Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 33
Found at i:4853048 original size:5 final size:5
Alignment explanation
Indices: 4853032--4853289 Score: 61
Period size: 5 Copynumber: 53.4 Consensus size: 5
4853022 ATTTTTACTA
* ** * * *
4853032 TTATT TTCTT TTATT TTA-T TTGCT TCATT TT-TT TT-CT TTATT TCATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
* * * * *
4853079 TTATT TT-TT AT-TT TTAAT TT-TT TTACT TT-CT TTATCT TTATT TT-GT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTAT-T TTATT TTATT
* * *
4853125 TTATT TTA-T TTCTT TT-GT TTATT TTA-T TTATGT TT-CT TTATT TTCATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTAT-T TTATT TTATT TT-ATT
* **
4853173 TT-GT TTATT TTA-T TTACTT CTTATCT TTACTT TGCCTT TT-TT TTATT
1 TTATT TTATT TTATT TTA-TT -TTAT-T TTA-TT T-TATT TTATT TTATT
* * * * * * *
4853220 TTTTCT TTATCT TT-CT TTACT TCA-T TTATT TTATC TT-CT TTATT TCATT
1 TTAT-T TTAT-T TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
4853269 TT-TT TTCATT TTA-T TTATT TT
1 TTATT TT-ATT TTATT TTATT TT
4853290 TATTACCTTT
Statistics
Matches: 185, Mismatches: 40, Indels: 56
0.66 0.14 0.20
Matches are distributed among these distances:
4 66 0.36
5 79 0.43
6 35 0.19
7 5 0.03
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:4853148 original size:74 final size:74
Alignment explanation
Indices: 4852968--4853168 Score: 180
Period size: 74 Copynumber: 2.7 Consensus size: 74
4852958 ATTTTTATTA
* * *
4852968 TTTATTTATTTTTATTTT-TTTCTTGCTTTTATTTA-TTTATTTATTTA-TTATAATATTTTTAC
1 TTTATTT-TATTTATTTTATTTCTT-TTTTTATTTATTTTATTTATTTATTTTTAATATTTTTAC
4853030 TATTATTTTCT
64 TATTATTTTCT
** * * *
4853041 TTTATTTTATTTGCTTCATTTTTTTTCTTTATTTCATTTTATTT-TTTATTTTTAATTTTTTTAC
1 TTTATTTTATTTATTTTATTTCTTTT-TTTATTT-ATTTTATTTATTTATTTTTAATATTTTTAC
*
4853105 T-TTCTTTATC-
64 TATTATTT-TCT
* * *
4853115 TTTATTTTGTTTATTTTATTTCTTTTGTTTATTTTATTTATGTTTCTTTATTTT
1 TTTATTTTATTTATTTTATTTCTTTT-TTTA-TTTATTT-TATTTATTTATTTT
4853169 CATTTTGTTT
Statistics
Matches: 103, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
72 7 0.07
73 19 0.18
74 39 0.38
75 30 0.29
76 8 0.08
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.75
Consensus pattern (74 bp):
TTTATTTTATTTATTTTATTTCTTTTTTTATTTATTTTATTTATTTATTTTTAATATTTTTACTA
TTATTTTCT
Found at i:4853155 original size:83 final size:81
Alignment explanation
Indices: 4853032--4853269 Score: 195
Period size: 83 Copynumber: 2.9 Consensus size: 81
4853022 ATTTTTACTA
* **
4853032 TTATTTTCTTTTATTTTATTTGCTTCATTT-TTTTTCTTTATTTCATTTTATTTT-TTATT-TTT
1 TTATTTT-GTTTATTTTATTT-CTTTTTTTATTTT-CTTTATTTCATTTTATTTTATT-TTGTTT
4853094 AATTTT-TTTACTTTCTTTATCT
62 -ATTTTATTTAC-TTC-TTATCT
*
4853116 TTATTTTGTTTATTTTATTTCTTTTGTTTATTTTATTTATGTT--TCTTTATTTTCATTTTGTTT
1 TTATTTTGTTTATTTTATTTCTTTT-TTTATTTTCTTTAT-TTCAT-TTTATTTT-ATTTTGTTT
4853179 ATTTTATTTACTTCTTATCT
62 ATTTTATTTACTTCTTATCT
* * * * * *
4853199 TTACTTTGCCTTTTTTTTATTT-TTTCTTTATCTTTCTTTACTTCA-TTTATTTTATCTTCTTTA
1 TTATTTTG--TTTATTTTATTTCTTTTTTTAT-TTTCTTTATTTCATTTTATTTTATTTTGTTTA
*
4853262 TTTCATTT
63 TTTTATTT
4853270 TTTTTCATTT
Statistics
Matches: 129, Mismatches: 12, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
82 19 0.15
83 56 0.43
84 33 0.26
85 21 0.16
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.73
Consensus pattern (81 bp):
TTATTTTGTTTATTTTATTTCTTTTTTTATTTTCTTTATTTCATTTTATTTTATTTTGTTTATTT
TATTTACTTCTTATCT
Found at i:4853174 original size:52 final size:51
Alignment explanation
Indices: 4853076--4853187 Score: 149
Period size: 52 Copynumber: 2.2 Consensus size: 51
4853066 TCTTTATTTC
*
4853076 ATTTTATTTTTTATTTTTAATTTTTTTACTTTCTTTATCTTTATTTTGTTT
1 ATTTTATTTTTTATGTTTAATTTTTTTACTTTCTTTATCTTTATTTTGTTT
*
4853127 ATTTTATTTCTTT-TGTTT-ATTTTATTTATGTTTCTTTAT-TTTCATTTTGTTT
1 ATTTTATTT-TTTATGTTTAATTTT-TTTA-CTTTCTTTATCTTT-ATTTTGTTT
4853179 ATTTTATTT
1 ATTTTATTT
4853188 ACTTCTTATC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
50 5 0.09
51 20 0.36
52 30 0.55
ACGTcount: A:0.15, C:0.05, G:0.04, T:0.76
Consensus pattern (51 bp):
ATTTTATTTTTTATGTTTAATTTTTTTACTTTCTTTATCTTTATTTTGTTT
Found at i:4853300 original size:20 final size:20
Alignment explanation
Indices: 4853235--4853300 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
4853225 TTTATCTTTC
* *
4853235 TTTACTTCATTTATTTTATCTT
1 TTTATTTCATTT-TTTTA-CAT
*
4853257 CTTTATTTCATTTTTTTTCAT
1 -TTTATTTCATTTTTTTACAT
*
4853278 TTTATTT-ATTTTTATTACCT
1 TTTATTTCATTTTT-TTACAT
4853298 TTT
1 TTT
4853301 GTTATCTAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.16
20 14 0.38
21 2 0.05
22 4 0.11
23 11 0.30
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTTCATTTTTTTACAT
Found at i:4859767 original size:64 final size:64
Alignment explanation
Indices: 4859636--4859921 Score: 404
Period size: 64 Copynumber: 4.5 Consensus size: 64
4859626 TGCAGCTTTT
** * *
4859636 AGAGTCAATTTCAACTTCACAGCAAAGG--A-T--ACTCTACAAACAACTTTCCTGTTTCATTC
1 AGAGTCAATTTCAACTTCACAATAAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * *
4859695 AGAGTCAATTTCAAATTCACAATGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCAATC
1 AGAGTCAATTTCAACTTCACAATAAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * *
4859759 AGAATCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAATAAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * *
4859823 AGAGTCAATTTCAGCTTCACAACAAAGGATATTGGACTCAACAAACAACTTTTCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAATAAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
4859887 AGAGTCAATTTCAACTTCAC-ATCAAAGGATATTGG
1 AGAGTCAATTTCAACTTCACAAT-AAAGGATATTGG
4859922 CTCGAAGCGA
Statistics
Matches: 202, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
59 24 0.12
61 1 0.00
62 1 0.00
63 1 0.00
64 175 0.87
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAATAAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
Found at i:4860191 original size:109 final size:109
Alignment explanation
Indices: 4860000--4860222 Score: 358
Period size: 109 Copynumber: 2.0 Consensus size: 109
4859990 AATTTGGTGA
4860000 AACAACCCTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAATGAA
1 AACAACCCTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAATGAA
* *
4860065 TGAGCCATCTACGATTTCAACTTCACAATGAAGGATATCGTGCC
66 TGAGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTGCC
* ** *
4860109 AACAATCCTTGGATTTCAACTTCATGACGAAGGATATCCAATTCCAAGCTCAACTTCACAACT-A
1 AACAACCCTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAA-TGA
*
4860173 ATGAGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCC
65 ATGAGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTGCC
*
4860218 CACAA
1 AACAA
4860223 ACAACATCCA
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 104 0.99
110 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (109 bp):
AACAACCCTTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAATGAA
TGAGCCATCCACGATTTCAACTTCACAACGAAGGATATCGTGCC
Found at i:4861587 original size:41 final size:38
Alignment explanation
Indices: 4861542--4861764 Score: 152
Period size: 41 Copynumber: 5.7 Consensus size: 38
4861532 TATATATATA
4861542 TTATTTTATTATTTTATTTTCTTTATATTTTTTTTTTGCTT
1 TTATTTTATTATTTTATTTTCTTTAT-TTTTTTTTTT--TT
*
4861583 TTA-TTTATTTATTATATTATT-TTTATTATTTTTTATTTTAT
1 TTATTTTA-TTATTTTATT-TTCTTTATT-TTTTTT-TTTT-T
** *
4861624 TTGCTTTATT-TTTTCTTTTTCTTTATTTTTATTTTTTTT
1 TTATTTTATTATTTT-ATTTTCTTTATTTTT-TTTTTTTT
* * * * *
4861663 TTATTTTTTTATTTTTTACTTTCTTTATTGTGTTTATTTT
1 TTATTTTATTA--TTTTATTTTCTTTATTTTTTTTTTTTT
* ** *
4861703 TTATTTTTTTATTTT-TGTTTCTTTA-TTTTCATTTTAT
1 TTATTTTATTATTTTAT-TTTCTTTATTTTTTTTTTTTT
*
4861740 TTATTTTATTTACTTT-TTTTCTTTA
1 TTATTTTA-TTATTTTATTTTCTTTA
4861765 CTTTGTCTTT
Statistics
Matches: 147, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
37 21 0.14
38 19 0.13
39 8 0.05
40 36 0.24
41 50 0.34
42 13 0.09
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (38 bp):
TTATTTTATTATTTTATTTTCTTTATTTTTTTTTTTTT
Found at i:4861591 original size:21 final size:20
Alignment explanation
Indices: 4861542--4861855 Score: 114
Period size: 19 Copynumber: 15.4 Consensus size: 20
4861532 TATATATATA
*
4861542 TTATTTTATTATTTTATTTTCTT
1 TTATTTT-TT-TTTTATTTT-AT
*
4861565 TATATTTTTTTTTTGCTTTTAT
1 T-TATTTTTTTTTT-ATTTTAT
* *
4861587 TTATTTATTATATTATTTT-T
1 TTATTT-TTTTTTTATTTTAT
**
4861607 ATTATTTTTTATTTTATTTGCT
1 -TTATTTTTT-TTTTATTTTAT
4861629 TTATTTTTTCTTTT-TCTTTATTT
1 TTATTTTTT-TTTTAT-TTTA--T
4861652 TTATTTTTTTTTTATTTT-T
1 TTATTTTTTTTTTATTTTAT
* *
4861671 TTATTTTTTACTTT-CTTTAT
1 TTATTTTTT-TTTTATTTTAT
* *
4861691 TGTGTTTATTTTTTATTTT-T
1 T-TATTTTTTTTTTATTTTAT
* *
4861711 TTA-TTTTTGTTT-CTTTAT
1 TTATTTTTTTTTTATTTTAT
* *
4861729 TT-TCATTTTATTTATTTTAT
1 TTAT-TTTTTTTTTATTTTAT
*
4861749 TTACTTTTTTTCTTTACTTTGTCT
1 TTA-TTTTTTT-TTTA-TTT-TAT
* * *
4861773 TT-TTTATTTCTT-CTTTAT
1 TTATTTTTTTTTTATTTTAT
* * ** **
4861791 CT-TTCTTTACTTCCTTTAT
1 TTATTTTTTTTTTATTTTAT
* * *
4861810 TT-TCTCTTTTTTATTTCAT
1 TTATTTTTTTTTTATTTTAT
*
4861829 TTA-TTTTTTTTCATTTTAT
1 TTATTTTTTTTTTATTTTAT
4861848 TTATTTTT
1 TTATTTTT
4861856 ATTACCTTTT
Statistics
Matches: 217, Mismatches: 48, Indels: 55
0.68 0.15 0.17
Matches are distributed among these distances:
17 3 0.01
18 20 0.09
19 56 0.26
20 25 0.12
21 52 0.24
22 30 0.14
23 21 0.10
24 10 0.05
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (20 bp):
TTATTTTTTTTTTATTTTAT
Found at i:4861600 original size:9 final size:8
Alignment explanation
Indices: 4861586--4861715 Score: 59
Period size: 7 Copynumber: 16.8 Consensus size: 8
4861576 TTTGCTTTTA
4861586 TTTATTTAT
1 TTTA-TTAT
*
4861595 TATATTATT
1 TTTATTA-T
4861604 TTTATTAT
1 TTTATTAT
4861612 TTT-TTAT
1 TTTATTAT
4861619 TTTATT-T
1 TTTATTAT
4861626 GCTTTATT-T
1 --TTTATTAT
*
4861635 TTTCTT-T
1 TTTATTAT
4861642 TTCT-TTA-
1 TT-TATTAT
4861649 TTT-TTAT
1 TTTATTAT
4861656 TTT-TT-T
1 TTTATTAT
*
4861662 TTTATTTT
1 TTTATTAT
4861670 TTTATT-T
1 TTTATTAT
4861677 TTTACTT-T
1 TTTA-TTAT
*
4861685 CTTTATTGT
1 -TTTATTAT
4861694 GTTTATT-T
1 -TTTATTAT
*
4861702 TTTATTTT
1 TTTATTAT
4861710 TTTATT
1 TTTATT
4861716 TTTGTTTCTT
Statistics
Matches: 104, Mismatches: 4, Indels: 27
0.77 0.03 0.20
Matches are distributed among these distances:
6 8 0.08
7 38 0.37
8 30 0.29
9 28 0.27
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTATTAT
Found at i:4861624 original size:65 final size:64
Alignment explanation
Indices: 4861540--4861774 Score: 193
Period size: 65 Copynumber: 3.7 Consensus size: 64
4861530 TATATATATA
*
4861540 TATTATTTTATTATTTTATTTTCTTTATATTTTT-TTTTTGCTTT-TATTTATTTATTATATTAT
1 TATTATTTT-TTATTTTATTTGCTTTAT-TTTTTCTTTTT-CTTTATATTTATTT-TTATATTAT
4861603 TTT
62 TTT
* * *
4861606 TATTATTTTTTATTTTATTTGCTTTATTTTTTCTTTTTCTTTATTTTTATTTTTTTTTTATTTT
1 TATTATTTTTTATTTTATTTGCTTTATTTTTTCTTTTTCTTTATATTTATTTTTATATTATTTT
* * *
4861670 T-TTATTTTTTACTTTCTTTATTGTG-TTTATTTTTT-ATTTT-TTTAT-TTT-TGTTTCT-TTA
1 TATTATTTTTTA---T-TTTATT-TGCTTTATTTTTTCTTTTTCTTTATATTTATTTTTATATTA
4861728 TTTT
61 TTTT
* * * * *
4861732 CATT-TTATTTATTTTATTTACTTTTTTTCTTTACTTTGTCTTT
1 TATTATTTTTTATTTTATTTGCTTTATTT-TTT-CTTTTTCTTT
4861775 TTTATTTCTT
Statistics
Matches: 143, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
57 1 0.01
58 12 0.08
59 4 0.03
61 3 0.02
62 16 0.11
63 17 0.12
64 23 0.16
65 35 0.24
66 14 0.10
67 16 0.11
68 2 0.01
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (64 bp):
TATTATTTTTTATTTTATTTGCTTTATTTTTTCTTTTTCTTTATATTTATTTTTATATTATTTT
Found at i:4861636 original size:58 final size:56
Alignment explanation
Indices: 4861538--4861718 Score: 148
Period size: 56 Copynumber: 3.2 Consensus size: 56
4861528 TATATATATA
*
