Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 91 of 126
Found at i:17817280 original size:78 final size:77
Alignment explanation
Indices: 17817123--17817289 Score: 185
Period size: 78 Copynumber: 2.2 Consensus size: 77
17817113 CAAAAAACCC
* * * * ** *
17817123 AAAAGAAACAATCAATTATTACAATTAATAGATAAATATTATTTTTAAAGGTTAGAAAAATGAAA
1 AAAAAAAACAATAAATTATCACAATTAATACATAAATATTATTTTTAAA-GAAAGAAAAAGGAAA
** *
17817188 AGGTAAAAACAAA
65 AGCCAAAAAAAAA
* *
17817201 AAAAAAAACAATAAATTATCACAATTAATACATAAATATTATTTTTTAAA-AAATAAAAAGGTAA
1 AAAAAAAACAATAAATTATCACAATTAATACATAAATATTA-TTTTTAAAGAAAGAAAAAGGAAA
*
17817265 AGCC-AAAAAGAA
65 AGCCAAAAAAAAA
17817277 AAAAAAAACAATA
1 AAAAAAAACAATA
17817290 CACAGTCAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
76 19 0.25
77 11 0.15
78 37 0.49
79 8 0.11
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.25
Consensus pattern (77 bp):
AAAAAAAACAATAAATTATCACAATTAATACATAAATATTATTTTTAAAGAAAGAAAAAGGAAAA
GCCAAAAAAAAA
Found at i:17823241 original size:28 final size:28
Alignment explanation
Indices: 17823201--17823258 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
17823191 TGACAATTAC
17823201 TTTGTTTCTTTAAACAGAAATGTAGTAT
1 TTTGTTTCTTTAAACAGAAATGTAGTAT
*
17823229 TTTGTTTCTTTAAACATAAATGTAGTAT
1 TTTGTTTCTTTAAACAGAAATGTAGTAT
17823257 TT
1 TT
17823259 GGAATTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (28 bp):
TTTGTTTCTTTAAACAGAAATGTAGTAT
Found at i:17824931 original size:5 final size:5
Alignment explanation
Indices: 17824921--17824956 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
17824911 GACCCAAACC
* *
17824921 TTTCA TTTCA TTTCA TTACA TTTCA TTACA TTTCA T
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA T
17824957 CTTTCCTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (5 bp):
TTTCA
Found at i:17824936 original size:10 final size:10
Alignment explanation
Indices: 17824921--17824956 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
17824911 GACCCAAACC
*
17824921 TTTCATTTCA
1 TTTCATTACA
17824931 TTTCATTACA
1 TTTCATTACA
17824941 TTTCATTACA
1 TTTCATTACA
17824951 TTTCAT
1 TTTCAT
17824957 CTTTCCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTCATTACA
Found at i:17827941 original size:67 final size:65
Alignment explanation
Indices: 17827802--17828056 Score: 259
Period size: 67 Copynumber: 3.9 Consensus size: 65
17827792 TAATTGGTTT
* **
17827802 TTTGAGCTTTCTTTACCTTTTCATTTTCTTTAATTTAAAAATAATATTTATT-TT-GGTGT-C-T
1 TTTG-GCTTTCTTTACCTTTTCATTTTCTTTATTTTAAAAATAATATTTATTATTAATTGTGCAT
*
17827863 T
65 C
* * *
17827864 TTTTGCTTTCTTTATCTTTTCATTTTCTTTGATTTTAAAAATAATTTTTATTAATTAATTGTGCA
1 TTTGGCTTTCTTTACCTTTTCATTTTCTTT-ATTTTAAAAATAATATTTATT-ATTAATTGTGCA
17827929 TC
64 TC
* * * * *
17827931 TTTGGTTTTCTTTACCTTATCATTTTCTTCTATTTTGAAAATAATATTTATTAATTAGTTGTGTA
1 TTTGGCTTTCTTTACCTTTTCATTTTCTT-TATTTTAAAAATAATATTTATT-ATTAATTGTGCA
17827996 TC
64 TC
* ** * *
17827998 TTTGCCTTTCTTTATTTTTTTATTTT-TTCAGTTTTAAAAATAATATTTATCTATTAATT
1 TTTGGCTTTCTTTACCTTTTCATTTTCTTTA-TTTTAAAAATAATATTTAT-TATTAATT
17828057 ATTATCATTG
Statistics
Matches: 160, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
61 25 0.16
62 22 0.14
64 2 0.01
65 4 0.03
66 27 0.17
67 79 0.49
68 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (65 bp):
TTTGGCTTTCTTTACCTTTTCATTTTCTTTATTTTAAAAATAATATTTATTATTAATTGTGCATC
Found at i:17828054 original size:133 final size:128
Alignment explanation
Indices: 17827809--17828056 Score: 313
Period size: 133 Copynumber: 1.9 Consensus size: 128
17827799 TTTTTTGAGC
* *
17827809 TTTCTTTACCTTTTCATTTTCTTTAATTTAAAAATAATATTTATTTTGGTGTCTTTTTTGCTTTC
1 TTTCTTTACCTTATCATTTTCTTTAATTTAAAAATAATATTTATTTTGGTGTCTTCTTTGCTTTC
* *
17827874 TTTATCTTTTCATTTTCTTTGATTTTAAAAATAATTTTTATTAATTAATTGTGCATCTTTGGT
66 TTTATCTTTTCATTTTCTTAGATTTTAAAAATAATATTTATTAATTAATTGTGCATCTTTGGT
* * * *
17827937 TTTCTTTACCTTATCATTTTCTTCTATTTTGAAAATAATATTTATTAATTAGTTGTGTATCTTTG
1 TTTCTTTACCTTATCATTTTCTT-TAATTTAAAAATAATATTTATT--TT-GGTGTCT-TCTTTG
* *
17828002 CCTTTCTTTATTTTTTTATTTT-TTCAG-TTTTAAAAATAATATTTATCT-ATTAATT
61 -CTTTCTTTATCTTTTCATTTTCTT-AGATTTTAAAAATAATATTTAT-TAATTAATT
17828057 ATTATCATTG
Statistics
Matches: 102, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
128 22 0.22
129 20 0.20
131 2 0.02
132 5 0.05
133 32 0.31
134 21 0.21
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.60
Consensus pattern (128 bp):
TTTCTTTACCTTATCATTTTCTTTAATTTAAAAATAATATTTATTTTGGTGTCTTCTTTGCTTTC
TTTATCTTTTCATTTTCTTAGATTTTAAAAATAATATTTATTAATTAATTGTGCATCTTTGGT
Found at i:17829810 original size:29 final size:29
Alignment explanation
Indices: 17829768--17829826 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17829758 CAAAAAAAAA
17829768 AAAACTATTCTCATTAACAAGTTCAAGAC
1 AAAACTATTCTCATTAACAAGTTCAAGAC
17829797 AAAACTATTCTCATTAACAAGTTCAAGAC
1 AAAACTATTCTCATTAACAAGTTCAAGAC
17829826 A
1 A
17829827 TTCTTTTAAC
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:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (29 bp):
AAAACTATTCTCATTAACAAGTTCAAGAC
Found at i:17830886 original size:13 final size:13
Alignment explanation
Indices: 17830870--17830894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17830860 AAAAAAACCA
17830870 TAAATATTTTAAC
1 TAAATATTTTAAC
17830883 TAAATATTTTAA
1 TAAATATTTTAA
17830895 TATAATTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATATTTTAAC
Found at i:17832647 original size:217 final size:216
Alignment explanation
Indices: 17832044--17832655 Score: 798
Period size: 218 Copynumber: 2.8 Consensus size: 216
17832034 AAGAAAGTGT
* * *
17832044 GAGGCATGAAAGACACTCATATAACTTCTCATCCTTAAAAAAAATGGAAAATCATAAGTTATAAA
1 GAGGCATGAAAGACACTCATATAAC-TCTCA-CCTTAAAAAAGATGGAAAATCATAAGTCATAAG
* * *
17832109 AAAATCAAAAGTAAAAAATATAAATGTTATAAAACCAACA-ATTTGATCAATAAATTTTAATAGA
64 AAAATCAAAAGTAAAAAATATAAATGTTACAAAACCAA-AGATTTGATCAATAAATTTTAAAAAA
** * * *
17832173 TAATGCCTTTAAAGAAAACGAATACAAGAAAATCAAAAGCCAATAATCCAAGTAATATGACAAAT
128 TAATGGTTTTAAAGAAAATGAATACAAGAAAATCAAAAGTCAATAATCCAAGTAATATGACAAAC
17832238 AAGAATTGGAAAAAAAGTATAATA
193 AAGAATTGGAAAAAAAGTATAATA
* * * * * * *
17832262 AAGACATGAAAGAAATTCATATAACCCTCAACCTTAAAAGAGATGGAAAATGATAAGTCATAAGA
1 GAGGCATGAAAGACACTCATATAACTCTC-ACCTTAAAAAAGATGGAAAATCATAAGTCATAAGA
* * * *
17832327 AAATCAAAAGTGAAAAAATATAAATGTTAGAAAATCGAAAG-TTTAATCAATAAATTTTAACAAA
65 AAATCAAAAGT-AAAAAATATAAATGTTACAAAA-CCAAAGATTTGATCAATAAATTTTAAAAAA
* *
17832391 TAATGGTTTTAAATAAAATGAATGCAAGAAAATCAAAAGTCAATAATCCAAGTAATATGACAAAC
128 TAATGGTTTTAAAGAAAATGAATACAAGAAAATCAAAAGTCAATAATCCAAGTAATATGACAAAC
*
17832456 AATAATT-GAGAAAAAAGTATAATA
193 AAGAATTGGA-AAAAAAGTATAATA
* * * * *
17832480 GAGGCATTAAAGACACTCATATAACTCTCACGTTTAAAAAAGATAGAAAATCATAAATCACAAGA
1 GAGGCATGAAAGACACTCATATAACTCTCAC-CTTAAAAAAGATGGAAAATCATAAGTCATAAGA
* * * * * *
17832545 AAATTAAAAATAAAAAATCTAGATATTACAAAACCAAAGAGTTGATCAATAAATTTTAAAAAATA
65 AAATCAAAAGTAAAAAATATAAATGTTACAAAACCAAAGATTTGATCAATAAATTTTAAAAAATA
*
17832610 ATGGTTTTAAAGAAAATGAATACAAAAAAATCAAAAGTCAATAATC
130 ATGGTTTTAAAGAAAATGAATACAAGAAAATCAAAAGTCAATAATC
17832656 TAAATAAATG
Statistics
Matches: 339, Mismatches: 48, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
216 5 0.01
217 130 0.38
218 201 0.59
219 3 0.01
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (216 bp):
GAGGCATGAAAGACACTCATATAACTCTCACCTTAAAAAAGATGGAAAATCATAAGTCATAAGAA
AATCAAAAGTAAAAAATATAAATGTTACAAAACCAAAGATTTGATCAATAAATTTTAAAAAATAA
TGGTTTTAAAGAAAATGAATACAAGAAAATCAAAAGTCAATAATCCAAGTAATATGACAAACAAG
AATTGGAAAAAAAGTATAATA
Found at i:17839303 original size:29 final size:30
Alignment explanation
Indices: 17839232--17839303 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
17839222 ATAAATAAAT
*
17839232 TTTAAATTA-AATTAAATATTTAATGTAATA
1 TTTAAATTATAA-AAAATATTTAATGTAATA
* *
17839262 TATAAAATT-TAAAAAAT-TTTAATTTAATA
1 T-TTAAATTATAAAAAATATTTAATGTAATA
17839291 TTTAAATTATAAA
1 TTTAAATTATAAA
17839304 TCTATTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
28 6 0.17
29 16 0.46
30 5 0.14
31 8 0.23
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTAAATTATAAAAAATATTTAATGTAATA
Found at i:17840347 original size:18 final size:18
Alignment explanation
Indices: 17840323--17840373 Score: 75
Period size: 18 Copynumber: 2.7 Consensus size: 18
17840313 TTATATTTAA
17840323 TTATATATAAATATAATATT
1 TTATAT-TAAA-ATAATATT
17840343 TTATATTAAAATAATATT
1 TTATATTAAAATAATATT
*
17840361 TTAAATTAAAATA
1 TTATATTAAAATA
17840374 TTAAATAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 20 0.67
19 4 0.13
20 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTATATTAAAATAATATT
Found at i:17840424 original size:2 final size:2
Alignment explanation
Indices: 17840417--17840451 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17840407 AATTAAATTT
17840417 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17840452 TCCAATACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17841001 original size:3 final size:3
