AAAAAATAAA
* * * * * * *
14637741 TAAATGGACCTCTACGCCTAGGCCTCTAAATACAATAAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
*
14637783 TAAATGGGCCTCCACACCTGGGCCTCTAAATGCAATGAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
* *
14637825 TAAATGGACCTCCACACCTGGGCCTTTGAATGCAATGAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
* *
14637867 TAAATGGGCCTCCACACCTAGGCCTCTAAATGCAATGAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
* *
14637909 TAAATGGACCTCCACACCTGGGCCTTTGAATGCAATGAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
* *** * *
14637951 TAAATGGGCCTCCACACCTAGAAATTTGAATGCGATGAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
*
14637993 TAAATGGGCCTCCACACTTGGGCCTCTGAATGCGAA-GAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGC-AATGAAAAG
* * * *
14638035 TAAATGGGTCTCCATACCTGGGCCTCTAAATGTAATGAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
* * * * *
14638077 TAAATGGACCTCCATAGCTAGGCCACTGAATGCAATGAAAAG
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
* * *
14638119 TAAATAGGG-CTCCACACCTGTGACTCTGAATGCGATGAAAAG
1 TAAAT-GGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
* * * *
14638161 TAAATGGACCTCCACACTTGAGCCTCTAAATGCAATGAA
1 TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAA
14638200 TGCTTTCCTT
Statistics
Matches: 357, Mismatches: 56, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
41 4 0.01
42 350 0.98
43 3 0.01
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (42 bp):
TAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAG
Found at i:14638628 original size:11 final size:11
Alignment explanation
Indices: 14638608--14638657 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
14638598 TCTCTTTCTA
14638608 TTTT-TTTATT
1 TTTTCTTTATT
14638618 TTTTCTTTATT
1 TTTTCTTTATT
14638629 TTTTCTTCT-TT
1 TTTTCTT-TATT
* *
14638640 TTTT-TTTGTA
1 TTTTCTTTATT
14638650 TTTTCTTT
1 TTTTCTTT
14638658 CTTGATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
9 1 0.03
10 11 0.31
11 22 0.63
12 1 0.03
ACGTcount: A:0.06, C:0.08, G:0.02, T:0.84
Consensus pattern (11 bp):
TTTTCTTTATT
Found at i:14638654 original size:21 final size:21
Alignment explanation
Indices: 14638600--14638656 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
14638590 TCTTGCTCTC
* *
14638600 TCTTTCTATTTTTTTATTTTT
1 TCTTTATATTTTCTTATTTTT
* *
14638621 TCTTTATTTTTTCTTCTTTTT
1 TCTTTATATTTTCTTATTTTT
* *
14638642 TTTTTGTATTTTCTT
1 TCTTTATATTTTCTT
14638657 TCTTGATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.81
Consensus pattern (21 bp):
TCTTTATATTTTCTTATTTTT
Found at i:14648134 original size:20 final size:20
Alignment explanation
Indices: 14648097--14648135 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14648087 CTGATAAAAC
14648097 TCTATTTTTAAGTTCTATGAG
1 TCTATTTTTAAG-TCTATGAG
14648118 TCTATTTTTCAAG-CTATG
1 TCTATTTTT-AAGTCTATG
14648136 TTTTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (20 bp):
TCTATTTTTAAGTCTATGAG
Found at i:14651942 original size:11 final size:11
Alignment explanation
Indices: 14651895--14651944 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
14651885 AAATACACTT
14651895 AAAAACATTAA
1 AAAAACATTAA
14651906 AACAAACATTAA
1 AA-AAACATTAA
* *
14651918 AAAAAAATTTA
1 AAAAACATTAA
*
14651929 AAATACATTAA
1 AAAAACATTAA
14651940 AAAAA
1 AAAAA
14651945 TTATATTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAACATTAA
Found at i:14652148 original size:12 final size:12
Alignment explanation
Indices: 14652129--14652196 Score: 66
Period size: 12 Copynumber: 5.7 Consensus size: 12
14652119 ACATTAAAAA
14652129 CAACAAAAATAG
1 CAACAAAAATAG
* *
14652141 CAATAAAAACAG
1 CAACAAAAATAG
*
14652153 CAACAAAAATAA
1 CAACAAAAATAG
* *
14652165 CAGCAAAAATAA
1 CAACAAAAATAG
*
14652177 C-ACAAAAATAA
1 CAACAAAAATAG
14652188 CAATCAAAA
1 CAA-CAAAA
14652197 CAATAAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
11 10 0.21
12 32 0.68
13 5 0.11
ACGTcount: A:0.69, C:0.18, G:0.04, T:0.09
Consensus pattern (12 bp):
CAACAAAAATAG
Found at i:14652160 original size:24 final size:24
Alignment explanation
Indices: 14652127--14652199 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 24
14652117 CAACATTAAA
*
14652127 AACAACAAAAATAGCAATAAAAAC
1 AACAACAAAAATAACAATAAAAAC
* ** *
14652151 AGCAACAAAAATAACAGCAAAAAT
1 AACAACAAAAATAACAATAAAAAC
*
14652175 AAC-ACAAAAATAACAATCAAAAC
1 AACAACAAAAATAACAATAAAAAC
14652198 AA
1 AA
14652200 TAAAAAACAA
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 18 0.46
24 21 0.54
ACGTcount: A:0.70, C:0.18, G:0.04, T:0.08
Consensus pattern (24 bp):
AACAACAAAAATAACAATAAAAAC
Found at i:14652172 original size:11 final size:11
Alignment explanation
Indices: 14652155--14652189 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
14652145 AAAAACAGCA
14652155 ACAAAAATAAC
1 ACAAAAATAAC
14652166 AGCAAAAATAAC
1 A-CAAAAATAAC
14652178 ACAAAAATAAC
1 ACAAAAATAAC
14652189 A
1 A
14652190 ATCAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.71, C:0.17, G:0.03, T:0.09
Consensus pattern (11 bp):
ACAAAAATAAC
Found at i:14652172 original size:23 final size:25
Alignment explanation
Indices: 14652131--14652198 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 25
14652121 ATTAAAAACA
* ** *
14652131 ACAAAAATAGCAATAAAAACAGCA-
1 ACAAAAATAACAAGCAAAACAGAAC
*
14652155 ACAAAAATAAC-AGCAAAA-ATAAC
1 ACAAAAATAACAAGCAAAACAGAAC
*
14652178 ACAAAAATAACAATCAAAACA
1 ACAAAAATAACAAGCAAAACA
14652199 ATAAAAAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 2 0.06
23 16 0.46
24 16 0.46
25 1 0.03
ACGTcount: A:0.69, C:0.18, G:0.04, T:0.09
Consensus pattern (25 bp):
ACAAAAATAACAAGCAAAACAGAAC
Found at i:14652184 original size:56 final size:56
Alignment explanation
Indices: 14652057--14652190 Score: 155
Period size: 56 Copynumber: 2.4 Consensus size: 56
14652047 AAAACGCATA
* * * *
14652057 AAAAATAACATC-CAAACAACAAAAATAATAACAAAAACAGCAGCAAAAATAATAG
1 AAAAATAACATCAAAAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAG
* * * * *
14652112 TAAAACAACATTAAAAACAACAAAAATAGCAATAAAAACAGCAACAAAAATAACAG
1 AAAAATAACATCAAAAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAG
*
14652168 CAAAAATAACA-CAAAAATAACAA
1 -AAAAATAACATCAAAAACAACAA
14652191 TCAAAACAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
55 9 0.14
56 47 0.73
57 8 0.12
ACGTcount: A:0.69, C:0.16, G:0.04, T:0.10
Consensus pattern (56 bp):
AAAAATAACATCAAAAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAG
Found at i:14652217 original size:21 final size:19
Alignment explanation
Indices: 14652181--14652233 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
14652171 AAATAACACA
14652181 AAAATAACAATCAAAACAAT
1 AAAA-AACAATCAAAACAAT
14652201 AAAAAACAACTCAAAA-ATAGT
1 AAAAAACAA-TCAAAACA-A-T
14652222 AAAAAA-AATCAA
1 AAAAAACAATCAA
14652234 CCAAAACAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 10 0.33
20 13 0.43
21 7 0.23
ACGTcount: A:0.72, C:0.13, G:0.02, T:0.13
Consensus pattern (19 bp):
AAAAAACAATCAAAACAAT
Found at i:14652227 original size:23 final size:22
Alignment explanation
Indices: 14652201--14652250 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
14652191 TCAAAACAAT
*
14652201 AAAAAA-CAACTCAAAAATAGTAA
1 AAAAAATCAAC-C-AAAACAGTAA
14652224 AAAAAATCAACCAAAACAGTAA
1 AAAAAATCAACCAAAACAGTAA
14652246 AAAAA
1 AAAAA
14652251 GCACCAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 14 0.56
23 7 0.28
24 4 0.16
ACGTcount: A:0.72, C:0.14, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAAAATCAACCAAAACAGTAA
Found at i:14652229 original size:68 final size:69
Alignment explanation
Indices: 14652076--14652230 Score: 163
Period size: 68 Copynumber: 2.3 Consensus size: 69
14652066 ATCCAAACAA
* * * * ** *
14652076 CAAAAATAATAACAAAAACAGCAGCAAAAATAATAGTAAAACAACATTAAAAACAACAAAAATAG
1 CAAAAATAGTAACAAAAATAACAGCAAAAATAACACAAAAACAACAATAAAAACAACAAAAATAG
14652141 CAAT
66 CAAT
* * * * *
14652145 -AAAAACAGCAACAAAAATAACAGCAAAAATAACACAAAAATAACAATCAAAACAATAAAAA-A-
1 CAAAAATAGTAACAAAAATAACAGCAAAAATAACACAAAAACAACAATAAAAACAACAAAAATAG
14652207 CAACT
66 CAA-T
*
14652212 CAAAAATAGTAAAAAAAAT
1 CAAAAATAGTAACAAAAAT
14652231 CAACCAAAAC
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
66 3 0.04
67 2 0.03
68 64 0.93
ACGTcount: A:0.69, C:0.15, G:0.05, T:0.12
Consensus pattern (69 bp):
CAAAAATAGTAACAAAAATAACAGCAAAAATAACACAAAAACAACAATAAAAACAACAAAAATAG
CAAT
Found at i:14652256 original size:20 final size:21
Alignment explanation
Indices: 14652192--14652261 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
14652182 AAATAACAAT
*
14652192 CAAAACAAT-AAAAAA-CAAC
1 CAAAACAGTAAAAAAAGCAAC
* *
14652211 TCAAAAATAGTAAAAAAAATCAAC
1 -C-AAAACAGT-AAAAAAAGCAAC
14652235 CAAAACAGTAAAAAAAGC-AC
1 CAAAACAGTAAAAAAAGCAAC
14652255 CAAAACA
1 CAAAACA
14652262 ACAATATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 10 0.24