4861538 TATATTA-TTTTATTATTTTATTTTCTTTATATT-TTTTTTTTGCTTTTATTTATTTAT
1 TATATTATTTTTATTA-TTT-TTTTATTTAT-TTCTTTTTTTTGCTTTTATTTATTTAT
* *
4861595 TATATTATTTTTATTA-TTTTTTATTTTATTTGCTTTATTTTTTCTTTTTCTTTATTT-T
1 TATATTATTTTTATTATTTTTTTA-TTTATTT-CTTT-TTTTTGC-TTTTATTTATTTAT
4861653 TAT-TT-TTTTT-TTATTTTTTTATTT-TTTACTTTCTTTATTG-TGTTTATTT-TTTAT
1 TATATTATTTTTATTATTTTTTTATTTATTT-CTTT-TTT-TTGCT-TTTATTTATTTAT
* *
4861707 TTTTTTATTTTT
1 TATATTATTTTT
4861719 GTTTCTTTAT
Statistics
Matches: 104, Mismatches: 8, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
53 4 0.04
54 19 0.18
55 16 0.15
56 24 0.23
57 12 0.12
58 18 0.17
59 11 0.11
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (56 bp):
TATATTATTTTTATTATTTTTTTATTTATTTCTTTTTTTTGCTTTTATTTATTTAT
Found at i:4861650 original size:47 final size:44
Alignment explanation
Indices: 4861599--4861781 Score: 134
Period size: 44 Copynumber: 4.1 Consensus size: 44
4861589 ATTTATTATA
4861599 TTATTTTTATTATTTTTTATTTTATTTGCTTTATTTTTT-CTTT-T
1 TTATTTTT-TTATTTTTTATTTTATTT-CTTTATTTTTTACTTTCT
*
4861643 TCT-TTATTTTTATTTTTT-TTTTATTTTTTTATTTTTTACTTTCT
1 T-TATT-TTTTTATTTTTTATTTTATTTCTTTATTTTTTACTTTCT
* * * *
4861687 TTATTGTGTTTATTTTTTATTTT-TTTATTT-TTGTTT-CTTTATT
1 TTATT-TTTTTATTTTTTATTTTATTTCTTTATTTTTTACTTT-CT
* *
4861730 TTCATTTTATTTATTTTATTTACTTTT-TTTCTTTACTTTGT-CTTT-T
1 TT-ATTTT-TTTA-TTT-TTTA-TTTTATTTCTTTATTTTTTACTTTCT
4861776 TTATTT
1 TTATTT
4861782 CTTCTTTATC
Statistics
Matches: 115, Mismatches: 11, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
42 14 0.12
43 22 0.19
44 40 0.35
45 15 0.13
46 7 0.06
47 10 0.09
48 7 0.06
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.79
Consensus pattern (44 bp):
TTATTTTTTTATTTTTTATTTTATTTCTTTATTTTTTACTTTCT
Found at i:4861714 original size:40 final size:41
Alignment explanation
Indices: 4861609--4861768 Score: 127
Period size: 40 Copynumber: 3.9 Consensus size: 41
4861599 TTATTTTTAT
* * *
4861609 TATTTTTTATTTTATTTGCTTTATTTTTTCTTTTTCTTTATTTT
1 TATTTATT-TTTTATTT-TTTTATTTTTTC-TTTTCTTTATTTG
*
4861653 TATTTTTTTTTTATTTTTTTATTTTTTAC-TTTCTTTA-TTG
1 TATTTATTTTTTATTTTTTTATTTTTT-CTTTTCTTTATTTG
* *
4861693 TGTTTATTTTTTATTTTTTTA-TTTTT-GTTTCTTTATTT-
1 TATTTATTTTTTATTTTTTTATTTTTTCTTTTCTTTATTTG
* *
4861731 TCA-TT-TTATTTATTTTATTTACTTTTTTTCTTTACTTT
1 T-ATTTATTTTTTATTTT-TTTA--TTTTTTCTTTTCTTT
4861769 GTCTTTTTTA
Statistics
Matches: 99, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
37 10 0.10
38 15 0.15
39 7 0.07
40 21 0.21
41 13 0.13
42 16 0.16
43 9 0.09
44 8 0.08
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (41 bp):
TATTTATTTTTTATTTTTTTATTTTTTCTTTTCTTTATTTG
Found at i:4861717 original size:96 final size:96
Alignment explanation
Indices: 4861553--4861755 Score: 222
Period size: 96 Copynumber: 2.1 Consensus size: 96
4861543 TATTTTATTA
*
4861553 TTTTATTTTCTTTATATTTTTTTTTTGCTTTTATTTATTTATTATATTATTTTTATTATTTTTTA
1 TTTTATTTTCTTTATATTTTTTTATT-CTTTTATTTATTTATTATATTATTTTTATTATTTTTTA
4861618 TTTTAT-TTGCTTTATTTTTTCTTTTTCTTTAT
65 TTTT-TGTTGCTTTATTTTTTCTTTTTCTTTAT
* * * * *
4861650 TTTTATTTTTTTTTTATTTTTTTATT-TTTTACTTTCTTTATTGTGTT-TATTTT-TTATTTTTT
1 TTTTATTTTCTTTATATTTTTTTATTCTTTTA-TTTATTTATTATATTAT-TTTTATTA-TTTTT
* * *
4861712 TATTTTTGTTTCTTTA--TTTTCATTTTATTTA-
63 TATTTTTGTTGCTTTATTTTTTCTTTTTCTTTAT
*
4861743 TTTTATTTACTTT
1 TTTTATTTTCTTT
4861756 TTTTCTTTAC
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
93 11 0.12
94 13 0.14
95 10 0.11
96 34 0.37
97 23 0.25
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (96 bp):
TTTTATTTTCTTTATATTTTTTTATTCTTTTATTTATTTATTATATTATTTTTATTATTTTTTAT
TTTTGTTGCTTTATTTTTTCTTTTTCTTTAT
Found at i:4861718 original size:9 final size:9
Alignment explanation
Indices: 4861553--4861873 Score: 131
Period size: 9 Copynumber: 33.9 Consensus size: 9
4861543 TATTTTATTA
4861553 TTTTATTTT
1 TTTTATTTT
4861562 CTTTATATTTT
1 -TTT-TATTTT
**
4861573 TTTT-TTGC
1 TTTTATTTT
4861581 TTTTATTTAT
1 TTTTATTT-T
4861591 TTATTATATTAT
1 TT-TTAT-TT-T
4861603 TTTTATTATT
1 TTTTATT-TT
4861613 TTTTATTTT
1 TTTTATTTT
4861622 ATTTGCT-TTATT
1 -TTT--TATT-TT
*
4861634 TTTTCTTTT
1 TTTTATTTT
4861643 TCTTTATTTT
1 T-TTTATTTT
*
4861653 TATT-TTTT
1 TTTTATTTT
4861661 TTTTA-TTT
1 TTTTATTTT
4861669 TTTTA--TT
1 TTTTATTTT
*
4861676 TTTTACTTT
1 TTTTATTTT
* *
4861685 CTTTATTGT
1 TTTTATTTT
*
4861694 GTTTA--TT
1 TTTTATTTT
4861701 TTTTA-TTT
1 TTTTATTTT
4861709 TTTTATTTT
1 TTTTATTTT
*
4861718 TGTTTCTTTAT
1 T-TTTATTT-T
*
4861729 TTTCATTTT
1 TTTTATTTT
*
4861738 ATTTATTTT
1 TTTTATTTT
* *
4861747 ATTTACTTT
1 TTTTATTTT
* *
4861756 TTTTCTTTA
1 TTTTATTTT
* * *
4861765 CTTTGTCTT
1 TTTTATTTT
4861774 TTTTATTTCT
1 TTTTATTT-T
4861784 TCTTTATCTTT
1 T-TTTAT-TTT
*
4861795 CTTTACTTCCTT
1 TTTTA-TT--TT
4861807 TATTT-TCTCTT
1 T-TTTAT-T-TT
*
4861818 TTTTATTTC
1 TTTTATTTT
*
4861827 ATTTATTTT
1 TTTTATTTT
4861836 TTTTCATTTT
1 TTTT-ATTTT
*
4861846 ATTTATTTT
1 TTTTATTTT
*
4861855 TATTACCTTTT
1 TTTTA--TTTT
4861866 TTTTATTT
1 TTTTATTT
4861874 AACAAGTTCT
Statistics
Matches: 240, Mismatches: 40, Indels: 63
0.70 0.12 0.18
Matches are distributed among these distances:
7 12 0.05
8 28 0.12
9 80 0.33
10 60 0.25
11 43 0.18
12 14 0.06
13 3 0.01
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTATTTT
Found at i:4861768 original size:5 final size:4
Alignment explanation
Indices: 4861582--4861751 Score: 70
Period size: 4 Copynumber: 42.0 Consensus size: 4
4861572 TTTTTTTGCT
* *
4861582 TTTA TTTA TTTA -TTA TATTA TTTT TATTA TTT- TTTA TTTTA TTTGC
1 TTTA TTTA TTTA TTTA T-TTA TTTA T-TTA TTTA TTTA -TTTA TTT-A
* * * * *
4861628 TTTA TTTT TTCTT TTTC TTTA -TT- TTTA TTT- TTTT TTTA TTTT TTTA
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
4861674 TTT- TTTA CTTTC TTTA TTGTG TTTA TTT- TTTA TTTT TTTA -TT- TTTG
1 TTTA TTTA -TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
4861720 TTTC TTTA TTTTCA TTTTA TTTA TTTTA TTTA
1 TTTA TTTA -TTT-A -TTTA TTTA -TTTA TTTA
4861752 CTTTTTTTCT
Statistics
Matches: 129, Mismatches: 18, Indels: 38
0.70 0.10 0.21
Matches are distributed among these distances:
3 23 0.18
4 69 0.53
5 32 0.25
6 5 0.04
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:4861846 original size:15 final size:14
Alignment explanation
Indices: 4861817--4861855 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
4861807 TATTTTCTCT
4861817 TTTTTATTTCATTTA
1 TTTTT-TTTCATTTA
4861832 TTTTTTTTCATTTTA
1 TTTTTTTTCA-TTTA
4861847 TTTATTTTT
1 TTT-TTTTT
4861856 ATTACCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTTCATTTA
Found at i:4869742 original size:62 final size:62
Alignment explanation
Indices: 4869665--4869785 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
4869655 GAAAACAGAG
*
4869665 AATTACGGCTTAAAAGTATTATTAGGGGTGGTGAAGGTTTTGTATTCTAAAAAATAGATACA
1 AATTACGGCTTAAAAGTATTATTAGGGGTGGTGAAAGTTTTGTATTCTAAAAAATAGATACA
*
4869727 AATTATGGCTTAAAAGTATTATTAGGGGTGGTGAAAGTTTTGTATTCTAAAAAATAGAT
1 AATTACGGCTTAAAAGTATTATTAGGGGTGGTGAAAGTTTTGTATTCTAAAAAATAGAT
4869786 GCATTGCAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (62 bp):
AATTACGGCTTAAAAGTATTATTAGGGGTGGTGAAAGTTTTGTATTCTAAAAAATAGATACA
Found at i:4877585 original size:24 final size:24
Alignment explanation
Indices: 4877553--4877601 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
4877543 AGTTTTCCTG
*
4877553 ATGATGTATAAAACATTTATGTAC
1 ATGATGTATAAAACATCTATGTAC
4877577 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
4877601 A
1 A
4877602 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:4877952 original size:31 final size:31
Alignment explanation
Indices: 4877912--4877976 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
4877902 TACAATATAA
*
4877912 TCCCCCAACATTTAGTCCGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCGTTTGAAATATGG
* * *
4877943 TCCCTCAACATTTAGTTCGTTTGAAATGTGG
1 TCCCCCAACATTTAGTCCGTTTGAAATATGG
4877974 TCC
1 TCC
4877977 TTGATGTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCGTTTGAAATATGG
Found at i:4880040 original size:31 final size:31
Alignment explanation
Indices: 4880002--4880078 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
4879992 CTTTTAAAAC
* * *
4880002 TTGCAATATAATCCCTTAATATTTAGTCCGT
1 TTGCAATATGATCCCTCAACATTTAGTCCGT
*
4880033 TTGCAATATGGTCCCTCAACATTTAGTCCGT
1 TTGCAATATGATCCCTCAACATTTAGTCCGT
*
4880064 TTGTAATATGATCCC
1 TTGCAATATGATCCC
4880079 CGACGTAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (31 bp):
TTGCAATATGATCCCTCAACATTTAGTCCGT
Found at i:4881026 original size:15 final size:17
Alignment explanation
Indices: 4880989--4881034 Score: 69
Period size: 15 Copynumber: 2.8 Consensus size: 17
4880979 TGTTTCTGAG
4880989 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
4881007 GGAATTGGAAT-TGT-A
1 GGAATTGGAATCTGTAA
4881022 GGAATTGGAATCT
1 GGAATTGGAATCT
4881035 AAATCTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
17 3 0.11
18 11 0.41
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.30
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:4881640 original size:34 final size:33
Alignment explanation
Indices: 4881594--4881681 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 33
4881584 TTTTCACCCT
4881594 AAACCCGAACCCGACCCGAATATCACAA-TTAAAAA
1 AAACCCG-ACCCGACCCGAATATCA-AACTT-AAAA
* *
4881629 AAACCTGACCCGACCCAAATATCAAACTTAAAA
1 AAACCCGACCCGACCCGAATATCAAACTTAAAA
*
4881662 AACCCCGACCCGATCCCGAA
1 AAACCCGACCCGA-CCCGAA
4881682 ATTTTTTGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 17 0.37
34 23 0.50
35 6 0.13
ACGTcount: A:0.44, C:0.35, G:0.09, T:0.11
Consensus pattern (33 bp):
AAACCCGACCCGACCCGAATATCAAACTTAAAA
Found at i:4881805 original size:111 final size:111
Alignment explanation
Indices: 4881596--4881798 Score: 284
Period size: 110 Copynumber: 1.8 Consensus size: 111
4881586 TTCACCCTAA
*
4881596 ACCCGAACCCGACCCGAATATCACAATTAAAAAAAACCTGACCCGACCCAAATATCAAACTTAAA
1 ACCCGAACCCGACCCGAATATCACAATTAAAAAAAACCCGACCCGACCCAAATATCAAACTTAAA
* *
4881661 AAACCCCGACCCGATCCCGAAATTTTTTGAAAAACAACTTGACTCG
66 AAACCCCAACCCGAACCCGAAATTTTTTGAAAAACAACTTGACTCG
* * * * ** *
4881707 ACCCGAGCCCGACCCGAATTTCACACTT-ACAAAAACCCGACTTGACCCGAATATCAAACTTTAA
1 ACCCGAACCCGACCCGAATATCACAATTAAAAAAAACCCGACCCGACCCAAATATCAAAC-TTAA
*
4881771 AAAA-CCCAACCCGAACCCGAATTTTTTT
65 AAAACCCCAACCCGAACCCGAAATTTTTT
4881799 ATAAAAAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
110 47 0.59
111 33 0.41
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.19
Consensus pattern (111 bp):
ACCCGAACCCGACCCGAATATCACAATTAAAAAAAACCCGACCCGACCCAAATATCAAACTTAAA
AAACCCCAACCCGAACCCGAAATTTTTTGAAAAACAACTTGACTCG
Found at i:4881822 original size:110 final size:111
Alignment explanation
Indices: 4881596--4881823 Score: 268
Period size: 110 Copynumber: 2.1 Consensus size: 111
4881586 TTCACCCTAA
*
4881596 ACCCGAACCCGACCCGAATATCACAATTAAAAAAAACCTGACCCGACCCAAATATCAAACTTAAA
1 ACCCGAACCCGACCCGAATATCACAATTAAAAAAAACCCGACCCGACCCAAATATCAAACTTAAA
* * * *
4881661 AAACCCCGACCCGATCCCGAAATTTTTTGAAAAACAACTTGACTCG
66 AAACCCCAACCCGAACCCGAAATTTTTTGAAAAAAAACTCGACTCG
* * * * ** *
4881707 ACCCGAGCCCGACCCGAATTTCACACTT-ACAAAAACCCGACTTGACCCGAATATCAAACTTTAA
1 ACCCGAACCCGACCCGAATATCACAATTAAAAAAAACCCGACCCGACCCAAATATCAAAC-TTAA
*
4881771 AAAA-CCCAACCCGAACCCG-AATTTTTTTATAAAAAAA-TCCGA-TCG
65 AAAACCCCAACCCGAACCCGAAATTTTTTGA-AAAAAAACT-CGACTCG
4881816 ATCCCGAA
1 A-CCCGAA
4881824 ATTTTTAAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
109 14 0.14
110 52 0.53
111 33 0.33
ACGTcount: A:0.40, C:0.32, G:0.10, T:0.18
Consensus pattern (111 bp):
ACCCGAACCCGACCCGAATATCACAATTAAAAAAAACCCGACCCGACCCAAATATCAAACTTAAA
AAACCCCAACCCGAACCCGAAATTTTTTGAAAAAAAACTCGACTCG
Found at i:4882566 original size:2 final size:2
Alignment explanation