Alignment explanation
Indices: 17840993--17841022 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17840983 CGTTTTCTTT
17840993 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
17841023 AGGCTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:17841391 original size:41 final size:41
Alignment explanation
Indices: 17841341--17841428 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
17841331 ATCCTAATGA
*
17841341 AATTGATTTATACATATCCTGAGTCAGCACTTAATGTATGC
1 AATTCATTTATACATATCCTGAGTCAGCACTTAATGTATGC
*
17841382 AATTCATTTATGCATATCCTGAGTCAGCACTTAATGTATGC
1 AATTCATTTATACATATCCTGAGTCAGCACTTAATGTATGC
17841423 AATTCA
1 AATTCA
17841429 ACTTCTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (41 bp):
AATTCATTTATACATATCCTGAGTCAGCACTTAATGTATGC
Found at i:17847940 original size:2 final size:2
Alignment explanation
Indices: 17847933--17847960 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17847923 TATCTTAATC
17847933 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
17847961 TGGCGTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17850572 original size:13 final size:13
Alignment explanation
Indices: 17850554--17850607 Score: 53
Period size: 12 Copynumber: 4.4 Consensus size: 13
17850544 AGCCATTTCA
17850554 ATTTTTTTTTGGT
1 ATTTTTTTTTGGT
*
17850567 A-TTTTTTTTGCT
1 ATTTTTTTTTGGT
*
17850579 -TATTTTCTTTGGT
1 AT-TTTTTTTTGGT
17850592 -TTTTTTTTT-GT
1 ATTTTTTTTTGGT
17850603 ATTTT
1 ATTTT
17850608 GTATTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 2 0.06
12 21 0.62
13 11 0.32
ACGTcount: A:0.07, C:0.04, G:0.11, T:0.78
Consensus pattern (13 bp):
ATTTTTTTTTGGT
Found at i:17850773 original size:57 final size:59
Alignment explanation
Indices: 17850704--17850889 Score: 247
Period size: 57 Copynumber: 3.2 Consensus size: 59
17850694 TTTTTTAAAA
* *
17850704 AAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAAAAAAATTT-T
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAAATTTCT
** * *
17850762 -TTAAATATTTTTGAGGAAAAGTTGAAATTATCAATTTTTCTTG-AAAATAAAATTTCT
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAAATTTCT
* *
17850819 AAAAAATATTTTGAA-GAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAAATTTCT
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAAATTTCT
*
17850876 AAAATAAAATTTTT
1 AAAA-AATATTTTT
17850890 TAAAAAATAT
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
56 18 0.16
57 75 0.68
58 17 0.15
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (59 bp):
AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAATAAAATTTCT
Found at i:17850898 original size:17 final size:16
Alignment explanation
Indices: 17850858--17850895 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
17850848 ATCAATTTTC
17850858 TTTAAAAATAAAA-TT
1 TTTAAAAATAAAATTT
*
17850873 TCT-AAAATAAAATTT
1 TTTAAAAATAAAATTT
17850888 TTTAAAAA
1 TTTAAAAA
17850896 ATATATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 9 0.47
15 6 0.32
16 4 0.21
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTAAAAATAAAATTT
Found at i:17850918 original size:74 final size:70
Alignment explanation
Indices: 17850805--17850943 Score: 215
Period size: 74 Copynumber: 1.9 Consensus size: 70
17850795 ATTTTTCTTG
*
17850805 AAAATAAAATTTCTAAAAAATATTTTGAAGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAA
1 AAAATAAAATTTCTAAAAAATATTTTGAAGAAAAGTTGAAAGTACCAATTTT-TTTAAAAATAAA
17850870 ATTTCT
65 ATTTCT
* *
17850876 AAAATAAAATTTTTTAAAAAATATATTTTGAGGAAAAGTTGAAAGTACCAATTTTTTTAAAAATA
1 AAAATAAAA-TTTCT-AAAAA-ATATTTTGAAGAAAAGTTGAAAGTACCAATTTTTTTAAAAATA
17850941 AAA
63 AAA
17850944 ACCTCCAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
71 9 0.15
72 4 0.06
73 18 0.29
74 31 0.50
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (70 bp):
AAAATAAAATTTCTAAAAAATATTTTGAAGAAAAGTTGAAAGTACCAATTTTTTTAAAAATAAAA
TTTCT
Found at i:17854535 original size:19 final size:19
Alignment explanation
Indices: 17854499--17854535 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17854489 CTCAAAGAGA
*
17854499 GAAAAAAAAAAAGCAAAAT
1 GAAAAAAAAAAAGAAAAAT
*
17854518 GAAAAAAAGAAAGAAAAA
1 GAAAAAAAAAAAGAAAAA
17854536 AAAACCACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (19 bp):
GAAAAAAAAAAAGAAAAAT
Found at i:17854957 original size:42 final size:42
Alignment explanation
Indices: 17854911--17855008 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
17854901 TATTTCGACT
** *
17854911 AATTAAGAACAATGGTAGAAAACCTTAAATATAAATTTGAAC
1 AATTAAGAACAACAGTAAAAAACCTTAAATATAAATTTGAAC
* *
17854953 AATTAAGAACAACAGTAAAAAACCTTAACTATAAATTTGAAT
1 AATTAAGAACAACAGTAAAAAACCTTAAATATAAATTTGAAC
*
17854995 AATTAAAAACAACA
1 AATTAAGAACAACA
17855009 ACAGAAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.24
Consensus pattern (42 bp):
AATTAAGAACAACAGTAAAAAACCTTAAATATAAATTTGAAC
Found at i:17855173 original size:12 final size:12
Alignment explanation
Indices: 17855156--17855180 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17855146 AATATCCATA
17855156 CATATTATTCAC
1 CATATTATTCAC
17855168 CATATTATTCAC
1 CATATTATTCAC
17855180 C
1 C
17855181 TTACACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (12 bp):
CATATTATTCAC
Found at i:17859746 original size:13 final size:13
Alignment explanation
Indices: 17859723--17859763 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
17859713 AAATATGATT
17859723 AAATT-AAAATTA
1 AAATTAAAAATTA
17859735 AAATTAAAAATTA
1 AAATTAAAAATTA
*
17859748 AAATCAATAAATTA
1 AAATTAA-AAATTA
17859762 AA
1 AA
17859764 GGTTTTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 5 0.19
13 13 0.50
14 8 0.31
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAAAAATTA
Found at i:17864091 original size:18 final size:17
Alignment explanation
Indices: 17864068--17864103 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
17864058 AAGTTTTCCT
*
17864068 AAAGCTATATTCATTCTC
1 AAAGCTATAATCA-TCTC
17864086 AAAGCTATAATCATCTC
1 AAAGCTATAATCATCTC
17864103 A
1 A
17864104 TATTTTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAGCTATAATCATCTC
Found at i:17870402 original size:8 final size:8
Alignment explanation
Indices: 17870392--17870449 Score: 71
Period size: 8 Copynumber: 7.0 Consensus size: 8
17870382 TTTTAAAAAT
*
17870392 TAATTTTT
1 TAATTTTA
*
17870400 TAATATTTT
1 TAAT-TTTA
*
17870409 TAATTAATA
1 TAATT-TTA
17870418 TAATTTTA
1 TAATTTTA
17870426 TAATTTTA
1 TAATTTTA
17870434 TAATTTTA
1 TAATTTTA
17870442 TAATTTTA
1 TAATTTTA
17870450 ATTATTATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
8 31 0.69
9 14 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TAATTTTA
Found at i:17870409 original size:24 final size:26
Alignment explanation
Indices: 17870377--17870429 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
17870367 GCTGAAATTA
*
17870377 AATAATTTTAA-AAAT-TAATTTTTT
1 AATAATTTTAATAAATATAATTTTAT
* *
17870401 AATATTTTTAATTAATATAATTTTAT
1 AATAATTTTAATAAATATAATTTTAT
17870427 AAT
1 AAT
17870430 TTTATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 10 0.42
25 3 0.12
26 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATAATTTTAATAAATATAATTTTAT
Found at i:17870431 original size:24 final size:24
Alignment explanation
Indices: 17870392--17870449 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
17870382 TTTTAAAAAT
* *
17870392 TAATTTTTTAATATTTTTAATTAATA
1 TAATTTTATAAT-TTTATAATT-ATA
*
17870418 TAATTTTATAATTTTATAATTTTA
1 TAATTTTATAATTTTATAATTATA
17870442 TAATTTTA
1 TAATTTTA
17870450 ATTATTATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.34
25 8 0.28
26 11 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TAATTTTATAATTTTATAATTATA
Found at i:17870662 original size:37 final size:37
Alignment explanation
Indices: 17870584--17870655 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
17870574 CCTAAAATAA
17870584 ATTTTATATATAATAATACTAAATAAATATATTTTAG
1 ATTTTATATATAATAATACTAAATAAATATATTTTAG
* *
17870621 ATTTTATTTATAATAATATTAAATAAATATATTTT
1 ATTTTATATATAATAATACTAAATAAATATATTTT
17870656 GCATTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (37 bp):
ATTTTATATATAATAATACTAAATAAATATATTTTAG
Found at i:17883011 original size:32 final size:31
Alignment explanation
Indices: 17882974--17883033 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
17882964 GGATTACTTA
17882974 TAAAAAAATATTA-AAGATATTAAATAATTTTT
1 TAAAAAAATATTATAA-AT-TTAAATAATTTTT
*
17883006 TAAAAAACTATTATAAATTTAAATAATT
1 TAAAAAAATATTATAAATTTAAATAATT
17883034 ATGTTAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 10 0.38
32 14 0.54
33 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (31 bp):
TAAAAAAATATTATAAATTTAAATAATTTTT
Found at i:17886392 original size:21 final size:20
Alignment explanation
Indices: 17886364--17886405 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
17886354 AATGTTAATA
17886364 ATTTAATA-ATAAATATTATT
1 ATTTAATATAT-AATATTATT
*
17886384 ATTTGAATATATAATGTTATT
1 ATTT-AATATATAATATTATT
17886405 A
1 A