21 14 0.33
22 7 0.17
23 7 0.17
24 4 0.10
ACGTcount: A:0.69, C:0.19, G:0.04, T:0.09
Consensus pattern (21 bp):
CAAAACAGTAAAAAAAGCAAC
Found at i:14655753 original size:24 final size:24
Alignment explanation
Indices: 14655682--14655752 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
14655672 ATAACCATTC
14655682 CATTGATATCCTTTTCAATCTTTT
1 CATTGATATCCTTTTCAATCTTTT
* * *
14655706 CGTTTATATCCTTTTTAATCTTTT
1 CATTGATATCCTTTTCAATCTTTT
14655730 CATTGATATCCTTTTCAA-CTTTT
1 CATTGATATCCTTTTCAATCTTTT
14655753 TTATTGTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 5 0.12
24 36 0.88
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.56
Consensus pattern (24 bp):
CATTGATATCCTTTTCAATCTTTT
Found at i:14656581 original size:18 final size:19
Alignment explanation
Indices: 14656558--14656602 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
14656548 AAACAATTTC
14656558 AAAAACA-CAAAAATCGTT
1 AAAAACAGCAAAAATCGTT
* **
14656576 AAAAACAGGATCAATCGTT
1 AAAAACAGCAAAAATCGTT
14656595 AAAAACAG
1 AAAAACAG
14656603 GATCAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.58, C:0.16, G:0.11, T:0.16
Consensus pattern (19 bp):
AAAAACAGCAAAAATCGTT
Found at i:14656591 original size:19 final size:19
Alignment explanation
Indices: 14656569--14656608 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
14656559 AAAACACAAA
14656569 AATCGTTAAAAACAGGATC
1 AATCGTTAAAAACAGGATC
14656588 AATCGTTAAAAACAGGATC
1 AATCGTTAAAAACAGGATC
14656607 AA
1 AA
14656609 AATCACTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (19 bp):
AATCGTTAAAAACAGGATC
Found at i:14663329 original size:13 final size:13
Alignment explanation
Indices: 14663311--14663338 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14663301 AAAAATCGAT
14663311 AAGTCGTCAATCA
1 AAGTCGTCAATCA
14663324 AAGTCGTCAATCA
1 AAGTCGTCAATCA
14663337 AA
1 AA
14663339 ATTGAAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (13 bp):
AAGTCGTCAATCA
Found at i:14674199 original size:22 final size:22
Alignment explanation
Indices: 14674152--14674200 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14674142 CCATGGATGT
* *
14674152 ATTATGCCAATATAATTGATTG
1 ATTATGCCAATATAATTGAATA
*
14674174 ATTATTCCAATATAATTGAATA
1 ATTATGCCAATATAATTGAATA
14674196 ATTAT
1 ATTAT
14674201 ATGTTAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (22 bp):
ATTATGCCAATATAATTGAATA
Found at i:14677306 original size:10 final size:8
Alignment explanation
Indices: 14677285--14677312 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
14677275 TCATCAATAA
14677285 TCTCTCAT
1 TCTCTCAT
14677293 TCTCTCAT
1 TCTCTCAT
14677301 TCTCTCAT
1 TCTCTCAT
14677309 TCTC
1 TCTC
14677313 AATTCACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.39, G:0.00, T:0.50
Consensus pattern (8 bp):
TCTCTCAT
Found at i:14683614 original size:6 final size:6
Alignment explanation
Indices: 14683603--14683679 Score: 51
Period size: 6 Copynumber: 13.7 Consensus size: 6
14683593 GGGCCAACAG
* **
14683603 AATTTA AATTT- ATTTTA GGTTTA AATTT- -ATTTGA AATTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
*
14683648 -ATTATA AATTTA AGTTTA AATTT- -ATTTA AATT
1 AATT-TA AATTTA AATTTA AATTTA AATTTA AATT
14683680 AATAATGTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
4 11 0.20
5 5 0.09
6 32 0.58
7 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (6 bp):
AATTTA
Found at i:14683627 original size:17 final size:17
Alignment explanation
Indices: 14683603--14683665 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
14683593 GGGCCAACAG
*
14683603 AATTTAAATTTATTTTA
1 AATTTAAATTTATTTGA
**
14683620 GGTTTAAATTTATTTGA
1 AATTTAAATTTATTTGA
14683637 AATTTAAATTTATTAT-A
1 AATTTAAATTTATT-TGA
*
14683654 AATTTAAGTTTA
1 AATTTAAATTTA
14683666 AATTTATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 38 0.97
18 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
AATTTAAATTTATTTGA
Found at i:14683655 original size:11 final size:10
Alignment explanation
Indices: 14683622--14683679 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
14683612 TTATTTTAGG
14683622 TTTAAATTTA
1 TTTAAATTTA
*
14683632 TTTGAA---A
1 TTTAAATTTA
14683639 TTTAAATTTA
1 TTTAAATTTA
14683649 TTATAAATTTAA
1 TT-TAAATTT-A
14683661 GTTTAAATTTA
1 -TTTAAATTTA
14683672 TTTAAATT
1 TTTAAATT
14683680 AATAATGTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 6 0.15
10 16 0.40
11 8 0.20
12 8 0.20
13 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:14684415 original size:3 final size:3
Alignment explanation
Indices: 14684401--14684449 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
14684391 GGTAATAAAT
* *
14684401 ATA ATA ATTA ATA ATA TTA ATA ATA TTA ATA ATA A-A ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14684446 ATA A
1 ATA A
14684450 AAGAAATTCG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:14685608 original size:59 final size:60
Alignment explanation
Indices: 14685495--14685754 Score: 225
Period size: 59 Copynumber: 4.4 Consensus size: 60
14685485 CAAAGATCAT
* * * *
14685495 ATTTTGACCCTCGAACTTTCC-AAAAATTCCA-TTTTGCCCCCGAACTTCCAAAAA-ATAC
1 ATTTTGACCCTCAAACTTTCCAAAAAATTCCATTTTTGACCTCAAACTTCCAAAAATA-AC
* *
14685553 ATTTTGACCCTCAAACTTTCCAAAAAATTCCATTTTTGACCTCGAACTTCCAAAAATCAC
1 ATTTTGACCCTCAAACTTTCCAAAAAATTCCATTTTTGACCTCAAACTTCCAAAAATAAC
* * * * **
14685613 ATTTTTG-CCCTCGAACTTT-CAAAAAACTACATTTTTGCCCTCAAACTTCCAAAAATTCC
1 A-TTTTGACCCTCAAACTTTCCAAAAAATTCCATTTTTGACCTCAAACTTCCAAAAATAAC
** * * * * *
14685672 ATTTTTTCCC-CTAAC-TTCC-AAAAA-T-CATATTTTTACCTCAAATTTCCTAAAATAAT
1 ATTTTGACCCTCAAACTTTCCAAAAAATTCCAT-TTTTGACCTCAAACTTCCAAAAATAAC
* *
14685728 ATTTTTACCCCTAAAACTTTCCAAAAA
1 ATTTTGA-CCCTCAAACTTTCCAAAAA
14685755 TACATTTTAA
Statistics
Matches: 168, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
55 3 0.02
56 27 0.16
57 10 0.06
58 32 0.19
59 52 0.31
60 39 0.23
61 5 0.03
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (60 bp):
ATTTTGACCCTCAAACTTTCCAAAAAATTCCATTTTTGACCTCAAACTTCCAAAAATAAC
Found at i:14685703 original size:28 final size:28
Alignment explanation
Indices: 14685483--14685773 Score: 187
Period size: 30 Copynumber: 10.0 Consensus size: 28
14685473 CCCTAAATTA
* * * *
14685483 TCCAAAGATCATATTTTGACCCTCGAACTT
1 TCCAAAAATCACATTTTTACCC-CAAAC-T
** *
14685513 TCCAAAAATTC-CATTTTGCCCCCGAACT
1 TCCAAAAA-TCACATTTTTACCCCAAACT
*
14685541 TCCAAAAAAT-ACATTTTGACCCTCAAACTT
1 TCC-AAAAATCACATTTTTACCC-CAAAC-T
* *
14685571 TCCAAAAAATTC-CATTTTTGACCTCGAACT
1 TCC-AAAAA-TCACATTTTT-ACCCCAAACT
* *
14685601 TCCAAAAATCACATTTTTGCCCTCGAACT
1 TCCAAAAATCACATTTTTACCC-CAAACT
* * *
14685630 TTCAAAAAACTACATTTTTGCCCTCAAACT
1 TCCAAAAATC-ACATTTTTACCC-CAAACT
* *
14685660 TCCAAAAATTC-CATTTTTTCCCCTAACT
1 TCCAAAAA-TCACATTTTTACCCCAAACT
* * *
14685688 TCCAAAAATCATATTTTTACCTCAAATT
1 TCCAAAAATCACATTTTTACCCCAAACT
* * *
14685716 TCCTAAAATAATATTTTTACCCCTAAAACTT
1 TCCAAAAATCACATTTTTACCCC--AAAC-T
*
14685747 TCCAAAAAT-ACATTTTAACCCCAAACT
1 TCCAAAAATCACATTTTTACCCCAAACT
14685774 CTTCGAAACT
Statistics
Matches: 216, Mismatches: 29, Indels: 35
0.77 0.10 0.12
Matches are distributed among these distances:
27 3 0.01
28 68 0.31
29 50 0.23
30 69 0.32
31 23 0.11
32 3 0.01
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (28 bp):
TCCAAAAATCACATTTTTACCCCAAACT
Found at i:14685768 original size:30 final size:29
Alignment explanation
Indices: 14685495--14685773 Score: 200
Period size: 29 Copynumber: 9.6 Consensus size: 29
14685485 CAAAGATCAT
* * *
14685495 ATTTTGACCCTCGAACTTTCCAAAAATTCC
1 ATTTTTACCCTCAAACTTTCCAAAAA-TAC
* * *
14685525 A-TTTTGCCCCCGAAC-TTCCAAAAAATAC
1 ATTTTTACCCTCAAACTTTCC-AAAAATAC
* *
14685553 ATTTTGACCCTCAAACTTTCCAAAAAATTCC
1 ATTTTTACCCTCAAACTTTCC-AAAAA-TAC
*
14685584 ATTTTTGA-CCTCGAAC-TTCCAAAAATCAC
1 ATTTTT-ACCCTCAAACTTTCCAAAAAT-AC
* * *
14685613 ATTTTTGCCCTCGAACTTTCAAAAAACTAC
1 ATTTTTACCCTCAAACTTTCCAAAAA-TAC
* *
14685643 ATTTTTGCCCTCAAAC-TTCCAAAAATTCC
1 ATTTTTACCCTCAAACTTTCCAAAAA-TAC
* * *
14685672 ATTTTTTCCC-CTAAC-TTCCAAAAATCAT
1 ATTTTTACCCTCAAACTTTCCAAAAAT-AC
* *
14685700 ATTTTTA-CCTCAAA-TTTCCTAAAATAAT
1 ATTTTTACCCTCAAACTTTCCAAAAAT-AC
*
14685728 ATTTTTACCCCTAAAACTTTCCAAAAATAC
1 ATTTTTA-CCCTCAAACTTTCCAAAAATAC
*
14685758 ATTTTAACCC-CAAACT
1 ATTTTTACCCTCAAACT
14685774 CTTCGAAACT
Statistics
Matches: 203, Mismatches: 31, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.01
28 53 0.26
29 68 0.33
30 53 0.26
31 25 0.12
32 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (29 bp):
ATTTTTACCCTCAAACTTTCCAAAAATAC
Found at i:14686198 original size:96 final size:98
Alignment explanation
Indices: 14686019--14686214 Score: 279
Period size: 96 Copynumber: 2.0 Consensus size: 98
14686009 CCAAAAATAT
* *
14686019 TTAAAATCGAGGCAATATTCCTTTATTTCGGGTTTTAAAAATTTGTGCCTTAACTTACAAGGCAC
