Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 68 of 78
Found at i:13956605 original size:29 final size:29
Alignment explanation
Indices: 13956571--13956629 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13956561 CCTAAATTAA
13956571 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
13956600 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
13956629 T
1 T
13956630 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:13962072 original size:3 final size:3
Alignment explanation
Indices: 13962064--13962116 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
13962054 CCGGTCTAAA
*
13962064 ATT ATT ATTT ATT ATT ATT AATT ATT ATT GTT ATT ATT ATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
13962111 A-T ATT A
1 ATT ATT A
13962117 ACATATATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 6 0.13
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13966115 original size:16 final size:16
Alignment explanation
Indices: 13966094--13966134 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
13966084 AAGTATCAAG
13966094 AAAGAATGATGTCCTA
1 AAAGAATGATGTCCTA
*
13966110 AAAGAATGATGTCCTC
1 AAAGAATGATGTCCTA
13966126 AAAGAATGA
1 AAAGAATGA
13966135 ACCTCAATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (16 bp):
AAAGAATGATGTCCTA
Found at i:13996249 original size:20 final size:20
Alignment explanation
Indices: 13996226--13996272 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
13996216 CCATTTTGTG
* * *
13996226 CATTTAGTATCAGTACTGTT
1 CATTTAGTACCAATACTATT
*
13996246 CATTCAGTACCAATACTATT
1 CATTTAGTACCAATACTATT
13996266 C-TTTAGT
1 CATTTAGT
13996273 CAGTATCGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (20 bp):
CATTTAGTACCAATACTATT
Found at i:13996795 original size:2 final size:2
Alignment explanation
Indices: 13996788--13996829 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13996778 ATTTTACATA
13996788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13996830 GTTTTGTACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14004828 original size:37 final size:37
Alignment explanation
Indices: 14004757--14005153 Score: 222
Period size: 37 Copynumber: 11.2 Consensus size: 37
14004747 CCCTCGTTAA
*
14004757 AGACATTGTTT-TCTTAAAA-ATAAATTCTGTCTCACTTG
1 AGACATT-TTTCTCTTAAAACA-AATTTC-GTCTCACTTG
14004795 AGACATTTTTCTCTTAAAACAAATTTCGTCTCACTTG
1 AGACATTTTTCTCTTAAAACAAATTTCGTCTCACTTG
* ** ** ** *
14004832 AGACATTTTCCTTCGGAGCACAAA-TT--TCAAAGTT-
1 AGACATTTTTC-TCTTAAAACAAATTTCGTCTCACTTG
14004866 -G---TTTTTCT-TTAAAA-AAA-TT-GTCTCACTTG
1 AGACATTTTTCTCTTAAAACAAATTTCGTCTCACTTG
* * *
14004895 AGACATTTTTCTATTAAAACAAATTTCCTATCACTTG
1 AGACATTTTTCTCTTAAAACAAATTTCGTCTCACTTG
* * ** * * *
14004932 AGATATTTTCCTTCGGAACACAAATTTTGTTTCACTTG
1 AGACATTTTTC-TCTTAAAACAAATTTCGTCTCACTTG
* *
14004970 AGACATTTTTCTCTTAAAACAAATTTCATCTCACTGG
1 AGACATTTTTCTCTTAAAACAAATTTCGTCTCACTTG
14005007 AGACA-TTTTC-CTTCGAAACACAAA--T--T-TCA----
1 AGACATTTTTCTCTT--AAA-ACAAATTTCGTCTCACTTG
* *
14005036 A-A-GTGTTTT-TCTTAAAACAAATTTTGTCTCACTTG
1 AGACAT-TTTTCTCTTAAAACAAATTTCGTCTCACTTG
* *
14005071 AGACATTTTTCTCTCAAAA-AGAATTTCGTCTCACTTA
1 AGACATTTTTCTCTTAAAACA-AATTTCGTCTCACTTG
* * * * *
14005108 AGATATCTTTCTCTCAAAACGAATTTCGTCTCACTTA
1 AGACATTTTTCTCTTAAAACAAATTTCGTCTCACTTG
*
14005145 AGATATTTT
1 AGACATTTT
14005154 CCTTCAGAGC
Statistics
Matches: 279, Mismatches: 46, Indels: 69
0.71 0.12 0.18
Matches are distributed among these distances:
26 5 0.02
27 8 0.03
28 9 0.03
29 9 0.03
30 7 0.03
31 3 0.01
33 11 0.04
34 7 0.03
35 12 0.04
36 14 0.05
37 132 0.47
38 61 0.22
39 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (37 bp):
AGACATTTTTCTCTTAAAACAAATTTCGTCTCACTTG
Found at i:14004895 original size:100 final size:103
Alignment explanation
Indices: 14004765--14004958 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 103
14004755 AAAGACATTG
* * *
14004765 TTTTCTTAAAAATAAATTCTGTCTCACTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCACT
1 TTTTCTTAAAAATAAATTCTGTCTCACTTGAGACATTTTTCTATTAAAACAAATTTCCTATCACT
*
14004830 TGAGACATTTTCCTTCGGAGCACAAATTTCAAAGTTGT
66 TGAGACATTTTCCTTCGGAACACAAATTTCAAAGTTGT
*
14004868 TTTTCTTTAAAA-AAA-T-TGTCTCACTTGAGACATTTTTCTATTAAAACAAATTTCCTATCACT
1 TTTTCTTAAAAATAAATTCTGTCTCACTTGAGACATTTTTCTATTAAAACAAATTTCCTATCACT
*
14004930 TGAGATATTTTCCTTCGGAACACAAATTT
66 TGAGACATTTTCCTTCGGAACACAAATTT
14004959 TGTTTCACTT
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
100 70 0.82
101 1 0.01
102 3 0.04
103 11 0.13
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (103 bp):
TTTTCTTAAAAATAAATTCTGTCTCACTTGAGACATTTTTCTATTAAAACAAATTTCCTATCACT
TGAGACATTTTCCTTCGGAACACAAATTTCAAAGTTGT
Found at i:14005015 original size:75 final size:75
Alignment explanation
Indices: 14004883--14005033 Score: 239
Period size: 75 Copynumber: 2.0 Consensus size: 75
14004873 TTTAAAAAAA
* * * *
14004883 TTGTCTCACTTGAGACATTTTTCTATTAAAACAAATTTCCTATCACTTGAGATATTTTCCTTCGG
1 TTGTCTCACTTGAGACATTTTTCTATTAAAACAAATTTCATATCACTGGAGACATTTTCCTTCGA
14004948 AACACAAATT
66 AACACAAATT
* * *
14004958 TTGTTTCACTTGAGACATTTTTCTCTTAAAACAAATTTCATCTCACTGGAGACATTTTCCTTCGA
1 TTGTCTCACTTGAGACATTTTTCTATTAAAACAAATTTCATATCACTGGAGACATTTTCCTTCGA
14005023 AACACAAATT
66 AACACAAATT
14005033 T
1 T
14005034 CAAAGTGTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (75 bp):
TTGTCTCACTTGAGACATTTTTCTATTAAAACAAATTTCATATCACTGGAGACATTTTCCTTCGA
AACACAAATT
Found at i:14005070 original size:139 final size:139
Alignment explanation
Indices: 14004908--14005227 Score: 353
Period size: 138 Copynumber: 2.3 Consensus size: 139
14004898 CATTTTTCTA
** * * * * * *
14004908 TTAAAACAAATTTCCTATCACTTGAGATATTTTCCT-TCGGAACACA-AATTTTGTTTCACTTGA
1 TTAAAACAAATTTTGTCTCACTTGAGACATTTTCCTCTC--AA-AAAGAATTTCGTCTCACTTAA
* * *
14004971 GACATTTTTCTCTTAAAACAAATTTCATCTCACTGGAGACATTTTCCTTC-GAAACACAAATTTC
63 GACATCTTTCTCTCAAAACAAATTTCATCTCACTGAAGACATTTTCCTTCAG-AACACAAATTTC
*
14005035 AAAG-TGTTTTTC
127 AAAGTTGTTTTAC
* *
14005047 TTAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTCAAAAAGAATTTCGTCTCACTTAAGAT
1 TTAAAACAAATTTTGTCTCACTTGAGACATTTTCCTCTCAAAAAGAATTTCGTCTCACTTAAGAC
* * * * * *
14005112 ATCTTTCTCTCAAAACGAATTTCGTCTCACTTAAGATATTTTCCTTCAGAGCACCAATTTCAAAG
66 ATCTTTCTCTCAAAACAAATTTCATCTCACTGAAGACATTTTCCTTCAGAACACAAATTTCAAAG
14005177 TTGTTTTAC
131 TTGTTTTAC
* * * *
14005186 TTTAACCAAATTTTGTCTCGCTTGAGACAATTT-CTCTCAAAA
1 TTAAAACAAATTTTGTCTCACTTGAGACATTTTCCTCTCAAAA
14005228 CAAACATTGT
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
137 2 0.01
138 81 0.53
139 68 0.44
140 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (139 bp):
TTAAAACAAATTTTGTCTCACTTGAGACATTTTCCTCTCAAAAAGAATTTCGTCTCACTTAAGAC
ATCTTTCTCTCAAAACAAATTTCATCTCACTGAAGACATTTTCCTTCAGAACACAAATTTCAAAG
TTGTTTTAC
Found at i:14005110 original size:18 final size:19
Alignment explanation
Indices: 14005089--14005152 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 19
14005079 TTCTCTCAAA
14005089 AAGA-ATTTCGTCTCACTT
1 AAGATATTTCGTCTCACTT
*
14005107 AAGATATCTTTC-TCTCA--A
1 AAGATA--TTTCGTCTCACTT
14005125 AACGA-ATTTCGTCTCACTT
1 AA-GATATTTCGTCTCACTT
14005144 AAGATATTT
1 AAGATATTT
14005153 TCCTTCAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 15
0.68 0.04 0.28
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 9 0.25
19 9 0.25
20 5 0.14
21 4 0.11
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (19 bp):
AAGATATTTCGTCTCACTT
Found at i:14005133 original size:138 final size:138
Alignment explanation
Indices: 14004954--14005227 Score: 354
Period size: 138 Copynumber: 2.0 Consensus size: 138
14004944 TCGGAACACA
* * * * * *
14004954 AATTTTGTTTCACTTGAGACATTTTTCTCTTAAAACAAATTTCATCTCACTGGAGACATTTTCCT
1 AATTTCGTCTCACTTAAGACATCTTTCTCTCAAAACAAATTTCATCTCACTGAAGACATTTTCCT
* *
14005019 TC-GAAACACAAATTTCAAAG-TGTTTTTCTTAAAACAAATTTTGTCTCACTTGAGACATTTTTC
66 TCAG-AACACAAATTTCAAAGTTGTTTTACTTAAAACAAATTTTGTCTCACTTGAGACA-ATTTC
14005082 TCTCAAAAAG
129 TCTCAAAAAG
* * * * *
14005092 AATTTCGTCTCACTTAAGATATCTTTCTCTCAAAACGAATTTCGTCTCACTTAAGATATTTTCCT
1 AATTTCGTCTCACTTAAGACATCTTTCTCTCAAAACAAATTTCATCTCACTGAAGACATTTTCCT
* * * * *
14005157 TCAGAGCACCAATTTCAAAGTTGTTTTACTTTAACCAAATTTTGTCTCGCTTGAGACAATTTCTC
66 TCAGAACACAAATTTCAAAGTTGTTTTACTTAAAACAAATTTTGTCTCACTTGAGACAATTTCTC
14005222 TCAAAA
131 TCAAAA
14005228 CAAACATTGT
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
138 82 0.71
139 34 0.29
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (138 bp):
AATTTCGTCTCACTTAAGACATCTTTCTCTCAAAACAAATTTCATCTCACTGAAGACATTTTCCT
TCAGAACACAAATTTCAAAGTTGTTTTACTTAAAACAAATTTTGTCTCACTTGAGACAATTTCTC
TCAAAAAG
Found at i:14005455 original size:21 final size:22
Alignment explanation
Indices: 14005401--14005456 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
14005391 AACTTTGATA
* *
14005401 TTGTTTCCTTTGAAACAAAGTT
1 TTGTCTCCCTTGAAACAAAGTT
**
14005423 TTGTCTTTCTTGAAACAAA-TT
1 TTGTCTCCCTTGAAACAAAGTT
14005444 TTGTCTCCCTTGA
1 TTGTCTCCCTTGA
14005457 GACAGTTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (22 bp):
TTGTCTCCCTTGAAACAAAGTT
Found at i:14005634 original size:36 final size:36
Alignment explanation
Indices: 14005594--14005669 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
14005584 TTTGAGAACG
* *
14005594 TTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAA
*
14005630 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAA
14005666 TTTC
1 TTTC
14005670 TCTTAAAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAA
Found at i:14005658 original size:21 final size:20
Alignment explanation
Indices: 14005596--14005660 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
14005586 TGAGAACGTT
14005596 TCCCTTGAAACGAATTTTGTC
1 TCCCTTGAAAC-AATTTTGTC
* *
14005617 TCTCTTGAGACAA---T-T-
1 TCCCTTGAAACAATTTTGTC
14005632 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAAC-AATTTTGTC
14005653 TCCCTTGA
1 TCCCTTGA
14005661 GACAGTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
17 1 0.03
19 1 0.03
20 3 0.09
21 17 0.50
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (20 bp):
TCCCTTGAAACAATTTTGTC
Found at i:14005734 original size:100 final size:99
Alignment explanation
Indices: 14005431--14005777 Score: 414
Period size: 100 Copynumber: 3.4 Consensus size: 99
14005421 TTTTGTCTTT
* * *
14005431 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTATTAAAACATAAACTTTAAGAATGTTTCC
1 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAA-TTAAACTTTAAGAA-CTTTCC
* * *
14005496 CTTGAAATGATTTTTTGTCTCTCTTGAGATAGTTTCC
64 CTTGAAA-CATATTTTGTCTCTCTTGAGAAAGTTTCC
* * * * * *
14005533 CTTGAAACAAAATTTT-TTTTCCTATAAGACAGTTTCTCTTGAATCATT-ATCTTTGAGAACGTT
1 CTTGAAAC-AAATTTTGTCTCCCT-TGAGACAGTTTCTCTT-AA-AATTAAACTTTAAGAAC-TT
14005596 TCCCTTGAAACGA-ATTTTGTCTCTCTTGAGACAA-TTTCC
61 TCCCTTGAAAC-ATATTTTGTCTCTCTTGAGA-AAGTTTCC
14005635 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAATGTAAACTTTAAGAACTTTCCC
1 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAAT-TAAACTTTAAGAACTTTCCC
14005700 TTGAAACATATTTTGTCTCTCTTGAGAAAGTTTCC
65 TTGAAACATATTTTGTCTCTCTTGAGAAAGTTTCC
* ** * *
14005735 CTTTAAACAAATTTTGTCTATCTTGAGATAGTTTCCCTTAAAA
1 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAA
14005778 CGAATTTTGT
Statistics
Matches: 210, Mismatches: 23, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
99 5 0.02
100 77 0.37
101 32 0.15
102 48 0.23
103 44 0.21
104 3 0.01
105 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.41
Consensus pattern (99 bp):
CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAATTAAACTTTAAGAACTTTCCCT
TGAAACATATTTTGTCTCTCTTGAGAAAGTTTCC
Found at i:14005743 original size:36 final size:35
Alignment explanation
Indices: 14005694--14005805 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 35
14005684 CTTTAAGAAC
*
14005694 TTTCCCTTGAAACATATTTTGTCTCTCTTGAGAAAG
1 TTTCCCTTAAAACA-ATTTTGTCTCTCTTGAGAAAG
* * *
14005730 TTTCCCTTTAAACAAATTTTGTCTATCTTGAGATAG
1 TTTCCCTTAAAAC-AATTTTGTCTCTCTTGAGAAAG
*
14005766 TTTCCCTTAAAACGAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTAAAAC-AATTTTGTCTCTCTTGAGAAAG
14005802 TTTC
1 TTTC
14005806 TCTCGAAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 67 0.99
37 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTCCCTTAAAACAATTTTGTCTCTCTTGAGAAAG
Found at i:14005749 original size:136 final size:137
Alignment explanation
Indices: 14005580--14005922 Score: 447
Period size: 136 Copynumber: 2.5 Consensus size: 137
14005570 CTTGAATCAT
* * * * * * *
14005580 TATCTTTGAGAACGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAA
1 TATC-TTGAGAAAGTTTCCCTTTAAACAAATTTTGTCTATCTTGAGATAGTTTCCCTTAAAACAA
* ** * *
14005645 ATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAATGTAAACTTTAAGAAC-TTTCCCTTGAAACAT
65 ATTTTGTCTCCCTTGAGACAGTTTCTCTCAAAACATAAACTTTAAGAACGTTTCCATTGAAACAA
*
14005709 ATTTTGTC
130 AATTTGTC
* *
14005717 TCTCTTGAGAAAGTTTCCCTTTAAACAAATTTTGTCTATCTTGAGATAGTTTCCCTTAAAACGAA
1 TATCTTGAGAAAGTTTCCCTTTAAACAAATTTTGTCTATCTTGAGATAGTTTCCCTTAAAACAAA