17886406 AAATAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 13 0.68
22 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTAATATATAATATTATT
Found at i:17888083 original size:20 final size:21
Alignment explanation
Indices: 17888053--17888091 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17888043 TCTCATGCTT
*
17888053 TTAACTTTTTTCAATACTTTA
1 TTAACTTTTTTCAACACTTTA
17888074 TTAA-TTTTTTCAACACTT
1 TTAACTTTTTTCAACACTT
17888092 GTCTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAACTTTTTTCAACACTTTA
Found at i:17888277 original size:26 final size:26
Alignment explanation
Indices: 17888220--17888281 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
17888210 TGATTTAGAA
* *
17888220 TAATTTAATAAATTTAAATTATTTAT
1 TAATTTTATAAATTTAAATAATTTAT
17888246 TAATTTTATAAATATTAAATAATTTAT
1 TAATTTTATAAAT-TTAAATAATTTAT
*
17888273 TATTTTTAT
1 TAATTTTAT
17888282 TACATATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TAATTTTATAAATTTAAATAATTTAT
Found at i:17891309 original size:64 final size:64
Alignment explanation
Indices: 17891088--17891485 Score: 359
Period size: 64 Copynumber: 6.3 Consensus size: 64
17891078 CAAAAAATTG
* * * * * *
17891088 AATGGGATTATTGAAGGCATTTTTGGTCAAAAATGCCTTTAATAATCCATGTA-AAAATTTTGTT
1 AATGGGATTATTGAAGGTATTTTTGGTCAAAAACGCCTTCAATAATCCCT-TATAAAAATTTATT
* * * * * * **
17891152 GAGGGGATTATTAAAGGT-TTTTTGGTCAAAAATGCATTCAATAATCCCTTAAAAAAATTT-GG
1 AATGGGATTATTGAAGGTATTTTTGGTCAAAAACGCCTTCAATAATCCCTTATAAAAATTTATT
* **
17891214 AAT-GGATTATTGAAGGTATTTTT-GACTAAAAATACCTTCAATAATCCCTTATAAAAATTTATT
1 AATGGGATTATTGAAGGTATTTTTGGTC-AAAAACGCCTTCAATAATCCCTTATAAAAATTTATT
17891277 AATGGGATTATTGAAGGTATTTTTGGTCAAAAACGCCTTCAATAAT-CCTTCATAAAAATTTATT
1 AATGGGATTATTGAAGGTATTTTTGGTCAAAAACGCCTTCAATAATCCCTT-ATAAAAATTTATT
* * *
17891341 GAGAT--GATTATTGAAGGCATTTTTTTTGTAAAAAACGCCTTCAATAATCCCTTATAAAAATTT
1 -A-ATGGGATTATTGAAGG--TATTTTTGGTCAAAAACGCCTTCAATAATCCCTTATAAAAATTT
17891404 ATT
62 ATT
* * ** * ** * * * **
17891407 GA-GGGAATTATTAAAGGCGTCTTTGACCAAAAACACCTTCAATAATCTCTTAAAAAAATTT-GG
1 AATGGG-ATTATTGAAGGTATTTTTGGTCAAAAACGCCTTCAATAATCCCTTATAAAAATTTATT
17891470 AA-GGGATTATTGAAGG
1 AATGGGATTATTGAAGG
17891486 CGTTTTTATC
Statistics
Matches: 278, Mismatches: 41, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
61 15 0.05
62 48 0.17
63 46 0.17
64 110 0.40
65 4 0.01
66 51 0.18
67 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (64 bp):
AATGGGATTATTGAAGGTATTTTTGGTCAAAAACGCCTTCAATAATCCCTTATAAAAATTTATT
Found at i:17891400 original size:130 final size:123
Alignment explanation
Indices: 17891087--17891492 Score: 415
Period size: 130 Copynumber: 3.2 Consensus size: 123
17891077 ACAAAAAATT
* * * * * *
17891087 GAATGGGATTATTGAAGGCA-TTTTTGGTCAAAAATGCCTTTAATAATCCATGTA-AAAATTTTG
1 GAAT-GGATTATTGAAGGCATTTTTTAGT-AAAAAAGCCTTCAATAATCCCT-TATAAAAATTTA
* * *
17891150 TTGAGGGGATTATTAAAGGTTTTTTGGTCAAAAATGCATTCAATAATCCCTTAAAAAAATTTG
63 TTGA-GGGATTATTAAAGGTTTTTTGGTCAAAAACGCCTTCAATAAT-CCTTAAAAAATTTTG
* * *
17891213 GAATGGATTATTGAAGGTATTTTTGACTAAAAATA-CCTTCAATAATCCCTTATAAAAATTTATT
1 GAATGGATTATTGAAGGCATTTTTTAGTAAAAA-AGCCTTCAATAATCCCTTATAAAAATTTATT
* * *
17891277 AATGGGATTATTGAAGGTATTTTTGGTCAAAAACGCCTTCAATAATCCTTCATAAAAATTTATT
65 GA-GGGATTATTAAAGGT-TTTTTGGTCAAAAACGCCTTCAATAATCCTT-A-AAAAATTT-TG
*
17891341 GAGAT-GATTATTGAAGGCATTTTTTTTGTAAAAAACGCCTTCAATAATCCCTTATAAAAATTTA
1 GA-ATGGATTATTGAAGGCA-TTTTTTAGTAAAAAA-GCCTTCAATAATCCCTTATAAAAATTTA
* * ** * *
17891405 TTGAGGGAATTATTAAAGGCGTCTTTGACCAAAAACACCTTCAATAATCTCTTAAAAAAATTTG
63 TTGAGGG-ATTATTAAAGG-TTTTTTGGTCAAAAACGCCTTCAATAATC-CTTAAAAAATTTTG
* *
17891469 GAAGGGATTATTGAAGGCGTTTTT
1 GAATGGATTATTGAAGGCATTTTT
17891493 ATCCATGAAT
Statistics
Matches: 234, Mismatches: 31, Indels: 29
0.80 0.11 0.10
Matches are distributed among these distances:
124 2 0.01
125 60 0.26
126 35 0.15
127 13 0.06
128 33 0.14
129 23 0.10
130 65 0.28
131 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (123 bp):
GAATGGATTATTGAAGGCATTTTTTAGTAAAAAAGCCTTCAATAATCCCTTATAAAAATTTATTG
AGGGATTATTAAAGGTTTTTTGGTCAAAAACGCCTTCAATAATCCTTAAAAAATTTTG
Found at i:17892288 original size:50 final size:51
Alignment explanation
Indices: 17892197--17892301 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 51
17892187 CCAATTGATA
* *
17892197 TAAAACAAATATATAATAATAATATTAAACCAATACCCCAATCTAGAAACT
1 TAAAACAAATATATAACAATAATATTAAACCAATACACCAATCTAGAAACT
* * * *
17892248 TAAAATAAATATATACCAA-AATATTTAACTAATACACCAATCTAGAAACT
1 TAAAACAAATATATAACAATAATATTAAACCAATACACCAATCTAGAAACT
17892298 TAAA
1 TAAA
17892302 TTATCCATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 32 0.67
51 16 0.33
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (51 bp):
TAAAACAAATATATAACAATAATATTAAACCAATACACCAATCTAGAAACT
Found at i:17896677 original size:234 final size:230
Alignment explanation
Indices: 17896186--17896723 Score: 652
Period size: 234 Copynumber: 2.3 Consensus size: 230
17896176 TTTATAAGAG
* * * * * ** *
17896186 ATTATTCAAGGTATTTTCTAGCTAAAAATACCTTCAATAATCCTA-TCATAAAAATTGTAAGGGA
1 ATTATTCAAGGTATTTT-TAGCTAGAAACACCTTCAATAACCCCATTCA-ATATTTTGTAAAGGA
* * * * *
17896250 TTATTAAAGGTGTTTTTTGGGCAAAAATACCTTGAATATTTCAAAAAAAAATGCTAGGATTATTG
64 TTATTCAAGGTATTTTTTGGGCAAAAATACCTTGAATATTCCAAAAAAAAAAGCTAAGATTATTG
* * * * * *
17896315 AAGGTGTTTTTGACATAAAACGCCTTTAATAATCTCTCTCAATGAATAATTCGTGAGTTATAGAA
129 AAGGTGTTTTTGAAAGAAAACGCCTTCAATAATCCCTATCAATGAATAATTAGTGAGTTATAGAA
* * ** *
17896380 GGTGTTTTTGGTCAAAAATACATTGAATAATTTATGA
194 GGTGTTTTTGGCCAAAAAGACATTGAATAATCCATAA
* * * *
17896417 ATTATTAAAGGCATTTTAAACTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAAGGATT
1 ATTATTCAAGGTATTTTTAGCTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAAGGATT
17896482 ATTCAAGGTATTTTTTGGGC-AAAATACCTTGAATATTCCAAAAAAAAAAAAAGCTAAGATTATT
66 ATTCAAGGTATTTTTTGGGCAAAAATACCTTGAATATTCC---AAAAAAAAAAGCTAAGATTATT
* *
17896546 GAAGGCAT-TTTTTGAAAGAAAACGCCTTCAATAATCCCTAATGAATGAATAATTAGTGGGTTAT
128 GAAGG--TGTTTTTGAAAGAAAACGCCTTCAATAATCCCT-ATCAATGAATAATTAGTGAGTTAT
* *
17896610 ATAAGGTGTTTTTGGCCAAAAAGACCTTGAATAATCCATAA
190 AGAAGGTGTTTTTGGCCAAAAAGACATTGAATAATCCATAA
* * *
17896651 ATTATTCAAGATATTTTTAGCTAGAAACACCTTTAATAACCCCATTCAATATTTGGT-AAGAGAT
1 ATTATTCAAGGTATTTTTAGCTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAAG-GAT
17896715 TATTCAAGG
65 TATTCAAGG
17896724 CGTTTTCTAA
Statistics
Matches: 260, Mismatches: 39, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
229 18 0.07
230 52 0.20
231 18 0.07
232 25 0.10
233 30 0.12
234 117 0.45
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (230 bp):
ATTATTCAAGGTATTTTTAGCTAGAAACACCTTCAATAACCCCATTCAATATTTTGTAAAGGATT
ATTCAAGGTATTTTTTGGGCAAAAATACCTTGAATATTCCAAAAAAAAAAGCTAAGATTATTGAA
GGTGTTTTTGAAAGAAAACGCCTTCAATAATCCCTATCAATGAATAATTAGTGAGTTATAGAAGG
TGTTTTTGGCCAAAAAGACATTGAATAATCCATAA
Found at i:17897328 original size:21 final size:21
Alignment explanation
Indices: 17897264--17897329 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
17897254 ATTAAATATA
* *
17897264 ATTTTATTACTAGGGCAAGTC
1 ATTTTATTACTAGGGAAAATC
* * * *
17897285 ATCTTACATT-CTAAGTAATATC
1 AT-TT-TATTACTAGGGAAAATC
17897307 ATTTTATTACTAGGGAAAATC
1 ATTTTATTACTAGGGAAAATC
17897328 AT
1 AT
17897330 CTTGCAATGT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
20 3 0.09
21 15 0.47
22 11 0.34
23 3 0.09
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (21 bp):
ATTTTATTACTAGGGAAAATC
Found at i:17900381 original size:15 final size:15
Alignment explanation
Indices: 17900361--17900396 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
17900351 GGTGTAACTC
*
17900361 TTTATCTATATTTGT
1 TTTATCGATATTTGT
*
17900376 TTTATCGATGTTTGT
1 TTTATCGATATTTGT
17900391 TTTATC
1 TTTATC
17900397 AGACTTGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.64
Consensus pattern (15 bp):
TTTATCGATATTTGT
Found at i:17900567 original size:24 final size:24
Alignment explanation
Indices: 17900527--17900573 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17900517 AAAACATATC
* *
17900527 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
17900550 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
17900574 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:17900852 original size:49 final size:49
Alignment explanation
Indices: 17900796--17900892 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
17900786 AAAATACAAG
* * **
17900796 TCTATACTGATAGATGCTAAACGTTC-GTATAGGTAAAAAAAATTAAAAT
1 TCTATACTGACAAATG-TAAACCATCGGTATAGGTAAAAAAAATTAAAAT
* *
17900845 TCTATACTGACAAATGTTAACCATCGGTATAGGTAAGAAAAATTAAAA
1 TCTATACTGACAAATGTAAACCATCGGTATAGGTAAAAAAAATTAAAA
17900893 CATATAAGTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 6 0.15
49 35 0.85
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.29
Consensus pattern (49 bp):
TCTATACTGACAAATGTAAACCATCGGTATAGGTAAAAAAAATTAAAAT
Found at i:17904432 original size:16 final size:17
Alignment explanation