1 TTAAAATCGAGGCAATATTCCTTTATCTCCGGTTTTAAAAATTTGTGCCTTAACTTACAAGGCAC
*
14686084 GATTTTTCTTCAAATCGGGATAATCGAATACCC
66 GACTTTTCTTCAAATCGGGATAATCGAATACCC
* * * * * *
14686117 TTAAAAT-GAGGCAATGTTTCTTTATCTCCGGTTTTGAAAA-TTGTGCCTTAATTTACTAGGCGC
1 TTAAAATCGAGGCAATATTCCTTTATCTCCGGTTTTAAAAATTTGTGCCTTAACTTACAAGGCAC
* *
14686180 GACTTTTCTTCAAGTCGGGATAATTGAATACCC
66 GACTTTTCTTCAAATCGGGATAATCGAATACCC
14686213 TT
1 TT
14686215 TTCCAAGATT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 52 0.60
97 28 0.32
98 7 0.08
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (98 bp):
TTAAAATCGAGGCAATATTCCTTTATCTCCGGTTTTAAAAATTTGTGCCTTAACTTACAAGGCAC
GACTTTTCTTCAAATCGGGATAATCGAATACCC
Found at i:14687152 original size:22 final size:22
Alignment explanation
Indices: 14687127--14687168 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14687117 AAGCTTGGAT
14687127 TTTAAAGTTAGGTTTAAATTAA
1 TTTAAAGTTAGGTTTAAATTAA
* **
14687149 TTTAAATTTATTTTTAAATT
1 TTTAAAGTTAGGTTTAAATT
14687169 TATATTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
TTTAAAGTTAGGTTTAAATTAA
Found at i:14687158 original size:6 final size:6
Alignment explanation
Indices: 14687139--14687214 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 6
14687129 TAAAGTTAGG
** * * *
14687139 TTTAAA -TT-AA TTTAAA TTTATT TTTAAA TTTATA TTTATATT TTTAAT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA-A-A TTTAAA
**
14687187 TTTAAA TTT-GC TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
14687215 TTAATTTGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
4 2 0.04
5 7 0.13
6 39 0.74
7 1 0.02
8 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (6 bp):
TTTAAA
Found at i:14687182 original size:20 final size:20
Alignment explanation
Indices: 14687147--14687195 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
14687137 GGTTTAAATT
14687147 AATTTAAA-TT-TATTTTTA
1 AATTTAAATTTATATTTTTA
*
14687165 AATTTATATTTATATTTTTA
1 AATTTAAATTTATATTTTTA
*
14687185 ATTTTAAATTT
1 AATTTAAATTT
14687196 GCTTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 7 0.27
19 2 0.08
20 17 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTAAATTTATATTTTTA
Found at i:14689335 original size:29 final size:29
Alignment explanation
Indices: 14689179--14689501 Score: 330
Period size: 30 Copynumber: 11.0 Consensus size: 29
14689169 CCTTGGAGGT
* ** *
14689179 CCCT-AAACTGTCTAAAAATTGTATTTTGA
1 CCCTAAAACT-TCCAAAAATTACATTTTTA
** *
14689208 CCCTCGAACTTCTCCAAAATTACATTTTTA
1 CCCTAAAACTTC-CAAAAATTACATTTTTA
* * *
14689238 CCCTGAAACTTCTCCAAAATTACATTTTAA
1 CCCTAAAACTTC-CAAAAATTACATTTTTA
*
14689268 CCCTAAAACTTCTCTAAAATTACATTTTTA
1 CCCTAAAACTTC-CAAAAATTACATTTTTA
14689298 CCCTAAAACTTCC-AAAATTACATTTTTGA
1 CCCTAAAACTTCCAAAAATTACATTTTT-A
*
14689327 CCCTGAAACTTCCAAAAATTACA-TTTTA
1 CCCTAAAACTTCCAAAAATTACATTTTTA
** *
14689355 ATCTCAAAACTTCCATAAATTACATTTTTAA
1 CCCT-AAAACTTCCAAAAATTACATTTTT-A
* *
14689386 CCTTAAAACTTCCTAAAATTACATTTTTA
1 CCCTAAAACTTCCAAAAATTACATTTTTA
**
14689415 CCCCCAAACTTCCAAAAATTACATTTTTA
1 CCCTAAAACTTCCAAAAATTACATTTTTA
* *
14689444 CCCCT-AAACTTTCAAAAATTTCATTTTTA
1 -CCCTAAAACTTCCAAAAATTACATTTTTA
* * *
14689473 ACCTTAAACTTCCAAAAATTCCATTTTTA
1 CCCTAAAACTTCCAAAAATTACATTTTTA
14689502 ACCCCAGAAC
Statistics
Matches: 253, Mismatches: 32, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
28 20 0.08
29 111 0.44
30 120 0.47
31 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (29 bp):
CCCTAAAACTTCCAAAAATTACATTTTTA
Found at i:14689350 original size:88 final size:87
Alignment explanation
Indices: 14689179--14689501 Score: 352
Period size: 88 Copynumber: 3.7 Consensus size: 87
14689169 CCTTGGAGGT
* ** * ** *
14689179 CCCT-AAACTGTCTAAAAATTGTATTTTGACCCTCGAACTTCTCCAAAATTACATTTTTACCCTG
1 CCCTAAAACT-TCTCAAAATTACATTTTTACCCTAAAACTTC-CAAAAATTACATTTTTACCCTG
*
14689243 AAACTTCTCCAAAATTACATTTTAA
64 AAACTTC-CAAAAATTACATTTTAA
14689268 CCCTAAAACTTCTCTAAAATTACATTTTTACCCTAAAACTTCC-AAAATTACATTTTTGACCCTG
1 CCCTAAAACTTCTC-AAAATTACATTTTTACCCTAAAACTTCCAAAAATTACATTTTT-ACCCTG
14689332 AAACTTCCAAAAATTACATTTTAA
64 AAACTTCCAAAAATTACATTTTAA
* * * *
14689356 -TCTCAAAACTTC-CATAAATTACATTTTTAACCTTAAAACTTCCTAAAATTACATTTTTACCCC
1 CCCT-AAAACTTCTCA-AAATTACATTTTT-ACCCTAAAACTTCCAAAAATTACATTTTTACCCT
* *
14689419 CAAACTTCCAAAAATTACATTTTTAC
63 GAAACTTCCAAAAATTACA-TTTTAA
* * * *
14689445 CCCT-AAACTT-TCAAAAATTTCATTTTTAACCTTAAACTTCCAAAAATTCCATTTTTA
1 CCCTAAAACTTCTC-AAAATTACATTTTTACCCTAAAACTTCCAAAAATTACATTTTTA
14689502 ACCCCAGAAC
Statistics
Matches: 204, Mismatches: 19, Indels: 24
0.83 0.08 0.10
Matches are distributed among these distances:
86 1 0.00
87 41 0.20
88 92 0.45
89 41 0.20
90 29 0.14
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (87 bp):
CCCTAAAACTTCTCAAAATTACATTTTTACCCTAAAACTTCCAAAAATTACATTTTTACCCTGAA
ACTTCCAAAAATTACATTTTAA
Found at i:14689502 original size:29 final size:29
Alignment explanation
Indices: 14689214--14689504 Score: 311
Period size: 29 Copynumber: 9.9 Consensus size: 29
14689204 TTGACCCTCG
* * *
14689214 AACTTCTCCAAAATTACATTTTTACCCTGA
1 AACTTC-CAAAAATTACATTTTTAACCTAA
*
14689244 AACTTCTCCAAAATTACA-TTTTAACCCTAA
1 AACTTC-CAAAAATTACATTTTTAA-CCTAA
* *
14689274 AACTTCTCTAAAATTACATTTTTACCCTAA
1 AACTTC-CAAAAATTACATTTTTAACCTAA
* *
14689304 AACTTCC-AAAATTACATTTTTGACCCTGA
1 AACTTCCAAAAATTACATTTTT-AACCTAA
*
14689333 AACTTCCAAAAATTACA-TTTTAATCTCAA
1 AACTTCCAAAAATTACATTTTTAACCT-AA
*
14689362 AACTTCCATAAATTACATTTTTAACCTTAA
1 AACTTCCAAAAATTACATTTTTAACC-TAA
* * **
14689392 AACTTCCTAAAATTACATTTTTACCCCCA
1 AACTTCCAAAAATTACATTTTTAACCTAA
*
14689421 AACTTCCAAAAATTACATTTTTACCCCT-A
1 AACTTCCAAAAATTACATTTTTA-ACCTAA
* * *
14689450 AACTTTCAAAAATTTCATTTTTAACCTTA
1 AACTTCCAAAAATTACATTTTTAACCTAA
*
14689479 AACTTCCAAAAATTCCATTTTTAACC
1 AACTTCCAAAAATTACATTTTTAACC
14689505 CCAGAACTCT
Statistics
Matches: 230, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
28 20 0.09
29 110 0.48
30 94 0.41
31 6 0.03
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.37
Consensus pattern (29 bp):
AACTTCCAAAAATTACATTTTTAACCTAA
Found at i:14689506 original size:88 final size:86
Alignment explanation
Indices: 14689220--14689506 Score: 353
Period size: 88 Copynumber: 3.3 Consensus size: 86
14689210 CTCGAACTTC
* * *
14689220 TCCAAAATTACATTTTTACCCTGAAACTTCTCCAAAATTACA-TTTTAACCCTAAAACTTCTCTA
1 TCCAAAATTACATTTTTACCCCGAAACTTC-CAAAAATTACATTTTTAACCCT-AAACTT-TCAA
* *
14689284 AAATTACATTTTTACCCTAAAACT
63 AAATTACATTTTTAACCTTAAACT
* * * * *
14689308 TCCAAAATTACATTTTTGACCCTGAAACTTCCAAAAATTACA-TTTTAATCTCAAAACTTCCATA
1 TCCAAAATTACATTTTT-ACCCCGAAACTTCCAAAAATTACATTTTTAA-CCCTAAACTTTCAAA
14689372 AATTACATTTTTAACCTTAAAACT
64 AATTACATTTTTAACCTT-AAACT
* *
14689396 TCCTAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTACCCCTAAACTTTCAAAA
1 TCC-AAAATTACATTTTTACCCCGAAACTTCCAAAAATTACATTTTTAACCCTAAACTTTCAAAA
*
14689461 ATTTCATTTTTAACCTTAAACT
65 ATTACATTTTTAACCTTAAACT
*
14689483 TCCAAAAATTCCATTTTTAACCCC
1 TCC-AAAATTACATTTTT-ACCCC
14689507 AGAACTCTTG
Statistics
Matches: 175, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
87 39 0.22
88 102 0.58
89 34 0.19
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.37
Consensus pattern (86 bp):
TCCAAAATTACATTTTTACCCCGAAACTTCCAAAAATTACATTTTTAACCCTAAACTTTCAAAAA
TTACATTTTTAACCTTAAACT
Found at i:14691990 original size:8 final size:8
Alignment explanation
Indices: 14691977--14692002 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14691967 TACCTTTCTG
14691977 ATGCATTC
1 ATGCATTC
14691985 ATGCATTC
1 ATGCATTC
14691993 ATGCATTC
1 ATGCATTC
14692001 AT
1 AT
14692003 AAGCAGCGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (8 bp):
ATGCATTC
Found at i:14695101 original size:16 final size:16
Alignment explanation
Indices: 14695080--14695127 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
14695070 CAGATACAAT
*
14695080 GAAAAAAGAAGAGAAA
1 GAAAAAAAAAGAGAAA
14695096 GAAAAAAAAAGA-AAA
1 GAAAAAAAAAGAGAAA
* *
14695111 GCAAAAACAAGAAGAAA
1 GAAAAAAAAAG-AGAAA
14695128 AATAAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 12 0.44
16 12 0.44
17 3 0.11
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAGAGAAA
Found at i:14695140 original size:31 final size:31
Alignment explanation
Indices: 14695082--14695141 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
14695072 GATACAATGA
*
14695082 AAAAAGAAGAGAAAGAAAAAAAAAGAAAAGC
1 AAAAACAAGAGAAAGAAAAAAAAAGAAAAGC
* *
14695113 AAAAACAAGAAGAAA-AATAAAATAGAAAA
1 AAAAACAAG-AGAAAGAAAAAAAAAGAAAA
14695142 AGGGAGAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.03
Consensus pattern (31 bp):
AAAAACAAGAGAAAGAAAAAAAAAGAAAAGC
Found at i:14696875 original size:92 final size:92
Alignment explanation
Indices: 14696718--14697995 Score: 2209
Period size: 92 Copynumber: 13.9 Consensus size: 92