* * * *
14005782 TTTTGTCTCTCTTGAGACAGTTTCTCTCGAAACATACACTTTGAGAACGTTTCCATTGAAACAAA
66 TTTTGTCTCCCTTGAGACAGTTTCTCTCAAAACATAAACTTTAAGAACGTTTCCATTGAAACAAA
14005847 ATTTGTC
131 ATTTGTC
* * * *
14005854 TATCATGAGATAA-TTTCCATTTAAACAAATATTGTCTATGTTGAGATAGTTTCCCTTAAAACAA
1 TATCTTGAGA-AAGTTTCCCTTTAAACAAATTTTGTCTATCTTGAGATAGTTTCCCTTAAAACAA
14005918 ATTTT
65 ATTTT
14005923 ATATCGCTTA
Statistics
Matches: 179, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
136 94 0.53
137 83 0.46
138 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (137 bp):
TATCTTGAGAAAGTTTCCCTTTAAACAAATTTTGTCTATCTTGAGATAGTTTCCCTTAAAACAAA
TTTTGTCTCCCTTGAGACAGTTTCTCTCAAAACATAAACTTTAAGAACGTTTCCATTGAAACAAA
ATTTGTC
Found at i:14005853 original size:101 final size:101
Alignment explanation
Indices: 14005721--14005906 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 101
14005711 TTTGTCTCTC
* * * * * * * *
14005721 TTGAGAAAGTTTCCCTTTAAACAAATTTTGTCTATCTTGAGATAGTTTCCCTTAAAACGAATTTT
1 TTGAGAAAGTTTCCATTGAAACAAAATTTGTCTATCATGAGATAATTTCCATTAAAACAAATATT
*
14005786 GTCTCTCTTGAGACAGTTTCTCTCGAAACATACACT
66 GTCTATCTTGAGACAGTTTCTCTCGAAACATACACT
* *
14005822 TTGAGAACGTTTCCATTGAAACAAAATTTGTCTATCATGAGATAATTTCCATTTAAACAAATATT
1 TTGAGAAAGTTTCCATTGAAACAAAATTTGTCTATCATGAGATAATTTCCATTAAAACAAATATT
* *
14005887 GTCTATGTTGAGATAGTTTC
66 GTCTATCTTGAGACAGTTTC
14005907 CCTTAAAACA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (101 bp):
TTGAGAAAGTTTCCATTGAAACAAAATTTGTCTATCATGAGATAATTTCCATTAAAACAAATATT
GTCTATCTTGAGACAGTTTCTCTCGAAACATACACT
Found at i:14005919 original size:36 final size:37
Alignment explanation
Indices: 14005822--14005919 Score: 112
Period size: 36 Copynumber: 2.7 Consensus size: 37
14005812 AACATACACT
*
14005822 TTGAGA-ACGTTTCCATTGAAACAAA-ATTTGTCTATC
1 TTGAGATA-GTTTCCATTAAAACAAATATTTGTCTATC
* * * *
14005858 ATGAGATAATTTCCATTTAAACAAATA-TTGTCTATG
1 TTGAGATAGTTTCCATTAAAACAAATATTTGTCTATC
*
14005894 TTGAGATAGTTTCCCTTAAAACAAAT
1 TTGAGATAGTTTCCATTAAAACAAAT
14005920 TTTATATCGC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
36 50 0.96
37 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (37 bp):
TTGAGATAGTTTCCATTAAAACAAATATTTGTCTATC
Found at i:14005977 original size:137 final size:136
Alignment explanation
Indices: 14005586--14005950 Score: 322
Period size: 137 Copynumber: 2.7 Consensus size: 136
14005576 TCATTATCTT
* * * * * * * * * *
14005586 TGAGAACGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTTG
1 TGAGAAAGTTTCCATTTAAACAAATATTGTCTATCTTGAGATAGTTTCCCTTAAAACAAATTTTA
* * * * ** * ** * * *
14005651 TCTCCCTTGAGACAGTTTCTCTTA-AAATGTAA-ACTTTAAGAACTTTCCCTTGAAACATATTTT
66 TATCGCTTAAGACAGTTTCGC-TAGAAA-CAAACACTTTAAGAACGTAACATTGAAACAAAATTT
* *
14005714 GTCTCTCT
129 GTCTATCA
* * * *
14005722 TGAGAAAGTTTCCCTTTAAACAAATTTTGTCTATCTTGAGATAGTTTCCCTTAAAACGAATTTTG
1 TGAGAAAGTTTCCATTTAAACAAATATTGTCTATCTTGAGATAGTTTCCCTTAAAACAAATTTTA
* * * * * * * **
14005787 TCTCTCTTGAGACAGTTTCTCTCGAAACATACACTTTGAGAACGTTTCCATTGAAACAAAATTTG
66 TATCGCTTAAGACAGTTTCGCTAGAAACAAACACTTTAAGAACG-TAACATTGAAACAAAATTTG
14005852 TCTATCA
130 TCTATCA
*
14005859 TGAGATAA-TTTCCATTTAAACAAATATTGTCTATGTTGAGATAGTTTCCCTTAAAACAAATTTT
1 TGAGA-AAGTTTCCATTTAAACAAATATTGTCTATCTTGAGATAGTTTCCCTTAAAACAAATTTT
*
14005923 ATATCGCTTAAGATAGTTTCGCTAGAAA
65 ATATCGCTTAAGACAGTTTCGCTAGAAA
14005951 TGAAATATTT
Statistics
Matches: 194, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
135 2 0.01
136 90 0.46
137 100 0.52
138 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (136 bp):
TGAGAAAGTTTCCATTTAAACAAATATTGTCTATCTTGAGATAGTTTCCCTTAAAACAAATTTTA
TATCGCTTAAGACAGTTTCGCTAGAAACAAACACTTTAAGAACGTAACATTGAAACAAAATTTGT
CTATCA
Found at i:14006345 original size:145 final size:144
Alignment explanation
Indices: 14006083--14006389 Score: 452
Period size: 145 Copynumber: 2.1 Consensus size: 144
14006073 TGCAAGATGA
* *
14006083 TAAGTCCTTCAGGCCATCCATAAAACCTTCGGGCAGGTTGTTTCAACATTTCCTTTGCTCGATTC
1 TAAGTCCTTCAGGCCATCCATAAAACCTTCGGGCAGGATGTTTCAACATTTCCTTTGCTCAATTC
* * *
14006148 ACAGTACTTCGAATCAACAATGCCCCACCAGAGGGGTTAACATTTCCTATTGCTCGATTCACAAC
66 ACAATACTTCGAATCAACAACGCCCCACCAGAGGGGTTAACATTTCATATTGCTCGATTCACAAC
* *
14006213 ACTTCGAATCTGCT
131 ACTTCAAATCAGCT
* * * *
14006227 TAAGTCCATCAGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAACATTTTCTTTGTTCAATT
1 TAAGTCCTTCAGGCCATCCATAAAACCTTCGGGCAGGATG-TTTCAACATTTCCTTTGCTCAATT
* * * *
14006292 CACAATACTTCGAATTAGCAACGCCCCGCTAGAGGGGTTAACATTTCATATTGCTCGATTCACAA
65 CACAATACTTCGAATCAACAACGCCCCACCAGAGGGGTTAACATTTCATATTGCTCGATTCACAA
14006357 CACTTCAAATCAGCT
130 CACTTCAAATCAGCT
* *
14006372 GAAGTCCTTCACGCCATC
1 TAAGTCCTTCAGGCCATC
14006390 AGTAAGTTTT
Statistics
Matches: 144, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
144 37 0.26
145 107 0.74
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (144 bp):
TAAGTCCTTCAGGCCATCCATAAAACCTTCGGGCAGGATGTTTCAACATTTCCTTTGCTCAATTC
ACAATACTTCGAATCAACAACGCCCCACCAGAGGGGTTAACATTTCATATTGCTCGATTCACAAC
ACTTCAAATCAGCT
Found at i:14006424 original size:22 final size:22
Alignment explanation
Indices: 14006399--14006465 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
14006389 CAGTAAGTTT
14006399 TTCGAGCATGATGTGTAAGTCC
1 TTCGAGCATGATGTGTAAGTCC
* * *
14006421 TTCGGGCCATCA---GTAAGTCT
1 TTCGAG-CATGATGTGTAAGTCC
*
14006441 TTCGAGCATGATGTGTAAGTTC
1 TTCGAGCATGATGTGTAAGTCC
14006463 TTC
1 TTC
14006466 AGGCCATCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
19 4 0.12
20 12 0.35
22 14 0.41
23 4 0.12
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (22 bp):
TTCGAGCATGATGTGTAAGTCC
Found at i:14006432 original size:42 final size:42
Alignment explanation
Indices: 14006373--14006514 Score: 173
Period size: 42 Copynumber: 3.4 Consensus size: 42
14006363 AAATCAGCTG
*
14006373 AAGTCCTTCACGCCATCAGTAAGTTTTTCGAGCATGATGTGT
1 AAGTCCTTCAGGCCATCAGTAAGTTTTTCGAGCATGATGTGT
* *
14006415 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTGT
1 AAGTCCTTCAGGCCATCAGTAAGTTTTTCGAGCATGATGTGT
* * * *
14006457 AAGTTCTTCAGGCCATCTA-TAAGACTTTT-GAGCAAGATG-AT
1 AAGTCCTTCAGGCCATC-AGTAAG-TTTTTCGAGCATGATGTGT
*
14006498 AAGTCCTTCGGGCCATC
1 AAGTCCTTCAGGCCATC
14006515 CATAGGACCT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 16 0.18
42 67 0.77
43 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (42 bp):
AAGTCCTTCAGGCCATCAGTAAGTTTTTCGAGCATGATGTGT
Found at i:14013479 original size:21 final size:22
Alignment explanation
Indices: 14013443--14013524 Score: 130
Period size: 22 Copynumber: 3.8 Consensus size: 22
14013433 TTAGTGCAGA
14013443 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
*
14013465 GGGAATTGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* *
14013487 GGGAATCGAT-TCCCCTTGTAG
1 GGGAATCGATACCCCCTTGAAG
14013508 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
14013525 GAGGGTTCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 19 0.35
22 35 0.65
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:14015094 original size:18 final size:18
Alignment explanation
Indices: 14015048--14015094 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
14015038 TGAGCAAGAA
14015048 CAACATACGGAACAAGCAC
1 CAACATA-GGAACAAGCAC
* *
14015067 CACCAGAGGAACAAGCAC
1 CAACATAGGAACAAGCAC
*
14015085 GAACATAGGA
1 CAACATAGGA
14015095 TCAAATGCCT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.47, C:0.28, G:0.21, T:0.04
Consensus pattern (18 bp):
CAACATAGGAACAAGCAC
Found at i:14020024 original size:18 final size:19
Alignment explanation
Indices: 14019987--14020024 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14019977 TTCTTATATG
* *
14019987 ATAAAATTAATTAGTGATA
1 ATAAAATTAAGTAATGATA
14020006 ATAAAA-TAAGTAATGATA
1 ATAAAATTAAGTAATGATA
14020024 A
1 A
14020025 GCATATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
ATAAAATTAAGTAATGATA
Found at i:14022734 original size:21 final size:22
Alignment explanation
Indices: 14022659--14022734 Score: 95
Period size: 21 Copynumber: 3.5 Consensus size: 22
14022649 TATGCATGGG
**
14022659 GTATCGATACCTGTAT-GAAGA
1 GTATCGATACCAATATGGAAGA
*
14022680 GTATCGATACC-ATAAGGAAGGA
1 GTATCGATACCAATATGGAA-GA
14022702 GTATCGATACCAATATGGAAG-
1 GTATCGATACCAATATGGAAGA
14022723 GTATCGATACCA
1 GTATCGATACCA
14022735 GGGAACATCG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
20 2 0.04
21 26 0.53
22 14 0.29
23 7 0.14
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (22 bp):
GTATCGATACCAATATGGAAGA
Found at i:14024950 original size:37 final size:37
Alignment explanation
Indices: 14024857--14025104 Score: 153
Period size: 37 Copynumber: 6.9 Consensus size: 37
14024847 GTTTTTCTCG
* ** *
14024857 AAACAAAATGTCGTCTCACTAAAGTCATTGTTT-TCTTAA
1 AAAC-AAATTTCGTCTCACTTGAGACATT-TTTCTCTT-A
* *
14024896 AAATAAATTTTGTCTCACTTGAGACATTTTTCTCTTA
1 AAACAAATTTCGTCTCACTTGAGACATTTTTCTCTTA
**
14024933 AAACAAATTTCGTCTCACTTGAGACA-TTTTCATTCGGA
1 AAACAAATTTCGTCTCACTTGAGACATTTTTC--TCTTA
* ** * *
14024971 ACACAAA-TT--TCAAAGTT--G---TTTTTCT-TAA
1 AAACAAATTTCGTCTCACTTGAGACATTTTTCTCTTA
* * * *
14024999 AAACAATTTTTGTCTCACTTTAG-GATTTTTCTCTTA
1 AAACAAATTTCGTCTCACTTGAGACATTTTTCTCTTA
* * *
14025035 AAACAAATTTTGTCTCACTTGAGACATTTTTATCTCA
1 AAACAAATTTCGTCTCACTTGAGACATTTTTCTCTTA
* *
14025072 AAACAAATTTCATCTCACTT-ATGATATTTTTCT
1 AAACAAATTTCGTCTCACTTGA-GACATTTTTCT
14025105 TCAGAGCACC
Statistics
Matches: 164, Mismatches: 31, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
28 6 0.04
29 3 0.02
31 10 0.06
33 2 0.01
35 12 0.07
36 29 0.18
37 67 0.41
38 32 0.20
39 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (37 bp):
AAACAAATTTCGTCTCACTTGAGACATTTTTCTCTTA
Found at i:14025276 original size:36 final size:35
Alignment explanation
Indices: 14025222--14025362 Score: 124
Period size: 36 Copynumber: 3.9 Consensus size: 35
14025212 TTGAAATATT
* *
14025222 TAAAACAAA-ATTGATCTCACATGAGATAGTTTTCC
1 TAAAACAAATTTTG-TCTCACTTGAGATAGTTTTCC
* *
14025257 TAAGAACAAATTTTGTCTCACTGGATG-TAATTTTCC
1 TAA-AACAAATTTTGTCTCACTTGA-GATAGTTTTCC
* ** *
14025293 TTAAAACAAAATTAATCTCACTTGAGATTGTTTTCTC
1 -TAAAACAAATTTTGTCTCACTTGAGATAGTTTTC-C
* * *
14025330 TAAAAAAAATTTTGTCTCGCTTGAGACAGTTTT
1 TAAAACAAATTTTGTCTCACTTGAGATAGTTTT
14025363 TCTTTAAAAT
Statistics
Matches: 83, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
35 4 0.05
36 71 0.86
37 8 0.10
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (35 bp):
TAAAACAAATTTTGTCTCACTTGAGATAGTTTTCC
Found at i:14025500 original size:36 final size:36
Alignment explanation
Indices: 14025424--14025544 Score: 154
Period size: 35 Copynumber: 3.4 Consensus size: 36
14025414 CTTTGAGATT
* **
14025424 GTTTCCCTTGAAACAAAGTTTTTTCTATCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCCCTTGAGACA
* *
14025461 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAGA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
*
14025497 GTTTCTC-TGAAACAAATTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
14025532 ATTTCTCTTGAAA
1 GTTTCCCTTGAAA
14025545 TATAAACTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
35 32 0.43
36 25 0.34
37 17 0.23
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:14025603 original size:137 final size:136
Alignment explanation
Indices: 14025410--14025927 Score: 473
Period size: 137 Copynumber: 3.8 Consensus size: 136
14025400 ACAAAATTGG
* * *
14025410 TAAACTTTGAGATTGTTTCCCTTGAAACAAAGTTTTTTCTATCTTGAGACAGTTTCCCTTGAAAC
1 TAAACTTTGAGA-CGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* * * *
14025475 AAATTTCGTCTCCCTTGAGAGAGTTTCTC-TGAAACAAATTTTGTCTCCCTTGAGACAATTTCTC
64 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTTCTC
14025539 TTGAAATA
129 TTGAAATA
* ** *
14025547 TAAACTTTAAGAGCGTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACA
1 TAAACTTTGAGA-CGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
* * * * * * *
14025612 ATTTTTGTCTCCCATGAGACAGCTTCTCTTAAAACATAAACTTTAAGAACGTTTCCCTTGAAACA
65 AATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAAC--AAA-TTT-----TGTCTCCCTTGAGACA
* *
14025677 A-AT-T-TTG---TC
122 ATTTCTCTTGAAATA
* * * *
14025686 T---CTCTTGAGACAGTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCATAAAAT
1 TAAACT-TTGAGAC-GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* * * * * *
14025748 GAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTTAAGATAGTTTCT
64 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCCC-TTGAGACAATTTCT
*
14025813 CTTGAAACA
128 CTTGAAATA
* ** * * * *
14025822 TAAACTTTGAGAACGTTTCCATTGAAA-AAAAATTGTCTCTCTTAAGACAGTTTCCATTTAATCA
1 TAAACTTTGAG-ACGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
*
14025886 AATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTT
65 AATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTT
14025928 ATCTTGCTTG
Statistics
Matches: 304, Mismatches: 55, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
129 6 0.02
130 5 0.02
131 1 0.00
132 1 0.00
133 3 0.01
134 3 0.01
135 3 0.01
136 58 0.19