Indices: 17904411--17904451 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
17904401 GGGGGCATTT
17904411 AATATAAATAATAT-TA
1 AATATAAATAATATATA
17904427 AATATAAA-AATATATA
1 AATATAAATAATATATA
*
17904443 AAAATAAAT
1 AATATAAAT
17904452 TAACTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATATAAATAATATATA
Found at i:17905816 original size:24 final size:25
Alignment explanation
Indices: 17905769--17905843 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
17905759 CACTGTATAG
17905769 ATAAATCAATAAAAATAAATGATAA
1 ATAAATCAATAAAAATAAATGATAA
*
17905794 ATAAATCAATAAAACTAAA-G----
1 ATAAATCAATAAAAATAAATGATAA
*
17905814 ATAAATCAATAGAAATAAATGATAA
1 ATAAATCAATAAAAATAAATGATAA
17905839 ATAAA
1 ATAAA
17905844 AAATTAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
20 17 0.40
21 1 0.02
24 1 0.02
25 23 0.55
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (25 bp):
ATAAATCAATAAAAATAAATGATAA
Found at i:17905819 original size:20 final size:21
Alignment explanation
Indices: 17905768--17905840 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 21
17905758 TCACTGTATA
*
17905768 GATAAATCAATAAAAATAAAT
1 GATAAATCAATAGAAATAAAT
17905789 GATAAATAAATCAATA-AAACTAAA-
1 G----ATAAATCAATAGAAA-TAAAT
17905813 GATAAATCAATAGAAATAAAT
1 GATAAATCAATAGAAATAAAT
17905834 GATAAAT
1 GATAAAT
17905841 AAAAAATTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
20 15 0.33
21 11 0.24
24 4 0.09
25 15 0.33
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
GATAAATCAATAGAAATAAAT
Found at i:17905921 original size:30 final size:31
Alignment explanation
Indices: 17905887--17905944 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
17905877 CGCTAGATAT
17905887 ATATAAAAAGATAAAACCT-AAAATAAATAA
1 ATATAAAAAGATAAAACCTAAAAATAAATAA
* *
17905917 ATATAAAAATATAAAACTTAAAAATAAA
1 ATATAAAAAGATAAAACCTAAAAATAAA
17905945 ATGAGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (31 bp):
ATATAAAAAGATAAAACCTAAAAATAAATAA
Found at i:17906568 original size:54 final size:55
Alignment explanation
Indices: 17906499--17906608 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 55
17906489 TAATTACGTA
* * * *
17906499 TTTGTTATCTAAATTTTGGCAAATGTTCTGTTTCATACCTACATAT-T-AAATGTG
1 TTTGGTATCCAAATTTTGGCAAATATTCAGTTTCATACCTA-ATATATAAAATGTG
*
17906553 TTTGGTATCCAAATTTTGGCAAATATTCAGTTTGATACCTAATATATAAAATGTG
1 TTTGGTATCCAAATTTTGGCAAATATTCAGTTTCATACCTAATATATAAAATGTG
17906608 T
1 T
17906609 AACACGATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 4 0.08
54 37 0.76
55 8 0.16
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (55 bp):
TTTGGTATCCAAATTTTGGCAAATATTCAGTTTCATACCTAATATATAAAATGTG
Found at i:17907043 original size:31 final size:31
Alignment explanation
Indices: 17906985--17907053 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
17906975 TATTTTTTAA
* *
17906985 AATTTA-TTTATTAATAAAGTGTCATCATTT
1 AATTTATTTTATTAATAAAGTATCATCATTC
* *
17907015 GATTTATTTTATTAATGAAATTAT-ATCATTC
1 AATTTATTTTATTAAT-AAAGTATCATCATTC
17907046 AATTTATT
1 AATTTATT
17907054 GTATAGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 5 0.16
31 22 0.69
32 5 0.16
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
AATTTATTTTATTAATAAAGTATCATCATTC
Found at i:17907590 original size:27 final size:27
Alignment explanation
Indices: 17907530--17907603 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
17907520 TGGTATAGAA
* * * * *
17907530 TAATTTAATAAATTTTAAATTATTTGT
1 TAATTTTATAAATATTAAATAAGTTAT
17907557 TAATTTTATAAATATTAAATAAGTTAT
1 TAATTTTATAAATATTAAATAAGTTAT
17907584 T-ATTTT-TAATATATATAAAT
1 TAATTTTATAA-ATAT-TAAAT
17907604 TTTAATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.08
26 9 0.22
27 28 0.70
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
TAATTTTATAAATATTAAATAAGTTAT
Found at i:17910812 original size:19 final size:18
Alignment explanation
Indices: 17910790--17910833 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
17910780 TAATAAATTT
**
17910790 TTTATTTAAATTTTATATA
1 TTTATTTAAAAATTA-ATA
17910809 TTTATTTTAAAAATTAATA
1 TTTA-TTTAAAAATTAATA
17910828 TTTATT
1 TTTATT
17910834 CATTAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.50
20 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTTAAAAATTAATA
Found at i:17910860 original size:22 final size:23
Alignment explanation
Indices: 17910818--17910862 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
17910808 ATTTATTTTA
*
17910818 AAAATTAATATTTATTCATTAAT
1 AAAATTAATATTTATTAATTAAT
17910841 AAAA-TAATA-TTATCTAATTAAT
1 AAAATTAATATTTAT-TAATTAAT
17910863 TTTCTGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATTAATATTTATTAATTAAT
Found at i:17913790 original size:41 final size:41
Alignment explanation
Indices: 17913735--17913816 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
17913725 AATCAAACCG
*
17913735 TGTCCTTATTATTAAGAAAAATGGACTGCAGTCAAACTATT
1 TGTCCTTATTATTAAGAAAAATGGACTGCAATCAAACTATT
* *
17913776 TGTCC-TATTAATTAAGAAGAATGGACTGCAATCGAACTATT
1 TGTCCTTATT-ATTAAGAAAAATGGACTGCAATCAAACTATT
17913817 AACAAAATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 4 0.11
41 33 0.89
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (41 bp):
TGTCCTTATTATTAAGAAAAATGGACTGCAATCAAACTATT
Found at i:17915164 original size:107 final size:103
Alignment explanation
Indices: 17914968--17915214 Score: 268
Period size: 107 Copynumber: 2.4 Consensus size: 103
17914958 TTGAGATTTG
* * *
17914968 AATCCTCCAATCATTTTG-TAGGAT-TAAAAATAATTTATTTATTTCTTAAAATTCATTATGAAA
1 AATCCTCCAATCA-TTTGATAGGATAAAAAAATATTTTATTTATTTCTAAAAATTCATTATGAAA
** * *
17915031 TTCTCCAATTGTTTAATAGAATTCATAATTTAAGGAAAAAATCAA
65 TTCTCCAATCATTTAATAAAAATCATAATTT------AAAATCAA
* *
17915076 AATCCTCTAATCATTTGATAGGATAAAAAAATATTTTATTT-TTTC-AAAAATTTATTATGAAAT
1 AATCCTCCAATCATTTGATAGGATAAAAAAATATTTTATTTATTTCTAAAAATTCATTATGAAAT
* ** *
17915139 TCTCTAATCATTTGGTAAAAATCATAATTTAAAATTAA
66 TCTCCAATCATTTAATAAAAATCATAATTTAAAATCAA
*
17915177 AATCTTCCAATCATTTGATAGGATTAAAAAAATATTTT
1 AATCCTCCAATCATTTGATAGGA-TAAAAAAATATTTT
17915215 TGAAAACATT
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
101 28 0.23
102 14 0.12
107 43 0.36
108 22 0.18
109 14 0.12
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (103 bp):
AATCCTCCAATCATTTGATAGGATAAAAAAATATTTTATTTATTTCTAAAAATTCATTATGAAAT
TCTCCAATCATTTAATAAAAATCATAATTTAAAATCAA
Found at i:17915518 original size:21 final size:21
Alignment explanation
Indices: 17915494--17915543 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
17915484 AATCAATTAT
17915494 AAAATGAA-ATAAAACAAA-CAA
1 AAAAT-AAGATAAAA-AAACCAA
17915515 AAAATAAGATAAAAAAACCAA
1 AAAATAAGATAAAAAAACCAA
17915536 AAAATAAG
1 AAAATAAG
17915544 GCTTGGCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.76, C:0.08, G:0.06, T:0.10
Consensus pattern (21 bp):
AAAATAAGATAAAAAAACCAA
Found at i:17916621 original size:15 final size:14
Alignment explanation
Indices: 17916598--17916650 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
17916588 AGATAAAACC
*
17916598 TAAAAA-AAATAAA
1 TAAAAATAAAAAAA
**
17916611 TAAAAATAAAAATT
1 TAAAAATAAAAAAA
*
17916625 TAAAAATATAAAACA
1 TAAAAATA-AAAAAA
17916640 TAAAAATAAAA
1 TAAAAATAAAA
17916651 TGGGTAATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 6 0.18
14 15 0.45
15 12 0.36
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:17916701 original size:15 final size:15
Alignment explanation
Indices: 17916677--17916706 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17916667 AATAAATTTA
*
17916677 AGCCCGATTGGTTTG
1 AGCCCAATTGGTTTG
17916692 AGCCCAATTGGTTTG
1 AGCCCAATTGGTTTG
17916707 GTTCAAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (15 bp):
AGCCCAATTGGTTTG
Found at i:17918099 original size:14 final size:14
Alignment explanation
Indices: 17918072--17918105 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17918062 TTTTTTTTCC
* *
17918072 TTTTTCTTTCTCTT
1 TTTTTTTTTATCTT
17918086 TTTTTTTTTATCTT
1 TTTTTTTTTATCTT
17918100 TTTTTT
1 TTTTTT
17918106 AAATGTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTATCTT
Found at i:17926281 original size:20 final size:21
Alignment explanation
Indices: 17926247--17926312 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
17926237 GGCTCCTTTC
*
17926247 AGCTTTAATTTTTTTTTTGTA
1 AGCTTCAATTTTTTTTTTGTA
17926268 AGCTTCAATTTTTTTTTTGTA
1 AGCTTCAATTTTTTTTTTGTA
17926289 AGCTTCAA-TTTTTTTTTGTA
1 AGCTTCAATTTTTTTTTTGTA
17926309 AGCT
1 AGCT
17926313 CCAACTCCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.61
Consensus pattern (21 bp):
AGCTTCAATTTTTTTTTTGTA
Found at i:17930413 original size:20 final size:21
Alignment explanation
Indices: 17930388--17930426 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17930378 ATTTGATAAT
*
17930388 ATAAAACTAAA-GATAAATCA
1 ATAAAAATAAATGATAAATCA
17930408 ATAAAAATAAATGATAAAT
1 ATAAAAATAAATGATAAAT
17930427 AAAAACTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAAAAATAAATGATAAATCA
Found at i:17931218 original size:31 final size:32