Indices: 4882559--4882586 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4882549 TTTGATAATA
4882559 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
4882587 TATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4882996 original size:37 final size:37
Alignment explanation
Indices: 4882910--4883091 Score: 177
Period size: 37 Copynumber: 4.7 Consensus size: 37
4882900 AAATGTTTTC
* * *
4882910 AAAACCATATATTATACGTTTTCAAAACTGTTTTTTAA
1 AAAACTATATATTATACGTTTTCAAAACCG-TTTTAAA
*
4882948 AAAACTATATATTATACGTTTTCGAAACCGTTTTAAA
1 AAAACTATATATTATACGTTTTCAAAACCGTTTTAAA
*
4882985 AAAACTATATATTATACGTTTTCAAAACCATTTTTTAAA
1 AAAACTATATATTATACGTTTTCAAAACC--GTTTTAAA
* *** **
4883024 AAAA-TACTATATTATATATGTTTTCAAAAATAAATTTTTCA
1 AAAACTA-TATA-T-TATACGTTTTC-AAAA-CCGTTTTAAA
*
4883065 AAAACTATATATTATACATTTTCAAAA
1 AAAACTATATATTATACGTTTTCAAAA
4883092 AAATGTTTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
37 34 0.28
38 33 0.27
39 24 0.20
40 2 0.02
41 23 0.19
42 6 0.05
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.41
Consensus pattern (37 bp):
AAAACTATATATTATACGTTTTCAAAACCGTTTTAAA
Found at i:4883021 original size:39 final size:38
Alignment explanation
Indices: 4882910--4883091 Score: 204
Period size: 38 Copynumber: 4.7 Consensus size: 38
4882900 AAATGTTTTC
* **
4882910 AAAACCATATATTATACGTTTTCAAAACTGTTTTTTAA
1 AAAACTATATATTATACGTTTTCAAAACCATTTTTTAA
* * *
4882948 AAAACTATATATTATACGTTTTCGAAACC-GTTTTAAA
1 AAAACTATATATTATACGTTTTCAAAACCATTTTTTAA
4882985 AAAACTATATATTATACGTTTTCAAAACCATTTTTTAA
1 AAAACTATATATTATACGTTTTCAAAACCATTTTTTAA
* * ** * *
4883023 AAAAATACTATATTATATATGTTTTCAAAAATAAATTTTTCA
1 AAAACTA-TATA-T-TATACGTTTTC-AAAACCATTTTTTAA
*
4883065 AAAACTATATATTATACATTTTCAAAA
1 AAAACTATATATTATACGTTTTCAAAA
4883092 AAATGTTTTC
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
37 34 0.28
38 42 0.34
39 13 0.11
40 2 0.02
41 14 0.11
42 17 0.14
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.41
Consensus pattern (38 bp):
AAAACTATATATTATACGTTTTCAAAACCATTTTTTAA
Found at i:4884531 original size:50 final size:51
Alignment explanation
Indices: 4884453--4884557 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 51
4884443 TCATAGCAAC
* * *
4884453 AGTAGTAGAATACTTGGAATCACTAATGCATCATGTATTATAGATAACAAT
1 AGTAATAGAATACTTGGAATCACTAATGCATCATGTAATATAAATAACAAT
* *
4884504 AGTAATAGATTACTTGGAA-CACTAATGCATCATGTAATATAAATAGCAAT
1 AGTAATAGAATACTTGGAATCACTAATGCATCATGTAATATAAATAACAAT
4884554 AGTA
1 AGTA
4884558 CTTGGAATCG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 32 0.65
51 17 0.35
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (51 bp):
AGTAATAGAATACTTGGAATCACTAATGCATCATGTAATATAAATAACAAT
Found at i:4888057 original size:20 final size:20
Alignment explanation
Indices: 4888020--4888057 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4888010 GGTCGTTTCT
*
4888020 AGCCATTGGAGATGATTTGG
1 AGCCATTGGAGATAATTTGG
*
4888040 AGCCATTGGGGATAATTT
1 AGCCATTGGAGATAATTT
4888058 TTCTGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (20 bp):
AGCCATTGGAGATAATTTGG
Found at i:4888626 original size:2 final size:2
Alignment explanation
Indices: 4888619--4888652 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4888609 TTACAATTAA
4888619 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
4888653 TCAGAATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4889501 original size:26 final size:26
Alignment explanation
Indices: 4889432--4889494 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
4889422 AAGAATGTAA
4889432 AATATTTTATTGTGTTATAATAAATT
1 AATATTTTATTGTGTTATAATAAATT
4889458 AATATTTTATTGTGTTATAATAAATT
1 AATATTTTATTGTGTTATAATAAATT
*
4889484 AATAATTTATT
1 AATATTTTATT
4889495 ATTTTATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (26 bp):
AATATTTTATTGTGTTATAATAAATT
Found at i:4889517 original size:15 final size:16
Alignment explanation
Indices: 4889487--4889529 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
4889477 ATAAATTAAT
*
4889487 AATTTATTATTTTATTA
1 AATTT-TTATTATATTA
4889504 AA-TTTTATTATATTA
1 AATTTTTATTATATTA
4889519 AATTTTTATTA
1 AATTTTTATTA
4889530 ATTTTTGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 12 0.50
16 10 0.42
17 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTTTATTATATTA
Found at i:4890464 original size:21 final size:20
Alignment explanation
Indices: 4890440--4890487 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
4890430 TACAATATTG
**
4890440 ATTTCATATATTAATAATTTT
1 ATTTCATATA-TAATAAAATT
4890461 ATTT-AGTATATAATAAAATT
1 ATTTCA-TATATAATAAAATT
4890481 ATTTCAT
1 ATTTCAT
4890488 TGAATAGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTCATATATAATAAAATT
Found at i:4891232 original size:21 final size:21
Alignment explanation
Indices: 4891216--4891256 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4891206 TGCAACCGTT
4891216 TCAGATGGCACCACAACCATA
1 TCAGATGGCACCACAACCATA
4891237 TCAGATGGCACCACAACCAT
1 TCAGATGGCACCACAACCAT
4891257 TTTATATGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.34, G:0.15, T:0.15
Consensus pattern (21 bp):
TCAGATGGCACCACAACCATA
Found at i:4894236 original size:60 final size:60
Alignment explanation
Indices: 4894140--4894258 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
4894130 CTCCACGATG
* * * *
4894140 TCGATATTTAGGTCGAACAAGATGGTAGTTGCATGTCTTCCCCT-TGAACTTGAAGGCATT
1 TCGATATTGAGGTCGAACAAGATCGTAGTTGAATGTCTCCCCCTAT-AACTTGAAGGCATT
* *
4894200 TCGATATTGAGGTCGAAGAAGATCGTAGTTGAATGTCTCCCCCTATAGCTTGAAGGCAT
1 TCGATATTGAGGTCGAACAAGATCGTAGTTGAATGTCTCCCCCTATAACTTGAAGGCAT
4894259 CGTGTCAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 51 0.98
61 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (60 bp):
TCGATATTGAGGTCGAACAAGATCGTAGTTGAATGTCTCCCCCTATAACTTGAAGGCATT
Found at i:4897221 original size:6 final size:6
Alignment explanation
Indices: 4897196--4897240 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
4897186 GTTGAGGATG
* * * *
4897196 TGGGTA CGGGTA TGGATA TTGGTA TTGGTA TGGGTA TGGGTA TGG
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGG
4897241 TGGCATGTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.18, C:0.02, G:0.44, T:0.36
Consensus pattern (6 bp):
TGGGTA
Found at i:4898026 original size:15 final size:15
Alignment explanation
Indices: 4898006--4898068 Score: 67
Period size: 15 Copynumber: 4.0 Consensus size: 15
4897996 ACTCATCTGT
4898006 ATCATCATAATCATC
1 ATCATCATAATCATC
4898021 ATCATCA-AGATCA-C
1 ATCATCATA-ATCATC
4898035 AATCATCATCCAAGTCATC
1 -ATCATCAT--AA-TCATC
4898054 ATCATCATAATCATC
1 ATCATCATAATCATC
4898069 GTCACTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
14 2 0.05
15 23 0.56
16 2 0.05
17 1 0.02
18 12 0.29
19 1 0.02
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (15 bp):
ATCATCATAATCATC
Found at i:4899646 original size:36 final size:36
Alignment explanation
Indices: 4899599--4899671 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
4899589 TAGATCGTCA
*
4899599 GTCAAACGATCATCCACTCATCACCGACCATTTAAT
1 GTCAAACGATCACCCACTCATCACCGACCATTTAAT
4899635 GTCAAACGATCACCCACTCATCACCGACCATTTAAT
1 GTCAAACGATCACCCACTCATCACCGACCATTTAAT
4899671 G
1 G
4899672 ACCGACAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.34, G:0.10, T:0.23
Consensus pattern (36 bp):
GTCAAACGATCACCCACTCATCACCGACCATTTAAT
Found at i:4900471 original size:21 final size:20
Alignment explanation
Indices: 4900385--4900542 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
4900375 AAATGACCAA
**
4900385 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
4900404 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
4900424 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
4900444 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
4900465 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
4900486 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
4900506 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
4900527 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4900543 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:4900571 original size:20 final size:20
Alignment explanation
Indices: 4900509--4900738 Score: 223
Period size: 20 Copynumber: 11.5 Consensus size: 20
4900499 CGATTTTCCA
* ** *
4900509 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
4900529 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
4900549 AAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4900569 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
4900589 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
4900609 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4900629 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4900649 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
4900669 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
4900689 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
4900709 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
4900729 AAATCACAAC
1 AAATCGCAAC
4900739 ACTGAAATTT
Statistics
Matches: 174, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 170 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:4901658 original size:12 final size:12
Alignment explanation
Indices: 4901641--4901665 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4901631 ATATAATCCT
4901641 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4901653 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4901665 G
1 G
4901666 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4903967 original size:19 final size:19
Alignment explanation
Indices: 4903945--4904179 Score: 267
Period size: 19 Copynumber: 13.4 Consensus size: 19
4903935 CGGAAATTAC
*
4903945 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4903964 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4903978 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4903997 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4904016 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4904030 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4904049 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4904068 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
4904082 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4904101 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
4904120 AATCGCAA----AGA-GAG
1 AATCGCAATGCGAAATGAA
4904134 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4904153 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4904172 AATCGCAA
1 AATCGCAA
4904180 CGAGAGAATC
Statistics
Matches: 185, Mismatches: 11, Indels: 40
0.78 0.05 0.17
Matches are distributed among these distances:
14 40 0.22
15 5 0.03
16 6 0.03
17 6 0.03
18 5 0.03
19 123 0.66
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4903991 original size:33 final size:33
Alignment explanation
Indices: 4903945--4904201 Score: 204
Period size: 33 Copynumber: 7.5 Consensus size: 33
4903935 CGGAAATTAC
*
4903945 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
4903978 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
4904010 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
4904049 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * *
4904082 AATCGCAACGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
4904114 AAT-GAAAAT-CGCAAA-GAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCG-AAATGA-A-AATCGCAA--CG--A-GAG
4904153 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
4904186 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
4904202 TATAAACGCA
Statistics
Matches: 179, Mismatches: 21, Indels: 48
0.72 0.08 0.19
Matches are distributed among these distances:
31 12 0.07
32 16 0.09
33 94 0.53
34 2 0.01
35 2 0.01
36 4 0.02
38 20 0.11
39 17 0.09
40 12 0.07
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:4904217 original size:52 final size:52
Alignment explanation
Indices: 4903945--4904201 Score: 487
Period size: 52 Copynumber: 4.9 Consensus size: 52
4903935 CGGAAATTAC
*
4903945 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
4903997 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
4904049 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
4904101 AATCGCAATGCGAAATGAAAATCGCAAAGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
4904153 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
4904202 TATAAACGCA
Statistics
Matches: 200, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 200 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:4904245 original size:33 final size:35
Alignment explanation
Indices: 4904208--4904289 Score: 114
Period size: 38 Copynumber: 2.3 Consensus size: 35
4904198 AAATTATAAA
4904208 CGCATTGCGATTC-TCTCG-TTGCGATTTTCATTT
1 CGCATTGCGATTCATCTCGATTGCGATTTTCATTT
*
4904241 CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT
1 CGCATTGCGA--TTCATCTCG-ATTGCGATTTTCATTT
4904279 CGCATTGCGAT
1 CGCATTGCGAT
4904290 AGTCATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
33 10 0.23
35 3 0.07
36 5 0.12
38 25 0.58
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (35 bp):
CGCATTGCGATTCATCTCGATTGCGATTTTCATTT
Found at i:4904297 original size:19 final size:19
Alignment explanation
Indices: 4904226--4904289 Score: 128
Period size: 19 Copynumber: 3.4 Consensus size: 19
4904216 GATTCTCTCG
4904226 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4904245 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4904264 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4904283 TTGCGAT
1 TTGCGAT
4904290 AGTCATTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4904415 original size:14 final size:14
Alignment explanation
Indices: 4904396--4904432 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4904386 CATCAATTAC
4904396 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4904410 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4904424 ACAAATCAA
1 ACAAATCAA
4904433 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4906380 original size:20 final size:20
Alignment explanation
Indices: 4906364--4906420 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
4906354 TTCGCAACAA
*
4906364 GAAACTTAAAATCGCAACGC
1 GAAACTAAAAATCGCAACGC
*
4906384 GAAAC-CAAAATCGCAACGC
1 GAAACTAAAAATCGCAACGC
4906403 GAAA-TAAAAATCGCAACG
1 GAAACTAAAAATCGCAACG
4906421 ACAGAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 29 0.85
20 5 0.15
ACGTcount: A:0.49, C:0.25, G:0.16, T:0.11
Consensus pattern (20 bp):
GAAACTAAAAATCGCAACGC
Found at i:4906395 original size:19 final size:18
Alignment explanation
Indices: 4906371--4906489 Score: 101
Period size: 19 Copynumber: 6.8 Consensus size: 18
4906361 CAAGAAACTT
4906371 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-C
*
4906390 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAA-C
4906409 AAAATCGCAA--CG--AC
1 AAAATCGCAACGCGAAAC
*
4906423 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-C
4906442 AAAATCGCAA--CG-AA-
1 AAAATCGCAACGCGAAAC
* *
4906456 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAA-C
*
4906475 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
4906490 TTTTGGTTTC
Statistics
Matches: 82, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
14 18 0.22
15 1 0.01
16 6 0.07
17 6 0.07
18 1 0.01
19 50 0.61
ACGTcount: A:0.48, C:0.25, G:0.18, T:0.08
Consensus pattern (18 bp):
AAAATCGCAACGCGAAAC
Found at i:4906429 original size:33 final size:33
Alignment explanation
Indices: 4906392--4906484 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4906382 GCGAAACCAA
*
4906392 AATCGCAACGCGAAATAAAAATCGCAACGACAG
1 AATCGCAACGCGAAATAAAAATCGCAACGAAAG
**
4906425 AATCGCAACGCGAAACCAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATAAAAATCGCAACGAAAG
*
4906458 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATAAAAATCGCAA
4906485 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.48, C:0.25, G:0.18, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATAAAAATCGCAACGAAAG
Found at i:4906430 original size:14 final size:14
Alignment explanation
Indices: 4906411--4906467 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4906401 GCGAAATAAA
4906411 AATCGCAACGACAG
1 AATCGCAACGACAG
*
4906425 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
4906444 AATCGCAACGAAAG
1 AATCGCAACGACAG
4906458 AATCGCAACG
1 AATCGCAACG
4906468 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 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:0.46, C:0.28, G:0.19, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:4906481 original size:52 final size:52
Alignment explanation
Indices: 4906371--4906489 Score: 131
Period size: 52 Copynumber: 2.3 Consensus size: 52
4906361 CAAGAAACTT
*
4906371 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATAAAAATCGCAACGACAG
1 AAAATCGCAACGCGAAACCAAAATCGCAAC-CG-AATAAAAATCGCAACGAAAG
*
4906425 --AATCGCAACGCGAAACCAAAATCGCAA-CG-A-AAGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACCAAAATCGCAACCGAATAAAAATCGCAA--CGAAA-G
*
4906475 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
4906490 TTTTGGTTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
47 10 0.18
48 1 0.02
49 4 0.07
50 3 0.05
52 39 0.68
ACGTcount: A:0.48, C:0.25, G:0.18, T:0.08
Consensus pattern (52 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACCGAATAAAAATCGCAACGAAAG
Found at i:4906507 original size:19 final size:19
Alignment explanation
Indices: 4906485--4906612 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
4906475 AAAATCGCAA
4906485 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4906504 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4906518 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4906536 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4906550 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4906569 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4906588 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4906608 TGCGA
1 TGCGA
4906613 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 20 0.23
16 3 0.03
17 1 0.01
18 10 0.11
19 39 0.44
20 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4906570 original size:33 final size:34
Alignment explanation
Indices: 4906485--4906575 Score: 143
Period size: 32 Copynumber: 2.8 Consensus size: 34
4906475 AAAATCGCAA
4906485 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
4906518 TGCGA-TTTGGTTTCGCGTTGCGATTC-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
**
4906550 TGCGATTTTTATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4906576 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.08, C:0.18, G:0.29, T:0.46
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:4906821 original size:91 final size:93
Alignment explanation
Indices: 4906660--4907120 Score: 841
Period size: 91 Copynumber: 5.1 Consensus size: 93
4906650 ATGGATTGCA
4906660 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACA-TGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
4906723 TAGCAGAATTGGCAGCAACCGAACAAAG
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4906751 TTACTTTCAACCAAAAGACAAAACAAAGAC-AA-ACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4906814 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4906842 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4906906 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4906934 TTACTTTCAACC-AAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4906997 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4907025 TTACTTTCAACCAAAAGAC-AAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
4907088 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
4907116 TTACT
1 TTACT
4907121 AAGCAATCTA
Statistics
Matches: 361, Mismatches: 2, Indels: 14
0.96 0.01 0.04
Matches are distributed among these distances:
90 36 0.10
91 217 0.60
92 92 0.25
93 16 0.04
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:4906972 original size:183 final size:184
Alignment explanation
Indices: 4906660--4907120 Score: 837
Period size: 183 Copynumber: 2.5 Consensus size: 184
4906650 ATGGATTGCA
4906660 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACA-TGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
4906723 TAGCAGAATTGGCAGCAACCGAACAAAGTTACTTTCAACCAAAAGACAAAACAAAGACAAACTAT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAACTAT
4906788 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
4906842 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT-AAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
4906906 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAAC-AAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-ACT
4906969 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
129 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
4907025 TTACTTTCAACCAAAAGAC-AAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
4907088 TAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
4907121 AAGCAATCTA
Statistics
Matches: 272, Mismatches: 2, Indels: 10
0.96 0.01 0.04
Matches are distributed among these distances:
181 24 0.09
182 73 0.27
183 171 0.63
184 4 0.01
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (184 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAACTAT
TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:4908837 original size:14 final size:14
Alignment explanation
Indices: 4908818--4908907 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
4908808 TTGAAATGAA
4908818 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4908832 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4908851 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4908865 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4908884 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4908898 AATCGCAACG
1 AATCGCAACG
4908908 CGAAATTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4908850 original size:33 final size:33
Alignment explanation
Indices: 4908810--4908923 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
4908800 TCTTTTGGTT
4908810 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4908843 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4908876 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
4908909 GAAAT-TAAATCGCAA
1 GAAATGAAAATCGCAA
4908924 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 9 0.11
33 71 0.89
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4908856 original size:19 final size:19
Alignment explanation
Indices: 4908832--4908928 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 19
4908822 GCAACGAGAG
4908832 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
4908851 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
4908865 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
4908884 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
4908898 AATCGCAACGCGAAAT-TA
1 AATCGCAACGCGAAATGAA
*
4908916 AATCGCAATGCGA
1 AATCGCAACGCGA
4908929 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 21
0.70 0.07 0.24
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 14 0.23
19 18 0.29
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:4908959 original size:14 final size:14
Alignment explanation
Indices: 4908940--4908996 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4908930 TTTGGTTTCG