137 177 0.58
138 16 0.05
139 9 0.03
140 3 0.01
142 3 0.01
143 1 0.00
144 1 0.00
145 14 0.05
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (136 bp):
TAAACTTTGAGACGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
ATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAATTTCTCTT
GAAATA
Found at i:14025618 original size:36 final size:36
Alignment explanation
Indices: 14025561--14025633 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
14025551 CTTTAAGAGC
* * *
14025561 GTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAATCAATTTTGTCTCCCATGAGACA
*
14025597 GTTTTCCTTGAAA-CAATTTTTGTCTCCCATGAGACA
1 GTTTCCCTTGAAATCAA-TTTTGTCTCCCATGAGACA
14025633 G
1 G
14025634 CTTCTCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (36 bp):
GTTTCCCTTGAAATCAATTTTGTCTCCCATGAGACA
Found at i:14025647 original size:36 final size:36
Alignment explanation
Indices: 14025578--14025647 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
14025568 TTGAAATGAA
* * * *
14025578 TTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAT
1 TTTTGTCTCCCATGAGACAGTTCTCCTTAAAACAAT
14025614 TTTTGTCTCCCATGAGACAGCTTCT-CTTAAAACA
1 TTTTGTCTCCCATGAGACAG-TTCTCCTTAAAACA
14025648 TAAACTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 26 0.90
37 3 0.10
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCCCATGAGACAGTTCTCCTTAAAACAAT
Found at i:14025692 original size:21 final size:21
Alignment explanation
Indices: 14025668--14025729 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
14025658 GAACGTTTCC
14025668 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCTCT
* *
14025689 CTTGAGAC--A-GTT-TC-C-
1 CTTGAAACAAATTTTGTCTCT
*
14025704 CTTTAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCTCT
14025725 CTTGA
1 CTTGA
14025730 GACAGTTTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 12
0.62 0.13 0.26
Matches are distributed among these distances:
15 6 0.21
16 1 0.03
17 3 0.10
18 4 0.14
19 3 0.10
20 1 0.03
21 11 0.38
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (21 bp):
CTTGAAACAAATTTTGTCTCT
Found at i:14025712 original size:36 final size:36
Alignment explanation
Indices: 14025662--14025821 Score: 230
Period size: 36 Copynumber: 4.4 Consensus size: 36
14025652 CTTTAAGAAC
14025662 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
14025698 GTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * **
14025734 GTTTCCCATAAAATGAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * *
14025770 GTTTCCCTTGAAACAAATTTTGTCTCCCTTTAAGATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTC-TTGAGACA
*
14025807 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
14025822 TAAACTTTGA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
36 90 0.82
37 20 0.18
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:14025746 original size:101 final size:101
Alignment explanation
Indices: 14025461--14025738 Score: 405
Period size: 101 Copynumber: 2.8 Consensus size: 101
14025451 TCTTGAGACA
* * * *
14025461 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAGAGTTTCTC-TGAAACAAATTTTGTCTCCCT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
* * * *
14025525 TGAGACAATTTCTCTTGAAATATAAACTTTAAGAGC
66 TGAGACAGTTTCTCTTAAAACATAAACTTTAAGAAC
** * * *
14025561 GTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAATTTTTGTCTCCCA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
*
14025626 TGAGACAGCTTCTCTTAAAACATAAACTTTAAGAAC
66 TGAGACAGTTTCTCTTAAAACATAAACTTTAAGAAC
* *
14025662 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAATTTTGTCTCTCT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
14025727 TGAGACAGTTTC
66 TGAGACAGTTTC
14025739 CCATAAAATG
Statistics
Matches: 155, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 36 0.23
101 119 0.77
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (101 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTAAAACATAAACTTTAAGAAC
Found at i:14025752 original size:173 final size:173
Alignment explanation
Indices: 14025561--14025959 Score: 568
Period size: 173 Copynumber: 2.3 Consensus size: 173
14025551 CTTTAAGAGC
* * *
14025561 GTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAATTTTTGTCTCCC-
1 GTTTCCCTTAAAATGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
* * **
14025625 ATGAGACAGCTTCTCTTAAAACATAAACTTTAAGAACGTTTCCCTTGAAACAAATTTTGTCTCTC
66 ATAAGACAGCTTCTCTTAAAACATAAACTTTAAGAACGTTTCCATTGAAA-AAAAATTGTCTCTC
* *
14025690 TTGAGACAGTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACA
130 TTAAGACAGTTTCCATTTAAACAAATTTTGTCTCTCTTGAGACA
*
14025734 GTTTCCCATAAAATGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
1 GTTTCCCTTAAAATGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
* * * * *
14025799 TTAAGATAGTTTCTCTTGAAACATAAACTTTGAGAACGTTTCCATTGAAAAAAAATTGTCTCTCT
66 ATAAGACAGCTTCTCTTAAAACATAAACTTTAAGAACGTTTCCATTGAAAAAAAATTGTCTCTCT
*
14025864 TAAGACAGTTTCCATTTAATCAAATTTTGTCTCTCTTGAGACA
131 TAAGACAGTTTCCATTTAAACAAATTTTGTCTCTCTTGAGACA
** * * * *
14025907 GTTTCCCTTAAAACAAATTTTATCT-TGCTTGAGATAGTTTCGCTAGAAACAAA
1 GTTTCCCTTAAAATGAATTTTGTCTCT-CTTGAGACAGTTTCCCTTGAAACAAA
14025960 AGATTTAAAG
Statistics
Matches: 201, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
172 1 0.00
173 157 0.78
174 43 0.21
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (173 bp):
GTTTCCCTTAAAATGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
ATAAGACAGCTTCTCTTAAAACATAAACTTTAAGAACGTTTCCATTGAAAAAAAATTGTCTCTCT
TAAGACAGTTTCCATTTAAACAAATTTTGTCTCTCTTGAGACA
Found at i:14025899 original size:36 final size:36
Alignment explanation
Indices: 14025836--14025927 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
14025826 CTTTGAGAAC
*
14025836 GTTTCCATTGAAAA-AAA-ATTGTCTCTCTTAAGACA
1 GTTTCCATT-AAAACAAATTTTGTCTCTCTTAAGACA
* * *
14025871 GTTTCCATTTAATCAAATTTTGTCTCTCTTGAGACA
1 GTTTCCATTAAAACAAATTTTGTCTCTCTTAAGACA
*
14025907 GTTTCCCTTAAAACAAATTTT
1 GTTTCCATTAAAACAAATTTT
14025928 ATCTTGCTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.04
35 12 0.25
36 34 0.71
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (36 bp):
GTTTCCATTAAAACAAATTTTGTCTCTCTTAAGACA
Found at i:14025938 original size:36 final size:36
Alignment explanation
Indices: 14025828--14025947 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
14025818 AACATAAACT
* *
14025828 TTGAGA-ACGTTTCCATTGAAAA-AAA-ATTGTCTCTC
1 TTGAGACA-GTTTCCATT-AAAACAAATTTTATCTCTC
* * * *
14025863 TTAAGACAGTTTCCATTTAATCAAATTTTGTCTCTC
1 TTGAGACAGTTTCCATTAAAACAAATTTTATCTCTC
*
14025899 TTGAGACAGTTTCCCTTAAAACAAATTTTATCT-TGC
1 TTGAGACAGTTTCCATTAAAACAAATTTTATCTCT-C
*
14025935 TTGAGATAGTTTC
1 TTGAGACAGTTTC
14025948 GCTAGAAACA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
34 2 0.03
35 18 0.25
36 51 0.72
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (36 bp):
TTGAGACAGTTTCCATTAAAACAAATTTTATCTCTC
Found at i:14026278 original size:145 final size:144
Alignment explanation
Indices: 14026088--14026394 Score: 434
Period size: 145 Copynumber: 2.1 Consensus size: 144
14026078 ACAAAGATGA
* * *
14026088 TAAGTCCTTTGGGCCATCTATAAGACCTTCAGGCAGGATGTTTTCAATATTTCCTTTGCTCGATT
1 TAAGTCCTTTGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAACATTTCCTTTGCTCAATT
* * * * * *
14026153 CACATCACTTCAAATTAGCAACGCCCCCCCAGAGGGGTTAAAATTTCCTATTGCTCGATTCACAA
66 CACAACACTTCAAATCAGCAACGCCCCACCAGAGGGGTTAAAATGTCATATTACTCGATTCACAA
14026218 CACTTCGAATCAGC
131 CACTTCGAATCAGC
* *
14026232 TTAAGTCCTTTGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAACATTTCCTTTGCTTAAT
1 -TAAGTCCTTTGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAACATTTCCTTTGCTCAAT
* * * * * *
14026297 TCATAACACTTCGAATCAGCAACGCTCCACTATAGGGGTTAATATGTCATATTACTCGATTCACA
65 TCACAACACTTCAAATCAGCAACGCCCCACCAGAGGGGTTAAAATGTCATATTACTCGATTCACA
14026362 ACACTTCGAATCAGC
130 ACACTTCGAATCAGC
* *
14026377 TGAGTCCTTCGGGCCATC
1 TAAGTCCTTTGGGCCATC
14026395 AGTAAGTCTT
Statistics
Matches: 143, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
144 16 0.11
145 127 0.89
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (144 bp):
TAAGTCCTTTGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAACATTTCCTTTGCTCAATT
CACAACACTTCAAATCAGCAACGCCCCACCAGAGGGGTTAAAATGTCATATTACTCGATTCACAA
CACTTCGAATCAGC
Found at i:14026438 original size:42 final size:42
Alignment explanation
Indices: 14026379--14026519 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 42
14026369 GAATCAGCTG
*
14026379 AGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGTGTA
1 AGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTGTA
* * *
14026421 AGTCCTTCGGACCATCAGTAAGTCTTTCAAGCTTGATGTGTA
1 AGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTGTA
* *
14026463 AGTCATTCGGGCCATCTA-TAAGTCTTTCGAGCAAG-T-TGATA
1 AGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGCATGATGTG-TA
*
14026504 AGTCCTTCAGGCCATC
1 AGTCCTTCGGGCCATC
14026520 CATAGGACCT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.02
41 17 0.20
42 66 0.77
43 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (42 bp):
AGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTGTA
Found at i:14031292 original size:15 final size:17
Alignment explanation
Indices: 14031258--14031296 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
14031248 CATGATTAAT
14031258 GAGATTGTACAAAAAGA
1 GAGATTGTACAAAAAGA
*
14031275 GAGATTGTACAGAAAGA
1 GAGATTGTACAAAAAGA
14031292 GAGAT
1 GAGAT
14031297 GTGTTACTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.28, T:0.18
Consensus pattern (17 bp):
GAGATTGTACAAAAAGA
Found at i:14032572 original size:14 final size:14
Alignment explanation
Indices: 14032553--14032587 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
14032543 AAGAGGATGG
14032553 AGTGATGGTTGAAT
1 AGTGATGGTTGAAT
14032567 AGTGATGGTTGAAT
1 AGTGATGGTTGAAT
14032581 AGTGATG
1 AGTGATG
14032588 TAACCTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (14 bp):
AGTGATGGTTGAAT
Found at i:14045489 original size:18 final size:19
Alignment explanation
Indices: 14045466--14045501 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14045456 AATACGGAAA
14045466 TTTTAATT-TATTATGAAT
1 TTTTAATTATATTATGAAT
*
14045484 TTTTAATTATTTTATGAA
1 TTTTAATTATATTATGAA
14045502 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTAATTATATTATGAAT
Found at i:14045724 original size:25 final size:24
Alignment explanation
Indices: 14045685--14045733 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14045675 CTTAAAGAGG
*
14045685 GAGCACATTTTTTTAGAGAGAAAAA
1 GAGCACATTTTTTTAG-GAAAAAAA
14045710 GAGCAC-TTTTGTTTAGGAAAAAAA
1 GAGCACATTTT-TTTAGGAAAAAAA
14045734 AGTGGAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (24 bp):
GAGCACATTTTTTTAGGAAAAAAA
Found at i:14046341 original size:11 final size:11
Alignment explanation
Indices: 14046322--14046346 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14046312 TTAATTTACG
14046322 TTTTATTTTCT
1 TTTTATTTTCT
14046333 TTTTATTTTCT
1 TTTTATTTTCT
14046344 TTT
1 TTT
14046347 CTAATTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTCT
Found at i:14046544 original size:18 final size:18
Alignment explanation
Indices: 14046523--14046576 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
14046513 TAATATTATA
14046523 AAATG-TTTCTTTATTTTT
1 AAATGATTT-TTTATTTTT
*
14046541 AAATGATTTTTTCTTTTT
1 AAATGATTTTTTATTTTT
*
14046559 ATTTATGATTTTTTATTT
1 A--AATGATTTTTTATTT
14046577 ATTTAGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 14 0.47
19 3 0.10
20 13 0.43
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (18 bp):
AAATGATTTTTTATTTTT
Found at i:14046553 original size:22 final size:20
Alignment explanation
Indices: 14046528--14046580 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
14046518 TTATAAAATG
14046528 TTTCTTTATTTTTAAATGATTT
1 TTTCTTTATTTTT--ATGATTT
14046550 TTTCTTT-TTATTTATGATTT
1 TTTCTTTATT-TTTATGATTT
*
14046570 TTTATTTATTT
1 TTTCTTTATTT
14046581 AGTGTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 14 0.50
21 4 0.14
22 10 0.36
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (20 bp):
TTTCTTTATTTTTATGATTT
Found at i:14051207 original size:20 final size:21
Alignment explanation
Indices: 14051163--14051209 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
14051153 TTATAAACAT
*
14051163 TATCGATACTCATTCAAGAAG
1 TATCGATACTCATGCAAGAAG
* *
14051184 TATCGATACT-ATGCTAGTAG
1 TATCGATACTCATGCAAGAAG
14051204 TATCGA
1 TATCGA
14051210 AGCCTAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (21 bp):
TATCGATACTCATGCAAGAAG
Found at i:14059363 original size:23 final size:23
Alignment explanation
Indices: 14059337--14059414 Score: 147
Period size: 23 Copynumber: 3.4 Consensus size: 23
14059327 TTAAAATGTT
*
14059337 TTTTGTCTCTTAAGAAATAACAC
1 TTTTGTCCCTTAAGAAATAACAC
14059360 TTTTGTCCCTTAAGAAATAACAC
1 TTTTGTCCCTTAAGAAATAACAC
14059383 TTTTGTCCCTTAAGAAATAACAC
1 TTTTGTCCCTTAAGAAATAACAC
14059406 TTTTGTCCC
1 TTTTGTCCC
14059415 CAATAATGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (23 bp):