14696708 ATCAAAATAA
* *
14696718 CAAGTCTTTATCTCTCTGAAGTTGTAGTGAGAGCAAGATGAAGCATCAAACATCATTTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14696783 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
14696810 CAAGTCTTTATCTCTCTGAAGTTGTAGTGAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14696875 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* *
14696902 CAAGTCTTTATCTCTCCGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATTAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14696967 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
14696994 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATCCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14697059 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* *
14697086 CAAGTCTTTATCTCTCTGAAGTTGTAATAAGAGCAAGATGAAGCATCAAACATCATTTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14697151 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* *
14697178 CAAGTCTTTATCTCTCTGAAGTTGTAATAAGAGCAAGATGAAGCATCAAACATCATTTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14697243 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* *
14697270 CAAGTCTTTATCTCTCTGAAGTTGTAATAAGAGCAAGATGAAGCATCAAACATCATTTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14697335 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * *
14697362 CAAGTATTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATG-A-CATTTCAAACATCAATCCCTGT
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCA--TCAAACATCAATTCCTAT
*
14697425 CCTCTTGAAGTTGTAGTAAAGATGGATAG
64 CCTCTTGAAGTTGTAGTAAAGTTGGATAG
* **
14697454 AAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
*
14697519 TCTTGAAGTTGTAGTAAAGCTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
14697546 CAAGTCTTTATCTCTCTGAAGTTGTAGTACGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
* *
14697611 TCTTGAAGTTGTAGTAAAGCTGGATAA
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * * *
14697638 CAAATCTTTTTCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAAATCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14697703 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * *
14697730 CAAGTCTCTATCTCTCTGAAGTTGTAGTAAGAGTAAGGTGAAGCATCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14697795 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * * *
14697822 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATAAAGAATCAAATATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
14697887 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
14697914 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
*
14697979 TCTTAAAGTTGTAGTAA
66 TCTTGAAGTTGTAGTAA
14697996 GAGCAAGATG
Statistics
Matches: 1130, Mismatches: 52, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
90 2 0.00
91 1 0.00
92 1126 1.00
93 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (92 bp):
CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATCC
TCTTGAAGTTGTAGTAAAGTTGGATAG
Found at i:14697752 original size:40 final size:40
Alignment explanation
Indices: 14697697--14697943 Score: 151
Period size: 40 Copynumber: 5.6 Consensus size: 40
14697687 ACATCAAATC
14697697 CTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
1 CTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
* *
14697737 CTAT-CTCTCTGAAGTTGTAGTAAGAGTAAGG-TGAAGCATCAAACATCAATT
1 CTATCCTCT-TGAAGTTGTAGTAA-AGT-TGGAT--AG---C-AA-GTC---T
14697788 CCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
1 -CTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
* ** *
14697829 TTAT-CTCTCTGAAGTTGTAGTAAGAGTAAGATAAAGAATCAAATATCAATT
1 CTATCCTCT-TGAAGTTGTAGTAA-AGTTGGAT--AG---C-AA-GTC---T
14697880 CCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
1 -CTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
*
14697921 TTAT-CTCTCTGAAGTTGTAGTAA
1 CTATCCTCT-TGAAGTTGTAGTAA
14697944 GAGCAAGATG
Statistics
Matches: 163, Mismatches: 13, Indels: 62
0.68 0.05 0.26
Matches are distributed among these distances:
39 12 0.07
40 52 0.32
41 12 0.07
42 2 0.01
43 4 0.02
44 4 0.02
45 4 0.02
46 4 0.02
47 4 0.02
48 4 0.02
49 4 0.02
50 2 0.01
51 12 0.07
52 35 0.21
53 8 0.05
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (40 bp):
CTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCT
Found at i:14698021 original size:144 final size:145
Alignment explanation
Indices: 14697840--14698103 Score: 458
Period size: 144 Copynumber: 1.8 Consensus size: 145
14697830 TATCTCTCTG
* *
14697840 AAGTTGTAGTAAGAGTAAGATAAAGAATCAAATATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
1 AAGTTGTAGTAAGAGCAAGATAAAGAATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
*
14697905 GTTGGATAGCAAGTCTTTA-TCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCA
66 GTTGGATAACAAGTCTTTACTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCA
14697969 ATTCCTATCCTCTTA
131 ATTCCTATCCTCTTA
* **
14697984 AAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
1 AAGTTGTAGTAAGAGCAAGATAAAGAATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
14698049 GTTGGATAACAAGTCTTTATCTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
66 GTTGGATAACAAGTCTTTA-CTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGC
14698104 CTCGACATCA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
144 78 0.70
146 34 0.30
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (145 bp):
AAGTTGTAGTAAGAGCAAGATAAAGAATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAA
GTTGGATAACAAGTCTTTACTCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCA
ATTCCTATCCTCTTA
Found at i:14698046 original size:52 final size:52
Alignment explanation
Indices: 14697925--14698047 Score: 210
Period size: 52 Copynumber: 2.3 Consensus size: 52
14697915 AAGTCTTTAT
14697925 CTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATC
1 CTCT-TGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATC
* **
14697978 CTCTTAAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATC
1 CTCTTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATC
14698030 CTCTTGAAGTTGTAGTAA
1 CTCTTGAAGTTGTAGTAA
14698048 AGTTGGATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
52 62 0.94
53 4 0.06
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
CTCTTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTATC
Found at i:14698400 original size:6 final size:6
Alignment explanation
Indices: 14698381--14698435 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
14698371 TAAAGTTAGG
* **
14698381 TTTAAA -TT-AA TTTAAA TTT-AT TTTAAA TTTAAA TTT-GC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14698425 TTTAAA TTTAA
1 TTTAAA TTTAA
14698436 CTAAATTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
4 2 0.05
5 11 0.28
6 26 0.67
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:14698456 original size:16 final size:17
Alignment explanation
Indices: 14698389--14698456 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 17
14698379 GGTTTAAATT
*
14698389 AATTTAAATTTATTTTA
1 AATTTAAATTTAATTTA
**
14698406 AATTTAAATTTGCTTTA
1 AATTTAAATTTAATTTA
*
14698423 AATTTAAATTTAA-CTA
1 AATTTAAATTTAATTTA
*
14698439 AATTTGAA-TTAATTTA
1 AATTTAAATTTAATTTA
14698455 AA
1 AA
14698457 ACTTAATATT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
15 4 0.09
16 13 0.30
17 26 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
AATTTAAATTTAATTTA
Found at i:14709586 original size:17 final size:17
Alignment explanation
Indices: 14709564--14709602 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
14709554 AGGTGGAGAA
* *
14709564 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
14709581 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
14709598 CTTGT
1 CTTGT
14709603 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:14711899 original size:34 final size:35
Alignment explanation
Indices: 14711768--14711907 Score: 97
Period size: 34 Copynumber: 3.9 Consensus size: 35
14711758 ATGCTAGTCA
*
14711768 GATAAACCGACGAAT-GTGTGCCCAGCACTAGTTA
1 GATAAACCGACGAATAGTGTGCCCAGCACTAGTTG
** * ** **
14711802 GATAAACTAACGAAATAAATAGTGAGCTTAGGTCTAGTTG
1 GATAAAC---CG--ACGAATAGTGTGCCCAGCACTAGTTG
* * * * *
14711842 GATTAACCAAC-AATATTGCGCCCAGCGCTAGTTG
1 GATAAACCGACGAATAGTGTGCCCAGCACTAGTTG
14711876 GATAAACCGACGAAT-GTGTGCCCAGCACTAGT
1 GATAAACCGACGAATAGTGTGCCCAGCACTAGT
14711908 CAAATAAATT
Statistics
Matches: 77, Mismatches: 22, Indels: 14
0.68 0.19 0.12
Matches are distributed among these distances:
34 47 0.61
35 4 0.05
37 3 0.04
39 4 0.05
40 19 0.25
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (35 bp):
GATAAACCGACGAATAGTGTGCCCAGCACTAGTTG
Found at i:14711915 original size:108 final size:108
Alignment explanation
Indices: 14711674--14711967 Score: 326
Period size: 108 Copynumber: 2.7 Consensus size: 108
14711664 CAAAGAAATT
