Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
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: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 37
Found at i:6244659 original size:19 final size:19
Alignment explanation
Indices: 6244635--6244679 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
6244625 GGTGTGGCAT
6244635 GCCATGTTAGCAATAGTTA
1 GCCATGTTAGCAATAGTTA
6244654 GCCATGTTAGCAATAGTTA
1 GCCATGTTAGCAATAGTTA
6244673 GCCATGT
1 GCCATGT
6244680 CATCGTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (19 bp):
GCCATGTTAGCAATAGTTA
Found at i:6244664 original size:9 final size:9
Alignment explanation
Indices: 6244635--6244679 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
6244625 GGTGTGGCAT
6244635 GCCATGTTA
1 GCCATGTTA
*
6244644 GCAATAGTTA
1 GCCAT-GTTA
6244654 GCCATGTTA
1 GCCATGTTA
*
6244663 GCAATAGTTA
1 GCCAT-GTTA
6244673 GCCATGT
1 GCCATGT
6244680 CATCGTTCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (9 bp):
GCCATGTTA
Found at i:6245205 original size:14 final size:14
Alignment explanation
Indices: 6245183--6245271 Score: 59
Period size: 14 Copynumber: 6.9 Consensus size: 14
6245173 TCGATAATAT
*
6245183 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
6245197 GTTCATTTATG-T-
1 GTTCATTTATGTTC
* *
6245209 -TT-GTTTGTGTTC
1 GTTCATTTATGTTC
6245221 GTTCATTTATGTTC
1 GTTCATTTATGTTC
***
6245235 GTTTGCTTATGTTC
1 GTTCATTTATGTTC
*
6245249 G----TTTATGTGC
1 GTTCATTTATGTTC
6245259 GTTCATTTATGTT
1 GTTCATTTATGTT
6245272 TAACCTAATC
Statistics
Matches: 56, Mismatches: 11, Indels: 16
0.67 0.13 0.19
Matches are distributed among these distances:
10 13 0.23
11 3 0.05
13 3 0.05
14 37 0.66
ACGTcount: A:0.10, C:0.11, G:0.20, T:0.58
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:6245214 original size:24 final size:24
Alignment explanation
Indices: 6245146--6245238 Score: 100
Period size: 24 Copynumber: 4.0 Consensus size: 24
6245136 ACAGAGGGCT
* **
6245146 TGTTCGTTCATTTACGTTCGTGAA
1 TGTTCGTTCATTTATGTTCGTTTA
* * *
6245170 CGTTCGAT-A-ATATGTTCGTTTA
1 TGTTCGTTCATTTATGTTCGTTTA
* *
6245192 TGTTCGTTCATTTATGTTTGTTTG
1 TGTTCGTTCATTTATGTTCGTTTA
6245216 TGTTCGTTCATTTATGTTCGTTT
1 TGTTCGTTCATTTATGTTCGTTT
6245239 GCTTATGTTC
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
22 15 0.27
23 2 0.04
24 38 0.69
ACGTcount: A:0.14, C:0.13, G:0.19, T:0.54
Consensus pattern (24 bp):
TGTTCGTTCATTTATGTTCGTTTA
Found at i:6245233 original size:38 final size:38
Alignment explanation
Indices: 6245183--6245271 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
6245173 TCGATAATAT
* * * * *
6245183 GTTCGTTTATGTTCGTTCATTTATGTTTGTTTGTGTTC
1 GTTCATTTATGTTCGTTCACTTATGTTCGTTTATGTGC
**
6245221 GTTCATTTATGTTCGTTTGCTTATGTTCGTTTATGTGC
1 GTTCATTTATGTTCGTTCACTTATGTTCGTTTATGTGC
6245259 GTTCATTTATGTT
1 GTTCATTTATGTT
6245272 TAACCTAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.10, C:0.11, G:0.20, T:0.58
Consensus pattern (38 bp):
GTTCATTTATGTTCGTTCACTTATGTTCGTTTATGTGC
Found at i:6245248 original size:24 final size:24
Alignment explanation
Indices: 6245180--6245239 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
6245170 CGTTCGATAA
*
6245180 TATGTTCGTTTATGTTCGTTCATT
1 TATGTTCGTTTGTGTTCGTTCATT
*
6245204 TATGTTTGTTTGTGTTCGTTCATT
1 TATGTTCGTTTGTGTTCGTTCATT
6245228 TATGTTCGTTTG
1 TATGTTCGTTTG
6245240 CTTATGTTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.60
Consensus pattern (24 bp):
TATGTTCGTTTGTGTTCGTTCATT
Found at i:6245491 original size:23 final size:23
Alignment explanation
Indices: 6245460--6245539 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
6245450 GTTCGTCTAC
* *
6245460 GTTCATTTATATTCATTTATTGT
1 GTTCGTTTATATTCGTTTATTGT
* *
6245483 GTTTGTTTACATTCGTTTATTGT
1 GTTCGTTTATATTCGTTTATTGT
* *
6245506 GTTCGTTTATGTTCGTTCATTTGT
1 GTTCGTTTATATTCGTTTA-TTGT
6245530 GTTCGTTTAT
1 GTTCGTTTAT
6245540 CATTTAAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 34 0.71
24 14 0.29
ACGTcount: A:0.14, C:0.10, G:0.16, T:0.60
Consensus pattern (23 bp):
GTTCGTTTATATTCGTTTATTGT
Found at i:6246618 original size:22 final size:22
Alignment explanation
Indices: 6246593--6246824 Score: 322
Period size: 22 Copynumber: 10.6 Consensus size: 22
6246583 ATAATAAATT
6246593 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
6246615 TTTTAAAATAAATCAATATATA
1 TTTTAAAATAAATCAATCCATA
6246637 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
6246659 TTTTAAAATAATTTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
6246681 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*** *
6246703 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
6246725 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* **
6246747 ATTTAAAATAAAT-TTTCCATA
1 TTTTAAAATAAATCAATCCATA
*
6246768 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
6246790 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
6246812 TTTTAAAATAAAT
1 TTTTAAAATAAAT
6246825 TTTAAAAGAG
Statistics
Matches: 179, Mismatches: 30, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
21 18 0.10
22 161 0.90
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:6246685 original size:88 final size:87
Alignment explanation
Indices: 6246593--6246824 Score: 358
Period size: 88 Copynumber: 2.7 Consensus size: 87
6246583 ATAATAAATT
6246593 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATATTTTAAAATAAATCAATCCAT
* * *
6246658 ATTTTAAAATAATTTTTTTCATA
66 AATTTAAAATAA-ATTTTCCATA
** *
6246681 TTTTAAAATAAATCAATCCATATTTTAAAATAAAT-TTTTTCATATTTTAAAATAAATCAATCCA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATAT-ATATTTTAAAATAAATCAATCCA
6246745 TAATTTAAAATAAATTTTCCATA
65 TAATTTAAAATAAATTTTCCATA
* **
6246768 TTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATATTTTAAAATAAAT
6246825 TTTAAAAGAG
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
87 60 0.46
88 71 0.54
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (87 bp):
TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATATTTTAAAATAAATCAATCCAT
AATTTAAAATAAATTTTCCATA
Found at i:6247107 original size:21 final size:21
Alignment explanation
Indices: 6247083--6247133 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
6247073 TCGAAGTTCG
6247083 CGTTGCGATTTATTACAAATT
1 CGTTGCGATTTATTACAAATT
*
6247104 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTACAAATT
6247125 CGTTGCGAT
1 CGTTGCGAT
6247134 AGTCCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (21 bp):
CGTTGCGATTTATTACAAATT
Found at i:6247141 original size:19 final size:20
Alignment explanation
Indices: 6247083--6247141 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
6247073 TCGAAGTTCG
* *
6247083 CGTTGCGATTTATTACAAATT
1 CGTTGCGA-TTAGTCCAAATT
*
6247104 CGTTGCGATTTATTCCAAATT
1 CGTTGCGA-TTAGTCCAAATT
6247125 CGTTGCGA-TAGTCCAAA
1 CGTTGCGATTAGTCCAAA
6247142 ATCGCAACGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.22
21 28 0.78
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTAGTCCAAATT
Found at i:6248066 original size:42 final size:40
Alignment explanation
Indices: 6248005--6248332 Score: 223
Period size: 42 Copynumber: 7.8 Consensus size: 40
6247995 TGCGATTTTG
* *
6248005 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGAAACGAACTTGGACT--ATCGCAACGCGAACTTC
* *
6248047 GTCTATCGAAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGAAACGAACTTGGACT--ATCGCAACGCGAACTTC
* * * *
6248089 GACTATCGCAACGCGAACTTCGACTATCGCAA--CGAATTTG
1 GACTATCG-AA-ACGAACTTGGACTATCGCAACGCGAACTTC
* * * *
6248129 GAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTG
1 GACT--ATCG-AA-ACGAACTTGGACTATCGCAACGCGAACTTC
* * * * *
6248171 GAATAAATCGTAACGCGAACTTCGACTATCGCAACACGAACTTG
1 GACT--ATCG-AA-ACGAACTTGGACTATCGCAACGCGAACTTC
* * *
6248215 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGAAACGAACTTGGACT--ATCGCAACGCGAACTTC
* * *
6248257 GACTATCGCAACGAACTTGGACTATCGCAACGCGAATTTG
1 GACTATCGAAACGAACTTGGACTATCGCAACGCGAACTTC
* *
6248297 GAATAAATCGCAACGCGAACTTGGACTATCGCAACG
1 GACT--ATCG-AA-ACGAACTTGGACTATCGCAACG
6248333 AATTTGGAAA
Statistics
Matches: 248, Mismatches: 26, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
40 36 0.15
41 1 0.00
42 166 0.67
43 3 0.01
44 42 0.17
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (40 bp):
GACTATCGAAACGAACTTGGACTATCGCAACGCGAACTTC
Found at i:6248146 original size:105 final size:105
Alignment explanation
Indices: 6248002--6248348 Score: 558
Period size: 105 Copynumber: 3.3 Consensus size: 105
6247992 CGTTGCGATT
* * *
6248002 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGTCTATCGAAACGAACTTGG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
6248067 AATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAAC
66 AATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAAC
*
6248107 TTCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
* *
6248172 AATAAATCGTAACGCGAACTTCGACTATCGCAACACGAAC
66 AATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAAC
6248212 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
* * * *
6248277 ACT--ATCGCAACGCGAATTTGGAATAAATCGCAACGCGAAC
66 AATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAAC
6248317 TTGGACTATCGCAACGAATTTGG-A-AAATCGCA
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCA
6248349 TTGCGATAGT
Statistics
Matches: 227, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
103 25 0.11
104 1 0.00
105 201 0.89
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (105 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
AATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAAC
Found at i:6248333 original size:63 final size:63
Alignment explanation
Indices: 6248002--6248340 Score: 324
Period size: 63 Copynumber: 5.4 Consensus size: 63
6247992 CGTTGCGATT
* * ** *
6248002 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCG--TCTATCG-AA-ACGAAC
1 TTGGACTATCGCAACGAACTTGGACT--ATCGCAACGCGAACTTGGAATAAATCGCAACGCGAAC
* * * *
6248063 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTCGACT--ATCGCAA--CGA
1 TTGGACT--ATCGCAA--CGAACTTGGACTATCGCAACGCGAACTTGGAATAAATCGCAACGCGA
*
6248124 AT
62 AC
* * *
6248126 TTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGAATAAATCGTAACGCGA
1 TTGGACT--ATCGCAA--CGAACTTGGACTATCGCAACGCGAACTTGGAATAAATCGCAACGCGA
6248189 AC
62 AC
* *
6248191 TTCGACTATCGCAACACGAACTTGGACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGC-A-ACGAACTTGGACTATCGCAACGCGAACTTGGAATAAATCGCAACGCGAAC
* *
6248254 TTCGACTATCGCAACGAACTTGGACTATCGCAACGCGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGACTATCGCAACGCGAACTTGGAATAAATCGCAACGCGAAC
*
6248317 TTGGACTATCGCAACGAATTTGGA
1 TTGGACTATCGCAACGAACTTGGA
6248341 AAATCGCATT
Statistics
Matches: 248, Mismatches: 15, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
61 36 0.15
62 1 0.00
63 187 0.75
64 3 0.01
65 21 0.08
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (63 bp):
TTGGACTATCGCAACGAACTTGGACTATCGCAACGCGAACTTGGAATAAATCGCAACGCGAAC
Found at i:6248335 original size:42 final size:42
Alignment explanation
Indices: 6248093--6248348 Score: 262
Period size: 42 Copynumber: 6.1 Consensus size: 42
6248083 AACTTCGACT
*
6248093 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