TTTTGTCCCTTAAGAAATAACAC
Found at i:14061750 original size:99 final size:98
Alignment explanation
Indices: 14061553--14061804 Score: 389
Period size: 99 Copynumber: 2.6 Consensus size: 98
14061543 TAATATTATA
* *
14061553 TATATATATATATGCAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGGTTAAACGCCCAACTTT
1 TATA-ATATCTATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGGTTAAACGCCCAACTTT
14061618 ATGGATAAGATTCAGCTAGCATGATAAAGGTGAT
65 ATGGATAAGATTCAGCTAGCATGATAAAGGTGAT
* * **
14061652 TATAATATCTATACAATAAAGCTTGAACTATCCCTCTA-AGGCAATTGGTTAAATGCCCCGGCTT
1 TATAATATCTATACAATAAAGCTTGAACTGTCCCTCTAGA-GCAATTGGTTAAACG-CCCAACTT
*
14061716 TATGGATAAGATTCAGCTAGCCTGATAAAGGTGAT
64 TATGGATAAGATTCAGCTAGCATGATAAAGGTGAT
* *
14061751 AATAATATCTATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAAC
1 TATAATATCTATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGGTTAAAC
14061805 ATGGATTCAG
Statistics
Matches: 139, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
97 1 0.01
98 45 0.32
99 92 0.66
100 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (98 bp):
TATAATATCTATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGGTTAAACGCCCAACTTTA
TGGATAAGATTCAGCTAGCATGATAAAGGTGAT
Found at i:14062791 original size:64 final size:64
Alignment explanation
Indices: 14062713--14063001 Score: 420
Period size: 64 Copynumber: 4.5 Consensus size: 64
14062703 GCTTTTAGAT
*
14062713 TCAATTTCAACTTCACAGCGAAGGATATTAGACTCAACAAACAACTTTCCAGTTTCATTCAGAG
1 TCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTCAGAG
* ** * * * *
14062777 TCAATTTCAACTTCACATCGAAGGATATTGGACTCAGTAGACAACTTTCTAGTTCCATTTAGAG
1 TCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTCAGAG
* * *
14062841 TCAATTTTAACTTCATAGTGAAGGAT-TTGGACTCAACAAACAACTTTCCAGTTTCATTCAGAG
1 TCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTCAGAG
* *
14062904 TCAATTTCAACTTCACAGTGAAGGATACTGGACTCAACAAACAACTTTCCAGTTTCATTCAGAG
1 TCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTCAGAG
* * *
14062968 TCAATTTTAACTTC-TAGCGAAGGATATTAGACTC
1 TCAATTTCAACTTCACAGCGAAGGATATTGGACTC
14063002 GAAACAATGG
Statistics
Matches: 198, Mismatches: 26, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
63 71 0.36
64 127 0.64
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (64 bp):
TCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTCAGAG
Found at i:14062896 original size:127 final size:128
Alignment explanation
Indices: 14062706--14063001 Score: 454
Period size: 127 Copynumber: 2.3 Consensus size: 128
14062696 TTTTGCAGCT
* * *
14062706 TTTAGATTCAATTTCAACTTCACAGCGAAGGATATTAGACTCAACAAACAACTTTCCAGTTTCAT
1 TTTAGAGTCAATTTTAACTTCATAGCGAAGGATATTAGACTCAACAAACAACTTTCCAGTTTCAT
* ** * *
14062771 TCAGAGTCAATTTCAACTTCACA-TCGAAGGATATTGGACTCAGTAGACAACTTTCTAGTTCCA
66 TCAGAGTCAATTTCAACTTCACAGT-GAAGGATACTGGACTCAACAAACAACTTTCCAGTTCCA
* *
14062834 TTTAGAGTCAATTTTAACTTCATAGTGAAGGAT-TTGGACTCAACAAACAACTTTCCAGTTTCAT
1 TTTAGAGTCAATTTTAACTTCATAGCGAAGGATATTAGACTCAACAAACAACTTTCCAGTTTCAT
*
14062898 TCAGAGTCAATTTCAACTTCACAGTGAAGGATACTGGACTCAACAAACAACTTTCCAGTTTCA
66 TCAGAGTCAATTTCAACTTCACAGTGAAGGATACTGGACTCAACAAACAACTTTCCAGTTCCA
*
14062961 TTCAGAGTCAATTTTAACTTC-TAGCGAAGGATATTAGACTC
1 TTTAGAGTCAATTTTAACTTCATAGCGAAGGATATTAGACTC
14063002 GAAACAATGG
Statistics
Matches: 152, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
126 10 0.07
127 112 0.74
128 30 0.20
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (128 bp):
TTTAGAGTCAATTTTAACTTCATAGCGAAGGATATTAGACTCAACAAACAACTTTCCAGTTTCAT
TCAGAGTCAATTTCAACTTCACAGTGAAGGATACTGGACTCAACAAACAACTTTCCAGTTCCA
Found at i:14063377 original size:124 final size:124
Alignment explanation
Indices: 14063157--14063465 Score: 467
Period size: 124 Copynumber: 2.5 Consensus size: 124
14063147 CCATTGGATT
** * *
14063157 TCAACTTCACAACGAACAAGCCATCCACGATTTTAACTTCACGACAAAGGATATCGTGCCCACAA
1 TCAACTTCACAACGAAGGAGCCATCCACGATTTCAACTTCACGACAAAGGATATCATGCCCACAA
* *
14063222 GCAGCATCCATCTCTAGATTGGATTTCAACTTCACAACAAAGGATATCCAATTTAAAGC
66 GCAACATCCATCTCTAGATTGGATTTCAACTTCACAACAAAGGATATCCAATTCAAAGC
* * *
14063281 TCAACTTCACAACGAAGGTGCCATCCACGATTTCAACTTCACTACAAAGGATATCATTCCCACAA
1 TCAACTTCACAACGAAGGAGCCATCCACGATTTCAACTTCACGACAAAGGATATCATGCCCACAA
* * *
14063346 GTAACATCCATCTCTAGATTGGATTTCAACTTCACAACGAAGGATATTCAATTCAAAGC
66 GCAACATCCATCTCTAGATTGGATTTCAACTTCACAACAAAGGATATCCAATTCAAAGC
* * * *
14063405 TCAACTTCATAACGGAGGAGCCAT-CACGATTTCAACTTCACGACGAAGGATATCGTGCCCA
1 TCAACTTCACAACGAAGGAGCCATCCACGATTTCAACTTCACGACAAAGGATATCATGCCCA
14063466 ACAGATCGAC
Statistics
Matches: 166, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
123 33 0.20
124 133 0.80
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (124 bp):
TCAACTTCACAACGAAGGAGCCATCCACGATTTCAACTTCACGACAAAGGATATCATGCCCACAA
GCAACATCCATCTCTAGATTGGATTTCAACTTCACAACAAAGGATATCCAATTCAAAGC
Found at i:14063778 original size:85 final size:85
Alignment explanation
Indices: 14063533--14063836 Score: 319
Period size: 85 Copynumber: 3.6 Consensus size: 85
14063523 CCAGCCTATC
* * * *
14063533 AAGGGCTATCTGTCAACAAAGACCCTCGAGTTCGATTACATTCAACTCAAAAGCCTATCAAATTT
1 AAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
* * *
14063598 ATAGCATAACTCAAGGCGAA
66 ACAGTATAGCTCAAGGCGAA
* * * *
14063618 AAGGGTTATCTGTCAGCAAAGACCTTCGAGTTCGATTACATTCAGTTCAAAGGCATATCAAATTC
1 AAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
*
14063683 GCAGTATAGCTCAAGGC-AA
66 ACAGTATAGCTCAAGGCGAA
* * * * *
14063702 GAAGGGCTATCTGTCAATAAAGACCTTTGAGTTCGATTTCATTTAGCTCAAGGGCATATCAAATT
1 -AAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
* * ** *
14063767 TACAGTGTAGCTTAAATCTAGA
65 TACAGTATAGCTCAAGGCGA-A
* * * *
14063789 AA--GCTATCTGTCAACAAA-AACTATCAATTTCGATTCCATTCAGCTCAA
1 AAGGGCTATCTGTCAACAAAGACCT-TCGAGTTCGATTACATTCAGCTCAA
14063837 TGACACATCA
Statistics
Matches: 182, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
83 3 0.02
84 37 0.20
85 138 0.76
86 3 0.02
87 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (85 bp):
AAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
ACAGTATAGCTCAAGGCGAA
Found at i:14066122 original size:12 final size:11
Alignment explanation
Indices: 14066095--14066166 Score: 85
Period size: 11 Copynumber: 6.4 Consensus size: 11
14066085 TGAGTTTTTA
14066095 TTATTTATTA-T
1 TTATTT-TTATT
14066106 TTATTTTTCATT
1 TTATTTTT-ATT
14066118 TTATTTTTATT
1 TTATTTTTATT
14066129 TTATTTCTTATT
1 TTATTT-TTATT
14066141 TT-TTTTTATT
1 TTATTTTTATT
*
14066151 TTATTTATATGT
1 TTATTTTTAT-T
14066163 TTAT
1 TTAT
14066167 ATATATATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
10 9 0.16
11 25 0.45
12 21 0.38
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:14066139 original size:18 final size:17
Alignment explanation
Indices: 14066089--14066151 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
14066079 CTTTTATGAG
* *
14066089 TTTTTATTATTTATTAT
1 TTTTTTTTATTTCTTAT
*
14066106 TTATTTTTCA-TT-TTAT
1 TT-TTTTTTATTTCTTAT
14066122 TTTTATTTTATTTCTTAT
1 TTTT-TTTTATTTCTTAT
14066140 TTTTTTTTATTT
1 TTTTTTTTATTT
14066152 TATTTATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.05
16 10 0.26
17 14 0.36
18 13 0.33
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTATTTCTTAT
Found at i:14066140 original size:34 final size:34
Alignment explanation
Indices: 14066095--14066166 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
14066085 TGAGTTTTTA
*
14066095 TTATTTATTATTTATTTTTCATTTTATTTTTAT-T
1 TTATTTATTATTT-TTTTTCATTTTATTTATATGT
* *
14066129 TTATTTCTTATTTTTTTTTATTTTATTTATATGT
1 TTATTTATTATTTTTTTTCATTTTATTTATATGT
14066163 TTAT
1 TTAT
14066167 ATATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (34 bp):
TTATTTATTATTTTTTTTCATTTTATTTATATGT
Found at i:14066152 original size:7 final size:7
Alignment explanation
Indices: 14066089--14066156 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
14066079 CTTTTATGAG
14066089 TTTTTAT
1 TTTTTAT
*
14066096 TATTTAT
1 TTTTTAT
*
14066103 TATTTAT
1 TTTTTAT
*
14066110 TTTTCAT
1 TTTTTAT
*
14066117 TTTATTTT
1 TTT-TTAT
14066125 TATTTTAT
1 T-TTTTAT
*
14066133 TTCTTAT
1 TTTTTAT
*
14066140 TTTTTTT
1 TTTTTAT
14066147 TATTTTAT
1 T-TTTTAT
14066155 TT
1 TT
14066157 ATATGTTTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
7 33 0.69
8 13 0.27
9 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTAT
Found at i:14066243 original size:11 final size:10
Alignment explanation
Indices: 14066090--14066247 Score: 51
Period size: 11 Copynumber: 14.9 Consensus size: 10
14066080 TTTTATGAGT
14066090 TTTTATTAT-
1 TTTTATTATA
14066099 TTATTATT-TA
1 TT-TTATTATA
*
14066109 TTTTTCATTTTA
1 -TTTT-ATTATA
*
14066121 TTTTTATTTTA
1 -TTTTATTATA
*
14066132 -TTTCTTAT-
1 TTTTATTATA
*
14066140 TTTT-TTTTA
1 TTTTATTATA
14066149 TTTTATTTATA
1 TTTTA-TTATA
14066160 TGTTTATATATA
1 T-TTTAT-TATA
*
14066172 TATATATATATA
1 T-TTTAT-TATA
*
14066184 TATTACTT-TA
1 TTTTA-TTATA
*
14066194 TTTTATTTTA
1 TTTTATTATA
14066204 TTTT-TTACCTA
1 TTTTATTA--TA
*
14066215 GTATTTTTTATA
1 -T-TTTATTATA
14066227 TATTTATTACTA
1 T-TTTATTA-TA
14066239 TTTTATTAT
1 TTTTATTAT
14066248 TGTTTTTACT
Statistics
Matches: 119, Mismatches: 11, Indels: 37
0.71 0.07 0.22
Matches are distributed among these distances:
8 3 0.03
9 20 0.17
10 20 0.17
11 37 0.31
12 33 0.28
13 3 0.03
14 3 0.03
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTTATTATA
Found at i:14066314 original size:18 final size:16
Alignment explanation
Indices: 14066286--14066346 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 16
14066276 ATTATATATA
14066286 TTATTTGTATTATTTTTCT
1 TTATTT-TATT-TTTTT-T
14066305 TTATTTTATTTTCTTTTT
1 TTATTTTA-TTT-TTTTT
*
14066323 TTGTTTTATTTTTGTTT
1 TTATTTTATTTTT-TTT
14066340 TTATTTT
1 TTATTTT
14066347 TAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.05
17 12 0.32
18 11 0.30
19 12 0.32
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.80
Consensus pattern (16 bp):
TTATTTTATTTTTTTT
Found at i:14066329 original size:6 final size:6
Alignment explanation
Indices: 14066286--14066357 Score: 53
Period size: 6 Copynumber: 12.0 Consensus size: 6
14066276 ATTATATATA
*
14066286 TTATTT GTATTAT TT-TTCT TTA-TT TTATTT TCT-TTT TT-TGTT TTATTT
1 TTATTT TTATT-T TTATT-T TTATTT TTATTT T-TATTT TTAT-TT TTATTT
* *
14066334 TTGTTT TTATTT TTAATT TTATTT
1 TTATTT TTATTT TTATTT TTATTT
14066358 AATGCCATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
5 6 0.11
6 43 0.81
7 4 0.08
ACGTcount: A:0.14, C:0.03, G:0.04, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:14066347 original size:18 final size:17
Alignment explanation
Indices: 14066286--14066407 Score: 61
Period size: 18 Copynumber: 6.7 Consensus size: 17
14066276 ATTATATATA
*
14066286 TTATTTGTATTATTTTTCT
1 TTATTTTTATT-TTTTT-T
14066305 TTA-TTTTATTTTCTTTT
1 TTATTTTTATTTT-TTTT
14066322 TT-TGTTTTATTTTTGTTT
1 TTAT-TTTTATTTTT-TTT
* *
14066340 TTATTTTTA-ATTTTAT
1 TTATTTTTATTTTTTTT
* ***
14066356 TTAATGCCATTTTTTGTT
1 TTATTTTTATTTTTT-TT
14066374 TTATTTTTTATGTGGTTTTGTT
1 TTA-TTTTTAT-T--TTTT-TT
14066396 TTATTTTTATTT
1 TTATTTTTATTT
14066408 ATGTTACCAT
Statistics
Matches: 79, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
16 7 0.09
17 13 0.16
18 33 0.42
19 7 0.09
20 2 0.03
21 7 0.09
22 10 0.13
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.75
Consensus pattern (17 bp):
TTATTTTTATTTTTTTT
Found at i:14071328 original size:20 final size:22
Alignment explanation
Indices: 14071280--14071335 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
14071270 ACTTCAACAT
* *
14071280 GTATCGATACCCTCTTTGAATGT
1 GTATCGATACCC-CTTCGAATGG
14071303 GTATCGATACCCC-TCG-ATGG
1 GTATCGATACCCCTTCGAATGG
14071323 GTATCGATACCCC
1 GTATCGATACCCC
14071336 CTATCGGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 16 0.52
21 2 0.06
22 1 0.03
23 12 0.39
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (22 bp):
GTATCGATACCCCTTCGAATGG
Found at i:14073990 original size:24 final size:24
Alignment explanation
Indices: 14073958--14074017 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
14073948 TACCCCATAG
14073958 GGTACCGATACCCCTATGAAAAAA
1 GGTACCGATACCCCTATGAAAAAA
*
14073982 GGTACCGATACCCCTATGCAAAAA
1 GGTACCGATACCCCTATGAAAAAA
*
14074006 GGTATCGATACC
1 GGTACCGATACC
14074018 TATCCCAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (24 bp):
GGTACCGATACCCCTATGAAAAAA
Found at i:14074029 original size:21 final size:21
Alignment explanation
Indices: 14074003--14074059 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
14073993 CCCTATGCAA
14074003 AAAGGTATCGATACCTATCCC
1 AAAGGTATCGATACCTATCCC
*
14074024 AAAGGTACCGATACCTATCCC
1 AAAGGTATCGATACCTATCCC
14074045 AAAGGTATCGATACC
1 AAAGGTATCGATACC
14074060 CCTTATGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (21 bp):
AAAGGTATCGATACCTATCCC
Found at i:14075675 original size:98 final size:97
Alignment explanation
Indices: 14075564--14075764 Score: 262
Period size: 98 Copynumber: 2.1 Consensus size: 97