* * ** *
14711674 TGTGCCCAGCACTAGTCGGATAAACTGACGATTTTAAA-AGTGAGCTTAGCTCAAGTTGG-TTAA
1 TGTGCCCAGCACTAGTCAGATAAACTAACGA-AATAAATAGTGAGCTTAGCTCTAGTTGGATT-A
* *
14711737 ACAAACAAATATTTGAGCCCAATGCTAGTCAGATAAACCGACGAATG
64 ACCAAC-AATA-TTGAGCCCAACGCTAGTCAGATAAACCGACGAATG
* *
14711784 TGTGCCCAGCACTAGTTAGATAAACTAACGAAATAAATAGTGAGCTTAGGTCTAGTTGGATTAAC
1 TGTGCCCAGCACTAGTCAGATAAACTAACGAAATAAATAGTGAGCTTAGCTCTAGTTGGATTAAC
* * **
14711849 CAACAATATTGCGCCCAGCGCTAGTTGGATAAACCGACGAATG
66 CAACAATATTGAGCCCAACGCTAGTCAGATAAACCGACGAATG
* * * * * *
14711892 TGTGCCCAGCACTAGTCAAATAAATTGAA-GAAGTAAATTAATGAG-TCCAACTCTAGTTGGATT
1 TGTGCCCAGCACTAGTCAGATAAACT-AACGAAATAAA-TAGTGAGCT-TAGCTCTAGTTGGATT
14711955 AACCAACAATATT
63 AACCAACAATATT
14711968 TATAATTATT
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
108 61 0.39
109 42 0.27
110 53 0.34
111 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (108 bp):
TGTGCCCAGCACTAGTCAGATAAACTAACGAAATAAATAGTGAGCTTAGCTCTAGTTGGATTAAC
CAACAATATTGAGCCCAACGCTAGTCAGATAAACCGACGAATG
Found at i:14712066 original size:13 final size:12
Alignment explanation
Indices: 14712050--14712090 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
14712040 TATCGAGTAT
14712050 TTAAATACATTAA
1 TTAAATA-ATTAA
14712063 TTAAAATAATTAA
1 TT-AAATAATTAA
*
14712076 TCAAATAATTAA
1 TTAAATAATTAA
14712088 TTA
1 TTA
14712091 CAAATAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 12 0.48
13 8 0.32
14 5 0.20
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAAATAATTAA
Found at i:14712469 original size:28 final size:28
Alignment explanation
Indices: 14712433--14712490 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
14712423 AATCAAATAA
* *
14712433 TTTTGTGATTTTAACCCCATTATTTAAT
1 TTTTGTGATTTTAACACCATTATTGAAT
* *
14712461 TTTTGTGATTTTTATACCATTATTGAAT
1 TTTTGTGATTTTAACACCATTATTGAAT
14712489 TT
1 TT
14712491 GCCTAACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.09, T:0.57
Consensus pattern (28 bp):
TTTTGTGATTTTAACACCATTATTGAAT
Found at i:14713305 original size:12 final size:11
Alignment explanation
Indices: 14713288--14713318 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
14713278 TTCAATCCAA
14713288 ATTTATTATTTT
1 ATTTATTA-TTT
14713300 ATTTATTATTT
1 ATTTATTATTT
14713311 ATTTATTA
1 ATTTATTA
14713319 AATAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:14716477 original size:33 final size:33
Alignment explanation
Indices: 14716440--14716507 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
14716430 ACTAGACTTA
*
14716440 AATCAACAGGGTCAAATGC-GATTCTCACACCAG
1 AATCAACAGGGCCAAATGCAG-TTCTCACACCAG
* *
14716473 AATCAACTGTGCCAAATGCAGTTCTCACACCAG
1 AATCAACAGGGCCAAATGCAGTTCTCACACCAG
14716506 AA
1 AA
14716508 CCAGTTGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (33 bp):
AATCAACAGGGCCAAATGCAGTTCTCACACCAG
Found at i:14734019 original size:12 final size:12
Alignment explanation
Indices: 14734002--14734027 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14733992 ACTACTCAAT
14734002 TATGAAAATATC
1 TATGAAAATATC
14734014 TATGAAAATATC
1 TATGAAAATATC
14734026 TA
1 TA
14734028 GGTTTAATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
TATGAAAATATC
Found at i:14734576 original size:9 final size:9
Alignment explanation
Indices: 14734562--14734667 Score: 56
Period size: 9 Copynumber: 11.4 Consensus size: 9
14734552 TCATTATATG
14734562 ATTTTTATA
1 ATTTTTATA
14734571 ATTTTTATA
1 ATTTTTATA
14734580 ATTAGTTTTATA
1 A-T--TTTTATA
* *
14734592 AATATTATTA
1 ATTTTTA-TA
*
14734602 A-TTTT-GA
1 ATTTTTATA
14734609 ATTTTTAT-
1 ATTTTTATA
*
14734617 ATTTTTATTG
1 ATTTTTA-TA
* *
14734627 GTTTTTATG
1 ATTTTTATA
14734636 ATTTTTATAA
1 ATTTTTAT-A
* *
14734646 AATTTTATT
1 ATTTTTATA
*
14734655 ATGTTTATA
1 ATTTTTATA
14734664 ATTT
1 ATTT
14734668 CAAAATGAAT
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
7 2 0.03
8 11 0.15
9 36 0.49
10 17 0.23
12 8 0.11
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:14735107 original size:21 final size:21
Alignment explanation
Indices: 14735082--14735135 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
14735072 CATTTAAAAT
14735082 AAAAATAAT-TAAAAATTATA
1 AAAAATAATATAAAAATTATA
* *
14735102 AGAAAA-CATATAAAATTTATA
1 A-AAAATAATATAAAAATTATA
*
14735123 AAAAATGATATAA
1 AAAAATAATATAA
14735136 TGAAAATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAATAATATAAAAATTATA
Found at i:14736547 original size:25 final size:24
Alignment explanation
Indices: 14736519--14736616 Score: 102
Period size: 26 Copynumber: 4.2 Consensus size: 24
14736509 GACTTAGTGC
14736519 GCTCTCCGTTATTAGCACGTATTGT
1 GCTCTCCGTTATTAGCACGT-TTGT
*
14736544 GCTCTCCGTTATTTAGCACGTGTAGT
1 GCTCTCCGTTA-TTAGCACGT-TTGT
14736570 GCTCTCCG--ATTAGCACG-TT-T
1 GCTCTCCGTTATTAGCACGTTTGT
14736590 GCTCTCCG-T-TTAGCAC-TTTGGT
1 GCTCTCCGTTATTAGCACGTTT-GT
14736612 GCTCT
1 GCTCT
14736617 TGTTCATTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
20 18 0.28
21 1 0.02
22 6 0.09
23 8 0.12
24 1 0.02
25 11 0.17
26 20 0.31
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (24 bp):
GCTCTCCGTTATTAGCACGTTTGT
Found at i:14736571 original size:26 final size:23
Alignment explanation
Indices: 14736519--14736616 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 23
14736509 GACTTAGTGC
14736519 GCTCTCCGTTATTAGCACGTATTGT
1 GCTCTCCGTTATTAGCACG--TTGT
14736544 GCTCTCCGTTATTTAGCACGTGTAGT
1 GCTCTCCGTTA-TTAGCACGT-T-GT
14736570 GCTCTCCG--ATTAGCACGTT-T
1 GCTCTCCGTTATTAGCACGTTGT
*
14736590 GCTCTCCG-T-TTAGCACTTTGGT
1 GCTCTCCGTTATTAGCACGTT-GT
14736612 GCTCT
1 GCTCT
14736617 TGTTCATTTG
Statistics
Matches: 66, Mismatches: 1, Indels: 15
0.80 0.01 0.18
Matches are distributed among these distances:
20 18 0.27
22 7 0.11
23 9 0.14
24 2 0.03
25 12 0.18
26 18 0.27
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (23 bp):
GCTCTCCGTTATTAGCACGTTGT
Found at i:14747319 original size:17 final size:17
Alignment explanation
Indices: 14747299--14747346 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
14747289 ACTACAATGC
*
14747299 AAATGCACTGACAAATA
1 AAATGCAATGACAAATA
*
14747316 AAATGCAGA-GACAATTA
1 AAATGCA-ATGACAAATA
14747333 AAATGCAATGACAA
1 AAATGCAATGACAA
14747347 CAATATGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.17
Consensus pattern (17 bp):
AAATGCAATGACAAATA
Found at i:14749209 original size:24 final size:24
Alignment explanation
Indices: 14749171--14749308 Score: 159
Period size: 24 Copynumber: 5.8 Consensus size: 24
14749161 AGCTCAACCA
*
14749171 ATGCTAGTGAGCGTAAACGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
*
14749195 AAGCTGGTGAGCGTAAACGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
* *
14749219 ATTCTGGTGAGCATAAACGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
** * *
14749243 ATTATGGCGAGCGTAAACTTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
**
14749267 ATGCTGACGAGCGTAAACGTATTC
1 ATGCTGGTGAGCGTAAACGTATTC
* * *
14749291 ACGCTGATAAGCGTAAAC
1 ATGCTGGTGAGCGTAAAC
14749309 ATAATTAACT
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 98 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (24 bp):
ATGCTGGTGAGCGTAAACGTATTC
Found at i:14759513 original size:17 final size:17
Alignment explanation
Indices: 14759493--14759549 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
14759483 TAATTGTCCC
*
14759493 TGCATTATTAATGTCAT
1 TGCATTATTATTGTCAT
* *
14759510 TGCATTTTTATTGTCGT
1 TGCATTATTATTGTCAT
*
14759527 TGCATCTA-CATTGTCAT
1 TGCAT-TATTATTGTCAT
14759544 TGCATT
1 TGCATT
14759550 TCCATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (17 bp):
TGCATTATTATTGTCAT
Found at i:14759523 original size:34 final size:34
Alignment explanation
Indices: 14759485--14759550 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
14759475 CTGTAGTATA
*
14759485 ATTGTCCCTGCAT-TATTAATGTCATTGCATTTTT
1 ATTGTCCCTGCATCTA-CAATGTCATTGCATTTTT
** *
14759519 ATTGTCGTTGCATCTACATTGTCATTGCATTT
1 ATTGTCCCTGCATCTACAATGTCATTGCATTT
14759551 CCATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (34 bp):
ATTGTCCCTGCATCTACAATGTCATTGCATTTTT
Found at i:14763929 original size:17 final size:17
Alignment explanation
Indices: 14763888--14763955 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
14763878 AGCTGTAGTA
*
14763888 TAATTGTCCTTGCATTAT
1 TAATTGTCATTGCATT-T
14763906 TAA-TGTCATTGCATTT
1 TAATTGTCATTGCATTT
** *
14763922 TAATTGTCGCTGCA-TC
1 TAATTGTCATTGCATTT
14763938 TACATTGTCATTGCATTT
1 TA-ATTGTCATTGCATTT
14763956 CCATATATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
16 7 0.17
17 29 0.73
18 4 0.10
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (17 bp):
TAATTGTCATTGCATTT
Found at i:14784737 original size:17 final size:16
Alignment explanation
Indices: 14784715--14784759 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
14784705 TATGGCAATA