Alignment explanation
Indices: 17931180--17931239 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
17931170 ATGTGTTTGG
*
17931180 TTAATGAGGT-GTCATCA-TTTAATTTATTTTA
1 TTAATGAGATGGT-ATCATTTTAATTTATTTTA
17931211 TTAATGAGATGGTATCATTTTAATTTATT
1 TTAATGAGATGGTATCATTTTAATTTATT
17931240 ATATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (32 bp):
TTAATGAGATGGTATCATTTTAATTTATTTTA
Found at i:17931732 original size:16 final size:16
Alignment explanation
Indices: 17931711--17931741 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17931701 TTCTCTCAAA
17931711 ATTATAATTATTTTAT
1 ATTATAATTATTTTAT
*
17931727 ATTATAATTTTTTTA
1 ATTATAATTATTTTA
17931742 ATTTTCAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATAATTATTTTAT
Found at i:17932506 original size:84 final size:84
Alignment explanation
Indices: 17932365--17932530 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 84
17932355 CCCAACCTCA
* ** * *
17932365 TGACGCCCTCATCACGGAGGCTGACCACCTTGCCTACCTCTTTCGAGATGCTTGGCATTGATCGA
1 TGACGCCCTCATCACGGAGGCTGACCACCCTGCCTACCTCCCTCAAGATGCTTGGCATGGATCGA
17932430 ACAGTTTAGGGCTGGCTCG
66 ACAGTTTAGGGCTGGCTCG
*
17932449 TGACGCCCTCATCACGGAGGCT-AGCCACCCTGCCTACCTCCCTCAAGATGTTTGGCATGGATCG
1 TGACGCCCTCATCACGGAGGCTGA-CCACCCTGCCTACCTCCCTCAAGATGCTTGGCATGGATCG
17932513 AACAGTTTAGGGCTGGCT
65 AACAGTTTAGGGCTGGCT
17932531 TTGATACCAC
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
83 1 0.01
84 74 0.99
ACGTcount: A:0.19, C:0.31, G:0.26, T:0.25
Consensus pattern (84 bp):
TGACGCCCTCATCACGGAGGCTGACCACCCTGCCTACCTCCCTCAAGATGCTTGGCATGGATCGA
ACAGTTTAGGGCTGGCTCG
Found at i:17933385 original size:15 final size:15
Alignment explanation
Indices: 17933367--17933400 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17933357 TCCCACCTGT
17933367 TTTCATCCATTTAAC
1 TTTCATCCATTTAAC
* *
17933382 TTTCATCTATTTAGC
1 TTTCATCCATTTAAC
17933397 TTTC
1 TTTC
17933401 TTCTTTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTCATCCATTTAAC
Found at i:17933759 original size:17 final size:17
Alignment explanation
Indices: 17933689--17933921 Score: 182
Period size: 17 Copynumber: 13.8 Consensus size: 17
17933679 CTGTTGCAAC
**
17933689 TTGCAAACCATGTTTTG
1 TTGCAAACCATGTGCTG
* *
17933706 TTACAAACCATGTGTTG
1 TTGCAAACCATGTGCTG
* *
17933723 TTTTCGAAACCATGTTCTG
1 -TTGC-AAACCATGTGCTG
17933742 TTGCAAACCATGTGCTG
1 TTGCAAACCATGTGCTG
17933759 -T---AACCATGTGCTG
1 TTGCAAACCATGTGCTG
* *
17933772 TTTTCGAAACCATGTTCTG
1 -TTGC-AAACCATGTGCTG
*
17933791 TTG----CCATGTGCTAT
1 TTGCAAACCATGTGCT-G
* *
17933805 TTTCGAAACCATGTTCTG
1 TTGC-AAACCATGTGCTG
17933823 TTGCAAACCATGTGCTG
1 TTGCAAACCATGTGCTG
* *
17933840 TTTTCGAAACCATGTTCTG
1 -TTGC-AAACCATGTGCTG
17933859 TTGCAAACCATGTGCTG
1 TTGCAAACCATGTGCTG
*
17933876 TTTG-AAACCATGTTCTG
1 -TTGCAAACCATGTGCTG
17933893 TTGCAAACCATGTGC--
1 TTGCAAACCATGTGCTG
17933908 TTGCAAACCATGTG
1 TTGCAAACCATGTG
17933922 AGGGGTTTTG
Statistics
Matches: 176, Mismatches: 22, Indels: 38
0.75 0.09 0.16
Matches are distributed among these distances:
13 20 0.11
14 2 0.01
15 15 0.09
16 4 0.02
17 73 0.41
18 20 0.11
19 42 0.24
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (17 bp):
TTGCAAACCATGTGCTG
Found at i:17933765 original size:13 final size:13
Alignment explanation
Indices: 17933747--17933772 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17933737 TTCTGTTGCA
17933747 AACCATGTGCTGT
1 AACCATGTGCTGT
17933760 AACCATGTGCTGT
1 AACCATGTGCTGT
17933773 TTTCGAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
AACCATGTGCTGT
Found at i:17933832 original size:68 final size:67
Alignment explanation
Indices: 17933760--17933908 Score: 237
Period size: 68 Copynumber: 2.2 Consensus size: 67
17933750 CATGTGCTGT
*
17933760 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTG-CCATGTGCTATTTTCGAAACCATGTTCTGT
1 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGACCATGTGCT-GTTT-GAAACCATGTTCTGT
17933824 TGCA
64 TGCA
17933828 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCTGTTTGAAACCATGTTCTG
1 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTG---ACCATGTGCTGTTTGAAACCATGTTCTG
17933893 TTGCA
63 TTGCA
17933898 AACCATGTGCT
1 AACCATGTGCT
17933909 TGCAAACCAT
Statistics
Matches: 76, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
68 34 0.45
70 30 0.39
71 3 0.04
72 9 0.12
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (67 bp):
AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGACCATGTGCTGTTTGAAACCATGTTCTGTTG
CA
Found at i:17933844 original size:36 final size:36
Alignment explanation
Indices: 17933760--17933908 Score: 247
Period size: 36 Copynumber: 4.3 Consensus size: 36
17933750 CATGTGCTGT
17933760 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTG--
1 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGCA
*
17933794 --CCATGTGCTATTTTCGAAACCATGTTCTGTTGCA
1 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGCA
17933828 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGCA
1 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGCA
17933864 AACCATGTGCTG-TTT-GAAACCATGTTCTGTTGCA
1 AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGCA
17933898 AACCATGTGCT
1 AACCATGTGCT
17933909 TGCAAACCAT
Statistics
Matches: 109, Mismatches: 2, Indels: 8
0.92 0.02 0.07
Matches are distributed among these distances:
32 31 0.28
34 30 0.28
35 3 0.03
36 45 0.41
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (36 bp):
AACCATGTGCTGTTTTCGAAACCATGTTCTGTTGCA
Found at i:17938372 original size:21 final size:21
Alignment explanation
Indices: 17938338--17938462 Score: 160
Period size: 21 Copynumber: 6.0 Consensus size: 21
17938328 GACAACATTT
*
17938338 TTTGAGTTGAAAGCTGTTGTG
1 TTTGAATTGAAAGCTGTTGTG
* ** *
17938359 ATTGAGCTGGAAGCTGTTGTG
1 TTTGAATTGAAAGCTGTTGTG
*
17938380 TTTGAATTGGAAGCTGTTGTG
1 TTTGAATTGAAAGCTGTTGTG
* *
17938401 TTTGAACTGAAAGCTGTTTTG
1 TTTGAATTGAAAGCTGTTGTG
*
17938422 TTTGAATTGAAAGCTGTTATG
1 TTTGAATTGAAAGCTGTTGTG
*
17938443 TTTGAATTGGAAGCTGTTGT
1 TTTGAATTGAAAGCTGTTGT
17938463 TGTGTTTGAA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 91 1.00
ACGTcount: A:0.22, C:0.06, G:0.30, T:0.42
Consensus pattern (21 bp):
TTTGAATTGAAAGCTGTTGTG
Found at i:17938397 original size:42 final size:42
Alignment explanation
Indices: 17938338--17938462 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 42
17938328 GACAACATTT
* * *
17938338 TTTGAGTTGAAAGCTGTTGTGATTGAGCTGGAAGCTGTTGTG
1 TTTGAATTGAAAGCTGTTGTGTTTGAACTGGAAGCTGTTGTG
* * *
17938380 TTTGAATTGGAAGCTGTTGTGTTTGAACTGAAAGCTGTTTTG
1 TTTGAATTGAAAGCTGTTGTGTTTGAACTGGAAGCTGTTGTG
* *
17938422 TTTGAATTGAAAGCTGTTATGTTTGAATTGGAAGCTGTTGT
1 TTTGAATTGAAAGCTGTTGTGTTTGAACTGGAAGCTGTTGT
17938463 TGTGTTTGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.22, C:0.06, G:0.30, T:0.42
Consensus pattern (42 bp):
TTTGAATTGAAAGCTGTTGTGTTTGAACTGGAAGCTGTTGTG
Found at i:17938511 original size:52 final size:53
Alignment explanation
Indices: 17938432--17938570 Score: 208
Period size: 52 Copynumber: 2.6 Consensus size: 53
17938422 TTTGAATTGA
* *
17938432 AAGCTGTTATGTTTGAATTGGAAGCTGTTGTTGTGTTTGAACTGGAAAACTGG
1 AAGCTGTTATGTTTGAACTAGAAGCTGTTGTTGTGTTTGAACTGGAAAACTGG
17938485 AAGCTGTTATG-TTGAACTAGAAGCTGTTGTTGTGTTTGAACTGGAAAACTGG
1 AAGCTGTTATGTTTGAACTAGAAGCTGTTGTTGTGTTTGAACTGGAAAACTGG
* *
17938537 AAGCTGTTATTGTGTTTGAACTGGAAGCTATTGT
1 AAGCTGTTA---TGTTTGAACTAGAAGCTGTTGT
17938571 GTTTGAACTG
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
52 48 0.62
53 11 0.14
55 2 0.03
56 17 0.22
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.37
Consensus pattern (53 bp):
AAGCTGTTATGTTTGAACTAGAAGCTGTTGTTGTGTTTGAACTGGAAAACTGG
Found at i:17938540 original size:32 final size:32
Alignment explanation
Indices: 17938499--17938562 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
17938489 TGTTATGTTG
*
17938499 AACTAGAAGCTGTTGTTGTGTTTGAACTGGAA
1 AACTAGAAGCTGTTATTGTGTTTGAACTGGAA
*
17938531 AACTGGAAGCTGTTATTGTGTTTGAACTGGAA
1 AACTAGAAGCTGTTATTGTGTTTGAACTGGAA
17938563 GCTATTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.34
Consensus pattern (32 bp):
AACTAGAAGCTGTTATTGTGTTTGAACTGGAA
Found at i:17938558 original size:24 final size:24
Alignment explanation
Indices: 17938531--17938589 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 24
17938521 TGAACTGGAA
17938531 AACTGGAAGCTGTTATTGTGTTTG
1 AACTGGAAGCTGTTATTGTGTTTG
17938555 AACTGGAAGC---TATTGTGTTTG
1 AACTGGAAGCTGTTATTGTGTTTG
* *
17938576 AACTGAAAGTTGTT
1 AACTGGAAGCTGTT
17938590 GTGAGGTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.63
24 11 0.37
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.39
Consensus pattern (24 bp):
AACTGGAAGCTGTTATTGTGTTTG
Found at i:17940221 original size:21 final size:21
Alignment explanation
Indices: 17940197--17940236 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17940187 TACCAAATAC
* *
17940197 ATTTTTTAGAAAATAAAAACT
1 ATTTTCTAAAAAATAAAAACT
17940218 ATTTTCTAAAAAATAAAAA
1 ATTTTCTAAAAAATAAAAA