14075554 CCGAAACATA
* * * * ** * *
14075564 ATACGACCTTGTGGTGATCTGATCCGGGGTATGATCTGCATTATTATGGTT-TGGACTTTATTAG
1 ATACGACCTTGTGGTGACCTGATCCAGGGTACGATCCGCATTATTAT-GTTCCAGACTCTATTAA
*
14075628 CTCCTAA-CTTTTTTAATATTTTGTTTGAATCATT
65 CTCCTAACCTTTTTT--TAATTTGTTTGAATCATT
*
14075662 ATACGACCTTGTGGTGACCTGATCTAGGGTACGATCCGCATTATTATGTTCCAGACTCTATTAAC
1 ATACGACCTTGTGGTGACCTGATCCAGGGTACGATCCGCATTATTATGTTCCAGACTCTATTAAC
*
14075727 TCCTAACCTTTTTTTAATTTGTTTGAATTATT
66 TCCTAACCTTTTTTTAATTTGTTTGAATCATT
14075759 ATACGA
1 ATACGA
14075765 ATTTGCGATG
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
97 25 0.28
98 58 0.64
99 7 0.08
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (97 bp):
ATACGACCTTGTGGTGACCTGATCCAGGGTACGATCCGCATTATTATGTTCCAGACTCTATTAAC
TCCTAACCTTTTTTTAATTTGTTTGAATCATT
Found at i:14075790 original size:97 final size:97
Alignment explanation
Indices: 14075564--14075822 Score: 247
Period size: 98 Copynumber: 2.7 Consensus size: 97
14075554 CCGAAACATA
* * * * * * * ** * *
14075564 ATACGACCTTGTGGTGATCTGATCCGGGGTATGATCTGCATTATTATGGTTTGGACTTTATTAGC
1 ATACGAACTTGCGATGACCTGATCTGGGGTACGATCCGCATTATTATGGTTCAGACTCTATTAAC
*
14075629 TCCTAACTTTTTTAATATTTTGTTTGAATCATT
66 TCCTAACTTTTTT-ATAATTTGTTTGAATCATT
* * * *
14075662 ATACGACCTTGTGGTGACCTGATCTAGGGTACGATCCGCATTATTAT-GTTCCAGACTCTATTAA
1 ATACGAACTTGCGATGACCTGATCTGGGGTACGATCCGCATTATTATGGTT-CAGACTCTATTAA
*
14075726 CTCCTAACCTTTTTT-TAATTTGTTTGAATTATT
65 CTCCTAA-CTTTTTTATAATTTGTTTGAATCATT
* * * * * *
14075759 ATACGAATTTGCGATGACCTTATCTGGGGTACGACCCACATT-TTACGG-TCTAGAATCTATTAA
1 ATACGAACTTGCGATGACCTGATCTGGGGTACGATCCGCATTATTATGGTTC-AGACTCTATTAA
14075822 C
65 C
14075823 CGCTAATTAC
Statistics
Matches: 136, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
95 1 0.01
96 16 0.12
97 54 0.40
98 58 0.43
99 7 0.05
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (97 bp):
ATACGAACTTGCGATGACCTGATCTGGGGTACGATCCGCATTATTATGGTTCAGACTCTATTAAC
TCCTAACTTTTTTATAATTTGTTTGAATCATT
Found at i:14080110 original size:136 final size:136
Alignment explanation
Indices: 14079885--14080663 Score: 1010
Period size: 136 Copynumber: 5.7 Consensus size: 136
14079875 AAGATAAATC
*
14079885 GATTGACATTTCCAATAGAGAGTTCATAATAAGAAGAACTCATAT-GACAGAGGGAGAAAAAGTT
1 GATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCAT-TCGACAGAGGGAGAAAAAGTT
*
14079949 CATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTAAATCAGTAATGCCTCG
65 CATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGTAATGCCTCG
14080014 CTTGAGG
130 CTTGAGG
* * *
14080021 GATTGACATTTCCAATGGAGAGTTCATAATTAGAAGAACTCATTCGACAGAGGGACAAGAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATTCGACAGAGGGAGAAAAAGTTC
* * * * * * * * *
14080086 ATAATAAGAAGAACTTATTTGACCTATTTCTCAATTCACAACACTTCGAATCAATAACGCCTCAC
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGTAATGCCTCGC
14080151 TTGAGG
131 TTGAGG
** * * ** * * *
14080157 GATTGGTATTTCCAATGGAGAGTTCATAATGAGAAAAAC-CCGTCTGAAATAGGGAGAAGAAGTT
1 GATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATTC-GACAGAGGGAGAAAAAGTT
* ** * * *
14080221 CATAATAAGAAGAACTTGTTCGATATATTGCTCGATTCACAACACTTTGAATCAGCAAAGCCTTG
65 CATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGTAATGCCTCG
14080286 CTTGAGG
130 CTTGAGG
* * * ** * *
14080293 GATTGAAATTTCCAATGGAGAGTTCATAATAATAAGAACTCATCCGACAGAAAGAGAATAAGTCC
1 GATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATTCGACAGAGGGAGAAAAAGTTC
* * *
14080358 ATAATGTGAAGAACTTGTTCGACCTATTGCTCGATTTACAACACTTCGAATCAGTAATGCCTCGC
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGTAATGCCTCGC
14080423 TTGAGG
131 TTGAGG
* ** *
14080429 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAACCGAAAGAGGGAGAAAAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATTCGACAGAGGGAGAAAAAGTTC
* * **
14080494 ATAATGAGAAAAATTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAACAATGCCTCGC
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGTAATGCCTCGC
14080559 TTGA-G
131 TTGAGG
* * * *
14080564 GATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCA-TCTGATATAGAGAGAATAAGTT
1 GATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATTC-GACAGAGGGAGAAAAAGTT
* * *
14080628 CATAATGAGAAGAGCTTGTTCAACCT-TGGCTCGATT
65 CATAATGAGAAGAACTTGTTCGACCTATTGCTCGATT
14080664 TATCACATAT
Statistics
Matches: 554, Mismatches: 85, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
134 10 0.02
135 83 0.15
136 459 0.83
137 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (136 bp):
GATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATTCGACAGAGGGAGAAAAAGTTC
ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGTAATGCCTCGC
TTGAGG
Found at i:14080384 original size:272 final size:272
Alignment explanation
Indices: 14079885--14080738 Score: 1120
Period size: 272 Copynumber: 3.1 Consensus size: 272
14079875 AAGATAAATC
* * * *
14079885 GATTGACATTTCCAATAGAGAGTTCATAATAAGAAGAACTCATATGACAGAGGGAGAAAAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGAAAGAGGGAGAAAAAGTTC
* *
14079950 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTAAATCAGTAATGCCTCGC
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGCAATGCCTCGC
* * * * *
14080015 TTGAGGGATTGACATTTCCAATGGAGAGTTCATAATTAGAAGAACTCATTCGACAGAGGGACAAG
131 TTGAGGGATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCGACAGAGAGAGAAT
* * * *
14080080 AAGTTCATAATAAGAAGAACTTATTTGACCTATTTCTCAATTCACAACACTTCGAATCAATAACG
196 AAGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCACAACACTTCGAATCAATAACG
14080145 CCTCACTTGAGG
261 CCTCACTTGAGG
** * * * * *
14080157 GATTGGTATTTCCAATGGAGAGTTCATAATGAGAAAAACCCGTCTGAAATAGGGAGAAGAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGAAAGAGGGAGAAAAAGTTC
* ** * *
14080222 ATAATAAGAAGAACTTGTTCGATATATTGCTCGATTCACAACACTTTGAATCAGCAAAGCCTTGC
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGCAATGCCTCGC
* * *
14080287 TTGAGGGATTGAAATTTCCAATGGAGAGTTCATAATAATAAGAACTCATCCGACAGAAAGAGAAT
131 TTGAGGGATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCGACAGAGAGAGAAT
* * * * * *
14080352 AAGTCCATAATGTGAAGAACTTGTTCGACCTATTGCTCGATTTACAACACTTCGAATCAGTAATG
196 AAGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCACAACACTTCGAATCAATAACG
*
14080417 CCTCGCTTGAGG
261 CCTCACTTGAGG
* *
14080429 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAACCGAAAGAGGGAGAAAAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGAAAGAGGGAGAAAAAGTTC
* * *
14080494 ATAATGAGAAAAATTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAACAATGCCTCGC
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGCAATGCCTCGC
* * *
14080559 TTGA-GGATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCTGATATAGAGAGAAT
131 TTGAGGGATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCGACAGAGAGAGAAT
* * * * * *
14080623 AAGTTCATAATGAGAAGAGCTTGTTCAACCT-TGGCTCGATTTATCACATATGAAGTT-GAATCA
196 AAGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTC-A-AT-TCACA-A--CACTTCGAATCA
* * *
14080686 ACAACACCTCACTCGAGG
255 ATAACGCCTCACTTGAGG
** *
14080704 GATCAACATTTCCAGTGGAGAGTTCATAATGAGAA
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAA
14080739 AATCTCGTTC
Statistics
Matches: 497, Mismatches: 79, Indels: 9
0.85 0.14 0.02
Matches are distributed among these distances:
270 5 0.01
271 81 0.16
272 353 0.71
273 4 0.01
274 1 0.00
275 50 0.10
276 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (272 bp):
GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGAAAGAGGGAGAAAAAGTTC
ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTTGAATCAGCAATGCCTCGC
TTGAGGGATTGACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCGACAGAGAGAGAAT
AAGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCACAACACTTCGAATCAATAACG
CCTCACTTGAGG
Found at i:14081431 original size:99 final size:98
Alignment explanation
Indices: 14081327--14081597 Score: 303
Period size: 98 Copynumber: 2.8 Consensus size: 98
14081317 TATTGATGTA
** ** * *
14081327 TGAATCATTATACGACCTTGTGGTGATTCGATTCGAGG-TATGATCTGCATTATTATGGTTCAGA
1 TGAATCATTATACGACCTTGTGGTGACCCGATTCG-GGATACAATCCGCATTATTATGGTCCAGA
***
14081391 CTCTATTAACTCCTAAATTTTTTTATTAATTTGTT
65 CTCTATTAACTCCT-AACCCTTTTATTAATTTGTT
* *
14081426 TGAATCATTATACGACCTTGTGGTGACCCGATTCGGGATACAATCCGTATTATTATGGTCCGGAC
1 TGAATCATTATACGACCTTGTGGTGACCCGATTCGGGATACAATCCGCATTATTATGGTCCAGAC
14081491 TCTATTAACTCCTAACCCTTTTATTAATTTGTT
66 TCTATTAACTCCTAACCCTTTTATTAATTTGTT
* * * * * * * * * **
14081524 TGAATTATTATACGACATTGCGATGACCCAATCCAGGG-TACGACCCGCATTATTACGGTCTGGA
1 TGAATCATTATACGACCTTGTGGTGACCCGATTC-GGGATACAATCCGCATTATTATGGTCCAGA
14081588 CTCTATTAAC
65 CTCTATTAAC
14081598 CGCTAATTAA
Statistics
Matches: 148, Mismatches: 22, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
98 78 0.53
99 70 0.47
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (98 bp):
TGAATCATTATACGACCTTGTGGTGACCCGATTCGGGATACAATCCGCATTATTATGGTCCAGAC
TCTATTAACTCCTAACCCTTTTATTAATTTGTT
Found at i:14086168 original size:29 final size:33
Alignment explanation
Indices: 14086136--14086200 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 33
14086126 TATGAATTTC
*
14086136 TAAAAAATTTT-GGGGTC-AAA-T-TAATTTTT
1 TAAAAAATTTTAAGGGTCTAAATTGTAATTTTT
14086165 T-AAAAATTTTAAGGGTCTAAATTGTAATTTTT
1 TAAAAAATTTTAAGGGTCTAAATTGTAATTTTT
14086197 TAAA
1 TAAA
14086201 TTTTGGGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
28 9 0.30
29 6 0.20
30 3 0.10
31 1 0.03
32 9 0.30
33 2 0.07
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (33 bp):
TAAAAAATTTTAAGGGTCTAAATTGTAATTTTT
Found at i:14087859 original size:16 final size:16
Alignment explanation
Indices: 14087839--14087877 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
14087829 TCAAAATCAG
14087839 ATCGGTTGAATTTCA-
1 ATCGGTTGAATTTCAT
14087854 AGTCGGTT-AATTTCAT
1 A-TCGGTTGAATTTCAT
14087870 ATCGGTTG
1 ATCGGTTG
14087878 GCTTCGGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (16 bp):
ATCGGTTGAATTTCAT
Found at i:14090925 original size:2 final size:2
Alignment explanation
Indices: 14090918--14091023 Score: 212
Period size: 2 Copynumber: 53.0 Consensus size: 2
14090908 CACTATACTT
14090918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14090960 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14091002 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
14091024 CCTATGCTTA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 104 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14091174 original size:25 final size:24
Alignment explanation
Indices: 14091126--14091171 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
14091116 TGATGAGGGA
14091126 TGAAATTGAATTAATTATAAAATG
1 TGAAATTGAATTAATTATAAAATG
*
14091150 TGAAGTTGATATTAA-TATAAAA
1 TGAAATTGA-ATTAATTATAAAA
14091172 ATGGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (24 bp):
TGAAATTGAATTAATTATAAAATG
Found at i:14091633 original size:12 final size:12
Alignment explanation
Indices: 14091616--14091665 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
14091606 TATATAAAAA
14091616 AAGTATATATAT
1 AAGTATATATAT
14091628 AAGTATATATAT
1 AAGTATATATAT
* *
14091640 AAAGTGTAAACTAT
1 -AAGTATATA-TAT
14091654 ATAGTATATATA
1 A-AGTATATATA
14091666 ATATATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 12 0.39
13 10 0.32
14 9 0.29
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (12 bp):
AAGTATATATAT
Found at i:14091634 original size:25 final size:27
Alignment explanation
Indices: 14091606--14091663 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
14091596 TAAATATACA
*
14091606 TATATAAAAAAAGTATATA-TATA-AG
1 TATATAAAAAAAGTATAAACTATATAG
* * *
14091631 TATATATATAAAGTGTAAACTATATAG
1 TATATAAAAAAAGTATAAACTATATAG
14091658 TATATA
1 TATATA
14091664 TAATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 15 0.56
26 4 0.15
27 8 0.30
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (27 bp):
TATATAAAAAAAGTATAAACTATATAG
Found at i:14091663 original size:29 final size:30
Alignment explanation
Indices: 14091631--14092057 Score: 93
Period size: 28 Copynumber: 14.4 Consensus size: 30
14091621 TATATATAAG
*
14091631 TATAT-ATATAAAGTGTAAACTATATAGTA
1 TATATAATATAAAGTATAAACTATATAGTA
* *
14091660 TATATAATATATA-TTTAAACTATA-AGGTA
1 TATATAATATAAAGTATAAACTATATA-GTA
* * *
14091689 TATATAATTTAAAGTATAAAGTGTATA-TA
1 TATATAATATAAAGTATAAACTATATAGTA
* * * *
14091718 TATAT--TA-AAACTTTATATATTATATATTTA
1 TATATAATATAAA--GTATAAACTATATA-GTA
* *
14091748 TATATATATATATA-TATATA-TATATA-TA
1 TATATA-ATATAAAGTATAAACTATATAGTA
* * *
14091776 AAGTATAACTATAAAG-ACTAAAGTACATAAGTA
1 TA-TATAA-TATAAAGTA-TAAACTATAT-AGTA
* * * *
14091809 TATA-AGTGTATA-TATATA-TATATA-TA
1 TATATAATATAAAGTATAAACTATATAGTA
** * *
14091835 TATATAA-AGTTTTAGTCTAAAGTGTATATAGGTA
1 TATATAATA--TAAAGTATAAA--CTATATA-GTA
* * *
14091869 TATAATAACATAAAGTTTATAAGTATATA--A
1 TAT-ATAATATAAAGTATA-AACTATATAGTA
* * *
14091899 TATAAAATATATAAGTATTAAGTATA-AGTA
1 TATATAATATA-AAGTATAAACTATATAGTA
* *
14091929 TATA-AGTATTAAA-TAT-AAGTATATAGTA