14784715 TTTCTTTTCTTTTCTCT
1 TTTCTTTTCTTTTCT-T
14784732 TTTCTTCTTC-TTTCTT
1 TTTCTT-TTCTTTTCTT
14784748 TTTC-TTTCTTTT
1 TTTCTTTTCTTTT
14784760 TTTGATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
15 4 0.15
16 5 0.19
17 11 0.42
18 3 0.12
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTTCTTTTCTT
Found at i:14784758 original size:10 final size:11
Alignment explanation
Indices: 14784715--14784760 Score: 60
Period size: 10 Copynumber: 4.3 Consensus size: 11
14784705 TATGGCAATA
14784715 TTTCTTTTCTT
1 TTTCTTTTCTT
14784726 TTCTCTTTTCTT
1 TT-TCTTTTCTT
*
14784738 CTTC-TTTCTT
1 TTTCTTTTCTT
14784748 TTTC-TTTCTT
1 TTTCTTTTCTT
14784758 TTT
1 TTT
14784761 TTGATTTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 18 0.56
11 4 0.12
12 10 0.31
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:14785343 original size:17 final size:18
Alignment explanation
Indices: 14785322--14785363 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
14785312 TATAAGAATG
14785322 GAAATGCAACT-AC-AAT
1 GAAATGCAACTAACAAAT
14785338 GCAAATGC-ACTAACAAAT
1 G-AAATGCAACTAACAAAT
14785356 GAAATGCA
1 GAAATGCA
14785364 GTGACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (18 bp):
GAAATGCAACTAACAAAT
Found at i:14792057 original size:16 final size:17
Alignment explanation
Indices: 14792038--14792071 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14792028 GGCAGCACGG
14792038 TCTA-TTGTGGTTGCAT
1 TCTACTTGTGGTTGCAT
14792054 TCTAGCTTGTGGTTGCAT
1 TCTA-CTTGTGGTTGCAT
14792072 CTGGCTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
18 12 0.75
ACGTcount: A:0.12, C:0.15, G:0.26, T:0.47
Consensus pattern (17 bp):
TCTACTTGTGGTTGCAT
Found at i:14798775 original size:22 final size:23
Alignment explanation
Indices: 14798733--14798776 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
14798723 AATTTGATTT
*
14798733 ACTTTTAGTTGCACTGACAATTA
1 ACTTTTAGTTACACTGACAATTA
*
14798756 ACTTTTA-TTACATTGACAATT
1 ACTTTTAGTTACACTGACAATT
14798777 TTGACTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (23 bp):
ACTTTTAGTTACACTGACAATTA
Found at i:14806978 original size:21 final size:21
Alignment explanation
Indices: 14806952--14806991 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14806942 GGTTAGTTCA
* *
14806952 AAGGACAAGAAGAGGAAGCGC
1 AAGGACAAAAAGAAGAAGCGC
14806973 AAGGACAAAAAGAAGAAGC
1 AAGGACAAAAAGAAGAAGC
14806992 AAAAGGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.12, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGGACAAAAAGAAGAAGCGC
Found at i:14806997 original size:21 final size:21
Alignment explanation
Indices: 14806951--14806998 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
14806941 CGGTTAGTTC
* * *
14806951 AAAGGACAAGAAGAGGAAGCG
1 AAAGGACAAAAAGAAGAAGCA
*
14806972 CAAGGACAAAAAGAAGAAGCA
1 AAAGGACAAAAAGAAGAAGCA
14806993 AAAGGA
1 AAAGGA
14806999 AGAAGGAGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.10, G:0.31, T:0.00
Consensus pattern (21 bp):
AAAGGACAAAAAGAAGAAGCA
Found at i:14807780 original size:16 final size:16
Alignment explanation
Indices: 14807739--14807785 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
14807729 ATGTTGAATG
14807739 AGAAAAAGAAAGGAAAA
1 AGAAAAA-AAAGGAAAA
*
14807756 AG-AAAAAAAGGGAAA
1 AGAAAAAAAAGGAAAA
*
14807771 AGAAAAAAAAAGAAA
1 AGAAAAAAAAGGAAA
14807786 TATTGCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 10 0.38
16 14 0.54
17 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAGGAAAA
Found at i:14807785 original size:15 final size:15
Alignment explanation
Indices: 14807739--14807785 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
14807729 ATGTTGAATG
14807739 AGAAAAAGAAAGGAAAA
1 AGAAAAA-AAAGG-AAA
*
14807756 AGAAAAAAAGGGAAA
1 AGAAAAAAAAGGAAA
*
14807771 AGAAAAAAAAAGAAA
1 AGAAAAAAAAGGAAA
14807786 TATTGCTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 16 0.59
16 4 0.15
17 7 0.26
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAGGAAA
Found at i:14809395 original size:41 final size:41
Alignment explanation
Indices: 14809350--14809432 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
14809340 AGTGTGCAGA
14809350 TCAAATTTAATTGCGCTGACATCTTTACTCAATCTTAGTTT
1 TCAAATTTAATTGCGCTGACATCTTTACTCAATCTTAGTTT
14809391 TCAAATTTAATTGCGCTGACATCTTTACTCAATCTTAGTTT
1 TCAAATTTAATTGCGCTGACATCTTTACTCAATCTTAGTTT
14809432 T
1 T
14809433 AATTGCCTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.45
Consensus pattern (41 bp):
TCAAATTTAATTGCGCTGACATCTTTACTCAATCTTAGTTT
Found at i:14825160 original size:25 final size:25
Alignment explanation
Indices: 14825124--14825175 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
14825114 TTCCAGAATT
14825124 TTAGCTCATACGAGCCCA-AATAGAG
1 TTAGCTCATACGAGCCCAGAA-AGAG
*
14825149 TTAGCTCTTACGAGCCCAGAAAGAG
1 TTAGCTCATACGAGCCCAGAAAGAG
14825174 TT
1 TT
14825176 TAACTAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (25 bp):
TTAGCTCATACGAGCCCAGAAAGAG
Found at i:14826595 original size:85 final size:85
Alignment explanation
Indices: 14826452--14826612 Score: 295
Period size: 85 Copynumber: 1.9 Consensus size: 85
14826442 TCTTTTCCCA
*
14826452 TAATAATCTACCTAAATGATAGAATTTCTTAACCAAAATTTAGTACGATACTAATGACATCATAA
1 TAATAATCCACCTAAATGATAGAATTTCTTAACCAAAATTTAGTACGATACTAATGACATCATAA
14826517 ATATTAAATTATTAATTTCT
66 ATATTAAATTATTAATTTCT
* *
14826537 TAATAATCCATCTAAATGATAGAATTTCTTAACCAAAATTTAGTACGATGCTAATGACATCATAA
1 TAATAATCCACCTAAATGATAGAATTTCTTAACCAAAATTTAGTACGATACTAATGACATCATAA
14826602 ATATTAAATTA
66 ATATTAAATTA
14826613 ATAGCGTTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (85 bp):
TAATAATCCACCTAAATGATAGAATTTCTTAACCAAAATTTAGTACGATACTAATGACATCATAA
ATATTAAATTATTAATTTCT
Found at i:14829478 original size:20 final size:20
Alignment explanation
Indices: 14829448--14829497 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14829438 TTTAGCATGA
*
14829448 GTTATATTAAGTA-TAAATAGG
1 GTTA-ATTAAG-ACTAAAAAGG
*
14829469 TTTAATTAAGACTAAAAAGG
1 GTTAATTAAGACTAAAAAGG
14829489 GTTAATTAA
1 GTTAATTAA
14829498 AGCTTAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (20 bp):
GTTAATTAAGACTAAAAAGG
Found at i:14831328 original size:21 final size:21
Alignment explanation
Indices: 14831301--14831354 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
14831291 AGAGCTTTTA
*
14831301 GTATCGGTAGAAGCATGACTT
1 GTATCGGTAGAAGCATCACTT
* *
14831322 GTTTCGGTAGAAGCTTCACTT
1 GTATCGGTAGAAGCATCACTT
*
14831343 GTATCGATAGAA
1 GTATCGGTAGAA
14831355 CTATCATAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGCATCACTT
Found at i:14833570 original size:705 final size:707
Alignment explanation
Indices: 14832144--14834270 Score: 3965
Period size: 705 Copynumber: 3.0 Consensus size: 707
14832134 GCATAAAATA
*
14832144 AAAGAGAAAATAAAAACAAGATGAGTGAGAGGTAGAGATTCTTATAAACGGCTTTGGGGAGATTA
1 AAAGAGAAAATAAAAGCAAGATGAGTGAGAGGTAGAGATTCTTATAAACGGCTTTGGGGAGATTA
14832209 GGTTGTTTTCGTATGAGTTCTTCAATTGTTGGGTTTTGGAGATTTTCCTCCAATTAACTAGTCAC
66 GGTTGTTTTCGTATGAGTTCTTCAATTGTTGGGTTTTGGAGATTTTCCTCCAATTAACTAGTCAC
* * *
14832274 TACCCCAGTTGGATCTCTCGATCTTTTTCTTGCGTAGTAAGTCGATAGAGACTACTTATCACTAG
131 TACCCCAGTTGGATCTCTCGATCTTTTGCTTGTGTAGTAAGTCGATAAAGACTACTTATCACTAG
* * * *
14832339 ATGTCACAATCTAAATCGGTTTGTGGAAAAGGTGTTCACAGATGGGCAATACCAATTTTGGGTTC
196 ATGTCACAGTCTAAATCAGTTTGGGGAAAAGGTGTTCACGGATGGGCAATACCAATTTTGGGTTC
14832404 ATTCCCACCTAAATGACTATCTAGGGTTGTCAGGCCTAGTGTTTGTTTGATGTTCTTCCTTTCCC
261 ATTCCCACCTAAATGACTATCTAGGGTTGTCAGGCCTAGTGTTTGTTTGATGTTCTTCCTTTCCC
* * * *
14832469 AAATAACTTATTTGAAAGGTAAAATCCCTGTAAAACAATAATTAATTATTCATACGTCCACTCCC
326 AAATAACTGATTCGAAAGGTAAAATCCCTGTAAAACAACAATTAATTATTCATACGTCCACACCC
*
14832534 TAATTCCCCAAAATGGAATTAGTTCCTCAGGATTTCTTTAATCATCATTAAAACAATATATGAAA
391 TAATTCCCCAAAATGGAATTAGTTCCTCATGATTTCTTTAATCATCATTAAAACAATATATGAAA
* *
14832599 ACATATAATTGAAGAAGATAATG-AAAAAGAAACTAGAATTGTATTGGCAATCTATAGGGAAAAA
456 ACATATAATTGAAGAAGAAAATGAAAAAAGAAACTAGAATTGTATTGGCAATCTGTAGGGAAAAA
* *
14832663 TTCCTCGAATGTTTATGCGAGTTCTACAATCTCGTTTCCCAAAAGAAAATATAAACTTAAAACTG
521 TTCCTTGAATGTTTATGCGAGTTCTACAATCTCGTTTCCCAAAAGAAAATACAAACTTAAAACTG
14832728 AAAACTGAAATCTAGTAAATGGTGTGTAAAACCCTAGTGCTAGAGGCCTTATTTATAGCATTGGA
586 AAAACTGAAATCTAGTAAATGGTGTGTAAAACCCTAGTGCTAGAGGCCTTATTTATAGCATTGGA
14832793 CAATCGTTTTCCTCAACCCTAGGTCAGCTGTCGTTCCTCGTGTTTAAGTGGTATTGT
651 CAATCGTTTTCCTCAACCCTAGGTCAGCTGTCGTTCCTCGTGTTTAAGTGGTATTGT
14832850 AAAGAGAAAATAAAAGCAAGATGAGTGAGAGGTAGAGATTCTTATAAACGGCTTTGGGGAGATTA
1 AAAGAGAAAATAAAAGCAAGATGAGTGAGAGGTAGAGATTCTTATAAACGGCTTTGGGGAGATTA
*
14832915 GGTTATTTTCGTATGAGTTCTTCAATTGTTGGGTTTTGGAGATTTTCCTCCAATTAACTAGTCAC
66 GGTTGTTTTCGTATGAGTTCTTCAATTGTTGGGTTTTGGAGATTTTCCTCCAATTAACTAGTCAC
*
14832980 TACCCCAGTTGGATCTCTCAATCTTTTGCTTGTGTAGTAAGTCGATAAAGACTACTTATCACTAG