4908940 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4908954 CGTTGCGATTTTCATATCG
1 CGTTGCGA--TTC---TCT
*
4908973 CGTTGCGATTCTAT
1 CGTTGCGATTCTCT
4908987 CGTTGCGATT
1 CGTTGCGATT
4908997 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4908974 original size:33 final size:33
Alignment explanation
Indices: 4908937--4909001 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
4908927 GATTTTGGTT
*
4908937 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
1 TCGCGTTGCGATTCTATCGTTGCGATTTTCATA
4908970 TCGCGTTGCGATTCTATCGTTGCGATTTTCAT
1 TCGCGTTGCGATTCTATCGTTGCGATTTTCAT
4909002 TTCTCTCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (33 bp):
TCGCGTTGCGATTCTATCGTTGCGATTTTCATA
Found at i:4908978 original size:19 final size:17
Alignment explanation
Indices: 4908953--4909001 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 17
4908943 TGCGATTCTC
4908953 TCGTTGCGATTTTCATA
1 TCGTTGCGATTTTCATA
4908970 TCGCGTTGCGA--TTC-TA
1 T--CGTTGCGATTTTCATA
4908986 TCGTTGCGATTTTCAT
1 TCGTTGCGATTTTCAT
4909002 TTCTCTCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
14 8 0.30
16 6 0.22
17 5 0.19
19 8 0.30
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (17 bp):
TCGTTGCGATTTTCATA
Found at i:4909037 original size:41 final size:41
Alignment explanation
Indices: 4908980--4909057 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
4908970 TCGCGTTGCG
*
4908980 ATTCTATCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTATCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
*
4909021 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTATCGTTGCGATTTTCATTTATCTCGTTGCGAC
4909058 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTATCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:4909042 original size:20 final size:21
Alignment explanation
Indices: 4908981--4909056 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4908971 CGCGTTGCGA
*
4908981 TTCTATCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
4909002 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
4909022 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
4909043 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
4909057 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:4909176 original size:33 final size:33
Alignment explanation
Indices: 4909134--4909204 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4909124 CAAACTAACT
*
4909134 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
4909167 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
4909200 TGAAA
1 TGAAA
4909205 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:4909438 original size:22 final size:22
Alignment explanation
Indices: 4909386--4909440 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4909376 TGGTTGTGAG
**
4909386 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
4909408 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
4909430 GGATTTCTTCG
1 GGATTTCTTCG
4909441 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:4909612 original size:20 final size:20
Alignment explanation
Indices: 4909587--4909780 Score: 187
Period size: 20 Copynumber: 9.7 Consensus size: 20
4909577 CTTTAAATAT
4909587 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4909607 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4909629 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4909648 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*** **
4909668 CATATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
4909688 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
4909708 CAG-GTTGCGATTTACGGATA
1 C-GCGTTGCGATTTACGGATA
* * *
4909728 CGAGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
4909748 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
4909768 CGCGTTGCGATTT
1 CGCGTTGCGATTT
4909781 TGGAAAATCG
Statistics
Matches: 142, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.02
20 121 0.85
21 16 0.11
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4909752 original size:60 final size:60
Alignment explanation
Indices: 4909587--4909780 Score: 221
Period size: 60 Copynumber: 3.2 Consensus size: 60
4909577 CTTTAAATAT
* **
4909587 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGAGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
4909648 CGCGTTGCGATATACGGATAC-ATATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGA-GTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * ** *
4909708 CAG-GTTGCGATTTACGGATACGAGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 C-GCGTTGCGATTTACGGATACGAGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
4909768 CGCGTTGCGATTT
1 CGCGTTGCGATTT
4909781 TGGAAAATCG
Statistics
Matches: 109, Mismatches: 20, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
59 1 0.01
60 80 0.73
61 28 0.26
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGAGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:4909797 original size:21 final size:21
Alignment explanation
Indices: 4909767--4909849 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
4909757 ATTTTCATAT
*
4909767 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
4909788 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
4909809 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
4909830 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
4909850 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:4909840 original size:42 final size:43
Alignment explanation
Indices: 4909747--4909845 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
4909737 ATTTATGTGT
* *
4909747 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
4909788 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
4909830 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
4909846 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:4911993 original size:60 final size:60
Alignment explanation
Indices: 4911872--4911994 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
4911862 AGTCCACAAT
* * * * ** * *
4911872 TATAGGGTATTTCCTTGTTGAGTCTCTCAACTATTAAAAATTATAAATTTGTCATTTGAC
1 TATAGGGTATTGCCTTGTTGAGTCCCTCAACTATTAAAAATTACAAAATAATCACTCGAC
* *
4911932 TATAGGGTGTTGCCTTGTTGAGTCCCTCAATTATTAAAAATTACAAAATAATCACTCGAC
1 TATAGGGTATTGCCTTGTTGAGTCCCTCAACTATTAAAAATTACAAAATAATCACTCGAC
4911992 TAT
1 TAT
4911995 TCATATGTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (60 bp):
TATAGGGTATTGCCTTGTTGAGTCCCTCAACTATTAAAAATTACAAAATAATCACTCGAC
Found at i:4912989 original size:35 final size:35
Alignment explanation
Indices: 4912950--4913058 Score: 107
Period size: 35 Copynumber: 3.1 Consensus size: 35
4912940 CATATAAAAT
4912950 TTTAATTATAGATTTTTTTTTGTAAATCAAAATAG
1 TTTAATTATAGATTTTTTTTTGTAAATCAAAATAG
** * * ** * *
4912985 TTTAAGGATAAATTTATAATT-T-AATCATATAAAAT
1 TTTAATTATAGATTTTTTTTTGTAAATCA-A-AATAG
4913020 TTTAATTATAGA-TTTTTTTTGTAAATCAAAATAG
1 TTTAATTATAGATTTTTTTTTGTAAATCAAAATAG
4913054 TTTAA
1 TTTAA
4913059 GGATAAATTT
Statistics
Matches: 54, Mismatches: 16, Indels: 9
0.68 0.20 0.11
Matches are distributed among these distances:
33 5 0.09
34 15 0.28
35 29 0.54
36 5 0.09
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (35 bp):
TTTAATTATAGATTTTTTTTTGTAAATCAAAATAG
Found at i:4913098 original size:70 final size:70
Alignment explanation
Indices: 4912939--4913077 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 70
4912929 CCTCTGAATT
4912939 TCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCAAAATAGTTTAAGGATAAATTTATAA
1 TCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCAAAATAGTTTAAGGATAAATTTATAA
4913004 TTTAA
66 TTTAA
*
4913009 TCATATAAAATTTTAATTATAGA-TTTTTTTTGTAAATCAAAATAGTTTAAGGATAAATTTGTAA
1 TCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCAAAATAGTTTAAGGATAAATTTATAA
4913073 TTTAA
66 TTTAA
4913078 CATTTGTAGA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 45 0.66
70 23 0.34
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (70 bp):
TCATATAAAATTTTAATTATAGATTTTTTTTTGTAAATCAAAATAGTTTAAGGATAAATTTATAA
TTTAA
Found at i:4916521 original size:41 final size:40
Alignment explanation
Indices: 4916435--4916548 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 40
4916425 ACGCTAAAGT
*
4916435 CAAATTCGCAACGCGAAAGTCAAATTCGCAATCCAGGTTC
1 CAAATTCGCAACGCGAAAGTCAAATTCGCAACCCAGGTTC
* *
4916475 TAAATTCGCAACGTGAAAGTCAAATTTCGCAACCCAGGTTC
1 CAAATTCGCAACGCGAAAGTCAAA-TTCGCAACCCAGGTTC
* *
4916516 CAAATTTGCAACGCGAAAGTCTAAAATCGCAAC
1 CAAATTCGCAACGCGAAAGTC-AAATTCGCAAC
4916549 GCGATAGTCG
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 22 0.34
41 40 0.62
42 3 0.05
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (40 bp):
CAAATTCGCAACGCGAAAGTCAAATTCGCAACCCAGGTTC
Found at i:4916547 original size:21 final size:20
Alignment explanation
Indices: 4916415--4916573 Score: 130
Period size: 20 Copynumber: 7.8 Consensus size: 20
4916405 ACCCAGGTTC
*
4916415 CAAATTCGCAACGCTAAAGT
1 CAAATTCGCAACGCGAAAGT
4916435 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
4916455 CAAATTCGCAATC-C--AGGTT
1 CAAATTCGCAA-CGCGAAAG-T
*
4916474 CTAAATTCGCAACGTGAAAGT
1 C-AAATTCGCAACGCGAAAGT
* *
4916495 CAAATTTCGCAAC-C-CAGGTT
1 CAAA-TTCGCAACGCGAAAG-T
*
4916515 CCAAATTTGCAACGCGAAAGT
1 -CAAATTCGCAACGCGAAAGT
* *
4916536 CTAAAATCGCAACGCGATAGT
1 C-AAATTCGCAACGCGAAAGT
*
4916557 CGAAATTCACAACGCGA
1 C-AAATTCGCAACGCGA
4916574 TTTAAGATTC
Statistics
Matches: 111, Mismatches: 16, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
18 2 0.02
19 5 0.05
20 53 0.48
21 47 0.42
22 4 0.04
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:4916574 original size:21 final size:21
Alignment explanation
Indices: 4916524--4916574 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4916514 TCCAAATTTG
* * *
4916524 CAACGCGAAAGTCTAAAATCG
1 CAACGCGATAGTCGAAAATCA
*
4916545 CAACGCGATAGTCGAAATTCA
1 CAACGCGATAGTCGAAAATCA
4916566 CAACGCGAT
1 CAACGCGAT
4916575 TTAAGATTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (21 bp):
CAACGCGATAGTCGAAAATCA
Found at i:4917574 original size:21 final size:21
Alignment explanation
Indices: 4917548--4917606 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
4917538 GTCCGAGTTA
4917548 TCCGCGACAGCCGCAATAACG
1 TCCGCGACAGCCGCAATAACG
**
4917569 TCCGCGACAGCCGCAATAGTG
1 TCCGCGACAGCCGCAATAACG
*
4917590 TCCGCGACGGCCGCAAT
1 TCCGCGACAGCCGCAAT
4917607 CACGGTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.24, C:0.37, G:0.27, T:0.12
Consensus pattern (21 bp):
TCCGCGACAGCCGCAATAACG
Found at i:4917748 original size:21 final size:20
Alignment explanation
Indices: 4917713--4917883 Score: 127
Period size: 20 Copynumber: 8.6 Consensus size: 20
4917703 AACAAATGCA
*
4917713 TTGCGATTTTGGACTATCGCG
1 TTGCGAATTT-GACTATCGCG
*
4917734 TTGTGAATTTCGACTATCGCG
1 TTGCGAATTT-GACTATCGCG
*
4917755 TTGCGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATC-GCG
* *
4917775 TTGCAAATTTGACTTTCGCG
1 TTGCGAATTTGACTATCGCG
* * *
4917795 TTGCGAATTTGA-AACCTGGG
1 TTGCGAATTTGACTATC-GCG
* * *
4917815 TTGCGAAATTTGAAT-TTGTG
1 TTGCG-AATTTGACTATCGCG
* **
4917835 TTGCGAATTTGA-GATCGAT
1 TTGCGAATTTGACTATCGCG
*
4917854 TTGCGAATTTGA-GATCGCG
1 TTGCGAATTTGACTATCGCG
4917873 TTGCGAATTTG
1 TTGCGAATTTG
4917884 TTGGTTATTT
Statistics
Matches: 122, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
19 40 0.33
20 46 0.38
21 36 0.30
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.39
Consensus pattern (20 bp):
TTGCGAATTTGACTATCGCG
Found at i:4917857 original size:19 final size:19
Alignment explanation
Indices: 4917794--4917883 Score: 83
Period size: 19 Copynumber: 4.6 Consensus size: 19
4917784 TGACTTTCGC
* * *
4917794 GTTGCGAATTTGAAACCTGG
1 GTTGCGAATTTGAGATC-GA