6248135 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
* *
6248177 ATCGTAACGCGAACTTCGACTATCGCAACACGAACTTGGACT--
1 ATCGCAACGCGAACTTCGACTATCGC-A-ACGAACTTGGAATAA
* * * * *
6248219 ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTCGACT--
1 ATCGCAACGCGAACTTCGACT--ATCGCAA--CGAACTTGGAATAA
* *
6248261 ATCGCAA--CGAACTTGGACTATCGCAACGCGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGAATAA
* *
6248303 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGG-A-AA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
6248343 ATCGCA
1 ATCGCA
6248349 TTGCGATAGT
Statistics
Matches: 191, Mismatches: 13, Indels: 22
0.85 0.06 0.10
Matches are distributed among these distances:
40 36 0.19
41 2 0.01
42 121 0.63
43 1 0.01
44 31 0.16
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (42 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
Found at i:6248972 original size:28 final size:27
Alignment explanation
Indices: 6248920--6248973 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
6248910 TTTAAATTTA
* *
6248920 AAATTTATAAAAGAAATATTGAAAAAC
1 AAATTTATAAAAAAAATATTAAAAAAC
6248947 AAATATTATAAAAAAAAGT-TTAAAAAA
1 AAAT-TTATAAAAAAAA-TATTAAAAAA
6248974 AGTTGTAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 18 0.78
29 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (27 bp):
AAATTTATAAAAAAAATATTAAAAAAC
Found at i:6254864 original size:32 final size:30
Alignment explanation
Indices: 6254823--6254903 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 30
6254813 TGTCTTTCGA
*
6254823 GACATATGGACAGTATACCTATGTTCTAAGG
1 GACATATGGACAGT-TACCTAGGTTCTAAGG
* **
6254854 GAACATATGGATAGTTTACCTAGGTTCTTCGG
1 G-ACATATGGACAG-TTACCTAGGTTCTAAGG
*
6254886 GACCTATGGACAGTTACC
1 GACATATGGACAGTTACC
6254904 GAGGATCTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
30 5 0.12
31 11 0.26
32 25 0.60
33 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (30 bp):
GACATATGGACAGTTACCTAGGTTCTAAGG
Found at i:6254956 original size:30 final size:30
Alignment explanation
Indices: 6254886--6254957 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
6254876 GGTTCTTCGG
* *
6254886 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
6254916 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
6254946 GACCTCTGGATA
1 GACCTCTGGATA
6254958 AGTCCTTCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:6261833 original size:41 final size:41
Alignment explanation
Indices: 6261778--6262139 Score: 417
Period size: 41 Copynumber: 8.8 Consensus size: 41
6261768 CAAAATATTA
* * *
6261778 TACTTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGAATCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
* * * *
6261819 TAATGTAGTGGCGTTTTTATACAAACACCGCTATA-AACTAG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAA-TCG
* * *
6261860 TATTTTAGTGTCATTTTTATACAAACGCCGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * * *
6261901 TACTTTTGTGGTGTTTTAATACCAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGAATCG
* *
6261943 TACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* *
6261984 TACTTTAGTGGCGTTTTTACAGAAACGCCGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * * *
6262025 TACTTTTGTGGCATTTTAATACCAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGAATCG
*
6262067 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
*
6262108 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGC
6262140 AATTGTCATA
Statistics
Matches: 274, Mismatches: 38, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 191 0.70
42 80 0.29
43 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
Found at i:6261944 original size:124 final size:124
Alignment explanation
Indices: 6261800--6262139 Score: 502
Period size: 124 Copynumber: 2.7 Consensus size: 124
6261790 GTTTGTATAA
* * * * * * *
6261800 AAACGCCGCTAAAGAATCGTAATGTAGTGGCGTTTTTATACAAACACCGCTATAAACTAGTATTT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTAGTACTT
* * **
6261865 TAGTGTCATTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGTGTTTTAATACC
66 TAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACC
* *
6261924 AAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGAC-ACGTACT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTA-GTACT
* *
6261988 TTAGTGGCGTTTTTACAGAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACC
65 TTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACC
*
6262048 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTACTT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTAGTACTT
*
6262113 TAGTGGCGTTTTAATACCAAACGCCGC
66 TAGTGGCGTTTTTATA-CAAACGCCGC
6262140 AATTGTCATA
Statistics
Matches: 192, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
123 1 0.01
124 182 0.95
125 9 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (124 bp):
AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTAGTACTT
TAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACC
Found at i:6261951 original size:83 final size:82
Alignment explanation
Indices: 6261778--6262139 Score: 474
Period size: 83 Copynumber: 4.4 Consensus size: 82
6261768 CAAAATATTA
* * * * * *
6261778 TACTTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGA-ATCGTAATGTAGTGGCGTTTTTATACA
1 TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACA-CGTACTTTAGTGGCGTTTTTATACA
* * *
6261842 AACACCGCTATAAACTAG
65 AACGCCGCTATAGACTCG
* * * * *
6261860 TATTTTAGTGTCATTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGTGTTTTAATACCA
1 TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTTATA-CA
6261925 AACGCCGCTATAGACTCG
65 AACGCCGCTATAGACTCG
* * *
6261943 TACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTTACAGAA
1 TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTTATACAA
*
6262008 ACGCCGCTATAGACACG
66 ACGCCGCTATAGACTCG
* * *
6262025 TACTTTTGTGGCATTTTAATACCAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACA
1 TACTTTAGTGGCATTTTTATA-CAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTTATACA
6262090 AACGCCGCTATAGACTCG
65 AACGCCGCTATAGACTCG
* *
6262108 TACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 TACTTTAGTGGCATTTTTATA-CAAACGCCGC
6262140 AATTGTCATA
Statistics
Matches: 245, Mismatches: 32, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
82 85 0.35
83 160 0.65
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (82 bp):
TACTTTAGTGGCATTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTTATACAA
ACGCCGCTATAGACTCG
Found at i:6265886 original size:129 final size:128
Alignment explanation
Indices: 6265651--6265892 Score: 310
Period size: 128 Copynumber: 1.9 Consensus size: 128
6265641 TTGTATCCAA
* * * * * * * *
6265651 AAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTTTGTTCAAAAACGCCGTTATAGGTCTGACC
1 AAACGCCGCTATAGATCTAACTTTTTACGGCGTTTATGTCCAAAAACGCCGCTATAGATATGACC
* *
6265716 TTTTGCGGAGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTATTGCGGCGTTTTTTCTAG
66 TTTTGCGGAGTTTGTATCAAAAAACGCCGCTATAAATCTGACCTATTGCGGCGTTTTTTCTAG
* *
6265779 AAACGCCGCTATATATCATAACTTTTTACGGCGTTTAT-TCCAAAAACGCTGCTATAGATATCGA
1 AAACGCCGCTATAGATC-TAACTTTTTACGGCGTTTATGTCCAAAAACGCCGCTATAGATAT-GA
*
6265843 CCTTTTGCGGCGTTTGT-TCAAAAAACGCCG-TAATAAATACTGACCTATTG
64 CCTTTTGCGGAGTTTGTATCAAAAAACGCCGCT-ATAAAT-CTGACCTATTG
6265893 TGACGTATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
127 1 0.01
128 50 0.52
129 46 0.47
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (128 bp):
AAACGCCGCTATAGATCTAACTTTTTACGGCGTTTATGTCCAAAAACGCCGCTATAGATATGACC
TTTTGCGGAGTTTGTATCAAAAAACGCCGCTATAAATCTGACCTATTGCGGCGTTTTTTCTAG
Found at i:6265888 original size:43 final size:42
Alignment explanation
Indices: 6265634--6265872 Score: 264
Period size: 43 Copynumber: 5.6 Consensus size: 42
6265624 AAGGTAATTA
* *
6265634 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* *
6265677 GCGGCGTTTTTGTT-CAAAAACGCCGTTATAGGTCTGACCTTTT
1 GCGGCG--TTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
* *
6265720 GCGGAGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTATT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * * * *
6265763 GCGGCGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTT
* * * *
6265806 ACGGCGTTTATTCCAAAAACGCTGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
*
6265849 GCGGCGTTTGTTCAAAAAACGCCG
1 GCGGCGTTTGTTCCAAAAACGCCG
6265873 TAATAAATAC
Statistics
Matches: 163, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.03
42 21 0.13
43 131 0.80
44 1 0.01
45 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:6267066 original size:15 final size:15
Alignment explanation
Indices: 6267025--6267078 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
6267015 TTGAGACCTT
6267025 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
* *
6267040 GCACCGCACCGCATCC
1 AC-CCGCCCCGCATCC
6267056 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
*
6267071 GCCCGCCC
1 ACCCGCCC
6267079 AACTAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
15 20 0.61
16 13 0.39
ACGTcount: A:0.13, C:0.65, G:0.17, T:0.06
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:6268406 original size:15 final size:15
Alignment explanation
Indices: 6268366--6268433 Score: 109
Period size: 15 Copynumber: 4.5 Consensus size: 15
6268356 TGAGACCTTA
6268366 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
* *
6268381 CACCGCACCGCATCCA
1 C-CCGCCCCGCATCCG
6268397 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
6268412 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
6268427 CCCGCCC
1 CCCGCCC
6268434 AACTAAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
15 35 0.73
16 13 0.27
ACGTcount: A:0.10, C:0.66, G:0.18, T:0.06
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:6270085 original size:43 final size:42
Alignment explanation
Indices: 6270003--6270086 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
6269993 TTCAAGAAGG
* **
6270003 GTTGTAATATATTAATTTGGTTATTTGTGGATTGTTACTTTA
1 GTTGTAATATATTAATTTGGTTATTTATGGATTACTACTTTA
*
6270045 GTTGTAATATATTAGTTTGGTGTATTTATGGATTACTACTTT
1 GTTGTAATATATTAATTTGGT-TATTTATGGATTACTACTTT
6270087 CAAGTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 20 0.54
43 17 0.46
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.54
Consensus pattern (42 bp):
GTTGTAATATATTAATTTGGTTATTTATGGATTACTACTTTA
Found at i:6271097 original size:10 final size:11
Alignment explanation
Indices: 6271074--6271103 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6271064 CGTTCACATA
6271074 TTTTATAAATT
1 TTTTATAAATT
6271085 TTTTATAAATT
1 TTTTATAAATT
*
6271096 TTTGATAA
1 TTTTATAA
6271104 TATTGAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
TTTTATAAATT
Found at i:6274012 original size:3 final size:3
Alignment explanation
Indices: 6274004--6274051 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
6273994 AATGACGATG
*
6274004 ATA ATA ATA ATA ATA ATA ACTGA A-A AAA ATA GATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA -ATA ATA ATA ATA ATA
6274051 A
1 A
6274052 CCTTCCTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 4 0.10
5 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:6276111 original size:2 final size:2
Alignment explanation