1 TATATAATA-TAAAGTATAAACTATATAGTA
* *
14091957 TATGAGTATATATATAACTATAAAGTATATA-TA
1 TAT-A-TA-ATATA-AAGTATAAACTATATAGTA
* *
14091990 TATATATATATATA-TATATA-TATATA-TA
1 TATATA-ATATAAAGTATAAACTATATAGTA
* *
14092018 TATATATATATATA-TATATA-TATATA-TA
1 TATATA-ATATAAAGTATAAACTATATAGTA
14092046 TATATATATATA
1 TATATA-ATATA
14092058 GAGAGAGAGA
Statistics
Matches: 315, Mismatches: 39, Indels: 89
0.71 0.09 0.20
Matches are distributed among these distances:
26 9 0.03
27 10 0.03
28 81 0.26
29 77 0.24
30 52 0.17
31 23 0.07
32 14 0.04
33 20 0.06
34 22 0.07
35 6 0.02
36 1 0.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (30 bp):
TATATAATATAAAGTATAAACTATATAGTA
Found at i:14091690 original size:25 final size:26
Alignment explanation
Indices: 14091666--14091729 Score: 89
Period size: 23 Copynumber: 2.6 Consensus size: 26
14091656 AGTATATATA
14091666 ATATATATTTAAACTAT-AAG-GTAT
1 ATATATATTTAAACTATAAAGTGTAT
*
14091690 ATATA-ATTTAAAGTATAAAGTGTAT
1 ATATATATTTAAACTATAAAGTGTAT
*
14091715 ATATATATTAAAACT
1 ATATATATTTAAACT
14091730 TTATATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.29
24 8 0.24
25 9 0.26
26 7 0.21
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (26 bp):
ATATATATTTAAACTATAAAGTGTAT
Found at i:14091734 original size:15 final size:15
Alignment explanation
Indices: 14091716--14091773 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
14091706 AAAGTGTATA
14091716 TATATATTA-AAACTT
1 TATATATTATAAA-TT
*
14091731 TATATATTATATATT
1 TATATATTATAAATT
* *
14091746 TATATATATATATATA
1 TATATAT-TATAAATT
14091762 TATATATATATA
1 TATATAT-TATA
14091774 TAAAGTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
15 18 0.46
16 21 0.54
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATATTATAAATT
Found at i:14091736 original size:2 final size:2
Alignment explanation
Indices: 14091731--14091840 Score: 75
Period size: 2 Copynumber: 54.0 Consensus size: 2
14091721 ATTAAAACTT
*
14091731 TA TA TA T- TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
14091772 TA TA AA GTA TA -A CTA TA AA GA CTA AA GTA CA TA -A GTA TA TA -A
1 TA TA TA -TA TA TA -TA TA TA TA -TA TA -TA TA TA TA -TA TA TA TA
*
14091814 GTG TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA
14091841 AAGTTTTAGT
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
1 4 0.05
2 76 0.89
3 5 0.06
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:14091892 original size:8 final size:8
Alignment explanation
Indices: 14091858--14091968 Score: 89
Period size: 8 Copynumber: 14.9 Consensus size: 8
14091848 AGTCTAAAGT
*
14091858 GTATATAG
1 GTATATAA
14091866 GTATATAA
1 GTATATAA
*
14091874 -TAACATAAA
1 GT-ATAT-AA
*
14091883 GTTTATAA
1 GTATATAA
14091891 GTATATAA
1 GTATATAA
14091899 -TATA-AA
1 GTATATAA
*
14091905 ATATATAA
1 GTATATAA
14091913 GTAT-TAA
1 GTATATAA
14091920 G--TATAA
1 GTATATAA
14091926 GTATATAA
1 GTATATAA
14091934 GTAT-TAA
1 GTATATAA
14091941 --ATATAA
1 GTATATAA
14091947 GTATAT-A
1 GTATATAA
*
14091954 GTATATGA
1 GTATATAA
14091962 GTATATA
1 GTATATA
14091969 TATAACTATA
Statistics
Matches: 84, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
5 3 0.04
6 9 0.11
7 23 0.27
8 44 0.52
9 4 0.05
10 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.12, T:0.38
Consensus pattern (8 bp):
GTATATAA
Found at i:14091920 original size:7 final size:7
Alignment explanation
Indices: 14091888--14091950 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
14091878 ATAAAGTTTA
14091888 TAAGTAT
1 TAAGTAT
14091895 ATAA-TAT
1 -TAAGTAT
* *
14091902 AAAATAT
1 TAAGTAT
14091909 ATAAGTAT
1 -TAAGTAT
14091917 TAAGTA-
1 TAAGTAT
14091923 TAAGTAT
1 TAAGTAT
14091930 ATAAGTAT
1 -TAAGTAT
*
14091938 TAAATA-
1 TAAGTAT
14091944 TAAGTAT
1 TAAGTAT
14091951 ATAGTATATG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
6 13 0.29
7 17 0.38
8 15 0.33
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (7 bp):
TAAGTAT
Found at i:14091926 original size:13 final size:13
Alignment explanation
Indices: 14091908--14091957 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
14091898 ATATAAAATA
14091908 TATAAGTATTAAG
1 TATAAGTATTAAG
14091921 TATAAGTATATAAG
1 TATAAGTAT-TAAG
*
14091935 TATTAAATA-TAAG
1 TA-TAAGTATTAAG
14091948 TATATAGTAT
1 TATA-AGTAT
14091958 ATGAGTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 18 0.58
14 6 0.19
15 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
TATAAGTATTAAG
Found at i:14091932 original size:21 final size:21
Alignment explanation
Indices: 14091881--14091993 Score: 101
Period size: 21 Copynumber: 5.4 Consensus size: 21
14091871 TAATAACATA
*
14091881 AAGTTTATAAGTATATAA-TAT
1 AAGTATATAAGTAT-TAAGTAT
*
14091902 AAAATATATAAGTATTAAGTAT
1 -AAGTATATAAGTATTAAGTAT
*
14091924 AAGTATATAAGTATTAAATAT
1 AAGTATATAAGTATTAAGTAT
*
14091945 AAGTATAT-AGTATATGAGTAT
1 AAGTATATAAGTAT-TAAGTAT
* *
14091966 -A-TATATAACTATAAAGTAT
1 AAGTATATAAGTATTAAGTAT
14091985 ATA-TATATA
1 A-AGTATATA
14091994 TATATATATA
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
19 10 0.13
20 10 0.13
21 42 0.55
22 15 0.19
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (21 bp):
AAGTATATAAGTATTAAGTAT
Found at i:14091968 original size:2 final size:2
Alignment explanation
Indices: 14091948--14092057 Score: 159
Period size: 2 Copynumber: 53.0 Consensus size: 2
14091938 TAAATATAAG
*
14091948 TA TA TA GTA TA TGA GTA TA TA TA TA -A CTA TA AA GTA TA TA TA TA
1 TA TA TA -TA TA T-A -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
14091992 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14092034 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
14092058 GAGAGAGAGA
Statistics
Matches: 100, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
1 1 0.01
2 92 0.92
3 6 0.06
4 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:14092062 original size:2 final size:2
Alignment explanation
Indices: 14092057--14092104 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
14092047 ATATATATAT
*
14092057 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14092099 AG AG AG
1 AG AG AG
14092105 TTAGTTTAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14092150 original size:22 final size:23
Alignment explanation
Indices: 14092114--14092532 Score: 100
Period size: 22 Copynumber: 18.2 Consensus size: 23
14092104 GTTAGTTTAG
14092114 TATAAAGTATATATATATATAATTAA
1 TATAAAGTATATATATA-AT-A-TAA
14092140 TATAAAGTATAAGTATAAGTATATATATA
1 TATAAAGTAT-A-TAT-A-TA-ATATA-A
14092169 TATAAAGTATA-AT-T-ATA-AA
1 TATAAAGTATATATATAATATAA
* *
14092188 GATTAAAGTATATA-AGT-GTATAA
1 TA-TAAAGTATATATA-TAATATAA
14092211 TATAAAGTATATA-AGT-ATATAA
1 TATAAAGTATATATA-TAATATAA
14092233 TATAAAGTATATATAT-ATAT-A
1 TATAAAGTATATATATAATATAA
* **
14092254 TATATA-TATATATAT-GGAT-A
1 TATAAAGTATATATATAATATAA
*
14092274 TATAAAGTTTAGTATA-AAGTAT-A
1 TATAAAGTATA-TATATAA-TATAA
*
14092297 TATACA-TATAATAATATAAACTATAA
1 TATAAAGTAT-AT-ATAT-AA-TATAA
* *
14092323 GTAT-AAGTATAAGTGTCTTATATATAA
1 -TATAAAGTAT-A-TAT-ATA-ATATAA
14092350 -A-AAAGTATA-AT-T-ATA-AA
1 TATAAAGTATATATATAATATAA
*
14092367 GACTAAAGTATATA-ACT-ATATAA
1 TA-TAAAGTATATATA-TAATATAA
*
14092390 -ATATAAGTATATAAATATATATAAA
1 TATA-AAGTATATATATA-ATAT-AA
*
14092415 CTATAAAGTATATATAT-ATATAG
1 -TATAAAGTATATATATAATATAA
*
14092438 TAT--A-TATATTTAT-ATAT-A
1 TATAAAGTATATATATAATATAA
* *
14092456 TATAGAGTATAGT-TATAAAGATAAA
1 TATAAAGTATA-TATAT-AATAT-AA
14092481 GTATATAAGTATATAATATAA-AGT-A
1 -TATA-AAGTATAT-ATATAATA-TAA
* *
14092506 TATATA-TATATATATATATATAC
1 TATAAAGTATATATATA-ATATAA
14092529 TATA
1 TATA
14092533 TTATATACTT
Statistics
Matches: 311, Mismatches: 26, Indels: 115
0.69 0.06 0.25
Matches are distributed among these distances:
17 2 0.01
18 7 0.02
19 14 0.05
20 38 0.12
21 28 0.09
22 74 0.24
23 30 0.10
24 13 0.04
25 16 0.05
26 31 0.10
27 28 0.09
28 12 0.04
29 13 0.04
30 5 0.02
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
TATAAAGTATATATATAATATAA
Found at i:14092209 original size:8 final size:8
Alignment explanation
Indices: 14092112--14092509 Score: 80
Period size: 8 Copynumber: 54.0 Consensus size: 8
14092102 GAGTTAGTTT
14092112 AGTATA-A
1 AGTATATA
14092119 AGTATATA
1 AGTATATA
14092127 TA-TATATA
1 -AGTATATA
*
14092135 ATTAATATA
1 AGT-ATATA
14092144 A--AGTATA
1 AGTA-TATA
14092151 AG--TATA
1 AGTATATA
14092157 AGTATATA
1 AGTATATA
14092165 TA-TATATA
1 -AGTATATA
14092173 A--AGTATA
1 AGTA-TATA
*
14092180 ATTATA-A
1 AGTATATA
14092187 AG-AT-TAA
1 AGTATAT-A
14092194 AGTATATA
1 AGTATATA
*
14092202 AGTGTATA
1 AGTATATA
14092210 A-TATA-A
1 AGTATATA
14092216 AGTATATA
1 AGTATATA
14092224 AGTATATA
1 AGTATATA
14092232 A-TATA-A
1 AGTATATA
14092238 AGTATAT-
1 AGTATATA
14092245 A-TATATA
1 AGTATATA
14092252 TA-TATATA
1 -AGTATATA
14092260 TA-TATATA
1 -AGTATATA
*
14092268 TGGATATATAA
1 -AG-TATAT-A
14092279 AGT-T-T-
1 AGTATATA
14092284 AGTATA-A
1 AGTATATA
14092291 AGTATATA
1 AGTATATA
*
14092299 TA-CATATA
1 -AGTATATA
14092307 A-TAATATA
1 AGT-ATATA
14092315 A--ACTATA
1 AGTA-TATA
14092322 AG--TATA
1 AGTATATA
14092328 AG--TATA
1 AGTATATA
* * *
14092334 AGTGTCTT
1 AGTATATA
14092342 A-TATATAA
1 AGTATAT-A
**
14092350 AAAAGTATA
1 AGTA-TATA
*
14092359 ATTATA-A
1 AGTATATA
14092366 AG-ACTA-A
1 AGTA-TATA
14092373 AGTATATA
1 AGTATATA
*
14092381 ACTATATA
1 AGTATATA
14092389 A--ATATA
1 AGTATATA
14092395 AGTATATA
1 AGTATATA
14092403 A--ATAT-
1 AGTATATA
14092408 A-TATA-A
1 AGTATATA
*
14092414 ACTATA-A
1 AGTATATA
14092421 AGTATAT-
1 AGTATATA
14092428 A-TATATA
1 AGTATATA
14092435 TAGTATAT-
1 -AGTATATA
*
14092443 A-TATTTA
1 AGTATATA
14092450 TA-TATATA
1 -AGTATATA
14092458 TAG-AGTAT-
1 -AGTA-TATA
14092466 AGT-TATAA
1 AGTATAT-A
14092474 AG-ATA-A
1 AGTATATA
14092480 AGTATATA
1 AGTATATA
14092488 AGTATATA
1 AGTATATA
14092496 A-TATA-A
1 AGTATATA
14092502 AGTATATA
1 AGTATATA
14092510 TATATATATA
Statistics
Matches: 309, Mismatches: 20, Indels: 123
0.68 0.04 0.27
Matches are distributed among these distances:
5 4 0.01
6 65 0.21
7 89 0.29
8 117 0.38
9 24 0.08
10 9 0.03
11 1 0.00
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (8 bp):
AGTATATA
Found at i:14092211 original size:30 final size:29
Alignment explanation
Indices: 14092114--14092232 Score: 110
Period size: 29 Copynumber: 4.2 Consensus size: 29
14092104 GTTAGTTTAG
*
14092114 TATAAAGTAT-ATAT--A-TATATAATTAA
1 TATAAAGTATAATATAAAGTATATAAGT-A
14092140 TATAAAGTATAAGTAT-AAGTATATATA-TA
1 TATAAAGTATAA-TATAAAGTATATA-AGTA
14092169 TATAAAGTATAATTATAAAG-AT-TAAAGTA
1 TATAAAGTATAA-TATAAAGTATAT-AAGTA
*
14092198 TATAAGTGTATAATATAAAGTATATAAGTA
1 TATAA-AGTATAATATAAAGTATATAAGTA
14092228 TATAA
1 TATAA
14092233 TATAAAGTAT
Statistics
Matches: 80, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
26 10 0.12
27 1 0.01
28 5 0.06
29 34 0.43
30 28 0.35
31 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (29 bp):
TATAAAGTATAATATAAAGTATATAAGTA
Found at i:14092277 original size:2 final size:2
Alignment explanation
Indices: 14092226--14092268 Score: 61
Period size: 2 Copynumber: 21.5 Consensus size: 2
14092216 AGTATATAAG
*
14092226 TA TA TA -A TA TA AA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14092268 T
1 T
14092269 GGATATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 35 0.95
3 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:14092388 original size:2 final size:2
Alignment explanation
Indices: 14092383--14093796 Score: 359
Period size: 2 Copynumber: 714.0 Consensus size: 2
14092373 AGTATATAAC
* * * *
14092383 TA TA TA AA TA TA -A GTA TA TA AA TA TA TA TA AA CTA TA AA GTA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* *
14092425 TA TA TA TA TA TA GTA TA TA TA TT TA TA TA TA TA TA GA GTA TA GT-
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA
* * * *
14092469 TA TA AA GA TA AA GTA TA TA -A GTA TA TA -A TA TA AA GTA TA TA
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA
*
14092510 TA TA TA TA TA TA TA TA TA CTA TA T- TA TA TA CT- TA TA TA CTT
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA
* * *
14092551 TA T- TC TT TA TA -A CTA TA CTC TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
14092593 TA CT- TA TA TA TT TA TA TT TA -A TA CT- TA TA TA CT- TG TA TT
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA
* *
14092632 TA -A TA CT- TA TA -A TT TA TA T- TA T- TA TA TA CA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
14092670 -A T- TA TA TA CA TA TA TA TA CTT TA TA TT TA -A TA CT- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* * * * *
14092710 T- TT TA TA T- TA TA TA TT TA TA TA CTT TA TA T- TA TC TA GTC T-
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* *
14092750 TA TA -A TA CTT TA TA TA TA T- TA TA TA CT- TA TA CTT TA TA T-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * * * *
14092789 TA TA TA TG TA TA TG TA CTT TA TA CTA -A AA CTT TA TA TA GA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA
* * * * *
14092831 GA TA CTT TA TA T- TT TA TA CTA -A TA TA CTT TA T- TA TT TA TA