* *
4917814 GTTGCGAAATTTGA-ATTTGT
1 GTTGCG-AATTTGAGA-TCGA
4917834 GTTGCGAATTTGAGATCGA
1 GTTGCGAATTTGAGATCGA
* *
4917853 TTTGCGAATTTGAGATCGC
1 GTTGCGAATTTGAGATCGA
4917872 GTTGCGAATTTG
1 GTTGCGAATTTG
4917884 TTGGTTATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 37 0.63
20 15 0.25
21 7 0.12
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (19 bp):
GTTGCGAATTTGAGATCGA
Found at i:4921747 original size:25 final size:25
Alignment explanation
Indices: 4921719--4921767 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4921709 TTGATAATTT
4921719 ATTTTTGTTGAAATTATATAAGTTA
1 ATTTTTGTTGAAATTATATAAGTTA
* * *
4921744 ATTTTTTTTTAAATTTTATAAGTT
1 ATTTTTGTTGAAATTATATAAGTT
4921768 CATCTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (25 bp):
ATTTTTGTTGAAATTATATAAGTTA
Found at i:4928942 original size:35 final size:35
Alignment explanation
Indices: 4928849--4928944 Score: 122
Period size: 35 Copynumber: 2.7 Consensus size: 35
4928839 AACACAATCA
* * *
4928849 TCAATTACATTCTAAATCCCAAAATCCAAAATGCT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
* *
4928884 TCAATTATATTCTAAACCTCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
*
4928919 TCAATTACATGCCT-AACCCCAAATTC
1 TCAATTACAT-TCTAAACCCCAAATTC
4928945 ATAATCCATT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 50 0.96
36 2 0.04
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATACT
Found at i:4929131 original size:46 final size:46
Alignment explanation
Indices: 4929059--4929154 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
4929049 CAATAAGTGA
* * *
4929059 TTATGTTGGGTTTAGGGTTATGTTGGACCTAAATACTCAATTTAAT
1 TTATGTTGGGTTTAAGGTTATATTGGACCTAAATACTCAATTCAAT
4929105 TTATGTTGGGTTTAAGGTTATATTGGACCTAAATACTCAATTCAAT
1 TTATGTTGGGTTTAAGGTTATATTGGACCTAAATACTCAATTCAAT
4929151 TTAT
1 TTAT
4929155 AAAATAGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (46 bp):
TTATGTTGGGTTTAAGGTTATATTGGACCTAAATACTCAATTCAAT
Found at i:4932793 original size:20 final size:21
Alignment explanation
Indices: 4932740--4932801 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
4932730 TTCCCCTGTG
4932740 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGG-ATCGGTT-CCC-TCAAA
* *
4932764 GGGGGAATCGGTTCCCTC-AT
1 GGGGGGATCGGTTCCCTCAAA
*
4932784 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
4932802 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:4938149 original size:20 final size:20
Alignment explanation
Indices: 4938124--4938174 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
4938114 TGGAGCGTGG
4938124 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
4938144 GGGGAATCGGTACCCCCTAT
1 GGGGAATCGGTACCCCCTAT
4938164 GGGGAATCGGT
1 GGGGAATCGGT
4938175 TCCCTAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCCTAT
Found at i:4939250 original size:103 final size:103
Alignment explanation
Indices: 4939071--4939282 Score: 345
Period size: 103 Copynumber: 2.1 Consensus size: 103
4939061 AGAGTTATGT
*
4939071 TTTGAGGGTTTAGGGTTGTTGCTTCAAGTTCAGTTTGTTATGACATATTTTAAGAATGGATTATG
1 TTTGAGGGTTTAGGGTTGTTGCTTCAAGTTCAGTTTGTTATGACAGATTTTAAGAATGGATTATG
4939136 AATTTGGGGTTGAGCATGTAACCGAAGTATTTTTGGAA
66 AATTTGGGGTTGAGCATGTAACCGAAGTATTTTTGGAA
* ** *
4939174 TTTGAGGGTTTAGGGTTGCTT-CTTCAAGTTTAGTTTGTTATGGTAGATTTTGAGAATGGATTAT
1 TTTGAGGGTTTAGGGTTG-TTGCTTCAAGTTCAGTTTGTTATGACAGATTTTAAGAATGGATTAT
**
4939238 GAATTTGGGGTTGAGCATGTAATTGAAGTATTTTTGGAA
65 GAATTTGGGGTTGAGCATGTAACCGAAGTATTTTTGGAA
4939277 TTTGAG
1 TTTGAG
4939283 ATTTAGAATG
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 99 0.98
104 2 0.02
ACGTcount: A:0.24, C:0.05, G:0.28, T:0.42
Consensus pattern (103 bp):
TTTGAGGGTTTAGGGTTGTTGCTTCAAGTTCAGTTTGTTATGACAGATTTTAAGAATGGATTATG
AATTTGGGGTTGAGCATGTAACCGAAGTATTTTTGGAA
Found at i:4939351 original size:35 final size:36
Alignment explanation
Indices: 4939254--4939370 Score: 184
Period size: 36 Copynumber: 3.3 Consensus size: 36
4939244 GGGGTTGAGC
4939254 ATGTAATTGAAGTATTTTTGGAATTTGAGATTTAGA
1 ATGTAATTGAAGTATTTTTGGAATTTGAGATTTAGA
4939290 ATGTAATT-ACAGTATTTTTGGAATTTGAGATTTAGA
1 ATGTAATTGA-AGTATTTTTGGAATTTGAGATTTAGA
* *
4939326 ATGTAATTGAAGCA-TTTTGGAATTTGGGATTTAGA
1 ATGTAATTGAAGTATTTTTGGAATTTGAGATTTAGA
*
4939361 ATATAATTGA
1 ATGTAATTGA
4939371 TGATTGTGTT
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
35 30 0.39
36 45 0.59
37 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (36 bp):
ATGTAATTGAAGTATTTTTGGAATTTGAGATTTAGA
Found at i:4950313 original size:158 final size:158
Alignment explanation
Indices: 4950025--4950342 Score: 609
Period size: 158 Copynumber: 2.0 Consensus size: 158
4950015 GCTGGAAGAT
*
4950025 AGCCTGCGCAAGTCTCTGGTAAGCAAAAACAAGAAACTGGACATGGATGCTGGGGAATGTGAGTG
1 AGCCTGCGCAAGTCTCTGGTAAGAAAAAACAAGAAACTGGACATGGATGCTGGGGAATGTGAGTG
4950090 GTTAAACTCGAGGAGTGATATCGATGCAATAGGTAAGGAGATCGAGAGATTGTTGGTAGATGAAC
66 GTTAAACTCGAGGAGTGATATCGATGCAATAGGTAAGGAGATCGAGAGATTGTTGGTAGATGAAC
4950155 TAATAGCTGAGGTAGTGCATGGCTAGTA
131 TAATAGCTGAGGTAGTGCATGGCTAGTA
*
4950183 AGCCTGCTCAAGTCTCTGGTAAGAAAAAACAAGAAACTGGACATGGATGCTGGGGAATGTGAGTG
1 AGCCTGCGCAAGTCTCTGGTAAGAAAAAACAAGAAACTGGACATGGATGCTGGGGAATGTGAGTG
*
4950248 GTTAAACTCGAGGAGTGATATTGATGCAATAGGTAAGGAGATCGAGAGATTGTTGGTAGATGAAC
66 GTTAAACTCGAGGAGTGATATCGATGCAATAGGTAAGGAGATCGAGAGATTGTTGGTAGATGAAC
4950313 TAATAGCTGAGGTAGTGCATGGCTAGTA
131 TAATAGCTGAGGTAGTGCATGGCTAGTA
4950341 AG
1 AG
4950343 ATGATAGTTT
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (158 bp):
AGCCTGCGCAAGTCTCTGGTAAGAAAAAACAAGAAACTGGACATGGATGCTGGGGAATGTGAGTG
GTTAAACTCGAGGAGTGATATCGATGCAATAGGTAAGGAGATCGAGAGATTGTTGGTAGATGAAC
TAATAGCTGAGGTAGTGCATGGCTAGTA
Found at i:4951803 original size:59 final size:59
Alignment explanation
Indices: 4951692--4951803 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 59
4951682 AAAACCGTAA
* * **
4951692 CTATCATGTAGATGTGAACAATGGGAGCTGATTATCATTAAAGGAAAGAACAAATCTTC
1 CTATCATGTAGATGTGAACAACGGGAGCTGATTATCATAAAACAAAAGAACAAATCTTC
* *
4951751 CTATTATGTAGATGTGAACAACGGGAGCTGATTATCATAAAACAAAATAACAA
1 CTATCATGTAGATGTGAACAACGGGAGCTGATTATCATAAAACAAAAGAACAA
4951804 CAAATATTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (59 bp):
CTATCATGTAGATGTGAACAACGGGAGCTGATTATCATAAAACAAAAGAACAAATCTTC
Found at i:4956007 original size:3 final size:3
Alignment explanation
Indices: 4955999--4956053 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
4955989 ATATACTATG
*
4955999 ATT ATT ATT ATT -CT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4956046 ATT ATT AT
1 ATT ATT AT
4956054 ACAAAGTCAC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 48 0.98
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4957065 original size:301 final size:299
Alignment explanation
Indices: 4956495--4957098 Score: 1046
Period size: 301 Copynumber: 2.0 Consensus size: 299
4956485 TAATAATAAG
4956495 TACTTTTGAGTAATGTTTAAGTGTAATTGTTAGAAAACATACTAACAATTGATATTGTACATGTA
1 TACTTTTGAGTAATGTTTAAGTGTAATTGTTAGAAAACATACTAACAATTGATATTGTACATGTA
*
4956560 TTTAATGGATATGGAATAGATCGAAATTAAGCTCCTAAGTCAAGGAAAGAAAAAGGCAAAGGCCA
66 TTTAATGGATATGGAATAGATCGAAATTAAGCTCCCAAGTCAAGGAAAGAAAAAGGCAAAGGCCA
* * *
4956625 AGTTCCTGAGTAATCAGTTTTTGAGTTTTCAGATATCAAAGCGAGGCAAGCCAGGTGAGTGCATT
131 AGTTACTGAGTAATCACTTTTTGAGTTTTCAGATATCAAAGCGAGGCAAGCCAGGTGAGTACATT
* * *
4956690 TAATTATGTACGTATATGTTACGGTATTCATAGTTGTATGATTTATTGATGCATGTATGGTGATT
196 TAACTATGTACGTATATGTTACGATATTCATAATTGTATGATTTATTGATGCATGTATGGTGATT
* *
4956755 ACCAAATGGTACTAAGTGTGTAAAAACTTAAGAAATTCA
261 ACCAAATGGTACTAAGTGTGCAAAAAATTAAGAAATTCA
4956794 TACTTTTGAGTAATGTTTAAGTGTAATTGTTAGAAAACATACTAACAATTGATATTGTACATGTA
1 TACTTTTGAGTAATGTTTAAGTGTAATTGTTAGAAAACATACTAACAATTGATATTGTACATGTA
*
4956859 TTTAATGGATATGGAATAGATCGAAATTAAGCTCCCGAGTCAAGGAAAGAAAAAGGCAAAGGGGC
66 TTTAATGGATATGGAATAGATCGAAATTAAGCTCCCAAGTCAAGGAAAGAAAAAGGCAAA--GGC
* * *
4956924 CAAGTTATTGAGTAATCACTTTTTGAGTTTTGAGATATCAAAGCGAGGTAAGCCAGGTGAGTACA
129 CAAGTTACTGAGTAATCACTTTTTGAGTTTTCAGATATCAAAGCGAGGCAAGCCAGGTGAGTACA
* *
4956989 TTTAACTATGTATGTATATGTTACGATATTCATAATTGTATGATTTATTGATGTATGTATGGTGA
194 TTTAACTATGTACGTATATGTTACGATATTCATAATTGTATGATTTATTGATGCATGTATGGTGA
*
4957054 TTACTAAATGGTACTAAGTGTGCAAAAAATTAAGAAATTCA
259 TTACCAAATGGTACTAAGTGTGCAAAAAATTAAGAAATTCA
4957095 TACT
1 TACT
4957099 AAGTGGATGA
Statistics
Matches: 287, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
299 123 0.43
301 164 0.57
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (299 bp):
TACTTTTGAGTAATGTTTAAGTGTAATTGTTAGAAAACATACTAACAATTGATATTGTACATGTA
TTTAATGGATATGGAATAGATCGAAATTAAGCTCCCAAGTCAAGGAAAGAAAAAGGCAAAGGCCA
AGTTACTGAGTAATCACTTTTTGAGTTTTCAGATATCAAAGCGAGGCAAGCCAGGTGAGTACATT
TAACTATGTACGTATATGTTACGATATTCATAATTGTATGATTTATTGATGCATGTATGGTGATT
ACCAAATGGTACTAAGTGTGCAAAAAATTAAGAAATTCA
Found at i:4957167 original size:55 final size:55
Alignment explanation
Indices: 4957083--4957284 Score: 350
Period size: 55 Copynumber: 3.7 Consensus size: 55
4957073 GTGCAAAAAA
* *
4957083 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATTTATAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAC
*
4957138 TTAAGAAATTCATATTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAC
* *
4957193 TTAAGAAATTCATACTAAGTGGCTGAATTTCCGTATGGGCACTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAC
*
4957248 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATG
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATG
4957285 CATATGTGCA
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 139 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (55 bp):
TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAC
Found at i:4957333 original size:110 final size:109
Alignment explanation
Indices: 4957074--4957317 Score: 314
Period size: 110 Copynumber: 2.3 Consensus size: 109
4957064 GTACTAAGTG
* * * *
4957074 TGCAAAAAATTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATTTATAAACT
1 TGCAAAAACTTAAGAAATGCATACTAAGTAGATGAATTTCCGTATGGGCACTATATGTATAAACT
*
4957139 TAAGAAATTCATATTAAGTGGATGAATTTCCGTATGGGCACTATA
66 TAAGAAATTCATACTAAGTGGATGAATTTCCGTAT-GGCACTATA
*** * * * * *
4957184 TGTGTAAACTTAAGAAATTCATACTAAGTGGCTGAATTTCCGTATGGGCACTTTATGTGTAAACT
1 TGCAAAAACTTAAGAAATGCATACTAAGTAGATGAATTTCCGTATGGGCACTATATGTATAAACT
* *
4957249 TAAGAAATTCATACTAAGTGGATGAATTTTCGTAT-GCA-TATG
66 TAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGCACTATA
*
4957291 TGCAAAAAC-TAGGAAATGCATACTAAG
1 TGCAAAAACTTAAGAAATGCATACTAAG
4957318 AAATTATATG
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
106 16 0.14
107 9 0.08
108 3 0.03
110 90 0.76
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (109 bp):
TGCAAAAACTTAAGAAATGCATACTAAGTAGATGAATTTCCGTATGGGCACTATATGTATAAACT
TAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGCACTATA
Found at i:4957580 original size:68 final size:68
Alignment explanation
Indices: 4957498--4958159 Score: 916
Period size: 68 Copynumber: 9.8 Consensus size: 68
4957488 AAATATTAAT
* * * *
4957498 GGCCTATCTGTGCATTTGACAGAAAGGTGTTAATTATACCAGTTAGATGAAAGACTAAGTGCATT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
4957563 TGA
66 TGA
* * * * *
4957566 GGCCTAGTTATGCATTTGAAAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
4957631 TGA
66 TGA
* * * * *
4957634 GGCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTTCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
4957699 TGA
66 TGA
* * * * *
4957702 CGCCTAGATGTGCATTTGAAAAAAAGGTGTCAATTATGCTAGTTAGATGAAAGGA-TAAGTGCCT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA-GACTAAGTGCCT
4957766 TTGA
65 TTGA
* *
4957770 GGCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAACG-CTAAGTGCCT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA-GACTAAGTGCCT