17940237 TAAAAGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTTTCTAAAAAATAAAAACT
Found at i:17941199 original size:23 final size:24
Alignment explanation
Indices: 17941170--17941223 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
17941160 CAATTTTATC
*
17941170 TTGTATT-TTTTTTATT-TTATGTA
1 TTGTATTATTTATTATTATTAT-TA
17941193 TTGTATTATTTATTATTATTATTA
1 TTGTATTATTTATTATTATTATTA
17941217 -TGTATTA
1 TTGTATTA
17941224 ATATATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 14 0.50
24 10 0.36
25 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (24 bp):
TTGTATTATTTATTATTATTATTA
Found at i:17941215 original size:16 final size:19
Alignment explanation
Indices: 17941194--17941242 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
17941184 TTTTATGTAT
17941194 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
17941211 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
17941229 TGTATATATTTATT
1 TGTAT-TATTTATT
17941243 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:17942470 original size:59 final size:58
Alignment explanation
Indices: 17942394--17942867 Score: 557
Period size: 57 Copynumber: 7.9 Consensus size: 58
17942384 TAAAAATAAA
17942394 AAATTTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCC-AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
17942454 AAATTTCC-AAAAAATATTTTTGGGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAGAAAAAT
1 AAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAAT
17942516 AAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCC---AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
17942577 AAAATTCC-AAAAACTATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCCAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* ***
17942634 AAATTTTCAAAAAAGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAATTTCCAAAAAA-ATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
* *
17942693 CGAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 --AAATTTCC-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* * *
17942754 AAATTTTCAAAAAAAAAGGGTGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAATTTCCAAAAAAATA---T-TTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
17942817 CGAAATTTCC-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 --AAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
17942868 CTACAAAAAA
Statistics
Matches: 364, Mismatches: 23, Indels: 55
0.82 0.05 0.12
Matches are distributed among these distances:
56 3 0.01
57 86 0.24
58 19 0.05
59 69 0.19
60 17 0.05
61 57 0.16
62 24 0.07
63 34 0.09
64 7 0.02
65 7 0.02
66 41 0.11
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (58 bp):
AAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:17942550 original size:123 final size:121
Alignment explanation
Indices: 17942394--17942881 Score: 622
Period size: 123 Copynumber: 4.0 Consensus size: 121
17942384 TAAAAATAAA
*
17942394 AAATTTCC-AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AA
1 AAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAA
*
17942456 ATTTCCAAAAAATATTTTTGGGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAGAAAAAT
65 ATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AGAAAAAT
17942516 AAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AA
1 AAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAA
* * *
17942579 AATTCCAAAAACTATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAG--AAAT
65 ATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAAT
* **** *
17942634 AAATTTTCAAAAAAGGGGT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAA
1 AAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AA
17942697 ATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAAAAT
65 ATTTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAAT
* * *
17942754 AAATTTTCAAAAAAAAAGGGTGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
1 AAATTTCCAAAAAAAAA--ATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC
* * * *
17942818 GAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCCTACAAAAAA
63 -AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAAT
17942878 AAAT
1 AAAT
17942882 CATTCTTTCA
Statistics
Matches: 330, Mismatches: 21, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
116 32 0.10
117 6 0.02
118 25 0.08
120 61 0.18
122 51 0.15
123 102 0.31
124 53 0.16
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (121 bp):
AAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAA
TTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAAT
Found at i:17948107 original size:42 final size:41
Alignment explanation
Indices: 17947986--17948930 Score: 1338
Period size: 42 Copynumber: 23.0 Consensus size: 41
17947976 GTCTAGGAGT
17947986 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
17948026 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948066 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948108 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
17948150 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948190 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
17948232 ATTTACTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
17948273 ATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
17948314 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948356 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948396 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
17948437 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948477 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948519 ATTTACTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGAAGCA
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
*
17948560 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948602 ATTTATTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
*
17948643 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948685 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948725 ATTTACTTTTCAAAGTTCCGT--TGCCTCGGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCA
*
17948766 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTAAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
17948807 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
17948849 ATATACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
17948890 ATTTACTTTTTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGC
1 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
17948931 TTTGGTAAAA
Statistics
Matches: 834, Mismatches: 35, Indels: 70
0.89 0.04 0.07
Matches are distributed among these distances:
39 10 0.01
40 200 0.24
41 288 0.35
42 327 0.39
43 9 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:17948329 original size:83 final size:80
Alignment explanation
Indices: 17947986--17948930 Score: 1318
Period size: 83 Copynumber: 11.5 Consensus size: 80
17947976 GTCTAGGAGT
*
17947986 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
1 ATTTACTTTTCAAAG-TCGTGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
17948050 TCTGTTTAGAGGAGCA
65 TCTGTTTAGAGGAGCA
17948066 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGG
1 ATTTACTTTT-CAAAGTCGT-GTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--
*
17948130 TACCTCTGTTTAGAGGAGCA
61 TGCCTCTGTTTAGAGGAGCA
*
17948150 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGGT
1 ATTTACTTTTCAAAG-TCGTGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--T
*
17948213 ACCTCTGTTTAGAGGAGCA
62 GCCTCTGTTTAGAGGAGCA
*
17948232 ATTTACTTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAG-TCGTGG
1 ATTTACTTTTCAAAG-T-CGTGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--
17948294 TGCCTCTGTTTAGAGGAGCA
61 TGCCTCTGTTTAGAGGAGCA
* *
17948314 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGC
1 ATTTACTTTT-CAAAGTCGT-GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
17948379 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
17948396 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
1 ATTTACTTTTCAAAGTCGT-GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
17948461 TCTGTTTAGAGGAGCA
65 TCTGTTTAGAGGAGCA
17948477 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCCGTTG
1 ATTTACTTTT-CAAAGTCGT-GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT-CGTTG
*
17948542 CCTCTGTTTAGAGAAGCA
63 CCTCTGTTTAGAGGAGCA
*
17948560 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCCGTTG
1 ATTTACTTTT-CAAAGTCGT-GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT-CGTTG
17948625 CCTCTGTTTAGAGGAGCA
63 CCTCTGTTTAGAGGAGCA
17948643 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
1 ATTTACTTTT-CAAAGTCGT-GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
*
17948708 CTCTGTTGAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
* *
17948725 ATTTACTTTTCAAAGTTCCGT-TGCCTCGGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGT
1 ATTTACTTTTCAAAG-T-CGTGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--T
*