Indices: 6276104--6276155 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
6276094 CCATTGAGAA
6276104 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6276146 AT AT AT AT AT
1 AT AT AT AT AT
6276156 GAGAGAGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6276898 original size:22 final size:22
Alignment explanation
Indices: 6276873--6276925 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
6276863 ATACTCTTAT
*
6276873 TAATATTTTAGCAACTATTTTA
1 TAATATTTTAACAACTATTTTA
* * *
6276895 TAATAATTTAATAATTATTTTA
1 TAATATTTTAACAACTATTTTA
6276917 TAAT-TTTTA
1 TAATATTTTA
6276926 TAAGTTTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (22 bp):
TAATATTTTAACAACTATTTTA
Found at i:6286397 original size:33 final size:33
Alignment explanation
Indices: 6286358--6286426 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
6286348 CTAATGTGGT
6286358 TTAACCTTCACAGTGTTAAGTAGTACTAATCGG
1 TTAACCTTCACAGTGTTAAGTAGTACTAATCGG
** *
6286391 TTAACCTTCATGGTGTTAAGTAGTACTAATCTG
1 TTAACCTTCACAGTGTTAAGTAGTACTAATCGG
6286424 TTA
1 TTA
6286427 CCAGAAACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (33 bp):
TTAACCTTCACAGTGTTAAGTAGTACTAATCGG
Found at i:6289677 original size:2 final size:2
Alignment explanation
Indices: 6289665--6289697 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
6289655 TGTGAACGAA
6289665 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6289698 GTTTATGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6290061 original size:31 final size:31
Alignment explanation
Indices: 6289966--6290061 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
6289956 AGAGTCGAGG
*
6289966 GTTTACCTATG-TCTTTCGGGATATATGGACA
1 GTTTACCTATGTTC-TTCGGGACATATGGACA
* ** *
6289997 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTTCGGGACATATGGACA
* *
6290028 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTTCGGGACATATGGACA
6290059 GTT
1 GTT
6290062 GTCAAGGTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 51 0.96
32 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACA
Found at i:6293078 original size:23 final size:23
Alignment explanation
Indices: 6293048--6293091 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
6293038 GGAATAATGC
6293048 TAATTTTTCAAGGCTTTCGACGT
1 TAATTTTTCAAGGCTTTCGACGT
6293071 TAATTTTTCAAGGCTTTCGAC
1 TAATTTTTCAAGGCTTTCGAC
6293092 ATAGCTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (23 bp):
TAATTTTTCAAGGCTTTCGACGT
Found at i:6299652 original size:2 final size:2
Alignment explanation
Indices: 6299645--6299676 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6299635 TTATCAACAA
6299645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6299677 TACATCATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6300393 original size:3 final size:3
Alignment explanation
Indices: 6300341--6300375 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
6300331 TTTCCATTTG
6300341 ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT A
6300376 ATCAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6301891 original size:24 final size:22
Alignment explanation
Indices: 6301854--6301936 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 22
6301844 TTTATTTTAG
6301854 TTATTGTTTAAATATATTTTAATT
1 TTATTGTTT-AA-ATATTTTAATT
6301878 TTATATGTTT-AATATTTTAA--
1 TTAT-TGTTTAAATATTTTAATT
** * *
6301898 TTATTAATTAATTATTTTATTT
1 TTATTGTTTAAATATTTTAATT
*
6301920 TTATT-TTTATA-ATTTTA
1 TTATTGTTTAAATATTTTA
6301937 TAAATTAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
19 3 0.06
20 18 0.38
21 3 0.06
22 14 0.29
23 1 0.02
24 4 0.08
25 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTATTGTTTAAATATTTTAATT
Found at i:6301896 original size:8 final size:7
Alignment explanation
Indices: 6301866--6301938 Score: 50
Period size: 6 Copynumber: 10.6 Consensus size: 7
6301856 ATTGTTTAAA
6301866 TATATTT
1 TATATTT
6301873 TA-ATTT
1 TATATTT
6301879 TATATGTT
1 TATAT-TT
6301887 TAATATTT
1 T-ATATTT
6301895 TA-ATTAT
1 TATATT-T
6301902 TA-A-TT
1 TATATTT
*
6301907 AATTATTT
1 TA-TATTT
6301915 TAT-TTT
1 TATATTT
6301921 TAT-TTT
1 TATATTT
6301927 TATAATTT
1 TAT-ATTT
6301935 TATA
1 TATA
6301939 AATTAATAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
5 2 0.04
6 22 0.40
7 12 0.22
8 15 0.27
9 4 0.07
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (7 bp):
TATATTT
Found at i:6302067 original size:136 final size:134
Alignment explanation
Indices: 6301927--6302342 Score: 411
Period size: 136 Copynumber: 3.1 Consensus size: 134
6301917 TTTTTATTTT
** *
6301927 TATAATTTTATAAAT-TAATAATATTT-TTTATTTTTAAAATATTTAGAAAATGGCAGTCTTAAC
1 TATAATTTTATAAATGTTTTAATATTTATTTATTTTT--AATATTAAGAAAATGGCAGTCTTAAC
**
6301990 ATAACTAGATGTCATATTCTGGTATTTTAAAAATAAATAAATATCATGCTTATATAAAATATATA
64 ATAACTAGATGTCATATTCTGGTATTTTAAAAATAAATAAATATCATAATT-TATAAAATATATA
6302055 TAATTTAA
128 TAA-TTAA
* *
6302063 TATAAATTATTTTAATCATGTTTTAATATTTATTTATTTTTCAATATTAAG-AAAGGGCAGTCTT
1 TAT-AATT-TTATAA--ATGTTTTAATATTTATTTATTTTT-AATATTAAGAAAATGGCAGTCTT
* * * * * * *
6302127 AACGTAACT-GTATGTCCTTTTCTGATATTTT-TAAATAAATAAATATCATATTTTTATAAATTA
61 AACATAACTAG-ATGTCATATTCTGGTATTTTAAAAATAAATAAATATCATA-ATTTATAAAATA
6302190 TATAT-ATTAA
124 TATATAATTAA
* * * * *
6302200 TCTATTTTTTAGAAAAATGTTTTAATATTTATTTATTTTTAATATTAAGAAAATGACAATCTTAA
1 TATA-ATTTT--ATAAATGTTTTAATATTTATTTATTTTTAATATTAAGAAAATGGCAGTCTTAA
* * * *
6302265 -AGCAACTAGATGTCTTATTTTGGTATTTTAAAAATAAATAAATATC-TTATTTATAAAATATA-
63 CA-TAACTAGATGTCATATTCTGGTATTTTAAAAATAAATAAATATCATAATTTATAAAATATAT
*
6302327 AAAATTAA
127 ATAATTAA
6302335 TAT-ATTTT
1 TATAATTTT
6302343 CTTAAAGTTA
Statistics
Matches: 230, Mismatches: 34, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
133 4 0.02
134 1 0.00
135 28 0.12
136 63 0.27
137 28 0.12
138 8 0.03
139 31 0.13
140 41 0.18
141 17 0.07
142 9 0.04
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (134 bp):
TATAATTTTATAAATGTTTTAATATTTATTTATTTTTAATATTAAGAAAATGGCAGTCTTAACAT
AACTAGATGTCATATTCTGGTATTTTAAAAATAAATAAATATCATAATTTATAAAATATATATAA
TTAA
Found at i:6306793 original size:35 final size:35
Alignment explanation
Indices: 6306746--6306831 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
6306736 AAAACAGTCA
* * *
6306746 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
6306781 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
6306816 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
6306832 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:6306825 original size:21 final size:21
Alignment explanation
Indices: 6306800--6306842 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6306790 TTCTAAACCC
6306800 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
6306821 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
6306842 T
1 T
6306843 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:6306996 original size:16 final size:18
Alignment explanation
Indices: 6306964--6306997 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
6306954 TATTAATGTA
6306964 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
6306982 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
6306998 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:6307668 original size:130 final size:130
Alignment explanation
Indices: 6307465--6307712 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
6307455 AATTTTCTTC
* * *
6307465 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
* *
6307530 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
6307595 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
6307660 CCTAATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGAT
6307713 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTAATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:6322340 original size:38 final size:38
Alignment explanation
Indices: 6322289--6322368 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
6322279 TGCTTGGTTG
6322289 GTTGTGGATGTATCCTTGTATCTCACGTCGTTATGTTT
1 GTTGTGGATGTATCCTTGTATCTCACGTCGTTATGTTT
*
6322327 GTTGTGGATGTATCCTTGTATCTCACGTCGTTGTGTTT
1 GTTGTGGATGTATCCTTGTATCTCACGTCGTTATGTTT
6322365 GTTG
1 GTTG
6322369 AACATGTGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.47
Consensus pattern (38 bp):
GTTGTGGATGTATCCTTGTATCTCACGTCGTTATGTTT
Found at i:6323306 original size:105 final size:105
Alignment explanation
Indices: 6323091--6323749 Score: 966
Period size: 105 Copynumber: 6.4 Consensus size: 105
6323081 TATTGTTCCG
* ** * ** *
6323091 GAGTCCAATATCATTCACTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTCGGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
* **** *
6323156 TCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATACTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
*
6323197 GAGTCCAATATCCTTCGTGGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
6323262 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* * ** *
6323302 GAGTCAAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGGGATTGAGAAATGGTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
6323367 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* *
6323407 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
6323472 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
6323512 GAGTCCAATATCCTTCGTTGTGAAGTTG--A----CTCTG-AATTCGAGAAATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAATGTTTGTTGACAA
*
6323570 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* *
6323611 GATTCCAATATCCTTC---GT---GTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
6323670 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
*
6323710 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATCGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
6323750 GGTAAAACCT
Statistics
Matches: 503, Mismatches: 36, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
93 4 0.01
95 1 0.00
96 2 0.00
98 3 0.01
99 157 0.31
100 3 0.01
102 2 0.00
103 1 0.00
105 284 0.56
106 46 0.09
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
Found at i:6334027 original size:10 final size:10
Alignment explanation
Indices: 6334002--6334035 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
6333992 AAGGTTAGTA
*
6334002 AAATAGAAAT
1 AAATAAAAAT
*
6334012 AGATAAAAAT
1 AAATAAAAAT
6334022 AAATAAAAAT
1 AAATAAAAAT
6334032 AAAT
1 AAAT
6334036 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:6336522 original size:38 final size:38
Alignment explanation
Indices: 6336471--6336550 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
6336461 TGCTTGGTTG
6336471 GTTGTGGATGTATCCTTGTATCTCACGTCGTTGTGTTT
1 GTTGTGGATGTATCCTTGTATCTCACGTCGTTGTGTTT
6336509 GTTGTGGATGTATCCTTGTATCTCACGTCGTTGTGTTT
1 GTTGTGGATGTATCCTTGTATCTCACGTCGTTGTGTTT
6336547 GTTG
1 GTTG
6336551 AACATGTGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.10, C:0.15, G:0.28, T:0.47
Consensus pattern (38 bp):
GTTGTGGATGTATCCTTGTATCTCACGTCGTTGTGTTT
Found at i:6346234 original size:16 final size:16
Alignment explanation
Indices: 6346210--6346241 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6346200 TATCACCGAT
*
6346210 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