131 TACCCCAGTTGGATCTCTCGATCTTTTGCTTGTGTAGTAAGTCGATAAAGACTACTTATCACTAG
14833045 ATGTCACAGTCTAAATCAGTTTGGGGAAAAGGTGTTCACGGATGGGCAATACCAATTTTGGGTTC
196 ATGTCACAGTCTAAATCAGTTTGGGGAAAAGGTGTTCACGGATGGGCAATACCAATTTTGGGTTC
*
14833110 ATTCCCACCTAAATGACTATCTAGGGTTGTCAGGCCTAGTGTTTATTTGATGTTCTTCCTTTCCC
261 ATTCCCACCTAAATGACTATCTAGGGTTGTCAGGCCTAGTGTTTGTTTGATGTTCTTCCTTTCCC
14833175 AAATAACTGATTCG-AAGGTAAAATCCCTGTAAAACAACAATTAATTATTCATACGTCCACACCC
326 AAATAACTGATTCGAAAGGTAAAATCCCTGTAAAACAACAATTAATTATTCATACGTCCACACCC
*
14833239 TAATTCCCCAAAATGGAATTAGTTCCTCATGATTTCTTCAATCATCATTAAAACAATATATGAAA
391 TAATTCCCCAAAATGGAATTAGTTCCTCATGATTTCTTTAATCATCATTAAAACAATATATGAAA
14833304 ACATATAATTGAAGAAGAAAATGAAAAAAGAAACTAGAATTGTATTGGCAATCTGTAGGG-AAAA
456 ACATATAATTGAAGAAGAAAATGAAAAAAGAAACTAGAATTGTATTGGCAATCTGTAGGGAAAAA
14833368 TTCCTTGAATGTTTATGCGAGTTCTACAATCTCGTTTCCCAAAAGAAAATACAAACTTAAAACTG
521 TTCCTTGAATGTTTATGCGAGTTCTACAATCTCGTTTCCCAAAAGAAAATACAAACTTAAAACTG
14833433 AAAACTGAAATCTAGTAAATGGTGTGTAAAACCCTAGTGCTAGAGGCCTTATTTATAGCATTGGA
586 AAAACTGAAATCTAGTAAATGGTGTGTAAAACCCTAGTGCTAGAGGCCTTATTTATAGCATTGGA
* *
14833498 CAATCATTTTCCTCAACCCTAGGTCAGCTGTCGTTCCTCATGTTTAAGTGGTATTGT
651 CAATCGTTTTCCTCAACCCTAGGTCAGCTGTCGTTCCTCGTGTTTAAGTGGTATTGT
*
14833555 AAAGAGAAAATAAAAGCAAGATGAGTGAGAGGTAGAGATTTTTATAAACGGCTTTGGGGAGATTA
1 AAAGAGAAAATAAAAGCAAGATGAGTGAGAGGTAGAGATTCTTATAAACGGCTTTGGGGAGATTA
*
14833620 GGTTGTTTTCGTATGAGTTCTTCAATTGTTGGGTTTTGGAGATTTTCCTCCAATTAACTAGACAC
66 GGTTGTTTTCGTATGAGTTCTTCAATTGTTGGGTTTTGGAGATTTTCCTCCAATTAACTAGTCAC
*
14833685 TACCCTAGTTGGATCTCTCGATCTTTTGCTTGTGTAGTAAGTCGATAAAGACTACTTATCACTAG
131 TACCCCAGTTGGATCTCTCGATCTTTTGCTTGTGTAGTAAGTCGATAAAGACTACTTATCACTAG
14833750 ATGTCACAGTCTAAATCAGTTTGGGGAAAAGGTGTTCACGGATGGGCAATACCAATTTTGGGTTC
196 ATGTCACAGTCTAAATCAGTTTGGGGAAAAGGTGTTCACGGATGGGCAATACCAATTTTGGGTTC
14833815 ATTCCCACCTAAATGACTATCTAGGGTTGTCAGGCCTAGTGTTTGTTTGATGTTCTTCCTTTCCC
261 ATTCCCACCTAAATGACTATCTAGGGTTGTCAGGCCTAGTGTTTGTTTGATGTTCTTCCTTTCCC
14833880 AAATAACTGATTCGAAAGGTAAAATCCCTGTAAAACAACAATTAATTATTCATACGTCCACACCC
326 AAATAACTGATTCGAAAGGTAAAATCCCTGTAAAACAACAATTAATTATTCATACGTCCACACCC
14833945 TAATTCCCC-AAATGGAATTAGTTCCTCATGATTTCTTTAATCATCATTAAAACAATATATGAAA
391 TAATTCCCCAAAATGGAATTAGTTCCTCATGATTTCTTTAATCATCATTAAAACAATATATGAAA
14834009 ACATATAATTGAAGAAGAAAATGAAAAAAGAAACTAGAATTGTATTGGCAATCTGTAGGGAAAAA
456 ACATATAATTGAAGAAGAAAATGAAAAAAGAAACTAGAATTGTATTGGCAATCTGTAGGGAAAAA
14834074 TTCCTTGAATGTTTATGCGAGTTCTACAATCTCGTTTCCCAAAAGAAAATACAAACTTAAAACTG
521 TTCCTTGAATGTTTATGCGAGTTCTACAATCTCGTTTCCCAAAAGAAAATACAAACTTAAAACTG
14834139 AAAACTGAAATCTAGTAAATGGTGTGTAAAACCCTAGTGCTAGAGGCCTTATTTATAGCATTGGA
586 AAAACTGAAATCTAGTAAATGGTGTGTAAAACCCTAGTGCTAGAGGCCTTATTTATAGCATTGGA
* *
14834204 GAATCGTTTTCCTCAACCCTAGGTCAACTGTCGTTCCTCGTGTTTAAGTGGTATTGT
651 CAATCGTTTTCCTCAACCCTAGGTCAGCTGTCGTTCCTCGTGTTTAAGTGGTATTGT
*
14834261 AAAGACAAAA
1 AAAGAGAAAA
14834271 ACACCCTTCA
Statistics
Matches: 1383, Mismatches: 35, Indels: 6
0.97 0.02 0.00
Matches are distributed among these distances:
705 767 0.55
706 616 0.45
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (707 bp):
AAAGAGAAAATAAAAGCAAGATGAGTGAGAGGTAGAGATTCTTATAAACGGCTTTGGGGAGATTA
GGTTGTTTTCGTATGAGTTCTTCAATTGTTGGGTTTTGGAGATTTTCCTCCAATTAACTAGTCAC
TACCCCAGTTGGATCTCTCGATCTTTTGCTTGTGTAGTAAGTCGATAAAGACTACTTATCACTAG
ATGTCACAGTCTAAATCAGTTTGGGGAAAAGGTGTTCACGGATGGGCAATACCAATTTTGGGTTC
ATTCCCACCTAAATGACTATCTAGGGTTGTCAGGCCTAGTGTTTGTTTGATGTTCTTCCTTTCCC
AAATAACTGATTCGAAAGGTAAAATCCCTGTAAAACAACAATTAATTATTCATACGTCCACACCC
TAATTCCCCAAAATGGAATTAGTTCCTCATGATTTCTTTAATCATCATTAAAACAATATATGAAA
ACATATAATTGAAGAAGAAAATGAAAAAAGAAACTAGAATTGTATTGGCAATCTGTAGGGAAAAA
TTCCTTGAATGTTTATGCGAGTTCTACAATCTCGTTTCCCAAAAGAAAATACAAACTTAAAACTG
AAAACTGAAATCTAGTAAATGGTGTGTAAAACCCTAGTGCTAGAGGCCTTATTTATAGCATTGGA
CAATCGTTTTCCTCAACCCTAGGTCAGCTGTCGTTCCTCGTGTTTAAGTGGTATTGT
Found at i:14835870 original size:32 final size:32
Alignment explanation
Indices: 14835787--14835875 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 32
14835777 GGGTTCTTGG
* *
14835787 GTTTGGGGA-TTT-G-GTTTTAGGTTTAAAAA
1 GTTTGGGGACTTTCGAGATTTAGGTTTTAAAA
* *
14835816 GTTTGGGTACTTTCGAGTTTTAGGTTTTAAAA
1 GTTTGGGGACTTTCGAGATTTAGGTTTTAAAA
* * * *
14835848 TTTTGGGGATTTTGGGGATTTAGGTTTT
1 GTTTGGGGACTTTCGAGATTTAGGTTTT
14835876 GGGATTTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 8 0.16
30 3 0.06
31 1 0.02
32 37 0.76
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.48
Consensus pattern (32 bp):
GTTTGGGGACTTTCGAGATTTAGGTTTTAAAA
Found at i:14836793 original size:29 final size:28
Alignment explanation
Indices: 14836717--14836813 Score: 115
Period size: 28 Copynumber: 3.4 Consensus size: 28
14836707 ATTGGAAATT
* *
14836717 AAAATTATTTAATAATTTTATTATTTCAAA
1 AAAATAATTTAATAATTTTA-TATTT-TAA
14836747 AAAATAATTTTAATAATTTTATATTTTAA
1 AAAATAA-TTTAATAATTTTATATTTTAA
**
14836776 AAAATAATTTAA-AAAATTATATTTTAGA
1 AAAATAATTTAATAATTTTATATTTTA-A
14836804 AAAATAATTT
1 AAAATAATTT
14836814 TACAATCATT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
27 12 0.20
28 16 0.26
29 9 0.15
30 11 0.18
31 13 0.21
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
AAAATAATTTAATAATTTTATATTTTAA
Found at i:14836813 original size:14 final size:13
Alignment explanation
Indices: 14836745--14836815 Score: 63
Period size: 16 Copynumber: 5.1 Consensus size: 13
14836735 TATTATTTCA
14836745 AAAAAATAATTTT
1 AAAAAATAATTTT
**
14836758 AATAATTTTATATTTT
1 AA-AA-AATA-ATTTT
14836774 AAAAAATAA-TTT
1 AAAAAATAATTTT
14836786 AAAAAATTATATTTT
1 AAAAAA-TA-ATTTT
14836801 AGAAAAATAATTTT
1 A-AAAAATAATTTT
14836815 A
1 A
14836816 CAATCATTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
12 9 0.19
13 5 0.11
14 11 0.23
15 10 0.21
16 12 0.26
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (13 bp):
AAAAAATAATTTT
Found at i:14837384 original size:28 final size:28
Alignment explanation
Indices: 14837342--14837528 Score: 191
Period size: 28 Copynumber: 6.7 Consensus size: 28
14837332 ACTACTTTGT
* * *
14837342 ATTCTGGCTCAGAAAGGGCGATATTCTA
1 ATTCTGGCTCGGAAAGAGCGATATTCTG
* * *
14837370 ATTCTGTCTTGGAAAGAACGATATTCTG
1 ATTCTGGCTCGGAAAGAGCGATATTCTG
14837398 ATTCTGGCTCGGAAAGAGCGATATTCTG
1 ATTCTGGCTCGGAAAGAGCGATATTCTG
* * * *
14837426 ATTCTGACTCGAAAAGAGCAATATTTTG
1 ATTCTGGCTCGGAAAGAGCGATATTCTG
* *
14837454 ATTCTGGCTCAGAAAGAGCGATATTTTG
1 ATTCTGGCTCGGAAAGAGCGATATTCTG
* * *
14837482 TTTCTGGCTC-GAAATGAGCGTTACGT-TG
1 ATTCTGGCTCGGAAA-GAGCGATA-TTCTG
*
14837510 TTTCTGGCTC-GAAAGAGCG
1 ATTCTGGCTCGGAAAGAGCG
14837529 TTGTTTTGTT
Statistics
Matches: 137, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
27 9 0.07
28 127 0.93
29 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (28 bp):
ATTCTGGCTCGGAAAGAGCGATATTCTG
Found at i:14837487 original size:56 final size:56
Alignment explanation
Indices: 14837337--14837528 Score: 215
Period size: 56 Copynumber: 3.4 Consensus size: 56
14837327 TAATAACTAC
* * * * * *
14837337 TTTGTATTCTGGCTCAGAAAGGGCGATATTCTAATTCTGTCTTGGAAAGAACGATAT
1 TTTG-ATTCTGGCTCAGAAAGAGCGATATTCTGATTCTGACTCGAAAAGAGCGATAT
* * *
14837394 TCTGATTCTGGCTCGGAAAGAGCGATATTCTGATTCTGACTCGAAAAGAGCAATAT
1 TTTGATTCTGGCTCAGAAAGAGCGATATTCTGATTCTGACTCGAAAAGAGCGATAT
* * * * * *
14837450 TTTGATTCTGGCTCAGAAAGAGCGATATTTTGTTTCTGGCTCGAAATGAGCGTTAC
1 TTTGATTCTGGCTCAGAAAGAGCGATATTCTGATTCTGACTCGAAAAGAGCGATAT
* *
14837506 GTTGTTTCTGGCTC-GAAAGAGCG
1 TTTGATTCTGGCTCAGAAAGAGCG
14837529 TTGTTTTGTT
Statistics
Matches: 115, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
55 9 0.08
56 103 0.90
57 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (56 bp):
TTTGATTCTGGCTCAGAAAGAGCGATATTCTGATTCTGACTCGAAAAGAGCGATAT
Found at i:14837574 original size:55 final size:54
Alignment explanation
Indices: 14837398--14837582 Score: 185
Period size: 56 Copynumber: 3.3 Consensus size: 54
14837388 CGATATTCTG
* * * *
14837398 ATTCTGGCTCGGAAAGAGCGATATTCTGATTCT-GACTCGAAAAGAGCAATATTTT
1 ATTCTGGCTC-GAAAGAGCGATATTTTGTTTCTAG-CTCGAAAAGAGCATTACTTT
* * *
14837453 GATTCTGGCTCAGAAAGAGCGATATTTTGTTTCTGGCTCGAAATGAGCGTTACGTTGT
1 -ATTCTGGCTC-GAAAGAGCGATATTTTGTTTCTAGCTCGAAAAGAGCATTAC-TT-T
* * * *
14837511 -TTCTGGCTCGAAAGAGCGTTGTTTTGTTTCTAGCTTGAAAGGAGCATTACTTT
1 ATTCTGGCTCGAAAGAGCGATATTTTGTTTCTAGCTCGAAAAGAGCATTACTTT
*
14837564 ATTCTGGGCTCGAATGAGC
1 ATTCT-GGCTCGAAAGAGC
14837583 AATGATCTAT
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
53 1 0.01
54 6 0.05
55 47 0.43
56 52 0.47
57 3 0.03
58 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (54 bp):
ATTCTGGCTCGAAAGAGCGATATTTTGTTTCTAGCTCGAAAAGAGCATTACTTT
Found at i:14842469 original size:25 final size:24
Alignment explanation
Indices: 14842417--14842470 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
14842407 TTTTGTTAGT
*
14842417 TTTTATTTATTTTATTATTTGTTTA