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA
* * * *
14092871 -A T- TA TA TT TA CA TA TA TA -A TA TA TA TA TA TT TA TA CTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
14092911 TA TA -A T- TA TA TA TG TA CTT TA TA CTA -A AA CT- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA
14092950 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14092992 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA T- TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
14093031 TA T- TA TA TA CT- TA TA TA CTT TA T- TA TT TA TA -A T- TA TA TT
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * *
14093070 TA CA TA TA TA TA -A T- TA TA CTT TA TA T- TA T- TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
14093109 TA TA TA TA TA TA TA TA TA TA TA TT TA T- TT TA TA GTT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
14093151 TA GTA TA TA TA TA TT TA AA TA TA -A TA GTA TA -A AA TA TA -A GTA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * *
14093193 TA -A AA GTA TA TA AA GTT TA TA TA TA TA TA TA TA TA CT- TA TA
1 TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
14093234 TA T- TT TA GTC TT TA TA -A T- TA TA CTT TA TA TA CA TA TA -A TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * * *
14093274 TA CT- TA TA TA TA TA TA GA TA TA TA GA TA TA CA CA CA CTT TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
14093317 GTT TA TA TA TA GTT TA TA T- TA -A TA AA CTA TA TA -A TT TA TA
1 -TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
14093357 CA TA T- TA TA TA TA -A TT TA TA -A T- TA TA CA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
14093394 AA TA TA -A TT TG TA TA TA TT TA AA TA TA -A T- TCA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
* * * *
14093433 T- TCA TA TA TA AA CTA TG TA -A TT TA TA T- TA -A TA AA CTA TA
1 TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * ** * *
14093472 TA GTT TA TA TA TA TT TCA -A TA GC TCA TA TA TA -A AA TC TA TA
1 TA -TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA
* * * * * * * *
14093513 GTT TA TA CA TGG TA TA TA TA GTT TA TG CA TA -A TA TA TG TA GTT
1 -TA TA TA TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * * *
14093556 TA TA TA TA GTA TA TA -A TA -A TA AA AA TA TA AA CTA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
*
14093597 TA TA TA TA TA GTT TA TA TA TA TGA TA TA TA TA CTA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA T-A TA TA TA TA -TA TA TA TA TA
* * *
14093640 CA CTA TA TA GTT TA TA TA TA -A TT TA TA T- TA -A TA -A CTA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
14093679 TA GTT TA TA CA TA -A TA TA TA TA TA GTT TA TA TA TA GTA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * * * * * *
14093721 -A TA -A TA TA AA TA TA AA CTA CA TA GTT TA TA TG CA TA GTT TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA
*
14093762 TA TA TA TA -A TA TA TA TA GTT TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
14093797 ATTATTTCAA
Statistics
Matches: 1016, Mismatches: 224, Indels: 344
0.64 0.14 0.22
Matches are distributed among these distances:
1 93 0.09
2 838 0.82
3 85 0.08
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14092538 original size:107 final size:106
Alignment explanation
Indices: 14092286--14092539 Score: 299
Period size: 107 Copynumber: 2.4 Consensus size: 106
14092276 TAAAGTTTAG
* * *
14092286 TATAAAGTATATATACATATA-ATAATATAAACTATA-A-GTATAAGTATAAGTGTCTTATATAT
1 TATAAAGTATATATATATATATAT-ATATAAACTATATATATATAAGTATAAGTATCTTATATAT
14092348 AAAAAAGTATAATTATAAAGACTAAAGTATATAACTATATAA
65 AAAAAAGTATAATTATAAAGACTAAAGTATATAACTATATAA
* * *
14092390 -ATATAAGTATATAAATATATATAAACTATAAAGTATATATATATATAGTATATA-TAT-TTATA
1 TATA-AAGTATATATATATATATATA-TATAAACTATATATATATA-AGTATA-AGTATCTTATA
* * * *
14092452 TATATATAGAGTATAGTTATAAAGA-TAAAGTATATAAGTATATAA
62 TATA-AAAAAGTATAATTATAAAGACTAAAGTATATAACTATATAA
*
14092497 TATAAAGTATATATATATATATATATATATACTATAT-TATATA
1 TATAAAGTATATATATATATATATATATAAACTATATATATATA
14092540 CTTATATACT
Statistics
Matches: 127, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
103 3 0.02
104 16 0.13
105 17 0.13
106 11 0.09
107 51 0.40
108 28 0.22
109 1 0.01
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.39
Consensus pattern (106 bp):
TATAAAGTATATATATATATATATATATAAACTATATATATATAAGTATAAGTATCTTATATATA
AAAAAGTATAATTATAAAGACTAAAGTATATAACTATATAA
Found at i:14092650 original size:71 final size:71
Alignment explanation
Indices: 14092508--14093096 Score: 233
Period size: 67 Copynumber: 8.4 Consensus size: 71
14092498 ATAAAGTATA
* * * * *
14092508 TATATATATATATATATATAC-TATAT-TATATACTTATATACTTTATTCTT-TATAACTATACT
1 TATATATATATATATATATACTTATATATTTATATTTACATACTTTATACTTATATTA-TATACT
14092570 CTAT-A--
65 -TATAATT
*
14092575 TATATATATATATATATATACTTATATATTTATATTTA-ATACTTATATACTTGTATT-TAATAC
1 TATATATATATATATATATACTTATATATTTATATTTACATACTT-TATACTTATATTAT-ATAC
14092638 TTATAATT
64 TTATAATT
* * *
14092646 TATAT-TAT-TATATACATA--TATATAATTATA--TACATA-TATATACTTTATATT-TAATAC
1 TATATATATATATATATATACTTATATATTTATATTTACATACTTTATAC-TTATATTAT-ATAC
14092703 TTATATATT
64 TTATA-ATT
* * *
14092712 T-TATATTATATATTTATATACTT-TATATTATCTAGTCTTATAATACTTTATA--TATATTATA
1 TATATA-TATATATATATATACTTATATATT-TATA-T-TTA-CATACTTTATACTTATATTATA
*
14092773 TACTTATACTT
61 TACTTATAATT
* * * * *
14092784 TATATTATATATGTATATGTACTTTATACTAAAACTTTATATAGATAGATACTTTATATTTTATA
1 TATA-TATATATATATATATAC-TTATA-T---A-TTTATAT--TTACATACTTTATA-CTTATA
* *
14092849 CTAATATACTTTATTATT
56 -TTATATAC-TTATAATT
* * * *
14092867 TATAATTATATTTACATATATAATA-TATATATATTTATACTTTATATA-ATTATA-TATGTACT
1 TAT-A-TATA--TATATATAT-ATACT-TATATATTTATA-TTTACATACTTTATACT-TATA-T
* *
14092929 T-TATAC-TAAAACT
57 TATATACTTATAATT
* * * *
14092942 TATATATATATATATATATA--TATATATATATATATATATA-TATATA--TATA-TATATA-TA
1 TATATATATATATATATATACTTATATATTTATATTTACATACTTTATACTTATATTATATACT-
14093000 TATATATAT
65 TATA-AT-T
* * *
14093009 TATATATATATAT-TATATA-TTATAT-TATATACTTATATAC-TT-TA-TTAT-TTATA-A-TT
1 TATATATATATATATATATACTTATATATTTATATTTACATACTTTATACTTATATTATATACTT
14093065 AT-ATT
66 ATAATT
*
14093070 TACATATATATA-AT-TATACTT-TATATT
1 TATATATATATATATATATACTTATATATT
14093097 ATTATATGTA
Statistics
Matches: 415, Mismatches: 49, Indels: 122
0.71 0.08 0.21
Matches are distributed among these distances:
60 7 0.02
61 16 0.04
62 2 0.00
63 1 0.00
64 12 0.03
65 33 0.08
66 34 0.08
67 65 0.16
68 34 0.08
69 34 0.08
70 13 0.03
71 13 0.03
72 3 0.01
73 33 0.08
74 8 0.02
75 12 0.03
76 6 0.01
77 6 0.01
78 16 0.04
79 11 0.03
80 7 0.02
81 10 0.02
82 9 0.02
83 9 0.02
84 6 0.01
85 2 0.00
86 11 0.03
87 2 0.00
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.52
Consensus pattern (71 bp):
TATATATATATATATATATACTTATATATTTATATTTACATACTTTATACTTATATTATATACTT
ATAATT
Found at i:14092718 original size:7 final size:7
Alignment explanation
Indices: 14092684--14092740 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
14092674 TATACATATA
*
14092684 TATACTT
1 TATATTT
14092691 TATATTT
1 TATATTT
* *
14092698 AATACTTA
1 TATA-TTT
14092706 TATATTT
1 TATATTT
*
14092713 TATATTA
1 TATATTT
14092720 TATATTT
1 TATATTT
*
14092727 ATATACTT
1 -TATATTT
14092735 TATATT
1 TATATT
14092741 ATCTAGTCTT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
7 28 0.72
8 11 0.28
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (7 bp):
TATATTT
Found at i:14093272 original size:21 final size:19
Alignment explanation
Indices: 14093246--14093295 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
14093236 TTTTAGTCTT
14093246 TATAATTATACTTTATATACA
1 TATAA-TATAC-TTATATACA
*
14093267 TATAATATACTTATATATA
1 TATAATATACTTATATACA
14093286 TATAGATATA
1 TATA-ATATA
14093296 TAGATATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 12 0.44
20 10 0.37
21 5 0.19
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (19 bp):
TATAATATACTTATATACA
Found at i:14093382 original size:17 final size:17
Alignment explanation
Indices: 14093344--14093399 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
14093334 ATTAATAAAC
14093344 TATATAATTTATACATATTA
1 TATATAATTTAT--A-ATTA
14093364 TATATAATTTATAATTA
1 TATATAATTTATAATTA
* * *
14093381 TACATAATATATAAATA
1 TATATAATTTATAATTA
14093398 TA
1 TA
14093400 ATTTGTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 20 0.61
18 1 0.03
20 12 0.36
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TATATAATTTATAATTA
Found at i:14093428 original size:19 final size:21
Alignment explanation
Indices: 14093362--14093431 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
14093352 TTATACATAT
* *
14093362 TATATATAATTTATAATTATACA
1 TATATATAA-ATATAATT-TGCA
*
14093385 TAATATATAAATATAATTTGTA
1 T-ATATATAAATATAATTTGCA
*
14093407 TATATTTAAATATAA-TT-CA
1 TATATATAAATATAATTTGCA
14093426 TATATA
1 TATATA
14093432 ATTCATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 13 0.32
22 3 0.08
23 8 0.20
24 8 0.20
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (21 bp):
TATATATAAATATAATTTGCA
Found at i:14093429 original size:21 final size:21
Alignment explanation
Indices: 14093383--14093431 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
14093373 TATAATTATA
14093383 CATA-ATATATAAATATAATT
1 CATATATATATAAATATAATT
** *
14093403 TGTATATATTTAAATATAATT
1 CATATATATATAAATATAATT
14093424 CATATATA
1 CATATATA
14093432 ATTCATATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (21 bp):
CATATATATATAAATATAATT
Found at i:14093606 original size:13 final size:13
Alignment explanation
Indices: 14093588--14093791 Score: 88
Period size: 13 Copynumber: 16.5 Consensus size: 13
14093578 AAATATAAAC
14093588 TATATAGTTTATA
1 TATATAGTTTATA
14093601 TATATAGTTTATA
1 TATATAGTTTATA
14093614 TATAT-GATATATATA
1 TATATAG-T-T-TATA
* *
14093629 CTATATA-TATACA
1 -TATATAGTTTATA
14093642 CTATATAGTTTATA
1 -TATATAGTTTATA
14093656 TATA-A-TTTATA
1 TATATAGTTTATA
14093667 T-TA-A---TA-A
1 TATATAGTTTATA
14093674 CTATATAGTTTATA
1 -TATATAGTTTATA
*
14093688 CATA-A---TATA
1 TATATAGTTTATA
14093697 TATATAG-TT-TA
1 TATATAGTTTATA
*
14093708 TATATAGTATATAA
1 TATATAGTTTAT-A
* * *
14093722 TAATATAAATATAAA
1 T-ATAT-AGTTTATA
*
14093737 CTACATAGTTTATA
1 -TATATAGTTTATA
**
14093751 TGCATAGTTTATA
1 TATATAGTTTATA
14093764 TATATA----ATA
1 TATATAGTTTATA
14093773 TATATAGTTTATA
1 TATATAGTTTATA
14093786 TATATA
1 TATATA
14093792 TTATAATTAT
Statistics
Matches: 149, Mismatches: 16, Indels: 52
0.69 0.07 0.24
Matches are distributed among these distances:
7 1 0.01
8 3 0.02
9 18 0.12
10 5 0.03
11 16 0.11
12 5 0.03
13 64 0.43
14 13 0.09
15 13 0.09
16 11 0.07
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:14093623 original size:9 final size:8
Alignment explanation
Indices: 14093556--14093796 Score: 90
Period size: 9 Copynumber: 29.5 Consensus size: 8
14093546 ATATGTAGTT
14093556 TATATATA
1 TATATATA
14093564 GTATATA-A
1 -TATATATA
*
14093572 TA-ATAAA
1 TATATATA
* *
14093579 AATATAAA
1 TATATATA
*
14093587 CTATATAGTT
1 -TATATA-TA
14093597 TATATATA
1 TATATATA
*
14093605 TAGTTTATA
1 TA-TATATA
14093614 TATATGATA
1 TATAT-ATA
14093623 TATATACTA
1 TATATA-TA
14093632 TATATATA
1 TATATATA
*
14093640 CACTATATA
1 TA-TATATA
*
14093649 GTTTATATA
1 -TATATATA
*
14093658 TA-ATTTA
1 TATATATA
14093665 TAT-TA-A
1 TATATATA
14093671 TA-ACTATA
1 TATA-TATA
*
14093679 TAGTTTATA
1 TA-TATATA
*
14093688 CATA-ATA
1 TATATATA
14093695 TATATATA
1 TATATATA
*
14093703 GTTTATATA
1 -TATATATA
14093712 TAGTATATA
1 TA-TATATA
14093721 -ATA-ATA
1 TATATATA
*
14093727 TAAATATA
1 TATATATA
* *
14093735 AACTACATA
1 TA-TATATA
* *
14093744 GTTTATATG
1 -TATATATA
* *
14093753 CATAGTTTA
1 TATA-TATA
14093762 TATATATA
1 TATATATA
14093770 -ATATATA
1 TATATATA
*
14093777 TAGTTTATA
1 TA-TATATA
14093786 TATATAT-
1 TATATATA
14093793 TATA
1 TATA
14093797 ATTATTTCAA
Statistics
Matches: 172, Mismatches: 35, Indels: 52
0.66 0.14 0.20
Matches are distributed among these distances:
6 9 0.05
7 34 0.20
8 39 0.23
9 90 0.52
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:14093776 original size:11 final size:11
Alignment explanation
Indices: 14093759--14093796 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14093749 TATGCATAGT
14093759 TTATATATATA
1 TTATATATATA
*
14093770 ATATATATAGT-
1 TTATATATA-TA
14093781 TTATATATATA
1 TTATATATATA
14093792 TTATA
1 TTATA
14093797 ATTATTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 1 0.04
11 21 0.91
12 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
TTATATATATA
Found at i:14096628 original size:54 final size:54
Alignment explanation
Indices: 14096097--14096600 Score: 623
Period size: 54 Copynumber: 9.3 Consensus size: 54
14096087 ACCAAATAGG
* * * * * *
14096097 CACTAAGTGTTCATTTCACGGAATTCATCATAGGTGGATGAATAACCGTTTAGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
* * *
14096151 CACTAAGTGTACATTTCACGGAATTCATCCTACGTGGATGAATAATCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
* ** * * *
14096205 TACTAAGTGTGCATTTCATAGAATTCATCCTATGTGCACGAATAATTGTTTC-A