6346226 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
6346242 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:6369245 original size:2 final size:2
Alignment explanation
Indices: 6369238--6369262 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6369228 TGAAGAGAAC
6369238 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6369263 TCAATTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6369945 original size:11 final size:12
Alignment explanation
Indices: 6369931--6369994 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 12
6369921 TCAAACAATT
6369931 ATAA-AATTTTA
1 ATAATAATTTTA
*
6369942 ATAATTATTTT-
1 ATAATAATTTTA
6369953 ATAATAA-TTTA
1 ATAATAATTTTA
*
6369964 ATAA-AA-CTTA
1 ATAATAATTTTA
* *
6369974 ATAATTA-TTTC
1 ATAATAATTTTA
6369985 ATAATAATTT
1 ATAATAATTT
6369995 GATAAAATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 12 0.29
11 23 0.55
12 7 0.17
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAATAATTTTA
Found at i:6369980 original size:32 final size:31
Alignment explanation
Indices: 6369939--6370020 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 31
6369929 TTATAAAATT
6369939 TTAATAATTATTTTATAATAATTTAATAAAA
1 TTAATAATTATTTTATAATAATTTAATAAAA
* *
6369970 CTTAATAATTATTTCATAATAATTTGATAAAA
1 -TTAATAATTATTTTATAATAATTTAATAAAA
* *
6370002 TTAATTATTATTTTGTAAT
1 TTAATAATTATTTTATAAT
6370021 CGAACGATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 16 0.36
32 29 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
TTAATAATTATTTTATAATAATTTAATAAAA
Found at i:6369999 original size:11 final size:11
Alignment explanation
Indices: 6369938--6370003 Score: 64
Period size: 11 Copynumber: 6.2 Consensus size: 11
6369928 ATTATAAAAT
*
6369938 TTTAATAATTA
1 TTTAATAATAA
*
6369949 TTTTATAATAA
1 TTTAATAATAA
6369960 TTTAATAA-AA
1 TTTAATAATAA
* *
6369970 CTTAATAATTA
1 TTTAATAATAA
*
6369981 TTTCATAATAA
1 TTTAATAATAA
*
6369992 TTTGATAA-AA
1 TTTAATAATAA
6370002 TT
1 TT
6370004 AATTATTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
10 13 0.29
11 32 0.71
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (11 bp):
TTTAATAATAA
Found at i:6378790 original size:3 final size:3
Alignment explanation
Indices: 6378779--6378842 Score: 67
Period size: 3 Copynumber: 20.7 Consensus size: 3
6378769 AATCGAAAAA
* *
6378779 AAT ATT AAT AAT AAT AA- AAT AAT AAT ATT AAT AAT AAT AAAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT
*
6378825 AAT ATT AAT ATAT AAT AA
1 AAT AAT AAT A-AT AAT AA
6378843 AAATTAAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 40 0.77
4 10 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:6378797 original size:17 final size:17
Alignment explanation
Indices: 6378777--6378849 Score: 61
Period size: 17 Copynumber: 4.6 Consensus size: 17
6378767 AAAATCGAAA
6378777 AAAATATTAATAATAAT
1 AAAATATTAATAATAAT
* *
6378794 AAAATAATAATATTAAT
1 AAAATATTAATAATAAT
6378811 AATAATA--AAT-A-AAT
1 AA-AATATTAATAATAAT
6378825 --AATATTAATATATAAT
1 AAAATATTAATA-ATAAT
6378841 AAAA-ATTAA
1 AAAATATTAA
6378850 AAGTAATATG
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
11 4 0.09
13 3 0.07
14 3 0.07
15 1 0.02
16 6 0.13
17 22 0.49
18 6 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATATTAATAATAAT
Found at i:6378856 original size:23 final size:22
Alignment explanation
Indices: 6378774--6378845 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 22
6378764 CAAAAAATCG
6378774 AAAAA-AATATTAATAATAATA
1 AAAAATAATATTAATAATAATA
6378795 AAATAATAATATTAATAATAATA
1 AAA-AATAATATTAATAATAATA
6378818 AATAAATAATATTAATATATAATA
1 AA-AAATAATATTAATA-ATAATA
6378842 AAAA
1 AAAA
6378846 TTAAAAGTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
21 3 0.06
22 2 0.04
23 33 0.70
24 9 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAATAATATTAATAATAATA
Found at i:6378941 original size:38 final size:38
Alignment explanation
Indices: 6378893--6378966 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
6378883 AAAAAAAATT
*
6378893 ATTTTCAAAACTATATAATATATATATTTTCAAAAAAC
1 ATTTTCAAAACTATATAATATACATATTTTCAAAAAAC
*
6378931 ATTTTTAAAACTATATAATATACATATTTTCAAAAA
1 ATTTTCAAAACTATATAATATACATATTTTCAAAAA
6378967 CTATATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (38 bp):
ATTTTCAAAACTATATAATATACATATTTTCAAAAAAC
Found at i:6379061 original size:35 final size:35
Alignment explanation
Indices: 6379015--6379110 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 35
6379005 ACTATATAGT
*
6379015 ATATATATTTTCAAAAATGTATTCAAAGTTATATA
1 ATATATATTTTCAAAAATGTTTTCAAAGTTATATA
*
6379050 ATATATATTTTC-AAAATGTTTTCAAATTTATATA
1 ATATATATTTTCAAAAATGTTTTCAAAGTTATATA
6379084 ATATATATTTTCAAAAATGTTTTCAAA
1 ATATATATTTTCAAAAATGTTTTCAAA
6379111 AACTATATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
34 32 0.55
35 26 0.45
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (35 bp):
ATATATATTTTCAAAAATGTTTTCAAAGTTATATA
Found at i:6379074 original size:34 final size:33
Alignment explanation
Indices: 6379015--6379196 Score: 154
Period size: 34 Copynumber: 5.2 Consensus size: 33
6379005 ACTATATAGT
*
6379015 ATATATATTTTCAAAAATGTATTCAAAGTTATATA
1 ATATATATTTTC-AAAATGTTTTCAAA-TTATATA
6379050 ATATATATTTTCAAAATGTTTTCAAATTTATATA
1 ATATATATTTTCAAAATGTTTTCAAA-TTATATA
*
6379084 ATATATATTTTCAAAAATGTTTTCAAAAACTATATATT
1 ATATATATTTTC-AAAATGTTTTC--AAA-T-TATATA
* * **
6379122 ATTTATGTTTTTTTAAATGTTTTCGAAA--ACTAT-
1 ATATAT-ATTTTCAAAATGTTTTC-AAATTA-TATA
* *
6379155 ATATATATTTTCAAAATCATTTTCAAAACTATATA
1 ATATATATTTTCAAAAT-GTTTTC-AAATTATATA
6379190 ATATATA
1 ATATATA
6379197 CATTTTTTAA
Statistics
Matches: 122, Mismatches: 15, Indels: 20
0.78 0.10 0.13
Matches are distributed among these distances:
32 8 0.07
33 14 0.11
34 38 0.31
35 31 0.25
37 7 0.06
38 20 0.16
39 4 0.03
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (33 bp):
ATATATATTTTCAAAATGTTTTCAAATTATATA
Found at i:6379115 original size:107 final size:106
Alignment explanation
Indices: 6378991--6379196 Score: 256
Period size: 107 Copynumber: 1.9 Consensus size: 106
6378981 AGTTTTTTTT
6378991 AAATGATTTCAAAAACTATATAGTATATATATTTTCAAAAATGTATTC-AAAGTTA-TATAATAT
1 AAATGATTTCAAAAACTATATAGTATATATATTTTCAAAAATGTATTCGAAA---ACTAT-ATAT
* **
6379054 ATATTTTCAAAAT-GTTTTCAAATTTATATAATATATATTTTCAA
62 ATATTTTCAAAATCATTTTCAAAACTATATAATATATATTTTCAA
* * * * *** *
6379098 AAATGTTTTCAAAAACTATATATTATTTATGTTTTTTTAAATGTTTTCGAAAACTATATATATAT
1 AAATGATTTCAAAAACTATATAGTATATATATTTTCAAAAATGTATTCGAAAACTATATATATAT
6379163 TTTCAAAATCATTTTCAAAACTATATAATATATA
66 TTTCAAAATCATTTTCAAAACTATATAATATATA
6379197 CATTTTTTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
105 18 0.21
106 24 0.28
107 40 0.47
108 3 0.04
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (106 bp):
AAATGATTTCAAAAACTATATAGTATATATATTTTCAAAAATGTATTCGAAAACTATATATATAT
TTTCAAAATCATTTTCAAAACTATATAATATATATTTTCAA
Found at i:6379178 original size:71 final size:68
Alignment explanation
Indices: 6378954--6379232 Score: 201
Period size: 70 Copynumber: 3.9 Consensus size: 68
6378944 TATAATATAC
* *
6378954 ATATTTTCAAAAACTATATATTATATAAGTTTTTTTTAAATGATTTCAAAAACTATATAGTATAT
1 ATATTTTC-AAAACTATATATTATATATG-TTTTTTTAAATGTTTTC-AAAAC----TA-TATAT
6379019 ATATTTTCAAA
58 ATATTTTCAAA
* * * **
6379030 A-ATGTATTC-AAAGT-TATATAATATAT-ATTTTCAAAATGTTTTCAAATTTA-TATAATATAT
1 ATAT-T-TTCAAAACTATATATTATATATGTTTTTTTAAATGTTTTCAAA---ACTAT-ATATAT
6379090 ATTTTCAAAA
60 ATTTTC-AAA
* *
6379100 ATGTTTTCAAAAACTATATATTATTTATGTTTTTTTAAATGTTTTCGAAAACTATATATATATTT
1 ATATTTTC-AAAACTATATATTATATATGTTTTTTTAAATGTTTTC-AAAACTATATATATATTT
6379165 TCAAA
64 TCAAA
* ** * * *
6379170 ATCATTTTCAAAACTATATAATATATA-CATTTTTTAAATTTTTTTTAAAATTATAATATATAT
1 AT-ATTTTCAAAACTATATATTATATATGTTTTTTTAAA-TGTTTTCAAAACTAT-ATATATAT
6379233 ATATATATAT
Statistics
Matches: 164, Mismatches: 22, Indels: 40
0.73 0.10 0.18
Matches are distributed among these distances:
68 1 0.01
69 33 0.20
70 39 0.24
71 26 0.16
72 26 0.16
73 14 0.09
74 14 0.09
75 6 0.04
76 2 0.01
77 3 0.02
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (68 bp):
ATATTTTCAAAACTATATATTATATATGTTTTTTTAAATGTTTTCAAAACTATATATATATTTTC
AAA
Found at i:6379229 original size:70 final size:72
Alignment explanation
Indices: 6378954--6379232 Score: 220
Period size: 69 Copynumber: 3.9 Consensus size: 72
6378944 TATAATATAC
* * * *
6378954 ATATTTTCAAAAACTATATATTATATAAGT-TTTTTTTAAATGATTTCAAAAACTATATAGTATA
1 ATATTTTCAAAAACTATATAATATAT-A-TCATTTTTTAAATGTTTTCGAAAAC--TATA--ATA
6379018 TATATTTTCAAAA
60 TATATTTTCAAAA
* * ** **
6379031 ATGTATTC-AAAGTTATAT-A-ATATAT-ATTTTCAAAATGTTTTC-AAATTTA-TATAATATAT
1 ATATTTTCAAAAACTATATAATATATATCATTTTTTAAATGTTTTCGAAA---ACTATAATATAT
6379090 ATTTTCAAAA
63 ATTTTCAAAA
* * * **
6379100 ATGTTTTCAAAAACTATATATTATTTATGTTTTTTTAAATGTTTTCGAAAACTAT-ATATATATT
1 ATATTTTCAAAAACTATATAATATATATCATTTTTTAAATGTTTTCGAAAACTATAATATATATT
6379164 TTC-AAA
66 TTCAAAA
* ** *
6379170 ATCATTTTC-AAAACTATATAATATATA-CATTTTTTAAATTTTTTTTAAAATTATAATATATAT
1 AT-ATTTTCAAAAACTATATAATATATATCATTTTTTAAATGTTTTCGAAAACTATAATATATAT
6379233 ATATATATAT
Statistics
Matches: 165, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
69 44 0.27
70 37 0.22
71 25 0.15
72 22 0.13
73 15 0.09
74 8 0.05
76 8 0.05
77 6 0.04
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (72 bp):
ATATTTTCAAAAACTATATAATATATATCATTTTTTAAATGTTTTCGAAAACTATAATATATATT
TTCAAAA
Found at i:6379230 original size:2 final size:2
Alignment explanation
Indices: 6379221--6379254 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6379211 TTTTTAAAAT
6379221 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6379255 TCAAAAACCG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6382245 original size:26 final size:26
Alignment explanation
Indices: 6382184--6382236 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6382174 TCCCTTGCAT
6382184 TCTAAGACTTTCATGTTTTAACTTGC
1 TCTAAGACTTTCATGTTTTAACTTGC
*
6382210 TCTAAGACTTTCATGTTTTATCTTGC
1 TCTAAGACTTTCATGTTTTAACTTGC
6382236 T
1 T
6382237 GCCTAACTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (26 bp):
TCTAAGACTTTCATGTTTTAACTTGC
Found at i:6388373 original size:17 final size:19
Alignment explanation
Indices: 6388336--6388375 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6388326 ATGACTAAGT
*
6388336 TATATAATTAAAAATATTA
1 TATAAAATTAAAAATATTA
6388355 TATAAAATT-AAAATA-TA
1 TATAAAATTAAAAATATTA
6388372 TATA
1 TATA
6388376 CACTAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 6 0.30
19 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATAAAATTAAAAATATTA
Found at i:6391345 original size:3 final size:3
Alignment explanation
Indices: 6391337--6391379 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
6391327 GATAGACAAT
6391337 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6391380 ACCACATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6392773 original size:2 final size:2
Alignment explanation
Indices: 6392762--6392791 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6392752 ACAATAAATT
6392762 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6392792 TAAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6399174 original size:29 final size:28