1 TTTTATTAATTTTA-TATTTGTTTA
14842442 TTTTATTAATTTTA-ATTGTGTTTAA
1 TTTTATTAATTTTATATT-TGTTT-A
14842467 TTTT
1 TTTT
14842471 TTCTTTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 5 0.19
25 18 0.69
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTTATTAATTTTATATTTGTTTA
Found at i:14850908 original size:12 final size:12
Alignment explanation
Indices: 14850891--14850916 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14850881 TGTTATCATG
14850891 ATGAATGCTATT
1 ATGAATGCTATT
14850903 ATGAATGCTATT
1 ATGAATGCTATT
14850915 AT
1 AT
14850917 TTCTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:14852377 original size:15 final size:15
Alignment explanation
Indices: 14852343--14852383 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
14852333 TGTGTTGAAC
*
14852343 AATTTTTAAGACTTT
1 AATTTTTGAGACTTT
14852358 AATTTTTGAGACTTGT
1 AATTTTTGAGACTT-T
14852374 -ATTTTTGAGA
1 AATTTTTGAGA
14852384 TAATTTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (15 bp):
AATTTTTGAGACTTT
Found at i:14854496 original size:20 final size:20
Alignment explanation
Indices: 14854473--14854511 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14854463 ATTTTTGTTT
14854473 TCACAATTATTCTTTTTATC
1 TCACAATTATTCTTTTTATC
** *
14854493 TCACCTTTATTTTTTTTAT
1 TCACAATTATTCTTTTTAT
14854512 TAATTTGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.62
Consensus pattern (20 bp):
TCACAATTATTCTTTTTATC
Found at i:14863034 original size:17 final size:17
Alignment explanation
Indices: 14863002--14863035 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14862992 CCTTAGTCAC
*
14863002 ATAAAAAAGTGAGAAAA
1 ATAAAAAAGGGAGAAAA
*
14863019 ATAAAAAAGGGGGAAAA
1 ATAAAAAAGGGAGAAAA
14863036 GAAGAAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.09
Consensus pattern (17 bp):
ATAAAAAAGGGAGAAAA
Found at i:14864360 original size:134 final size:134
Alignment explanation
Indices: 14864176--14864446 Score: 533
Period size: 134 Copynumber: 2.0 Consensus size: 134
14864166 TTAACAAGCT
14864176 AGACAAAGGAAGTTACTTGGGGATTGAAGGAATTTAATCCACTTGTTCTTGAATATGTTGCATTG
1 AGACAAAGGAAGTTACTTGGGGATTGAAGGAATTTAATCCACTTGTTCTTGAATATGTTGCATTG
14864241 CCAACATTGGAAGGTGTGGTTAGTGTGAATATTTGAGTCTTAGATATAACAGGAAAGTTAAGTTT
66 CCAACATTGGAAGGTGTGGTTAGTGTGAATATTTGAGTCTTAGATATAACAGGAAAGTTAAGTTT
14864306 GGTA
131 GGTA
*
14864310 AGACAAAGGAAGTTGCTTGGGGATTGAAGGAATTTAATCCACTTGTTCTTGAATATGTTGCATTG
1 AGACAAAGGAAGTTACTTGGGGATTGAAGGAATTTAATCCACTTGTTCTTGAATATGTTGCATTG
14864375 CCAACATTGGAAGGTGTGGTTAGTGTGAATATTTGAGTCTTAGATATAACAGGAAAGTTAAGTTT
66 CCAACATTGGAAGGTGTGGTTAGTGTGAATATTTGAGTCTTAGATATAACAGGAAAGTTAAGTTT
14864440 GGTA
131 GGTA
14864444 AGA
1 AGA
14864447 TTTTCAATGT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 136 1.00
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (134 bp):
AGACAAAGGAAGTTACTTGGGGATTGAAGGAATTTAATCCACTTGTTCTTGAATATGTTGCATTG
CCAACATTGGAAGGTGTGGTTAGTGTGAATATTTGAGTCTTAGATATAACAGGAAAGTTAAGTTT
GGTA
Found at i:14865015 original size:26 final size:28
Alignment explanation
Indices: 14864986--14865041 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
14864976 CAAAAAGTAA
14864986 AGAAAAATGAGT-AG-AAACATAAGAAG
1 AGAAAAATGAGTAAGAAAACATAAGAAG
** *
14865012 AGAATCATGAGTAAGAAAACATATGAAG
1 AGAAAAATGAGTAAGAAAACATAAGAAG
14865040 AG
1 AG
14865042 TGACAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.40
27 2 0.08
28 13 0.52
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.14
Consensus pattern (28 bp):
AGAAAAATGAGTAAGAAAACATAAGAAG
Found at i:14865646 original size:17 final size:16
Alignment explanation
Indices: 14865624--14865666 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
14865614 CAAGCCCTTC
14865624 TGTTTTGTTTCTTTCAT
1 TGTTTTGTTTCTTTC-T
*
14865641 TGTTTTATTTCTTTCT
1 TGTTTTGTTTCTTTCT
*
14865657 TATTTTGTTT
1 TGTTTTGTTT
14865667 GCTTGAGGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.74
Consensus pattern (16 bp):
TGTTTTGTTTCTTTCT
Found at i:14895894 original size:6 final size:6
Alignment explanation
Indices: 14895868--14895913 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
14895858 TCAGGCACTT
*
14895868 GAAAAA CAAAAA -AAAAGA GAAAAA GAAGAAA GAAAAA GAAAAA GAA
1 GAAAAA GAAAAA GAAAA-A GAAAAA GAA-AAA GAAAAA GAAAAA GAA
14895914 TAAATTGCTG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
5 4 0.11
6 22 0.61
7 10 0.28
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:14895907 original size:19 final size:18
Alignment explanation
Indices: 14895868--14895913 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
14895858 TCAGGCACTT
*
14895868 GAAAAACAAAAAAAAAGA
1 GAAAAAGAAAAAAAAAGA
14895886 GAAAAAGAAGAAAGAAAA-A
1 GAAAAAGAA-AAA-AAAAGA
14895905 GAAAAAGAA
1 GAAAAAGAA
14895914 TAAATTGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 13 0.52
20 4 0.16
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (18 bp):
GAAAAAGAAAAAAAAAGA
Found at i:14898714 original size:252 final size:254
Alignment explanation
Indices: 14898252--14898727 Score: 627
Period size: 252 Copynumber: 1.9 Consensus size: 254
14898242 TTTATTAAGT
* * * * *
14898252 TAGGTATTGGCTATGACATTTATTGATATAACAGCTACTCATCGTGCCTTTTGAGCGATGATGGG
1 TAGGTATTGGCTATGACATTTATTGATATAACAGCCACTCAGCATGCCTCTTAAGCGATGATGGG
* *
14898317 GCAAACCTTAGTAAGGATGCTGAGTCCCTAAGAGGGGAGAATGTAACACCCTAGGCAAATCCAAC
66 GCAAACCTCAGCAAGGATGCTGAGTCCCTAAGAGGGGAGAATGTAACACCCTAGGCAAATCCAAC
* ** * * * *
14898382 GTCGGCAAAGCATGAGAGAGACCTGATTTATATAATAGGGTAGCAACACCTAATTGGTAAGATAC
131 ATCAACAAAGCATGAGAGAAACCTGATCTATATAATAGGGTAGAAACACCTAAGTGGTAAGATAC
14898447 CTTTTAGGGTGTATGGGCACTCCCAAGAACAAAGTTGTGAGGGCCATGTATTACCGGGC
196 CTTTTAGGGTGTATGGGCACTCCCAAGAACAAAGTTGTGAGGGCCATGTATTACCGGGC
* * * *
14898506 TAGGTGTTGGCTATGATATTTATTGGTGTCAA-AGCCACTC-GCATGCCTCTTAAGCGATGATGG
1 TAGGTATTGGCTATGACATTTATTGATAT-AACAGCCACTCAGCATGCCTCTTAAGCGATGATGG
* * * * * *
14898569 GGCAAACCTCAGCGAGGATGCTGAGTCCTTAAG-GGGGTGAATGTGACATCCTAGGCAAATCCCA
65 GGCAAACCTCAGCAAGGATGCTGAGTCCCTAAGAGGGGAGAATGTAACACCCTAGGCAAATCCAA
* * * * *
14898633 CATTAACAAAGCATGAGAGAAACCTGGTCTATATAATGGGGTAGAAACACTTAAGTGGTAAGATG
130 CATCAACAAAGCATGAGAGAAACCTGATCTATATAATAGGGTAGAAACACCTAAGTGGTAAGATA
**
14898698 CCTTTT-GGGATGTATGGGTGCTCCCAAGAA
195 CCTTTTAGGG-TGTATGGGCACTCCCAAGAA
14898728 TAGATTCATG
Statistics
Matches: 189, Mismatches: 31, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
251 3 0.02
252 104 0.55
253 48 0.25
254 32 0.17
255 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (254 bp):
TAGGTATTGGCTATGACATTTATTGATATAACAGCCACTCAGCATGCCTCTTAAGCGATGATGGG
GCAAACCTCAGCAAGGATGCTGAGTCCCTAAGAGGGGAGAATGTAACACCCTAGGCAAATCCAAC
ATCAACAAAGCATGAGAGAAACCTGATCTATATAATAGGGTAGAAACACCTAAGTGGTAAGATAC
CTTTTAGGGTGTATGGGCACTCCCAAGAACAAAGTTGTGAGGGCCATGTATTACCGGGC
Found at i:14899609 original size:19 final size:19
Alignment explanation
Indices: 14899587--14899667 Score: 78
Period size: 19 Copynumber: 4.3 Consensus size: 19
14899577 AAGATCCACA
*
14899587 TTGTGTGCCAGTATGCTCT
1 TTGTGTGCTAGTATGCTCT
*
14899606 TTGTGTGCTAGGT-TGCACT
1 TTGTGTGCTA-GTATGCTCT
14899625 TTGTGTGCTAAG-ATGCAT-T
1 TTGTGTGCT-AGTATGC-TCT
* *
14899644 TCGTGTGCTAGTATGCGCT
1 TTGTGTGCTAGTATGCTCT
14899663 TTGTG
1 TTGTG
14899668 CGAAAGTGAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
18 2 0.04
19 45 0.90
20 3 0.06
ACGTcount: A:0.12, C:0.16, G:0.30, T:0.42
Consensus pattern (19 bp):
TTGTGTGCTAGTATGCTCT
Found at i:14916663 original size:16 final size:16
Alignment explanation
Indices: 14916639--14916669 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14916629 TAGTTGCATA
*
14916639 CATTTCATTTAGTTTT
1 CATTACATTTAGTTTT
14916655 CATTACATTTAGTTT
1 CATTACATTTAGTTT
14916670 GTCTCTGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.58
Consensus pattern (16 bp):
CATTACATTTAGTTTT
Found at i:14923679 original size:17 final size:18
Alignment explanation
Indices: 14923647--14923680 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14923637 CACTAACATT
*
14923647 AAAATGCAATGACAATAG
1 AAAATGCAAAGACAATAG
14923665 AAAAT-CAAAGACAATA
1 AAAATGCAAAGACAATA
14923681 TGCACTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.15
Consensus pattern (18 bp):
AAAATGCAAAGACAATAG
Found at i:14927214 original size:40 final size:40
Alignment explanation
Indices: 14927170--14927283 Score: 201
Period size: 40 Copynumber: 2.9 Consensus size: 40
14927160 TTCCAGCAAG
14927170 TGGTCAATGAAAGGAAGTGGGAAGTGGTCCTTCCAACCTT
1 TGGTCAATGAAAGGAAGTGGGAAGTGGTCCTTCCAACCTT
*
14927210 TGGTCAATGAAAGGAAGTGGGAAGTGGTCCTTTCAACCTT
1 TGGTCAATGAAAGGAAGTGGGAAGTGGTCCTTCCAACCTT
**
14927250 TGGTCAATGAAAGGAAGTGATAAGTGGTCCTTCC
1 TGGTCAATGAAAGGAAGTGGGAAGTGGTCCTTCC
14927284 TTGTGGCAGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (40 bp):
TGGTCAATGAAAGGAAGTGGGAAGTGGTCCTTCCAACCTT
Done.