17948788 GCCTCTGTTAAGAGGAGCA
62 GCCTCTGTTTAGAGGAGCA
* * * *
17948807 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATATACTTTTCAAAG-TCGTGGT
1 ATTTA-CTTTTCAAAGTCGT-GTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--T
17948871 GCCTCTGTTTAGAGGAGCA
62 GCCTCTGTTTAGAGGAGCA
*
17948890 ATTTACTTTTTCAAAGTCGT-TGAGCCTCTGCTTAGAGGAGC
1 ATTTAC-TTTTCAAAGTCGTGT-A-CCTCTGTTTAGAGGAGC
17948931 TTTGGTAAAA
Statistics
Matches: 814, Mismatches: 26, Indels: 47
0.92 0.03 0.05
Matches are distributed among these distances:
80 18 0.02
81 130 0.16
82 291 0.36
83 334 0.41
84 41 0.05
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (80 bp):
ATTTACTTTTCAAAGTCGTGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
CTGTTTAGAGGAGCA
Found at i:17948362 original size:206 final size:204
Alignment explanation
Indices: 17947986--17948930 Score: 1373
Period size: 206 Copynumber: 4.6 Consensus size: 204
17947976 GTCTAGGAGT
17947986 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
*
17948049 CTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
65 CTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC
17948114 TTTTCCAAAG-T-CGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT-TGCCTC
130 TTTT-CAAAGTTCCGT--TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGTGCCTC
17948176 TGTTTAGAGGAGCA
191 TGTTTAGAGGAGCA
*
17948190 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCCGTTG
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTT-CGTTG
17948255 CCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
64 CCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA
* *
17948319 TTTTTCCAAAG-T-CGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGT-TGCCT
129 CTTTT-CAAAGTTCCGT--TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGTGCCT
17948381 CTGTTTAGAGGAGCA
190 CTGTTTAGAGGAGCA
*
17948396 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
*
17948461 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACT
66 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
* * *
17948526 TTTCAAAGTTCCGTTGCCTCTGTTTAGAGAAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGT
131 TTTCAAAGTTCCGTTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGT-GTGCCTCTGT
17948591 TTAGAGGAGCA
194 TTAGAGGAGCA
*
17948602 ATTTATTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTG
1 ATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT-
* *
17948664 GTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTGAGAGGAGCAA
62 -TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAA
* *
17948726 TTTACTTTTCAAAGTTCCGTTGCCTCGGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
125 TTTACTTTTCAAAGTTCCGTTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCC
*
17948791 TCTGTTAAGAGGAGCA
189 TCTGTTTAGAGGAGCA
* * *
17948807 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATATACTTTTCAAAG-TCGTGGT
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--T
* * * *
17948871 GCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGC
63 GCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
17948931 TTTGGTAAAA
Statistics
Matches: 694, Mismatches: 25, Indels: 41
0.91 0.03 0.05
Matches are distributed among these distances:
204 82 0.12
205 181 0.26
206 340 0.49
207 55 0.08
208 36 0.05
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (204 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT
TTTCAAAGTTCCGTTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTT
AGAGGAGCA
Found at i:17948955 original size:9 final size:9
Alignment explanation
Indices: 17948937--17948998 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
17948927 GAGCTTTGGT
17948937 AAAAAA-AA
1 AAAAAACAA
17948945 AAAAAAC-A
1 AAAAAACAA
17948953 AAAAAAC--
1 AAAAAACAA
17948960 AAAAAAC--
1 AAAAAACAA
17948967 AAAAAACAA
1 AAAAAACAA
17948976 AAAAAACAA
1 AAAAAACAA
*
17948985 AAAAACCAA
1 AAAAAACAA
17948994 AAAAA
1 AAAAA
17948999 TGTTGAGTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
7 14 0.28
8 14 0.28
9 22 0.44
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAA
Found at i:17948978 original size:31 final size:31
Alignment explanation
Indices: 17948938--17948997 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
17948928 AGCTTTGGTA
17948938 AAAAAAAAAAAAACAAAAAAA-CAAAAAACA
1 AAAAAAAAAAAAACAAAAAAACCAAAAAACA
17948968 AAAAACAAAAAAAACAAAAAAACCAAAAAA
1 AAAAA-AAAAAAAACAAAAAAACCAAAAAA
17948998 ATGTTGAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 5 0.18
31 16 0.57
32 7 0.25
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAAAAACAAAAAAACCAAAAAACA
Found at i:17948990 original size:8 final size:8
Alignment explanation
Indices: 17948937--17948998 Score: 85
Period size: 7 Copynumber: 7.9 Consensus size: 8
17948927 GAGCTTTGGT
17948937 AAAAAAA-
1 AAAAAAAC
17948944 AAAAAAAC
1 AAAAAAAC
17948952 AAAAAAAC
1 AAAAAAAC
17948960 -AAAAAAC
1 AAAAAAAC
17948967 -AAAAAAC
1 AAAAAAAC
17948974 AAAAAAAAC
1 -AAAAAAAC
17948983 AAAAAAACC
1 AAAAAAA-C
17948992 AAAAAAA
1 AAAAAAA
17948999 TGTTGAGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
7 21 0.41
8 15 0.29
9 15 0.29
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:17948998 original size:1 final size:1
Alignment explanation
Indices: 17948937--17948989 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
17948927 GAGCTTTGGT
* * * * *
17948937 AAAAAAAAAAAAAACAAAAAAACAAAAAACAAAAAACAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17948990 CCAAAAAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:17949180 original size:23 final size:24
Alignment explanation
Indices: 17949151--17949204 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
17949141 CAATTTTATC
*
17949151 TTGTATT-TTTTTTATT-TTATGTA
1 TTGTATTATTTATTATTATTAT-TA
17949174 TTGTATTATTTATTATTATTATTA
1 TTGTATTATTTATTATTATTATTA
17949198 -TGTATTA
1 TTGTATTA
17949205 ATATATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 14 0.50
24 10 0.36
25 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (24 bp):
TTGTATTATTTATTATTATTATTA
Found at i:17949196 original size:16 final size:19
Alignment explanation
Indices: 17949175--17949223 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
17949165 TTTTATGTAT
17949175 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
17949192 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
17949210 TGTATATATTTATT
1 TGTAT-TATTTATT
17949224 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:17950515 original size:123 final size:119
Alignment explanation
Indices: 17950374--17950851 Score: 625
Period size: 123 Copynumber: 4.0 Consensus size: 119
17950364 AAATAAAAAT
17950374 AAAA-AAATTTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAA
1 AAAATAAATTTCCAAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AA
*
17950437 AT-AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAG
64 ATCAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG
17950495 AAAAATAAATTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGA
1 -AAAATAAATTTCC-AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-A
* *
17950559 AAT-AAAATTCCAAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
63 AATCAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
* ****
17950615 -AAATAAATTTTC-AAAAAAGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
1 AAAATAAATTTCCAAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
17950677 TCGAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
65 TC-AAATTTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
* ***
17950735 -AAATAAATTTTCAAAAAAAAAGGGGGTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
1 AAAATAAATTTCCAAAAAAAAA--TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAA
*
17950798 AATCGAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
63 AATC-AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
17950852 CTACAAAAAA
Statistics
Matches: 331, Mismatches: 14, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
115 1 0.00
116 43 0.13
117 1 0.00
118 18 0.05
120 58 0.18
121 46 0.14
122 4 0.01
123 152 0.46
124 8 0.02
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.33
Consensus pattern (119 bp):
AAAATAAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
CAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
Found at i:17950790 original size:182 final size:176
Alignment explanation
Indices: 17950405--17950865 Score: 599
Period size: 182 Copynumber: 2.6 Consensus size: 176
17950395 ATATTTTTAG
*
17950405 GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTTTGGGGAAAAGT
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTTTGAGGAAAAGT
*
17950470 TGAGAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAAAATATTTTTAGGGAAAAG
66 TGAAAGTATCAATTTTCCTT---AGAAAAATAAATTTCC-AAAAAAAAATATTTTTAGGGAAAAG
* ** * *
17950535 TTGAAAGTATCAATTTTCCTTAGAAATAAAATTCCAAAAACTATTTTTGG
127 TTGAAAGTATCAATTTTCCTTAGAAATAAAATTCAAAAAAAAAGTTTTGA
* **