Alignment explanation
Indices: 6399128--6399184 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
6399118 AACGCCTTAG
* * *
6399128 TTAAAATATAATATTTTTGTTTAAATAT
1 TTAAAATAAAATAATTTTATTTAAATAT
*
6399156 TTAAAATTAAAATAATTTTATTTAGATAT
1 TTAAAA-TAAAATAATTTTATTTAAATAT
6399185 AATTTTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTAAAATAAAATAATTTTATTTAAATAT
Found at i:6410348 original size:20 final size:20
Alignment explanation
Indices: 6410274--6410465 Score: 244
Period size: 20 Copynumber: 9.6 Consensus size: 20
6410264 GATTTTCAAG
* ** *
6410274 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
6410294 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
6410314 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6410334 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6410354 AATCGCTACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6410374 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
6410394 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
6410414 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
6410434 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
6410454 AATCGCAACGCG
1 AATCGCAACGCG
6410466 ATTTTTAAAG
Statistics
Matches: 149, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
19 2 0.01
20 144 0.97
21 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:6410886 original size:33 final size:33
Alignment explanation
Indices: 6410847--6410917 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
6410837 TTCACTTAGA
6410847 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
6410880 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
6410913 TTTCA
1 TTTCA
6410918 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:6411035 original size:14 final size:14
Alignment explanation
Indices: 6411016--6411072 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6411006 GAAAAATGAA
6411016 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
6411030 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6411049 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6411063 AATCGCAACG
1 AATCGCAACG
6411073 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6411049 original size:33 final size:33
Alignment explanation
Indices: 6411009--6411088 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
6410999 GCAACGAGAA
6411009 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
6411042 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
6411075 AAACCAAAATCGCA
1 AAATGAAAATCGCA
6411089 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:6411106 original size:19 final size:19
Alignment explanation
Indices: 6411084--6411211 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
6411074 GAAACCAAAA
*
6411084 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6411103 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
6411117 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6411136 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
6411150 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
6411170 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
6411190 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
6411210 TC
1 TC
6411212 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6411125 original size:14 final size:14
Alignment explanation
Indices: 6411106--6411162 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6411096 TTTCATTTCG
6411106 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6411120 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
6411139 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6411153 CGTTGCGATT
1 CGTTGCGATT
6411163 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6411131 original size:33 final size:33
Alignment explanation
Indices: 6411089--6411211 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
6411079 CAAAATCGCA
6411089 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
6411122 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
6411155 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
6411196 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
6411212 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:6411173 original size:21 final size:21
Alignment explanation
Indices: 6411147--6411211 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
6411137 CGCGTTGCGA
6411147 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
6411168 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
6411188 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
6411209 TTC
1 TTC
6411212 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:6413061 original size:93 final size:93
Alignment explanation
Indices: 6412899--6413214 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
6412889 TAGATTGCTT
* *
6412899 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTC
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6412964 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6412992 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6413057 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6413085 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
6413150 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
6413178 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
6413215 AATACCCTGA
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 221 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:6413368 original size:19 final size:18
Alignment explanation
Indices: 6413344--6413405 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
6413334 GCAACGAGAG
6413344 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAAT-AA
*
6413363 AATCGCAA--CGACAT--
1 AATCGCAACGCGAAATAA
*
6413377 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-TAA
6413396 AATCGCAACG
1 AATCGCAACG
6413406 ACAAAATCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 8 0.23
16 4 0.11
17 5 0.14
19 18 0.51
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.10
Consensus pattern (18 bp):
AATCGCAACGCGAAATAA
Found at i:6413370 original size:33 final size:33
Alignment explanation
Indices: 6413312--6413416 Score: 138
Period size: 33 Copynumber: 3.2 Consensus size: 33
6413302 TAGTTTACTT
* * * *
6413312 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAA-TCAAAATCGCAACGACAAAA
* *
6413346 TCGCAACGCGAAATGAAAATCGCAACGACATAA
1 TCGCAACGCGAAATCAAAATCGCAACGACAAAA
*
6413379 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAATCAAAATCGCAACGACAAAA
6413412 TCGCA
1 TCGCA
6413417 TTGCGATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 52 0.81
34 12 0.19
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAATCAAAATCGCAACGACAAAA
Found at i:6413412 original size:14 final size:14
Alignment explanation
Indices: 6413361--6413416 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
6413351 ACGCGAAATG
6413361 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
6413375 ATAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
6413394 AAAATCGCAACGAC
1 AAAATCGCAACGAC
6413408 AAAATCGCA
1 AAAATCGCA
6413417 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.48, C:0.29, G:0.14, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:6413439 original size:19 final size:19
Alignment explanation
Indices: 6413412--6413565 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
6413402 AACGACAAAA
*
6413412 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
6413431 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
6413445 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
6413464 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
6413480 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
6413497 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
6413516 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
6413535 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
6413555 TCGTGTTGCGA
1 TCGCGTTGCGA
6413566 AAGTAAACTA
Statistics
Matches: 107, Mismatches: 17, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
14 17 0.16
16 8 0.07
17 8 0.07
19 62 0.58
20 12 0.11
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6413453 original size:14 final size:14
Alignment explanation
Indices: 6413434--6413490 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
6413424 TTTCATTTCG
6413434 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6413448 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
6413465 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
6413481 CGTTGCGATT
1 CGTTGCGATT
6413491 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6413459 original size:33 final size:33
Alignment explanation
Indices: 6413417--6413547 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
6413407 CAAAATCGCA
6413417 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
6413450 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
6413483 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGA---T--TCTCTCG
*
6413521 TTGCGATTCTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
6413548 TTAAGTTTCG
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
33 56 0.64
35 1 0.01
36 1 0.01
38 29 0.33
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:6415510 original size:14 final size:14
Alignment explanation
Indices: 6415491--6415526 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
6415481 ATTGTTTAAT
6415491 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
6415505 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
6415519 TGATTTGT
1 TGATTTGT
6415527 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6415663 original size:19 final size:20
Alignment explanation
Indices: 6415639--6415685 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
6415629 GCAACGAGAG
6415639 AATCGCAATGC-GAAATGAA
1 AATCGCAATGCGGAAATGAA
6415658 AATCGCAATGCGGAAATGAA
1 AATCGCAATGCGGAAATGAA
6415678 AATCGCAA
1 AATCGCAA
6415686 CGAGAGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (20 bp):
AATCGCAATGCGGAAATGAA
Found at i:6415763 original size:53 final size:52
Alignment explanation
Indices: 6415700--6416022 Score: 512
Period size: 53 Copynumber: 6.1 Consensus size: 52
6415690 AGAATCGCAA
6415700 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
6415753 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
6415806 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
6415858 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
6415911 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
6415969 TGCGATTTTC--TT---ATTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
6416016 TGCGATT
1 TGCGATT
6416023 GTAATTTCCG
Statistics
Matches: 260, Mismatches: 3, Indels: 20
0.92 0.01 0.07
Matches are distributed among these distances:
47 8 0.03
49 2 0.01
50 2 0.01
51 3 0.01
52 62 0.24
53 163 0.63
54 3 0.01
55 2 0.01
56 4 0.02
58 11 0.04
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:6415776 original size:33 final size:33
Alignment explanation
Indices: 6415718--6415883 Score: 167
Period size: 33 Copynumber: 4.8 Consensus size: 33
6415708 TCATTTCGCA