*
4957834 GTGA
65 TTGA
* * *
4957838 GGCCTAGCTGTGCATTTGATAAAAAGGTGTCAATTATGGCAGTTAGATGAAAGACTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
4957903 TGA
66 TGA
* * * * *
4957906 GGCCTAGATGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAAATGAAAGGCTAAATGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
4957971 TGA
66 TGA
* * *
4957974 GGCCTAGCTGTGCATTTAACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
4958039 TGA
66 TGA
* * * *
4958042 GACCTAGCTATGCATTTTACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGACTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
*
4958107 TGT
66 TGA
* * *
4958110 GGCCTAGCTGTGCATTTGATAGAAAGGTGCCAATTAT-ACAGTTAGATGAA
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
4958160 TGGTTAAACA
Statistics
Matches: 529, Mismatches: 62, Indels: 7
0.88 0.10 0.01
Matches are distributed among these distances:
67 14 0.03
68 514 0.97
69 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (68 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTT
TGA
Found at i:4958268 original size:81 final size:80
Alignment explanation
Indices: 4958109--4958346 Score: 325
Period size: 81 Copynumber: 3.0 Consensus size: 80
4958099 AGTGCCTTTG
* ** * *
4958109 TGGCCTAGCTGTGCATTTGATAGAAAGGTGCCAATTATA-CAGTTAGATGAATGGTTAAACACAT
1 TGGCCTAGCTGTGCATTTGACAGAAAGGTGTTAATTATACCAGTTAGATGAA-GGTTAAATACCT
4958173 TTGAGTAAAAGATTAA
65 TTGAGTAAAAGATTAA
* *
4958189 TGGCCTAGCTGAGCATTTGACAGAAAGATGTTAATTATACCAGTTAGATGGAAGGTTAAATACCT
1 TGGCCTAGCTGTGCATTTGACAGAAAGGTGTTAATTATACCAGTTAGAT-GAAGGTTAAATACCT
4958254 TTGAGTAAAAGATTAA
65 TTGAGTAAAAGATTAA
* * * * * *
4958270 TGGCCTAGCTGTGCATTTGACAAAAAGGTGTTAATCATGCTAGTTAGATAAAAGGTTAAATGCCT
1 TGGCCTAGCTGTGCATTTGACAGAAAGGTGTTAATTATACCAGTTAGAT-GAAGGTTAAATACCT
4958335 TTGAGTAAAAGA
65 TTGAGTAAAAGA
4958347 CTAGATGTAT
Statistics
Matches: 140, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 34 0.24
81 103 0.74
82 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (80 bp):
TGGCCTAGCTGTGCATTTGACAGAAAGGTGTTAATTATACCAGTTAGATGAAGGTTAAATACCTT
TGAGTAAAAGATTAA
Found at i:4958440 original size:46 final size:45
Alignment explanation
Indices: 4958374--4958635 Score: 384
Period size: 45 Copynumber: 5.8 Consensus size: 45
4958364 CATGACGTAG
* *
4958374 TATAAAAGGCATGAAAGGATGTCATAAATGAAATTTATAATAGCT
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
*
4958419 TATAAAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG-T
1 TATAAAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
* * *
4958464 GTATAAAAGACATGAAAGGGTGCCATAAATGAACTGTATAATAGCT
1 -TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
4958510 TATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG-T
1 TATAAAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
* * *
4958555 GTATAAAAGGCATGAAAAGATGCTATAAATGAAATGTATAATAGCG
1 -TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
*
4958601 TATAAAAGGCATGAAAGGATGCCATAAAAGAAATG
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATG
4958636 CATAGGGGTG
Statistics
Matches: 196, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
45 114 0.58
46 82 0.42
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (45 bp):
TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
Found at i:4958528 original size:91 final size:91
Alignment explanation
Indices: 4958373--4958634 Score: 427
Period size: 91 Copynumber: 2.9 Consensus size: 91
4958363 GCATGACGTA
* *
4958373 GTATAAAAGGCATGAAAGGATGTCATAAATGAAATTTATAATAGCTTATAAAAGGGCATGAAAGG
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGCATGAAAGG
4958438 ATGCCATAAATGAAATATATAATAGT
66 ATGCCATAAATGAAATATATAATAGT
* * *
4958464 GTATAAAAGACATGAAAGGGTGCCATAAATGAACTGTATAATAGCTTATAAAAGGGCATGAAAGG
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGCATGAAAGG
*
4958529 ATGCCATAAATGAAATGTATAATAGT
66 ATGCCATAAATGAAATATATAATAGT
* * *
4958555 GTATAAAAGGCATGAAAAGATGCTATAAATGAAATGTATAATAGCGTATAAAA-GGCATGAAAGG
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGCATGAAAGG
*
4958619 ATGCCATAAAAGAAAT
66 ATGCCATAAATGAAAT
4958635 GCATAGGGGT
Statistics
Matches: 158, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
90 26 0.16
91 132 0.84
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (91 bp):
GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGCATGAAAGG
ATGCCATAAATGAAATATATAATAGT
Found at i:4958560 original size:23 final size:23
Alignment explanation
Indices: 4958534--4958606 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
4958524 AAAGGATGCC
4958534 ATAAATGAAATGTATAATAGTGT
1 ATAAATGAAATGTATAATAGTGT
* **
4958557 ATAAAAGGCATG-A-AA-AGATGCT
1 ATAAATGAAATGTATAATAG-TG-T
*
4958579 ATAAATGAAATGTATAATAGCGT
1 ATAAATGAAATGTATAATAGTGT
4958602 ATAAA
1 ATAAA
4958607 AGGCATGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
20 2 0.05
21 4 0.11
22 11 0.29
23 16 0.42
24 3 0.08
25 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (23 bp):
ATAAATGAAATGTATAATAGTGT
Found at i:4958582 original size:22 final size:22
Alignment explanation
Indices: 4958556--4958630 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
4958546 TATAATAGTG
4958556 TATAAAAGGCATGAAAAGATGC
1 TATAAAAGGCATGAAAAGATGC
* ** * *
4958578 TATAAATGAAATGTATA-ATAGC
1 TATAAAAGGCATGAAAAGAT-GC
*
4958600 GTATAAAAGGCATGAAAGGATGC
1 -TATAAAAGGCATGAAAAGATGC
*
4958623 CATAAAAG
1 TATAAAAG
4958631 AAATGCATAG
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 2 0.05
22 21 0.55
23 13 0.34
24 2 0.05
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.21
Consensus pattern (22 bp):
TATAAAAGGCATGAAAAGATGC
Found at i:4958724 original size:136 final size:135
Alignment explanation
Indices: 4958374--4958694 Score: 353
Period size: 136 Copynumber: 2.4 Consensus size: 135
4958364 CATGACGTAG
* * * ** * *
4958374 TATAAAAGGCATGAAAGGATGTCATAAATGAAATTTATAATAGCT-TATAAAAGGGCATGAAAGG
1 TATAAAGGGCATGAAAGAATGCCATAAATGAAATGCATAATAG-TGCATAAAA-GGCATGAAAAG
* * * * * *
4958438 ATGCCATAAATGAAATATATAATAGTGTATAAAAGACATGAAAGGGTGCCATAAATGAACTGTAT
64 ATGCTATAAATGAAATATATAATAGCGTATAAAAGACATGAAAGGATGCCATAAAAGAAATGCAT
4958503 AATAGCT
129 AATAGCT
* * *
4958510 TATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAAGA
1 TAT-AAAGGGCATGAAAGAATGCCATAAATGAAATGCATAATAGTGCATAAAAGGCATGAAAAGA
* *
4958575 TGCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAGGATGCCATAAAAGAAATGCATA
65 TGCTATAAATGAAATATATAATAGCGTATAAAAGACATGAAAGGATGCCATAAAAGAAATGCATA
*
4958640 GGGGT-GCT
130 ---ATAGCT
** *
4958648 T-T-ATTGGCATGAAAGAATGCCATAAATGAAAATGCATAATGGTGCAT
1 TATAAAGGGCATGAAAGAATGCCATAAATG-AAATGCATAATAGTGCAT
4958695 TATAAGTATA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
135 23 0.14
136 87 0.54
137 45 0.28
138 4 0.03
139 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (135 bp):
TATAAAGGGCATGAAAGAATGCCATAAATGAAATGCATAATAGTGCATAAAAGGCATGAAAAGAT
GCTATAAATGAAATATATAATAGCGTATAAAAGACATGAAAGGATGCCATAAAAGAAATGCATAA
TAGCT
Found at i:4961746 original size:15 final size:15
Alignment explanation
Indices: 4961724--4961794 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
4961714 GTAGAGCATG
4961724 AGAAGAAGGATGACAC
1 AGAAGAAGGA-GACAC
*
4961740 A-AAGAAGGAGATACAGA
1 AGAAGAAGGAG--ACA-C
4961757 AGAAGAAGGAAGACAC
1 AGAAGAAGG-AGACAC
* *
4961773 A-AAGAATGAGATAC
1 AGAAGAAGGAGACAC
4961787 AGAAGAAG
1 AGAAGAAG
4961795 AATAACGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
14 7 0.16
15 19 0.43
16 5 0.11
17 4 0.09
18 7 0.16
19 2 0.05
ACGTcount: A:0.56, C:0.08, G:0.30, T:0.06
Consensus pattern (15 bp):
AGAAGAAGGAGACAC
Found at i:4961764 original size:33 final size:33
Alignment explanation
Indices: 4961724--4961796 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
4961714 GTAGAGCATG
*
4961724 AGAAGAAGGATGACACAAAGAAGGAGATACAGA
1 AGAAGAAGGAAGACACAAAGAAGGAGATACAGA
*
4961757 AGAAGAAGGAAGACACAAAGAATGAGATACAGA
1 AGAAGAAGGAAGACACAAAGAAGGAGATACAGA
4961790 AGAAGAA
1 AGAAGAA
4961797 TAACGTTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.58, C:0.08, G:0.29, T:0.05
Consensus pattern (33 bp):
AGAAGAAGGAAGACACAAAGAAGGAGATACAGA
Found at i:4961797 original size:18 final size:18
Alignment explanation
Indices: 4961741--4961796 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
4961731 GGATGACACA
4961741 AAGAAGGAGATACAGAAG
1 AAGAAGGAGATACAGAAG
* *
4961759 AAGAAGGA-AGACA-CA-
1 AAGAAGGAGATACAGAAG
*
4961774 AAGAATGAGATACAGAAG
1 AAGAAGGAGATACAGAAG
4961792 AAGAA
1 AAGAA
4961797 TAACGTTGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 7 0.23
16 5 0.17
17 5 0.17
18 13 0.43
ACGTcount: A:0.59, C:0.07, G:0.29, T:0.05
Consensus pattern (18 bp):
AAGAAGGAGATACAGAAG
Found at i:4966690 original size:12 final size:13
Alignment explanation
Indices: 4966663--4966695 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4966653 ATATTATAAT
*
4966663 TTTTCAAACTTAG
1 TTTTCAAACGTAG
4966676 TTTTCAAA-GTAG
1 TTTTCAAACGTAG
4966688 TTTTCAAA
1 TTTTCAAA
4966696 TTTGGCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (13 bp):
TTTTCAAACGTAG
Found at i:4972228 original size:20 final size:19
Alignment explanation
Indices: 4972203--4972254 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
4972193 TAATGCAATC
*
4972203 AGTATCGATACCGAAGGGGG
1 AGTATCGATACCGAA-GGGA
4972223 AGTATCGATACCGAAGGGA
1 AGTATCGATACCGAAGGGA
4972242 ATGTATCGATACC
1 A-GTATCGATACC
4972255 ATTCGAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (19 bp):
AGTATCGATACCGAAGGGA
Found at i:4972301 original size:19 final size:19
Alignment explanation
Indices: 4972277--4972317 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4972267 ATGCAAAATG
4972277 GTATCGATACCAGAGTAGA
1 GTATCGATACCAGAGTAGA
* * *
4972296 GTATCGGTACCATAGTATA
1 GTATCGATACCAGAGTAGA
4972315 GTA
1 GTA
4972318 GTATCTATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (19 bp):
GTATCGATACCAGAGTAGA
Found at i:4972649 original size:55 final size:54
Alignment explanation
Indices: 4972495--4972654 Score: 232
Period size: 55 Copynumber: 2.9 Consensus size: 54
4972485 AAGTGTGCAA
* *
4972495 AAACTTAAGAAATTCATACTAA-TGGATGAATTTTTGTATGAGCAGTATATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTATGTATG-GCACTATATGTGT
* ** *
4972549 AAACTTAAGAAATTCATACTAAGTGGATGAAATTCCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTATGTAT-GGCACTATATGTGT
4972604 AAACTTAAGAAATTCATACTAAGTGGATGAATTTATGTATAGGCACTATAT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTATGTAT-GGCACTATAT
4972655 TTGCAAAAAC
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
54 22 0.23
55 71 0.76
56 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (54 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTATGTATGGCACTATATGTGT
Found at i:4972967 original size:68 final size:68
Alignment explanation
Indices: 4972863--4973472 Score: 965
Period size: 68 Copynumber: 9.0 Consensus size: 68
4972853 AAAGATTAAT
*
4972863 GGCCTAGCTGTGCATTTGA-AAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4972927 TGA
66 TGA
* * *
4972930 GGCCTAGCTATGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4972995 TGA
66 TGA
* *
4972998 GGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4973063 TGA
66 TGA
* *
4973066 GGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
4973131 TGT
66 TGA
* * *
4973134 GGCCTAGCTGTGCATTTTACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
4973199 TAA
66 TGA
* * * *
4973202 GGCCTAGCTGTGTATTTGACAGAAA-GTGTTAATTATGTCAGTTAGATGAAAGGATAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4973266 TGA
66 TGA
* * *
4973269 GGCCTAGCTTTGCATTTGACAGAAAGGTATTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4973334 TGA
66 TGA
* *