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
* * *
14096258 GCACTAAGTGTGAATTTCACAGAATTCATCCTATGTGGATGAATAAACGTTTCGA
1 -CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
* * * * * *
14096313 CACTATGTGTGCATTTCACGGAATTCACCCTATGTGTATGAAGAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
* * * * *
14096367 TAATAAGTGTGCATTTCACGAAATTCATCATACGTGGATGAATAATCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
* * * *
14096421 CAGTAAGTGTGCATTTCACGGAATTCATCCTAAGTGGATGAGTAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
* * * * *
14096475 CACTAAGTGTGCATTTCACGAAATTCATCCTACGTGGATGAATAACCATTTTGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
*
14096529 CACTAAGTGTGTATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
* *
14096583 CAATAATTGTGCATTTCA
1 CACTAAGTGTGCATTTCA
14096601 TTGAATTCGT
Statistics
Matches: 386, Mismatches: 62, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
54 385 1.00
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
Found at i:14101799 original size:12 final size:12
Alignment explanation
Indices: 14101782--14101807 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14101772 ATTCATTCCA
14101782 TTTTTTTTATTT
1 TTTTTTTTATTT
14101794 TTTTTTTTATTT
1 TTTTTTTTATTT
14101806 TT
1 TT
14101808 ATGCGGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:14106896 original size:19 final size:19
Alignment explanation
Indices: 14106852--14106889 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14106842 TTAATCTTCA
14106852 CTGTGGCTCTATGGATTTT
1 CTGTGGCTCTATGGATTTT
14106871 CTGTGGCTCTATGGATTTT
1 CTGTGGCTCTATGGATTTT
14106890 TCGTGGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.26, T:0.47
Consensus pattern (19 bp):
CTGTGGCTCTATGGATTTT
Found at i:14114340 original size:20 final size:19
Alignment explanation
Indices: 14114317--14114365 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
14114307 GATTCAATTG
14114317 GTATCGATATCGAAGGGAGA
1 GTATCGATATCGAAGGGA-A
*
14114337 GTATCGATATCGAAGGTAA
1 GTATCGATATCGAAGGGAA
14114356 GTTATCGATA
1 G-TATCGATA
14114366 CCATTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (19 bp):
GTATCGATATCGAAGGGAA
Found at i:14114868 original size:54 final size:54
Alignment explanation
Indices: 14114786--14115514 Score: 977
Period size: 54 Copynumber: 13.6 Consensus size: 54
14114776 ACCAAATAGG
* *
14114786 CACTAAGTGTGCATTTCACGAAATTCATCCTAGGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* *
14114840 CACTAAGTGTGCATTTCACGGAATTCATCCTAGGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * * *
14114894 CATTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAATCGTTTTGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *
14114948 CACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACTGTTTCAA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *
14115002 CACTAAGTGTGCATTTCATGGAATTCATCCTATTTGGATGAATAACTGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
** *
14115056 CACTAAGTGTGCATTTCATAGAATTCATCCTACGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *
14115110 CACTAAGTGTACATTTCACGTAATTCATCCTACGTGGATGAATAACCGTTTC-A
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *
14115163 GCACTAAGTGTGCATTTCACGAAATTCATCTTATGTAGATGAATAACCGTTTCGAA
1 -CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG-A
*
14115219 CACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* ** *
14115273 CACTAAGTGTGCATTTCATGGAATTCATCCTACATGGATGAATAA-C-TGT-G-
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *
14115323 CACTAAGTGTGTATTTCATGGAATTCATCCTATGTGGATGAATAACCATTTCGGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC-GA
* * ** *
14115378 -A-TGAAGTGTGCATTTAATGGAATTCATCCTATGTGGATGAATAACTATTTCGG
1 CACT-AAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* ** *
14115431 CATTAAGTGTGCATTTCATAGAATTCATCCTACGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* ** *
14115485 CACTAAGTTTGTTTTTCACGAAATTCATCC
1 CACTAAGTGTGCATTTCACGGAATTCATCC
14115515 ACATCTTATG
Statistics
Matches: 603, Mismatches: 61, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
50 42 0.07
51 2 0.00
52 4 0.01
53 4 0.01
54 500 0.83
55 50 0.08
56 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
Found at i:14115964 original size:20 final size:20
Alignment explanation
Indices: 14115939--14115976 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14115929 GACTGGTCAA
14115939 CGGTTCAGGTCAGGTCAAAC
1 CGGTTCAGGTCAGGTCAAAC
*
14115959 CGGTTCATGTCAGGTCAA
1 CGGTTCAGGTCAGGTCAA
14115977 CCTAGTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (20 bp):
CGGTTCAGGTCAGGTCAAAC
Found at i:14128602 original size:19 final size:21
Alignment explanation
Indices: 14128563--14128602 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
14128553 TCTTTTTATT
*
14128563 TTCCTTCTTTTCTTCATCATC
1 TTCCTTCTTTTCTTCACCATC
14128584 TTCC-TCTTTT-TTCACCATC
1 TTCCTTCTTTTCTTCACCATC
14128603 AACTCATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (21 bp):
TTCCTTCTTTTCTTCACCATC
Found at i:14135340 original size:37 final size:38
Alignment explanation
Indices: 14135288--14135366 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 38
14135278 CGAAATTTGT
* * *
14135288 TTTTATCTCAATTGAGGTCA-TTTCTCTTGAAACA-AAA
1 TTTTATCTCAATTGA-GACAGCTTCCCTTGAAACACAAA
*
14135325 TTTTATCTCACTTGAGACAGCTTCCCTTGAAACACAAA
1 TTTTATCTCAATTGAGACAGCTTCCCTTGAAACACAAA
14135363 TTTT
1 TTTT
14135367 GAAATTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 3 0.08
37 26 0.72
38 7 0.19
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (38 bp):
TTTTATCTCAATTGAGACAGCTTCCCTTGAAACACAAA
Found at i:14135436 original size:69 final size:68
Alignment explanation
Indices: 14135322--14135477 Score: 215
Period size: 69 Copynumber: 2.3 Consensus size: 68
14135312 TCTTGAAACA
14135322 AAATTTTATCTCACTTGAGACAGCTTCCCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
1 AAATTTTATCTCACTTGAGACAGCTTCCCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
14135387 AAG
66 AAG
* * ** **
14135390 AATTTTTTATCTCACTTGAGACA-CTTTCTCTTGAATTACAAATTTTGAAATTGTTTCACTTTAA
1 AA-ATTTTATCTCACTTGAGACAGC-TTCCCTTGAAACACAAATTTTGAAATTGTTTCACTCGAA
*
14135454 ACACG
64 ACAAG
*
14135459 AAATTTTATCTCCCTTGAG
1 AAATTTTATCTCACTTGAG
14135478 GTTATTTCCC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
68 18 0.23
69 59 0.77
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (68 bp):
AAATTTTATCTCACTTGAGACAGCTTCCCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
AAG
Found at i:14136202 original size:20 final size:22
Alignment explanation
Indices: 14136177--14136216 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14136167 GTAGGGGTTC
14136177 ATAAT-GAGAAGAA-CTCATTG
1 ATAATGGAGAAGAAGCTCATTG
14136197 ATAATGGAGAAGAAGCTCAT
1 ATAATGGAGAAGAAGCTCAT
14136217 AATGAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (22 bp):
ATAATGGAGAAGAAGCTCATTG
Found at i:14136263 original size:117 final size:117
Alignment explanation
Indices: 14135948--14136579 Score: 372
Period size: 119 Copynumber: 5.4 Consensus size: 117
14135938 ATAAATGCAA
* * * *
14135948 AAGAACTCATTCGATAAGGGAGAATAAATTCATAATAAGAAGAACTTGTTCAACC-TATGCTCAA
1 AAGAACTCATT-GATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAA
* * * * * * *
14136012 ATCCATCAAAGAATG-TGGTGAATCAATATTTTTAATAGAGGGGTTTATAATAAA
65 ATCCATCAAAGAAAGAT-GTGGATCAACATTTCTAAT-GAGGGGTTCATAATGAG
* * * * * * *
14136066 AAGAATTTATCCGA-AGAGGGAAAAGGAGTTCATAATGAAAAGAACTTATTCAACCTTTTGCTCA
1 AAGAACTCAT-TGATA-AGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCA
* **
14136130 AATCTATCGCAGAAAGATGTGGATCAACATTTCTAATGTAGGGGTTCATAATGAG
64 AATCCATCAAAGAAAGATGTGGATCAACATTTCTAATG-AGGGGTTCATAATGAG
* * *
14136185 AAGAACTCATTGATAATGGAGAAGAAGCTCATAATGAGAAGAACTTGTTC-ACCTTTTTCTCAAA
1 AAGAACTCATTGATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAA
* * * *
14136249 TCCATCATAGAAAGAGGTGGATCAACAGTATC-AATGGAAGGGTTCATAATGAGG
66 TCCATCAAAGAAAGATGTGGATCAACA-TTTCTAAT-GAGGGGTTCATAATGA-G
* * * * * * * * *
14136303 TA-AACTCATCTGA-AGAGGAAGAAAAAATTCATAATGAGATGAACATGTACAACTTTTTGCTCG
1 AAGAACTCAT-TGATA-AGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCA
* ** ** * * * * * * *
14136366 AATCCATTACTGAATTATATGGATTAAAATTTCCAAAGGAGGAGTTCATAACGAG
64 AATCCATCAAAGAAAGATGTGGATCAACATTT-CTAATGAGGGGTTCATAATGAG
* * * * * * * * * *
14136421 AAGAATTCGTCCGATGAGGCAAAAGAAGTTCATAAT-ATAAAAAACTTGTTCGACCTTTCGCTCA
1 AAGAACTCAT-TGATAAGGGAGAAGAAGTTCATAATGA-GAAGAACTTGTTCAACCTTTTGCTCA
* * ** * * ** *
14136485 AACCCAT-ACTAGAGGGAGGTGGATCAACATTT-TCAACGA--AATTCATAATTAG
64 AATCCATCA-AAGAAAGATGTGGATCAACATTTCT-AATGAGGGGTTCATAATGAG
* * * * *
14136537 AAGAACTCATTCAAAAGAGCGAAG-AGTTTATAATGAGAAGAAC
1 AAGAACTCATTGATAAGGGAGAAGAAGTTCATAATGAGAAGAAC
14136580 ATGTAGCTCA
Statistics
Matches: 385, Mismatches: 109, Indels: 44
0.72 0.20 0.08
Matches are distributed among these distances:
114 14 0.04
115 7 0.02
116 18 0.05
117 62 0.16
118 120 0.31
119 161 0.42
120 3 0.01
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (117 bp):
AAGAACTCATTGATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAA
TCCATCAAAGAAAGATGTGGATCAACATTTCTAATGAGGGGTTCATAATGAG
Found at i:14138742 original size:35 final size:35
Alignment explanation
Indices: 14138703--14138777 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
14138693 TTCATGTTCA
14138703 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
* * *
14138738 AAATTCCAAAATACTTCAATTATATTCTAAACCCT
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCC
14138773 AAATT
1 AAATT
14138778 AAAGTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCCC
Found at i:14143029 original size:31 final size:31
Alignment explanation
Indices: 14142965--14143035 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
14142955 GACCGCCGAG
** *
14142965 GAGATCGAGCGAGTGGGTATAGAGCGCAGGA
1 GAGATCGAGCGAGTGGGTATAGAGAACAAGA
* *
14142996 GAGATTGAGTGAGTGGGTATAGAGAACAAGA
1 GAGATCGAGCGAGTGGGTATAGAGAACAAGA
14143027 GAGATCGAG
1 GAGATCGAG
14143036 ATCGAGACCG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.08, G:0.42, T:0.15
Consensus pattern (31 bp):
GAGATCGAGCGAGTGGGTATAGAGAACAAGA
Found at i:14148087 original size:8 final size:9
Alignment explanation
Indices: 14148065--14148095 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14148055 CTTCCCCTTT
*
14148065 ATTTTTTAA
1 ATTTTTTCA
14148074 ATTTTTTCA
1 ATTTTTTCA
14148083 ATTTTTTCA
1 ATTTTTTCA
14148092 ATTT
1 ATTT
14148096 ACGTTTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTTCA
Found at i:14148221 original size:28 final size:27
Alignment explanation
Indices: 14148167--14148222 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
14148157 TTTTATTGTA
*
14148167 TTATTTAATTTATGCATTTTTATTTTCG
1 TTATTTAAATTATGCA-TTTTATTTTCG
14148195 TTATTTACAATTATGCA-TTTATCTTTCG
1 TTATTTA-AATTATGCATTTTAT-TTTCG
14148223 ATTTACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 5 0.20
28 12 0.48
29 8 0.32
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (27 bp):
TTATTTAAATTATGCATTTTATTTTCG
Found at i:14150530 original size:23 final size:24
Alignment explanation
Indices: 14150504--14150549 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
14150494 CAACTTGGCT
* *
14150504 GAGTTAACTCGTTGACT-TTGACC
1 GAGTCAACCCGTTGACTGTTGACC
14150527 GAGTCAACCCGTTGACTGTTGAC
1 GAGTCAACCCGTTGACTGTTGAC
14150550 TTTGACTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (24 bp):
GAGTCAACCCGTTGACTGTTGACC
Found at i:14151406 original size:64 final size:65
Alignment explanation
Indices: 14151301--14151424 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 65
14151291 AATGCATTAT
* * * * *
14151301 ATGCATCGATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAAGCC
1 ATGCATCAATGCACTCAGGTTGTTATGAAAACATCGAATGCACTTCATGCATCAATGCACAAGCC
*
14151366 ATGCATCAATGCACTCGGGCTTGTT-TG-AAACATCGAATGCACTTCATGCATCAATGCAC
1 ATGCATCAATGCACTCAGG-TTGTTATGAAAACATCGAATGCACTTCATGCATCAATGCAC
14151425 TAAGGGTCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 29 0.56
65 19 0.37
66 4 0.08
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (65 bp):
ATGCATCAATGCACTCAGGTTGTTATGAAAACATCGAATGCACTTCATGCATCAATGCACAAGCC
Found at i:14155008 original size:65 final size:64
Alignment explanation
Indices: 14154923--14155082 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 64
14154913 GAATAAATTG
* * * * * *
14154923 AACATGGAATGCATTATATGCATCGATGTACATA-CCATGCATTGATGCACTCAGG-TTTTTATG
1 AACATCGAATGCATTTTATGCATCGATGCACA-AGACATGCATCGATGCACTCAGGCTTGTT-TG
14154986 AA
64 -A
* * *
14154988 AAGATCGAATGCATTTTATGCATCGATGCACAAGACATGCATCGATGTACTCGGGCTTGTTTGA
1 AACATCGAATGCATTTTATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTTGTTTGA
* *
14155052 AACATCGAATGCATTTCATGCACCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
14155083 TAAGGGTCCA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 30 0.37
65 47 0.58
66 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAAGACATGCATCGATGCACTCAGGCTTGTTTGA
Done.