6415718 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
6415752 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG
* * * * *
6415789 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
6415824 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
6415857 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
6415884 TTCATTTCCG
Statistics
Matches: 108, Mismatches: 12, Indels: 25
0.74 0.08 0.17
Matches are distributed among these distances:
31 9 0.08
32 5 0.05
33 48 0.44
34 15 0.14
35 4 0.04
36 3 0.03
37 2 0.02
38 2 0.02
39 8 0.07
40 3 0.03
41 9 0.08
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:6415883 original size:105 final size:105
Alignment explanation
Indices: 6415700--6416022 Score: 523
Period size: 105 Copynumber: 3.1 Consensus size: 105
6415690 AGAATCGCAA
6415700 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTTTCAT
6415765 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
65 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
6415806 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
6415871 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
66 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
6415911 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATT
*
6415976 TTC--TT---ATTGGGATTTTCATTT-CGCATTGCGATTCTCTCGT
60 TTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
6416016 TGCGATT
1 TGCGATT
6416023 GTAATTTCCG
Statistics
Matches: 209, Mismatches: 2, Indels: 13
0.93 0.01 0.06
Matches are distributed among these distances:
105 141 0.67
106 48 0.23
107 3 0.01
108 2 0.01
109 4 0.02
111 11 0.05
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (105 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:6415956 original size:72 final size:71
Alignment explanation
Indices: 6415700--6416008 Score: 343
Period size: 72 Copynumber: 4.4 Consensus size: 71
6415690 AGAATCGCAA
* * *
6415700 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTC-GTTGCG-ATTTTC
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATT-T-TCATTTCCGCA-TTGC
*
6415763 -ATTTCGCAT
62 GATTTCTCAT
*
6415772 TGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTT-CGCATTGCGAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGAT
6415831 TT-TCAT
65 TTCTCAT
* * * *
6415837 TTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
1 TGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCG
*
6415901 ATTCTCTCGT
63 ATT-TCTCAT
6415911 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA-T
*
6415976 TTCTTAT
65 TTCTCAT
*
6415983 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
6416009 CTCTCGTTGC
Statistics
Matches: 203, Mismatches: 17, Indels: 34
0.80 0.07 0.13
Matches are distributed among these distances:
65 16 0.08
66 20 0.10
67 9 0.04
68 3 0.01
69 6 0.03
70 2 0.01
71 18 0.09
72 103 0.51
73 17 0.08
74 9 0.04
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (71 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
TCTCAT
Found at i:6416030 original size:158 final size:155
Alignment explanation
Indices: 6415700--6416022 Score: 526
Period size: 158 Copynumber: 2.0 Consensus size: 155
6415690 AGAATCGCAA
6415700 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
6415765 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
66 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCA-TT--CATTGCGA
6415830 TTTTCATTTCGCATTGCGATTCTCTCGT
128 TTTTCATTTCGCATTGCGATTCTCTCGT
6415858 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
6415923 TTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCATTGCGATTTTC-TT-ATTG
66 TTCGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTCATTG
*
6415985 GGATTTTCATTTCGCATTGCGATTCTCTCGT
125 CGATTTTCATTTCGCATTGCGATTCTCTCGT
6416016 TGCGATT
1 TGCGATT
6416023 GTAATTTCCG
Statistics
Matches: 157, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
157 10 0.06
158 127 0.81
159 3 0.02
160 2 0.01
161 4 0.03
163 11 0.07
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (155 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTCATTGCGATTT
TCATTTCGCATTGCGATTCTCTCGT
Found at i:6418324 original size:12 final size:12
Alignment explanation
Indices: 6418307--6418331 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6418297 TCTTCGGGGA
6418307 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6418319 CTTTTTCTTCTT
1 CTTTTTCTTCTT
6418331 C
1 C
6418332 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:6418540 original size:24 final size:24
Alignment explanation
Indices: 6418506--6418552 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6418496 CTGAAACATC
6418506 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
6418530 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
6418553 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:6419469 original size:20 final size:20
Alignment explanation
Indices: 6419245--6419454 Score: 228
Period size: 20 Copynumber: 10.5 Consensus size: 20
6419235 AAATTTCAGT
* * * *
6419245 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
6419265 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
6419285 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
* *
6419305 GTTGCGATTTACTGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
6419325 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATACGC
*
6419345 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
*
6419365 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
6419385 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
6419405 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
6419425 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
6419445 GTTGCGATTT
1 GTTGCGATTT
6419455 TCATATTCGC
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
19 3 0.02
20 161 0.96
21 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:6421816 original size:45 final size:45
Alignment explanation
Indices: 6421751--6421863 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
6421741 AATGACACTT
*
6421751 AAGTCGTCCTTTGCGGGTTTTCAACTTAATACCTCCTTTGGTTTC
1 AAGTCGTCCTTTGCGAGTTTTCAACTTAATACCTCCTTTGGTTTC
* *
6421796 AAGTCGCCCTTTGCGAGTTTTTAACTTAATACCTCCTTTGGTTTC
1 AAGTCGTCCTTTGCGAGTTTTCAACTTAATACCTCCTTTGGTTTC
* * *
6421841 AAGACGTCCTTTTCGAATTTTCA
1 AAGTCGTCCTTTGCGAGTTTTCA
6421864 TATAGAACCC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.42
Consensus pattern (45 bp):
AAGTCGTCCTTTGCGAGTTTTCAACTTAATACCTCCTTTGGTTTC
Found at i:6424565 original size:16 final size:17
Alignment explanation
Indices: 6424544--6424595 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 17
6424534 TTTTTAATTT
6424544 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
*
6424560 AATTACTCTAAATTT--
1 AATTACTCTAACTTTCA
*
6424575 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
6424592 AATT
1 AATT
6424596 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 13 0.45
16 7 0.24
17 9 0.31
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:6429777 original size:17 final size:18
Alignment explanation
Indices: 6429741--6429775 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6429731 ATTTTTATTA
6429741 AATAAAAATAATATTTTT
1 AATAAAAATAATATTTTT
* *
6429759 AATAAATATATTATTTT
1 AATAAAAATAATATTTT
6429776 AAGCCGGGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAAAAATAATATTTTT
Found at i:6431418 original size:31 final size:31
Alignment explanation
Indices: 6431380--6431457 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 31
6431370 AGTGAAAATG
* *
6431380 GTTTGATAAAATTTATGACCATTTTGTAATT
1 GTTTGATAAAATTTATGACCATTTTATAATA
* * *
6431411 GTTTGATAAAATATAATGATCATTTTATGATA
1 GTTTGATAAAAT-TTATGACCATTTTATAATA
6431443 GTTTGATAAAATTTA
1 GTTTGATAAAATTTA
6431458 ATCATTGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
31 14 0.35
32 26 0.65
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (31 bp):
GTTTGATAAAATTTATGACCATTTTATAATA
Found at i:6448277 original size:30 final size:30
Alignment explanation
Indices: 6448243--6448303 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
6448233 TTCATTTAGG
6448243 GGGGAATCGATACCCCCCCA-GGGGGAATCT
1 GGGGAATCGATA-CCCCCCAGGGGGGAATCT
6448273 GGGGAATCGATACCCCCCAGGGGGGAATCT
1 GGGGAATCGATACCCCCCAGGGGGGAATCT
6448303 G
1 G
6448304 TTCCCCCTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.23, C:0.28, G:0.36, T:0.13
Consensus pattern (30 bp):
GGGGAATCGATACCCCCCAGGGGGGAATCT
Found at i:6462694 original size:36 final size:36
Alignment explanation
Indices: 6462647--6462726 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
6462637 TGAAATTATC
* *
6462647 AAACAGCGGGTGAGAAATCATATAATAGTAGCTTGA
1 AAACAGTGGGTGAGAAATCATATAATAGTAGCATGA
*
6462683 AAACAGTGGGTGAGAAATCATATAATAGTGGCATGA
1 AAACAGTGGGTGAGAAATCATATAATAGTAGCATGA
*
6462719 ATACAGTG
1 AAACAGTG
6462727 ATTCAATCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (36 bp):
AAACAGTGGGTGAGAAATCATATAATAGTAGCATGA
Found at i:6471089 original size:6 final size:6
Alignment explanation
Indices: 6471080--6471104 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6471070 AGAGGTTGAG
6471080 GCTGTT GCTGTT GCTGTT GCTGTT G
1 GCTGTT GCTGTT GCTGTT GCTGTT G
6471105 GTGGTGGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.36, T:0.48
Consensus pattern (6 bp):
GCTGTT
Found at i:6474995 original size:18 final size:18
Alignment explanation
Indices: 6474974--6475009 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6474964 TATTTTTAGG
6474974 GTAAAGTATATAAATAGT
1 GTAAAGTATATAAATAGT
6474992 GTAAAGTATATAAATAGT
1 GTAAAGTATATAAATAGT
6475010 CCATAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (18 bp):
GTAAAGTATATAAATAGT
Found at i:6475253 original size:37 final size:37
Alignment explanation
Indices: 6475206--6475289 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
6475196 TTTTTCTTTT
* * *
6475206 TTCTTTTTCTCTCACACCCCCGTTAACCTAACTCTTC
1 TTCTTCTTCTCTCACACCCCCGTTAACCCAACTCTTA
** *
6475243 TTCTTCTTCTCTCACACCCTTGTTAACCCCACTCTTA
1 TTCTTCTTCTCTCACACCCCCGTTAACCCAACTCTTA
*
6475280 TTATTCTTCT
1 TTCTTCTTCT
6475290 ATTCTCCCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.15, C:0.38, G:0.02, T:0.44
Consensus pattern (37 bp):
TTCTTCTTCTCTCACACCCCCGTTAACCCAACTCTTA
Found at i:6476512 original size:7 final size:7
Alignment explanation
Indices: 6476494--6476534 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
6476484 TTATGCAAAT
6476494 AGAAG-A
1 AGAAGAA
*
6476500 AGAAGAG
1 AGAAGAA
6476507 AGAAGAA
1 AGAAGAA
6476514 AGAAGAA
1 AGAAGAA
*
6476521 ATAAGAA
1 AGAAGAA
6476528 AGAAGAA
1 AGAAGAA
6476535 GACCGGGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 5 0.17
7 25 0.83
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (7 bp):
AGAAGAA
Found at i:6482812 original size:37 final size:37
Alignment explanation
Indices: 6482771--6482883 Score: 190
Period size: 37 Copynumber: 3.1 Consensus size: 37
6482761 TTGTATGTTG
6482771 TTGTACTTTGTATTATTGGTAGATAATACAGGTTTTA
1 TTGTACTTTGTATTATTGGTAGATAATACAGGTTTTA
* *
6482808 TTGTACTTTGTATTATTGGTAGATAAAACAGGCTTTA
1 TTGTACTTTGTATTATTGGTAGATAATACAGGTTTTA
* *
6482845 TTGTACTTTGTATTATTGGTAGATAATACGGGTTATA
1 TTGTACTTTGTATTATTGGTAGATAATACAGGTTTTA
6482882 TT
1 TT