4973337 GGCTTAGGTGTGCATTTGACAGAAAGGTGTCAATTAT-CCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4973401 TGA
66 TGA
* * * *
4973404 GGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4973469 TGA
66 TGA
4973472 G
1 G
4973473 TAAAAGATTA
Statistics
Matches: 499, Mismatches: 41, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
67 144 0.29
68 355 0.71
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (68 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:4973312 original size:135 final size:136
Alignment explanation
Indices: 4972863--4973634 Score: 967
Period size: 135 Copynumber: 5.5 Consensus size: 136
4972853 AAAGATTAAT
*
4972863 GGCCTAGCTGTGCATTTGA-AAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
4972927 TGAGGCCTAGCTATGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGT
66 TGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
4972992 CTTTGA
131 CTTTGA
* *
4972998 GGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* *
4973063 TGAGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGT
66 TGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
*
4973128 CTTTGT
131 CTTTGA
* * *
4973134 GGCCTAGCTGTGCATTTTACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * * * *
4973199 TAAGGCCTAGCTGTGTATTTGACAGAAA-GTGTTAATTATGTCAGTTAGATGAAAGGATAAGTGC
66 TGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
4973263 CTTTGA
131 CTTTGA
* * *
4973269 GGCCTAGCTTTGCATTTGACAGAAAGGTATTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* *
4973334 TGAGGCTTAGGTGTGCATTTGACAGAAAGGTGTCAATTAT-CCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
4973398 CTTTGA
131 CTTTGA
* * * *
4973404 GGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* *
4973469 TGAGTAAAAGATTAACAGCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATG
66 T--G----AG-------GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATG
* * *
4973534 AAAGGTTAAATACCTTTGAGTAAAAGATTAA
118 AAAGGCTAAGTGCC-TT---T----G----A
* * *
4973565 TGGCCTAGCTGTGCATTTGACAAAAAGGTGTCAATCATGCCAGTTAGATGAAA-GCTTAAATGCC
1 -GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGC-TAAGTGCC
4973629 TTTGAG
64 TTTGAG
4973635 TAAAAGACTA
Statistics
Matches: 557, Mismatches: 50, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
135 225 0.40
136 207 0.37
137 1 0.00
141 2 0.00
148 32 0.06
149 22 0.04
150 2 0.00
153 1 0.00
156 2 0.00
157 1 0.00
160 1 0.00
161 2 0.00
162 59 0.11
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (136 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGAGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
CTTTGA
Found at i:4973503 original size:81 final size:81
Alignment explanation
Indices: 4973405--4973641 Score: 402
Period size: 81 Copynumber: 2.9 Consensus size: 81
4973395 TGCCTTTGAG
4973405 GCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTT
1 GCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTT
4973470 GAGTAAAAGATTAACA
66 GAGTAAAAGATTAACA
*
4973486 GCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTT
1 GCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTT
**
4973551 GAGTAAAAGATTAATG
66 GAGTAAAAGATTAACA
* * * * *
4973567 GCCTAGCTGTGCATTTGACAAAAAGGTGTCAATCATGCCAGTTAGATGAAAGCTTAAATGCCTTT
1 GCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTT
4973632 GAGTAAAAGA
66 GAGTAAAAGA
4973642 CTATATGTAC
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 147 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (81 bp):
GCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTT
GAGTAAAAGATTAACA
Found at i:4973719 original size:45 final size:45
Alignment explanation
Indices: 4973669--4973928 Score: 375
Period size: 45 Copynumber: 5.8 Consensus size: 45
4973659 TATTGCGTAA
4973669 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
* *
4973714 TATAAAAGGGAATGAAAGGAAG-CATAAATGAAATGTATAATAG-T
1 TATAAAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
*
4973758 GTATAAAAGGCATGAAA-GAGTGCCATAAATGAACTGTATAATAGCT
1 -TATAAAAGGCATGAAAGGA-TGCCATAAATGAAATGTATAATAGCT
*
4973804 TATAAAAGGGCAAGAAAGGATGCCATAAATGAAATGTATAATAG-T
1 TATAAAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
* * *
4973849 GTATAAAAGGCATGAAATGATGCTATAAATGAAATGTATAATAGCG
1 -TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
*
4973895 TATAAAAGGCATGAAAGGATGCCATAAAAGAAAT
1 TATAAAAGGCATGAAAGGATGCCATAAATGAAAT
4973929 ACATAGGGGT
Statistics
Matches: 192, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.01
44 10 0.05
45 127 0.66
46 51 0.27
47 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.23
Consensus pattern (45 bp):
TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT
Found at i:4973835 original size:136 final size:135
Alignment explanation
Indices: 4973669--4973922 Score: 406
Period size: 136 Copynumber: 1.9 Consensus size: 135
4973659 TATTGCGTAA
*
4973669 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT-TATAAAAGGGAATGAAAGG
1 TATAAAAGGCAAGAAAGGATGCCATAAATGAAATGTATAATAG-TGTATAAAA-GGAATGAAAGG
*
4973733 AAGC-ATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAA-GAGTGCCATAAATGAACTGTA
64 AAGCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAGGA-TGCCATAAATGAACTGTA
4973796 TAATAGCT
128 TAATAGCT
* *
4973804 TATAAAAGGGCAAGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAATGA
1 TATAAAA-GGCAAGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGAATGAAAGGA
*
4973869 TGCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAGGATGCCATAAA
65 AGCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAGGATGCCATAAA
4973923 AGAAATACAT
Statistics
Matches: 110, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
135 20 0.18
136 88 0.80
137 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.23
Consensus pattern (135 bp):
TATAAAAGGCAAGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGAATGAAAGGAA
GCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAGGATGCCATAAATGAACTGTATAA
TAGCT
Found at i:4973876 original size:22 final size:22
Alignment explanation
Indices: 4973850--4973924 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
4973840 TATAATAGTG
4973850 TATAAAAGGCATGAAATGATGC
1 TATAAAAGGCATGAAATGATGC
* **
4973872 TATAAATGAAATGTATAAT-A-GC
1 TATAAAAGGCATG-A-AATGATGC
*
4973894 GTATAAAAGGCATGAAAGGATGC
1 -TATAAAAGGCATGAAATGATGC
*
4973917 CATAAAAG
1 TATAAAAG
4973925 AAATACATAG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
21 2 0.05
22 21 0.52
23 14 0.35
24 3 0.08
ACGTcount: A:0.48, C:0.08, G:0.21, T:0.23
Consensus pattern (22 bp):
TATAAAAGGCATGAAATGATGC
Found at i:4973967 original size:90 final size:91
Alignment explanation
Indices: 4973669--4973981 Score: 416
Period size: 90 Copynumber: 3.5 Consensus size: 91
4973659 TATTGCGTAA
* *
4973669 TATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGAATGAAAGGA
1 TATAAAAGGCATGAAAGAATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGCATGAAAGGA
*
4973734 AG-CATAAATGAAATGTATAATAGTG
66 TGCCATAAATGAAATGTATAATAGTG
* * *
4973759 TATAAAAGGCATGAAAGAGTGCCATAAATGAACTGTATAATAGCTTATAAAAGGGCAAGAAAGGA
1 TATAAAAGGCATGAAAGAATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGCATGAAAGGA
4973824 TGCCATAAATGAAATGTATAATAGTG
66 TGCCATAAATGAAATGTATAATAGTG
* *
4973850 TATAAAAGGCATGAAATG-ATGCTATAAATGAAATGTATAATAGCGTATAAAA-GGCATGAAAGG
1 TATAAAAGGCATGAAA-GAATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGCATGAAAGG
* ** ***
4973913 ATGCCATAAAAGAAATACATAGGGGTG
65 ATGCCATAAATGAAATGTATAATAGTG
* ** * *
4973940 TATTATTGGCATTAAAGAATGCCATAAATGAAAATGCATAAT
1 TATAAAAGGCATGAAAGAATGCCATAAATG-AAATGTATAAT
4973982 GGTGCATTAT
Statistics
Matches: 196, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
89 1 0.01
90 115 0.59
91 79 0.40
92 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (91 bp):
TATAAAAGGCATGAAAGAATGCCATAAATGAAATGTATAATAGCTTATAAAAGGGCATGAAAGGA
TGCCATAAATGAAATGTATAATAGTG
Found at i:4974000 original size:136 final size:136
Alignment explanation
Indices: 4973669--4973988 Score: 337
Period size: 136 Copynumber: 2.4 Consensus size: 136
4973659 TATTGCGTAA
* * * * * *
4973669 TATAAAA-GGCATGAAAGGATGCCATAAATGAAATGTATAATAGCT-TATAAAAGGGAATGAAAG
1 TATAAAAGGGCAAGAAAGAATGCCATAAATGAAATGCATAATAG-TGCATAAAA-GGCATGAAAT
* * * * **
4973732 GAAGC-ATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAAGAGTGCCATAAATGAACTGTA
64 GATGCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAGAGTGCCATAAAAGAAATACA
*
4973796 TAATAGCT
129 TAAGAGCT
* * *
4973804 TATAAAAGGGCAAGAAAGGATGCCATAAATGAAATGTATAATAGTGTATAAAAGGCATGAAATGA
1 TATAAAAGGGCAAGAAAGAATGCCATAAATGAAATGCATAATAGTGCATAAAAGGCATGAAATGA
4973869 TGCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAG-GATGCCATAAAAGAAATACAT
66 TGCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAGAG-TGCCATAAAAGAAATACAT
* *
4973933 -AGGGGT
130 AAGAGCT
* ** ** *
4973939 GTAT-TATTGGCATTAAAGAATGCCATAAATGAAAATGCATAATGGTGCAT
1 -TATAAAAGGGCAAGAAAGAATGCCATAAATG-AAATGCATAATAGTGCAT
4973989 TATAAGTATG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
135 45 0.28
136 113 0.72
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (136 bp):
TATAAAAGGGCAAGAAAGAATGCCATAAATGAAATGCATAATAGTGCATAAAAGGCATGAAATGA
TGCTATAAATGAAATGTATAATAGCGTATAAAAGGCATGAAAGAGTGCCATAAAAGAAATACATA
AGAGCT
Found at i:4976537 original size:23 final size:20
Alignment explanation
Indices: 4976511--4976561 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
4976501 CACTTTTTCA
4976511 AAATAAAATTCATAATTGTTTTT
1 AAATAAAATT--TAATTG-TTTT
*
4976534 AAATAATATTTAATTGTTTT
1 AAATAAAATTTAATTGTTTT
4976554 AAA-AAAAT
1 AAATAAAAT
4976562 GATTATGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 7 0.27
21 6 0.23
23 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (20 bp):
AAATAAAATTTAATTGTTTT
Found at i:4979343 original size:12 final size:11
Alignment explanation
Indices: 4979309--4979384 Score: 53
Period size: 12 Copynumber: 6.4 Consensus size: 11
4979299 AGGCGATGAT
* *
4979309 AAAAGTAAAGA
1 AAAAGAAAAAA
*
4979320 AAAAGAGCAAAA
1 AAAAGA-AAAAA
*
4979332 GAAAGAAAAAA
1 AAAAGAAAAAA
*
4979343 ACAAAGAAATAA
1 A-AAAGAAAAAA
4979355 AAAAGCAAATAAA
1 AAAAG-AAA-AAA
4979368 AAAGAGAAAAGAA
1 AAA-AGAAAA-AA
4979381 AAAA
1 AAAA
4979385 AAAGATAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
11 13 0.25
12 23 0.45
13 13 0.25
14 2 0.04
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.04
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:4979350 original size:16 final size:16
Alignment explanation
Indices: 4979310--4979388 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 16
4979300 GGCGATGATA
4979310 AAAGTAAAGAAAAAGAGC
1 AAAG-AAAGAAAAA-AGC
*
4979328 AAAAGAAAGAAAAAAAC
1 -AAAGAAAGAAAAAAGC
*
4979345 AAAGAAATAAAAAAGC
1 AAAGAAAGAAAAAAGC
* * *
4979361 AAA-TAA-AAAAGAGA
1 AAAGAAAGAAAAAAGC
4979375 AAAGAAA-AAAAAAG
1 AAAGAAAGAAAAAAG
4979389 ATAAGAAGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
14 9 0.18
15 10 0.20
16 17 0.33
17 2 0.04
18 9 0.18
19 4 0.08
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAGAAAGAAAAAAGC
Found at i:4979370 original size:14 final size:14
Alignment explanation
Indices: 4979309--4979386 Score: 50
Period size: 14 Copynumber: 5.3 Consensus size: 14
4979299 AGGCGATGAT
*
4979309 AAAAGTAAAG-AAA
1 AAAAGAAAAGAAAA
*
4979322 AAGAGCAAAAGAAAGA
1 AAAAG-AAAAGAAA-A
*
4979338 AAAAAACAAAGAAATAA
1 AAAAGA-AAAG-AA-AA
* *
4979355 AAAAGCAAATAAAA
1 AAAAGAAAAGAAAA
*
4979369 AAGAGAAAAGAAAA
1 AAAAGAAAAGAAAA
4979383 AAAA
1 AAAA
4979387 AGATAAGAAG
Statistics
Matches: 48, Mismatches: 11, Indels: 11
0.69 0.16 0.16
Matches are distributed among these distances:
13 4 0.08
14 20 0.42
15 5 0.10
16 11 0.23
17 7 0.15
18 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAGAAAA
Done.