6482884 ATCTGTGAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.27, C:0.06, G:0.19, T:0.47
Consensus pattern (37 bp):
TTGTACTTTGTATTATTGGTAGATAATACAGGTTTTA
Found at i:6498428 original size:30 final size:30
Alignment explanation
Indices: 6498392--6498489 Score: 142
Period size: 30 Copynumber: 3.3 Consensus size: 30
6498382 AAATGAACTA
*
6498392 GAATGTGAGGTTGATCCAGAAGCAGAACCG
1 GAATGTGAGGTTGATCCAGAAACAGAACCG
* * *
6498422 GAATGTGTGGTTGATCCGGAAATAGAACCG
1 GAATGTGAGGTTGATCCAGAAACAGAACCG
* *
6498452 GAATGTGTGGTTGATCTAGAAACAGAACCG
1 GAATGTGAGGTTGATCCAGAAACAGAACCG
6498482 GAATGTGA
1 GAATGTGA
6498490 AGATGAACCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (30 bp):
GAATGTGAGGTTGATCCAGAAACAGAACCG
Found at i:6504322 original size:138 final size:138
Alignment explanation
Indices: 6504156--6504449 Score: 543
Period size: 138 Copynumber: 2.1 Consensus size: 138
6504146 ATCTGGGGAA
6504156 GAGCCAGAACCTTTAGAAAAAGCGGAATGTGAAAATGAACCGGAATGCGAGGATGATCCTGAAGC
1 GAGCCAGAACCTTTAGAAAAAGCGGAATGTGAAAATGAACCGGAATGCGAGGATGATCCTGAAGC
*
6504221 TGAACTTGAATGTGATAAAAATGAAGAGCCATGACTCGTAGCAACATTATGACTTGAACCAGATT
66 TGAACTTGAATGTGAGAAAAATGAAGAGCCATGACTCGTAGCAACATTATGACTTGAACCAGATT
6504286 GTGAAGAT
131 GTGAAGAT
* *
6504294 GAGCCAGAACCTTTAGAAGAAGCGGAATGTGAAAATGAACCGGAATGCGAGGATGATCCTGATGC
1 GAGCCAGAACCTTTAGAAAAAGCGGAATGTGAAAATGAACCGGAATGCGAGGATGATCCTGAAGC
*
6504359 TGAACTTGAATGTGAGAAAAATGAAGAGCCATGACTCGTAGTAACATTATGACTTGAACCAGATT
66 TGAACTTGAATGTGAGAAAAATGAAGAGCCATGACTCGTAGCAACATTATGACTTGAACCAGATT
6504424 GTGAAGAT
131 GTGAAGAT
*
6504432 AAGCCAGAACCTTTAGAA
1 GAGCCAGAACCTTTAGAA
6504450 TTGTTGGAAT
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 151 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (138 bp):
GAGCCAGAACCTTTAGAAAAAGCGGAATGTGAAAATGAACCGGAATGCGAGGATGATCCTGAAGC
TGAACTTGAATGTGAGAAAAATGAAGAGCCATGACTCGTAGCAACATTATGACTTGAACCAGATT
GTGAAGAT
Found at i:6505752 original size:276 final size:276
Alignment explanation
Indices: 6505219--6505765 Score: 672
Period size: 276 Copynumber: 2.0 Consensus size: 276
6505209 GAAGAGCTAA
* * * *
6505219 AACCTTTAGAAAAAGCGGAATGTGAAAATGAATTGGAATGTGATGATGATCCTGAAGCTGAACTT
1 AACCTTCAGAAAAAGCGGAATGTGAAAATAAATTGGAATGTGAGGATGATCCTGAAGCAGAACTT
* * * * *
6505284 GAATGTGATAAAGATAAAGAGCCATGACTCGTAGCACCAGTGTGAGTTACGGAACTGGTATACGA
66 GAATGTAAGAAAGATAAAGAGCCATGACTCATAGCACCAGTGTGAGTTACGGAACTAGAATACGA
* * *
6505349 TGGTGTCCCAAAACCCTTAGAATCACTAGAAGCTGATGATAAACCAGAACTTTGAGAGAAATTTG
131 TGGTGACCCAAAACCCTTAGAATCACTAGAAGCTAATGATAAACCAGAACTTTGAGAGAAATGTG
* * * * * * * * * *
6505414 AAGCCCCAGAACCTACTAAAGATTGGTAAGTATCTGTAGAACCATAATCCTTTGAGTTGTTTGAA
196 AAGCCACAAAACCTAATAAAGATGGGGAAGTATCAGTAAAACCAGAATCCTCTGAATTGTTTGAA
* *
6505479 TCTATTGAAGACCCAT
261 CCTATGGAAGACCCAT
* *
6505495 AACCTTCAGAAGAAGCTGAATGTGAAAATAAATTGGAATGTGAGGATGATCCTGAAGCAGAACTT
1 AACCTTCAGAAAAAGCGGAATGTGAAAATAAATTGGAATGTGAGGATGATCCTGAAGCAGAACTT
* * **
6505560 GAATGTAAGAAAGATGAAGAGCCATGACTCATAGCACCA-TCGTGAGTTCCGGAACTAGAATGTG
66 GAATGTAAGAAAGATAAAGAGCCATGACTCATAGCACCAGT-GTGAGTTACGGAACTAGAATACG
** * *
6505624 A-GGATGAGTCAGAAA-CCTTAGAATTACTAGAAGCTAATGATGAACCAGAAC-TTGTAGA-AGA
130 ATGG-TGACCCA-AAACCCTTAGAATCACTAGAAGCTAATGATAAACCAGAACTTTG-AGAGA-A
** * *
6505685 ATGTGAAGCCACAAAACCTAATGGAGATGGGGAAGTCTCAGTAAAACCGGAATCCTCTGAATTGT
191 ATGTGAAGCCACAAAACCTAATAAAGATGGGGAAGTATCAGTAAAACCAGAATCCTCTGAATTGT
6505750 TTGAACCTATGGAAGA
256 TTGAACCTATGGAAGA
6505766 GTTCGAACCT
Statistics
Matches: 228, Mismatches: 38, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
275 7 0.03
276 218 0.96
277 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (276 bp):
AACCTTCAGAAAAAGCGGAATGTGAAAATAAATTGGAATGTGAGGATGATCCTGAAGCAGAACTT
GAATGTAAGAAAGATAAAGAGCCATGACTCATAGCACCAGTGTGAGTTACGGAACTAGAATACGA
TGGTGACCCAAAACCCTTAGAATCACTAGAAGCTAATGATAAACCAGAACTTTGAGAGAAATGTG
AAGCCACAAAACCTAATAAAGATGGGGAAGTATCAGTAAAACCAGAATCCTCTGAATTGTTTGAA
CCTATGGAAGACCCAT
Found at i:6507516 original size:339 final size:338
Alignment explanation
Indices: 6506859--6507597 Score: 824
Period size: 339 Copynumber: 2.2 Consensus size: 338
6506849 TTTTCAACAA
** * * * *
6506859 AATCATTAGACTTGTTAGAATTTGTTAAAAAGCCAGAACCCTCAAAAGAAGCAGAATGTGAAAAT
1 AATCATTAGACTTGTTAGAATCCGTGAAAGAGCCAGAACCTTCAGAAGAAGC-GAATGTGAAAAT
* *
6506924 GAACCGGAATGTGAGGATGATCCTAAAGCTAAACCTGAATGTGAGAAAGATGAAGAGCCATGACT
65 GAACCGGAATGTGAGGATAATCCTAAAGCTAAACCTGAATGTGAGAAAGATGAAGAACCATGACT
* * ** * * * ** * *
6506989 TGTAGTACCAACATGAGTTGTCGAACTGGAATGTGAGGATATTCCTGAACCCTTAGATTCACTAG
130 CGTAGCACCAACATGAGTTGTCGAACTAAAATATGAAGATATGCCAAAACCATTAAATTCACTAG
* *
6507054 AAGCTAATGATGAACCAGATCTTGCAGAGGAATTCGAAGCCCCAAAACCTAATGAAGACTGGGAA
195 AAGCCAATGATGAACCAGACCTTGCAGAGGAATTCGAAGCCCCAAAACCTAATGAAGACTGGGAA
* * * *
6507119 GTCTTAGCAGAACCGGAATCCTTTGAATTGTTTGAATCCAAGGAAGACCCATAACCTTTAGACAT
260 GTCCTAGCAGAACCGGAATCCTTTGAATTGTTTAAATCCAAGGAAGACCAAAAACCTTTAGACAT
* ***
6507184 CGTAGCAAAATTGG
325 CATAGCAAAACCAG
* * * *
6507198 AATCATTAGACTTGTTAGAATCCGCGGAAGAGCCAAAACCTTCAGAAGAAGCGTTATGT-AAAAC
1 AATCATTAGACTTGTTAGAATCCGTGAAAGAGCCAGAACCTTCAGAAGAAGCG-AATGTGAAAA-
* * * *
6507262 TGAATCGGAATGTGAGGATAATCCTGAAGCTGAACTTGAATGTGAGAAAGATGAAGAACCATGAC
64 TGAACCGGAATGTGAGGATAATCCTAAAGCTAAACCTGAATGTGAGAAAGATGAAGAACCATGAC
* * *
6507327 TCGTAGCACCAGCGTGAGTTG-CAGAACTAAAATATGAAGATGA-GCCAAAACCATTAAAATT-G
129 TCGTAGCACCAACATGAGTTGTC-GAACTAAAATATGAAGAT-ATGCCAAAACCATT-AAATTCA
* * * * *
6507389 CTAGAAGCCGATGATGAGCCAGAACCTT-CAGAGGAATTTGTAGCCCCAAAACCTGATGAAGACT
191 CTAGAAGCCAATGATGAACCAG-ACCTTGCAGAGGAATTCGAAGCCCCAAAACCTAATGAAGACT
* ** * * * * **
6507453 GGGAAGTCCCT-GTAGAATTGGAATCTTTTGACTTGTTTAAATCTACGGAAGAGTAAAAACCTTT
255 GGGAAGT-CCTAGCAGAACCGGAATCCTTTGAATTGTTTAAATCCAAGGAAGACCAAAAACCTTT
*
6507517 AGACATCATAGCAGAACCAG
319 AGACATCATAGCAAAACCAG
* * * *
6507537 AACCGTTTGACTTGTTAAAATCCGTGAAAGAGCCAGAACCTTCAGAAGAAGCGAAATGTGA
1 AATCATTAGACTTGTTAGAATCCGTGAAAGAGCCAGAACCTTCAGAAGAAGCG-AATGTGA
6507598 GGATGATCCT
Statistics
Matches: 328, Mismatches: 64, Indels: 15
0.81 0.16 0.04
Matches are distributed among these distances:
338 6 0.02
339 310 0.95
340 12 0.04
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (338 bp):
AATCATTAGACTTGTTAGAATCCGTGAAAGAGCCAGAACCTTCAGAAGAAGCGAATGTGAAAATG
AACCGGAATGTGAGGATAATCCTAAAGCTAAACCTGAATGTGAGAAAGATGAAGAACCATGACTC
GTAGCACCAACATGAGTTGTCGAACTAAAATATGAAGATATGCCAAAACCATTAAATTCACTAGA
AGCCAATGATGAACCAGACCTTGCAGAGGAATTCGAAGCCCCAAAACCTAATGAAGACTGGGAAG
TCCTAGCAGAACCGGAATCCTTTGAATTGTTTAAATCCAAGGAAGACCAAAAACCTTTAGACATC
ATAGCAAAACCAG
Found at i:6507939 original size:177 final size:177
Alignment explanation
Indices: 6507624--6507955 Score: 398
Period size: 177 Copynumber: 1.9 Consensus size: 177
6507614 AAACTTGAAC
* * * *
6507624 GTGAGAAAGATGAAGAGCCATGACTCGTAGCACCAATGTGAGTTTCAGAAATGGAATTTGAGGAT
1 GTGAGAAAGATGAAGAGCCATGACTCGTAGCACCAACGTGAGTTGCAGAAATAGAATGTGAGGAT
* * * ** *****
6507689 AAGCCAGAACCCTTAGAATCGTTAGAAGTTGATGATGAACCAGAACTTTTAGAGGAATTTGTTTC
66 AAGCCAAAACCCTTAGAACCGTTAGAAGCTGATGATGAACCAGAACTCGTAGAGGAATTCAAAGC
*
6507754 CCCAGAACCTAGTGGAA-ACTGGGAATTTGTTCCTGTAGAATTGGAAT
131 CCCAGAACCTAAT-GAAGACTGGGAATTTGTTCCTGTAGAATTGGAAT
* * * * **
6507801 GTGAGAACGATGAAGAGCCATGACTTGTAGCACTAACGTGAGTTGCGGAGCTAG-ATCGTGAGGA
1 GTGAGAAAGATGAAGAGCCATGACTCGTAGCACCAACGTGAGTTGCAGAAATAGAAT-GTGAGGA
* * * *
6507865 TGAGCCAAAATCCTTAGAACCGTTAGAAGCTGATGATGAACTAGAAGTCGTAGAGGAATTCAAAG
65 TAAGCCAAAACCCTTAGAACCGTTAGAAGCTGATGATGAACCAGAACTCGTAGAGGAATTCAAAG
*
6507930 CCTCAGAACCTAATGAAGACTGGGAA
130 CCCCAGAACCTAATGAAGACTGGGAA
6507956 GTCTCAGTAG
Statistics
Matches: 127, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
176 5 0.04
177 122 0.96
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (177 bp):
GTGAGAAAGATGAAGAGCCATGACTCGTAGCACCAACGTGAGTTGCAGAAATAGAATGTGAGGAT
AAGCCAAAACCCTTAGAACCGTTAGAAGCTGATGATGAACCAGAACTCGTAGAGGAATTCAAAGC
CCCAGAACCTAATGAAGACTGGGAATTTGTTCCTGTAGAATTGGAAT
Found at i:6508331 original size:339 final size:339
Alignment explanation
Indices: 6507797--6508413 Score: 759
Period size: 339 Copynumber: 1.8 Consensus size: 339
6507787 TGTAGAATTG
* ** * * * * * *
6507797 GAATGTGAGAACGATGAAGAGCCATGACTTGTAGCACTAACGTGAGTTGCGGAGCTAGATCGTGA
1 GAATGTGAGAAAGATGAAGAGCCATGACCCGTAGCACCAACGCGAGTTGCAGAACTACATCGTAA
* * * * * *
6507862 GGATGAGCCAAAATCCTTAGAACCGTTAGAAGCTGATGATGAACTAGAAGTCGTAGAGGAATTCA
66 GGATGAGCCAAAACCCTTAGAACCGTTAGAAACTAATGATGAACCAGAACTCGTAAAGGAATTCA
*
6507927 AAGCCTCAGAACCTAATGAAGACTGGGAAGTCTCAGTAGAACCGGAATCCTTTGAATTATTTGAA
131 AAGCCTCAGAACCTAATGAAGACTGGGAAGTCCCAGTAGAACCGGAATCCTTTGAATTATTTGAA
* * *
6507992 TGTGA-GGAAGA-TCCAGAACCTTTAGACA-TCGTAGCAGAATCGAAATTC-TTGGACTTGTTAG
196 TCT-ATAGAAGAGT-CAGAACCTTTAGA-ATTCGTAGCAGAATCGAAA-TCATTAGACTTGTTAG
** *
6508053 AATCTGCTGAAGAGCCAAAACCGTCAGAAGGCACATTATGTAAAAATGAACTAGAATGTGAGGAT
257 AATCCACGGAAGAGCCAAAACCGTCAGAAGGCACATTATGTAAAAATGAACTAGAATGTGAGGAT
6508118 GATCCTGAAGCTGAACTT
322 GATCCTGAAGCTGAACTT
*
6508136 GAATGTGAGAAAGATGAAGAGCCATGACCCGTAGCACCAGCGCGAGTTGCAGAACTTACAT-GTA
1 GAATGTGAGAAAGATGAAGAGCCATGACCCGTAGCACCAACGCGAGTTGCAGAAC-TACATCGTA
* * * *
6508200 AGGATGAGCCAGAACCCTTAGAATCGTTAGAAATTAATGATGAACCAGAACT-TTCAAAGGAATC
65 AGGATGAGCCAAAACCCTTAGAACCGTTAGAAACTAATGATGAACCAGAACTCGT-AAAGGAAT-
* * ** *
6508264 TGCTAA-CC-CGGAACCTAATGAAGA-TCGGGAAGTCCCTA-TAGAATTGGAATCCTTTGAATTG
128 T-CAAAGCCTCAGAACCTAATGAAGACT-GGGAAGTCCC-AGTAGAACCGGAATCCTTTGAATTA
* *
6508325 TTTGAATCTATAGAAGAGTCAGAACCTTTAGAATTCGTAGCAGAATTGGAATCATTAGACTTGTT
190 TTTGAATCTATAGAAGAGTCAGAACCTTTAGAATTCGTAGCAGAATCGAAATCATTAGACTTGTT
*
6508390 AGAATCCACGGAAGAGCCAGAACC
255 AGAATCCACGGAAGAGCCAAAACC
6508414 TTCAAAAGAA
Statistics
Matches: 233, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
338 6 0.03
339 215 0.92
340 9 0.04
341 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (339 bp):
GAATGTGAGAAAGATGAAGAGCCATGACCCGTAGCACCAACGCGAGTTGCAGAACTACATCGTAA
GGATGAGCCAAAACCCTTAGAACCGTTAGAAACTAATGATGAACCAGAACTCGTAAAGGAATTCA
AAGCCTCAGAACCTAATGAAGACTGGGAAGTCCCAGTAGAACCGGAATCCTTTGAATTATTTGAA
TCTATAGAAGAGTCAGAACCTTTAGAATTCGTAGCAGAATCGAAATCATTAGACTTGTTAGAATC
CACGGAAGAGCCAAAACCGTCAGAAGGCACATTATGTAAAAATGAACTAGAATGTGAGGATGATC
CTGAAGCTGAACTT
Found at i:6508819 original size:195 final size:193
Alignment explanation
Indices: 6508407--6508787 Score: 455
Period size: 195 Copynumber: 2.0 Consensus size: 193
6508397 ACGGAAGAGC
* * *
6508407 CAGAACCTTCAA-AAGAAGCAGAATGATTAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTAA
1 CAGAACCTCCAACAA-AACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTAA
* *
6508471 ATATAAGTTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCACCTT
65 ATATAAGTTAGAAGATGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAACACCACCTT
* * ** * **
6508536 GATTTGCTGAACGGAATTGTGAAGATTCACCAGAACCCTTAGAATCATTAGAATCTGTAGTAGT
130 GATTTGCTGAACAGAATTGTGAAGATTCACCAGAACCCTTAGAAACACCAGAACCTGTAAAAGT
* *
6508600 GCCATAACCTCCAACAAAACCAGAATGATGAAAAGAAGCAGAATGTGAAGTTGAACTAGAATGTG
1 --CAGAACCTCCAACAAAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGT-
** * * * *
6508665 AGGT-TGAGTTAGAAGATGAACTTGAATGTGAGAAAGATGCAGAGCTATGACCCGTAGCACCACC
63 AAATATAAGTTAGAAGATGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAACACCACC
* * * * *
6508729 TTGATTTG-TAGAATCAG-ATTGTGAGGGTTCGCCAGAACCCTTAGAAACCCCGGAACCTG
128 TTGATTTGCT-GAA-CAGAATTGTGAAGATTCACCAGAACCCTTAGAAACACCAGAACCTG
6508788 ATGAAAAAGT
Statistics
Matches: 159, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
194 1 0.01
195 152 0.96
196 6 0.04
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (193 bp):
CAGAACCTCCAACAAAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTAAA
TATAAGTTAGAAGATGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAACACCACCTTG
ATTTGCTGAACAGAATTGTGAAGATTCACCAGAACCCTTAGAAACACCAGAACCTGTAAAAGT
Found at i:6509130 original size:18 final size:17
Alignment explanation
Indices: 6509104--6509137 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6509094 AACCTTCAAT
6509104 AGAACCGGAATGATGAAA
1 AGAACCGGAATG-TGAAA
*
6509122 AGAAGCGGAATGTGAA
1 AGAACCGGAATGTGAA
6509138 GCTGAACTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.09, G:0.32, T:0.12
Consensus pattern (17 bp):
AGAACCGGAATGTGAAA
Found at i:6509167 original size:18 final size:18
Alignment explanation
Indices: 6509129--6509173 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
6509119 AAAAGAAGCG
* *
6509129 GAATGTGAAGCTGAACTA
1 GAATGTGAAGATGAACCA
*
6509147 GAATGTGAAGATGAGCCA
1 GAATGTGAAGATGAACCA
*
6509165 GAAAGTGAA
1 GAATGTGAA
6509174 CTTGAATGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (18 bp):
GAATGTGAAGATGAACCA
Found at i:6509219 original size:195 final size:195
Alignment explanation
Indices: 6508887--6509247 Score: 454
Period size: 195 Copynumber: 1.9 Consensus size: 195
6508877 TCAGAATCTA
* * * * * * * * *
6508887 CAGTAGTTCCCGAAACTTTAATAGAACCAGAATGATTAAAATAAGTGGAATGTGAAGTTGAATTG
1 CAGTAGTGCCAGAAACTTCAATAGAACCAGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTA
* ** * * * *
6508952 GAATGCGAGGATGAGTTAGAAGCTGAACTTGAATGTGAGAATGATGAAAAGCCATGACCCGTAAT
66 GAATGCGAAGATGAGCCAGAAGCTGAACTTGAATGTGAAAAAGATGAAAAGCCATGACCCATAAC
*** *
6509017 ACCACCTTGATTTGTTGAATTGGATTGTGAAGATTCGCTAGAACCCTTTGAAGCATTAAAATTAG
131 ACCACCTTGATTTCCAGAATTGAATTGTGAAGATTCGCTAGAACCCTTTGAAGCATTAAAATTAG
* *
6509082 CAGTAGTGCCAGAACCTTCAATAGAACCGGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTA
1 CAGTAGTGCCAGAAACTTCAATAGAACCAGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTA
* * * * *
6509147 GAATGTGAAGATGAGCCAGAAAG-TGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCCATAG
66 GAATGCGAAGATGAGCCAG-AAGCTGAACTTGAATGTGAAAAAGATGAAAAGCCATGACCCATAA
*
6509211 CACCACCTTGATTTCCAGAATTGAATTGTGAGGATTC
130 CACCACCTTGATTTCCAGAATTGAATTGTGAAGATTC
6509248 TTTGGGACCC
Statistics
Matches: 137, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
195 134 0.98
196 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (195 bp):
CAGTAGTGCCAGAAACTTCAATAGAACCAGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTA
GAATGCGAAGATGAGCCAGAAGCTGAACTTGAATGTGAAAAAGATGAAAAGCCATGACCCATAAC
ACCACCTTGATTTCCAGAATTGAATTGTGAAGATTCGCTAGAACCCTTTGAAGCATTAAAATTAG
Found at i:6509276 original size:489 final size:489
Alignment explanation
Indices: 6508406--6509557 Score: 1528
Period size: 489 Copynumber: 2.4 Consensus size: 489
6508396 CACGGAAGAG
* * * * *
6508406 CCAGAACCTTCAAAAGAAGCAGAATGATTAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTAA
1 CCAGAAACTTTAATAGAACCAGAATGATTAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTGA
** * *
6508471 ATATAAGTTAGAAGCTGAACTTGAATGTGAGAAAGATGAAGAGCCATGACCCGTAATACCACCTT
66 GGATGAGTTAGAAGCTGAACTTGAATGTGAGAAAGATGAAAAGCCATGACCCGTAATACCACCTT
* * * * *
6508536 GATTTGCTGAA-CGGAATTGTGAAGATTCACCAGAACCCTTAGAATCATTAGAATCTGTAGTAGT
131 GATTTGCTGAATTGG-ATTGTGAAGATTCGCCAGAACCCTTAGAAGCATTAAAATCTGCAGTAGT
* *
6508600 GCCATAACCTCCAACAAAACCAGAATGATGAAAAGAAGCAGAATGTGAAGTTGAACTAGAATGTG
195 GCCAGAACCTCCAACAAAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTG
* * ** * *
6508665 AGGTTGAGTTAGAAGATGAACTTGAATGTGAGAAAGATGCAGAGCTATGACCCGTAGCACCACCT
260 AAGATGAGCCAGAAGATGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCCATAGCACCACCT
** * *
6508730 TGATTTGTAGAATCAGATTGTGAGGGTTCGCCAGAACCCTTAGAAACCCCGGAACCTGATGAAAA
325 TGATTTCCAGAATCAGATTGTGAGGATTCGCCAGAACCCTTAGAAACCCCAGAACCTGATGAAAA
* * * *
6508795 AGT-AGAATTTGTAGAGGAACCAGAAGCCCC-GAAACTTGATGAAGACTTAGAATTCACAGCAGA
390 A-TCAGAACTTGTAGAGGAACCAGAAGCCCCAG-AACTTGATGAAGAATTAGAAGTCACAACAGA
* *
6508858 ACCTGAACCATTAGAGTCATCAGAATCTACAGTAGTT
453 ACCTGAACCATTAGAATCATCAGAATCTACAGCAGTT
* * ** * * * *
6508895 CCCGAAACTTTAATAGAACCAGAATGATTAAAATAAGTGGAATGTGAAGTTGAATTGGAATGCGA
1 CCAGAAACTTTAATAGAACCAGAATGATTAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTGA
*
6508960 GGATGAGTTAGAAGCTGAACTTGAATGTGAGAATGATGAAAAGCCATGACCCGTAATACCACCTT
66 GGATGAGTTAGAAGCTGAACTTGAATGTGAGAAAGATGAAAAGCCATGACCCGTAATACCACCTT
* * *
6509025 GATTTGTTGAATTGGATTGTGAAGATTCGCTAGAACCCTTTGAAGCATTAAAAT-TAGCAGTAGT
131 GATTTGCTGAATTGGATTGTGAAGATTCGCCAGAACCCTTAGAAGCATTAAAATCT-GCAGTAGT
* * * * *
6509089 GCCAGAACCTTCAATAGAACCGGAATGATGAAAAGAAGCGGAATGTGAAGCTGAACTAGAATGTG
195 GCCAGAACCTCCAACAAAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTG
6509154 AAGATGAGCCAGAA-AGTGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCCATAGCACCACC
260 AAGATGAGCCAGAAGA-TGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCCATAGCACCACC
* **** * *
6509218 TTGATTTCCAGAAT-TGAATTGTGAGGATTCTTTGGGACCCTTAGAAACCTCAGAACCTGATGAA
324 TTGATTTCCAGAATCAG-ATTGTGAGGATTCGCCAGAACCCTTAGAAACCCCAGAACCTGATGAA
* * *
6509282 GAATCAGAACTTGTAGAGGAACCAGAAGTCCCAGTACTTGATGAAGAATTAGAAGTCACAACAGA
388 AAATCAGAACTTGTAGAGGAACCAGAAGCCCCAGAACTTGATGAAGAATTAGAAGTCACAACAGA
* *
6509347 ACCTGAACCTTTAGAATCATCAGAATCTGCAGCAGTT
453 ACCTGAACCATTAGAATCATCAGAATCTACAGCAGTT
* * *
6509384 CCAGAACCTTTAATAGACCCAGAGTGATTAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTGA
1 CCAGAAACTTTAATAGAACCAGAATGATTAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTGA
* * * **
6509449 GGATGAGCTAGATGCTGAACTTGAATGTGAGAAAGAT-AAAGAGCTATGACCCGTAGCACCACCT
66 GGATGAGTTAGAAGCTGAACTTGAATGTGAGAAAGATGAAA-AGCCATGACCCGTAATACCACCT
* * *
6509513 TTATTTGCAGAATTGGATTGTGAGGATT-GTCCAGAACCCTTAGAA
130 TGATTTGCTGAATTGGATTGTGAAGATTCG-CCAGAACCCTTAGAA
6509558 ACCCCAGAAT
Statistics
Matches: 571, Mismatches: 84, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
488 8 0.01
489 560 0.98
490 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (489 bp):
CCAGAAACTTTAATAGAACCAGAATGATTAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTGA
GGATGAGTTAGAAGCTGAACTTGAATGTGAGAAAGATGAAAAGCCATGACCCGTAATACCACCTT
GATTTGCTGAATTGGATTGTGAAGATTCGCCAGAACCCTTAGAAGCATTAAAATCTGCAGTAGTG
CCAGAACCTCCAACAAAACCAGAATGATGAAAAGAAGCAGAATGTGAAGCTGAACTAGAATGTGA
AGATGAGCCAGAAGATGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCCATAGCACCACCTT
GATTTCCAGAATCAGATTGTGAGGATTCGCCAGAACCCTTAGAAACCCCAGAACCTGATGAAAAA
TCAGAACTTGTAGAGGAACCAGAAGCCCCAGAACTTGATGAAGAATTAGAAGTCACAACAGAACC
TGAACCATTAGAATCATCAGAATCTACAGCAGTT
Found at i:6509459 original size:18 final size:18
Alignment explanation
Indices: 6509422--6509460 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6509412 TAAAAGAAGC
*
6509422 AGAATGTGAAGCTGAACT
1 AGAATGTGAAGATGAACT
* *
6509440 AGAATGTGAGGATGAGCT
1 AGAATGTGAAGATGAACT
6509458 AGA
1 AGA
6509461 TGCTGAACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (18 bp):
AGAATGTGAAGATGAACT
Found at i:6510121 original size:252 final size:253
Alignment explanation
Indices: 6509681--6510194 Score: 717
Period size: 252 Copynumber: 2.0 Consensus size: 253
6509671 AGCTGAGGAT
* * *
6509681 AAGCTAGAAGCTGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCTGTGGCACCACCTTGATT
1 AAGCTAGAAGCCGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCCGTAGCACCACCTTGATT
* * *
6509746 TGCAGAACTAGGTTGTGAGGATTCTTCAGAACCCTTAGAAACCCCAGAACTTGTAGAGGAGCCGG
66 TGCAGAACTAGGTTGTGAGGATTCGTCAGAACCCTTAGAAACCCCAGAACTTATAGAGGAACCGG
* * *
6509811 AGGCCCCGGAACCTGATGAAGACTTAGAAGTCACAGCAGAACCTAAACCTTCAGAATCATTAGAA
131 AAGCCCCAGAACCTGATGAAGACTTAGAAGTCACACCAGAACCTAAACCTTCAGAATCATTAGAA
* * * * *
6509876 TATGCAGTAGCGTCAGAACCTTTAAAAGAACCAGAGTGATTAAAAGAAGCTGAATGTG
196 TATGCAGTAGCGCCAGAACCTTCAAAAGAACCAGAATGATGAAAAGAAGCAGAATGTG
*
6509934 -AGCTAGAAGCCGAACTTGAATGTGAGAAAGATGCAGAGCTATGACCCGTAGCACCACCTTGATT
1 AAGCTAGAAGCCGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCCGTAGCACCACCTTGATT
* * * * * **
6509998 TGTAGAATTGGGTTTTGAGGATTCGTCGGAACCCTTAGAAACCCCAGATTTTATAGAGGAACCGG
66 TGCAGAACTAGGTTGTGAGGATTCGTCAGAACCCTTAGAAACCCCAGAACTTATAGAGGAACCGG
* * * * * *
6510063 AATCCCCAGAACTTGTTGAAGACTTAGAAGTCACACCAGGACCTGAACCTTTAGAATCATTAGAA
131 AAGCCCCAGAACCTGATGAAGACTTAGAAGTCACACCAGAACCTAAACCTTCAGAATCATTAGAA
* * * * *
6510128 TCTGTAGTAGTGCCAGAACCTTCAATAGTACCAGAATGATGAAAAGAAGCAGAATGTG
196 TATGCAGTAGCGCCAGAACCTTCAAAAGAACCAGAATGATGAAAAGAAGCAGAATGTG
6510186 AAGCT-GAAG
1 AAGCTAGAAG
6510195 TAGAATGTGA
Statistics
Matches: 227, Mismatches: 33, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
252 223 0.98
253 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (253 bp):
AAGCTAGAAGCCGAACTTGAATGTGAAAAAGATGCAGAGCTATGACCCGTAGCACCACCTTGATT
TGCAGAACTAGGTTGTGAGGATTCGTCAGAACCCTTAGAAACCCCAGAACTTATAGAGGAACCGG
AAGCCCCAGAACCTGATGAAGACTTAGAAGTCACACCAGAACCTAAACCTTCAGAATCATTAGAA
TATGCAGTAGCGCCAGAACCTTCAAAAGAACCAGAATGATGAAAAGAAGCAGAATGTG
Found at i:6510344 original size:18 final size:18
Alignment explanation
Indices: 6510323--6510362 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6510313 AGCAGAACTT
6510323 GAATGTGAGA-AAGAACCA
1 GAATGTGA-ACAAGAACCA
*
6510341 GAATGTGAACATGAACCA
1 GAATGTGAACAAGAACCA
6510359 GAAT
1 GAAT
6510363 TCAACTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.47, C:0.12, G:0.25, T:0.15
Consensus pattern (18 bp):
GAATGTGAACAAGAACCA
Found at i:6510799 original size:16 final size:17
Alignment explanation
Indices: 6510780--6510811 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6510770 TCAAATTCTT
6510780 TTATTATTA-AATTATC
1 TTATTATTATAATTATC
6510796 TTATTATTATAATTAT
1 TTATTATTATAATTAT
6510812 TATTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTATTATAATTATC
Found at i:6513065 original size:31 final size:31
Alignment explanation
Indices: 6513030--6513143 Score: 113
Period size: 31 Copynumber: 3.7 Consensus size: 31
6513020 TTTAAAAATA
* * * *
6513030 ATAAAACAATCATTAAATTCATCGAATTATT
1 ATAAAATAATCATTAAATTTATCAAACTATT
* * * *
6513061 ATAAAATGATTATTAAATTTGTTAAACTATT
1 ATAAAATAATCATTAAATTTATCAAACTATT
* *
6513092 ATAAAATAAT-GTTAAATTTTATCTAACTATT
1 ATAAAATAATCATTAAA-TTTATCAAACTATT
*
6513123 ATAAAATAATCATTAGATTTA
1 ATAAAATAATCATTAAATTTA
6513144 AAAAAAATAT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
30 5 0.08
31 57 0.86
32 4 0.06
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (31 bp):
ATAAAATAATCATTAAATTTATCAAACTATT
Found at i:6526635 original size:14 final size:14
Alignment explanation
Indices: 6526616--6526645 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6526606 AACCACTTTA
6526616 CTTCATGTTTAAAT
1 CTTCATGTTTAAAT
*
6526630 CTTCATGTTTCAAT
1 CTTCATGTTTAAAT
6526644 CT
1 CT
6526646 CTTAAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (14 bp):
CTTCATGTTTAAAT
Done.