17950585 GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAGGGGTTTTTGAGGAAAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA--TATTTTTGAGGAAAA
*
17950650 GTTGAAAGTATCAATTTTCCTT-G-AAAATCGAAATTTCC-AAAAAAAATATTTTTGGGGAAAAG
64 GTTGAAAGTATCAATTTTCCTTAGAAAAAT--AAATTTCCAAAAAAAAATATTTTTAGGGAAAAG
*
17950712 TTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAAAGGGGGTTTTGA
127 TTGAAAGTATCAATTTTCCTTAGAAATAAA-ATTCAAAAAAAAA----GTTTTGA
17950767 GGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCAAAAAATATTTTT-AGGGAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCCAAAAAATATTTTTGA-GGAA
* * *
17950830 AAGTTGAAAGTATCAATTTTCCCTACAAAAAAAAAT
62 AAGTTGAAAGTATCAATTTTCCTTAGAAAAATAAAT
17950866 CATTCTTTCA
Statistics
Matches: 248, Mismatches: 18, Indels: 28
0.84 0.06 0.10
Matches are distributed among these distances:
177 58 0.23
178 10 0.04
179 8 0.03
180 47 0.19
181 2 0.01
182 106 0.43
184 17 0.07
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (176 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTTTGAGGAAAAGT
TGAAAGTATCAATTTTCCTTAGAAAAATAAATTTCCAAAAAAAAATATTTTTAGGGAAAAGTTGA
AAGTATCAATTTTCCTTAGAAATAAAATTCAAAAAAAAAGTTTTGA
Found at i:17952589 original size:29 final size:27
Alignment explanation
Indices: 17952549--17952603 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
17952539 TCAATTTTCA
* *
17952549 CAACAACATTAAAAAATTTTAAAAATT
1 CAACAACATTAAAAAAATCTAAAAATT
17952576 CAACAACAATTTAAAAAAATCTAAAAAT
1 CAACAAC-A-TTAAAAAAATCTAAAAAT
17952604 CTGAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.29
28 1 0.04
29 16 0.67
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (27 bp):
CAACAACATTAAAAAAATCTAAAAATT
Found at i:17952820 original size:45 final size:45
Alignment explanation
Indices: 17952748--17952833 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 45
17952738 AATGAAATTT
*
17952748 TTTTGAAAATTTTTAAATAATTCT-AAAAATTAAAAAATTAAAAAA
1 TTTTGAAAATTTTTAAATAATTATAAAAAATT-AAAAATTAAAAAA
17952793 TTTTGAAAATTTTTGAAAGT-A-TATAAAAAATTAAAAATTAA
1 TTTTGAAAATTTTT-AAA-TAATTATAAAAAATTAAAAATTAA
17952834 TTACAAATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
45 25 0.68
46 11 0.30
47 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (45 bp):
TTTTGAAAATTTTTAAATAATTATAAAAAATTAAAAATTAAAAAA
Found at i:17952918 original size:21 final size:20
Alignment explanation
Indices: 17952894--17952948 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
17952884 ACATTTATTA
*
17952894 AAAATTTTTCTCATAATTTTG
1 AAAATTTTTCACAT-ATTTTG
* * *
17952915 AAAATGTTTCAGATTTTTTG
1 AAAATTTTTCACATATTTTG
*
17952935 AAAATTTTTAACAT
1 AAAATTTTTCACAT
17952949 TTTAGAATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (20 bp):
AAAATTTTTCACATATTTTG
Found at i:17952950 original size:20 final size:20
Alignment explanation
Indices: 17952910--17952951 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17952900 TTTCTCATAA
* *
17952910 TTTTGAAAATGTTTCAGATT
1 TTTTGAAAATGTTTAACATT
*
17952930 TTTTGAAAATTTTTAACATT
1 TTTTGAAAATGTTTAACATT
17952950 TT
1 TT
17952952 AGAATTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTTGAAAATGTTTAACATT
Found at i:17952951 original size:19 final size:18
Alignment explanation
Indices: 17952910--17952980 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 18
17952900 TTTCTCATAA
* *
17952910 TTTTGAAAATGTTTCAGATT
1 TTTTGAAAAT-TTTTA-AAT
17952930 TTTTGAAAATTTTTAACAT
1 TTTTGAAAATTTTTAA-AT
* ** *
17952949 TTTAGAATTTTTTTAAAA
1 TTTTGAAAATTTTTAAAT
*
17952967 TTTTCAAAATTTTT
1 TTTTGAAAATTTTT
17952981 GTAAAGTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
18 12 0.30
19 18 0.45
20 10 0.25
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (18 bp):
TTTTGAAAATTTTTAAAT
Found at i:17952985 original size:20 final size:18
Alignment explanation
Indices: 17952947--17953032 Score: 63
Period size: 20 Copynumber: 4.7 Consensus size: 18
17952937 AATTTTTAAC
*
17952947 ATTTTAGAATTTTTTTAAA
1 ATTTTA-AATTTTTGTAAA
17952966 ATTTTCAAAATTTTTGTAAA
1 ATTTT--AAATTTTTGTAAA
* *
17952986 GTTTTAAATTTTT-CAAA
1 ATTTTAAATTTTTGTAAA
*
17953003 ATATTTAGATATTTT-T--A
1 AT-TTTAAAT-TTTTGTAAA
17953020 ATTTTAAATTTTT
1 ATTTTAAATTTTT
17953033 ATAGTTTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.07
16 6 0.11
17 7 0.12
18 14 0.25
19 9 0.16
20 15 0.27
21 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTTAAATTTTTGTAAA
Found at i:17953176 original size:29 final size:28
Alignment explanation
Indices: 17953128--17953195 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
17953118 TTCTTTGAAA
* *
17953128 TTTTTGAAATTTTCATAATTTTTTATAAT
1 TTTTTTAAATTTTCATAATTGTTTA-AAT
17953157 TTTTTTAAATATTTCA-AATTGTTTAAAT
1 TTTTTTAAAT-TTTCATAATTGTTTAAAT
17953185 TTTTTGTAAAT
1 TTTTT-TAAAT
17953196 CTTTTGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 8 0.23
29 22 0.63
30 5 0.14
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.60
Consensus pattern (28 bp):
TTTTTTAAATTTTCATAATTGTTTAAAT
Found at i:17954811 original size:2 final size:2
Alignment explanation
Indices: 17954804--17954834 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17954794 AAATTAGCTT
17954804 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17954835 TGATGAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17959352 original size:11 final size:11
Alignment explanation
Indices: 17959336--17959377 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
17959326 ATTTAATATA
17959336 TTAAAAAAATT
1 TTAAAAAAATT
17959347 TTAAAAATAA-T
1 TTAAAAA-AATT
*
17959358 TT-AAAAAATC
1 TTAAAAAAATT
17959368 TTAAAAAAAT
1 TTAAAAAAAT
17959378 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 2 0.07
10 6 0.22
11 17 0.63
12 2 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAAAAAATT
Found at i:17959365 original size:21 final size:22
Alignment explanation
Indices: 17959330--17959380 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
17959320 AATAAAATTT
*
17959330 AATATATTAAAAAAATTTTAAA
1 AATATATTAAAAAAATCTTAAA
*
17959352 AATA-ATTTAAAAAATCTTAAA
1 AATATATTAAAAAAATCTTAAA
*
17959373 AAAATATT
1 AATATATT
17959381 TTTTTATCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AATATATTAAAAAAATCTTAAA
Found at i:17959375 original size:22 final size:22
Alignment explanation
Indices: 17959330--17959380 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
17959320 AATAAAATTT
*
17959330 AATATATTAAAAAAATTTTAAA
1 AATATATTAAAAAAATTTAAAA
*
17959352 AATA-ATTTAAAAAATCTTAAAA
1 AATATATTAAAAAAAT-TTAAAA
17959374 AA-ATATT
1 AATATATT
17959381 TTTTTATCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AATATATTAAAAAAATTTAAAA
Found at i:17959839 original size:11 final size:11
Alignment explanation
Indices: 17959823--17959851 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
17959813 TCGTCGATGA
17959823 TCAAAAAAATC
1 TCAAAAAAATC
17959834 TCAAAAAAATC
1 TCAAAAAAATC
17959845 T-AAAAAA
1 TCAAAAAA
17959852 TTATTTTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (11 bp):
TCAAAAAAATC
Found at i:17962527 original size:26 final size:26
Alignment explanation
Indices: 17962493--17962554 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
17962483 TTTATTTATC
* *
17962493 AAATAAAAT-TTTTTAATAAATTATTT
1 AAATTAAATATTTTGAAT-AATTATTT
*
17962519 AAATTAAATATTTTGGATAATTATTT
1 AAATTAAATATTTTGAATAATTATTT
17962545 AAATTGAAAT
1 AAATT-AAAT
17962555 CAATATCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (26 bp):
AAATTAAATATTTTGAATAATTATTT
Found at i:17964371 original size:26 final size:26
Alignment explanation
Indices: 17964327--17964383 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17964317 AAATATCAAG
**
17964327 TTATTTTAAATTTTCTTTAAAATTAA
1 TTATTTTAAATTTTCTTTAAAAAAAA
*
17964353 TTATTTCTATATTTT-TTTAAAAAAAA
1 TTATTT-TAAATTTTCTTTAAAAAAAA
17964379 TTATT
1 TTATT
17964384 ATATTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (26 bp):
TTATTTTAAATTTTCTTTAAAAAAAA
Found at i:17964495 original size:19 final size:20
Alignment explanation
Indices: 17964466--17964513 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
17964456 TTTTATCATA
* *
17964466 AAATATAATATTATTAAAAT
1 AAATATAATATAATGAAAAT
17964486 AAAT-TAATATAATGAAAAT
1 AAATATAATATAATGAAAAT
*
17964505 ATATATAAT
1 AAATATAAT
17964514 CATTCATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAATATAATATAATGAAAAT
Found at i:17968548 original size:122 final size:124
Alignment explanation
Indices: 17968329--17968593 Score: 335
Period size: 122 Copynumber: 2.2 Consensus size: 124
17968319 ACTTTTAATT
* * * * *
17968329 GAAGGAGATTACTT-AAGATATTTTTAGCCAGAAACGCCTTGAATAACCCTATTTAATTTTTTGT
1 GAAGGAGATTA-TTAAAGGTATTTTTAGCCAAAAACGCATTGAATAACCCTATTCAATTTTTTAT
* * *
17968393 AAGAGATTTTTCAAGGTATTTTCTAATCAAAAACACCTTGAATAATCC-CAAAAAAATTA-
65 AAGAGATTATTCAAGATATTTTCTAATCAAAAACACATTGAATAATCCTCAAAAAAA-TAG
* *
17968452 G-AGGAGATTATTAAAGGTGTTTTTGGCCAAAAACGCATTGAATAACCCCT-TTCAATTTTTTAT
1 GAAGGAGATTATTAAAGGTATTTTTAGCCAAAAACGCATTGAATAA-CCCTATTCAATTTTTTAT
* * **
17968515 AAGGGATTATTCAAGATGTTTTCTGGTCAAAAACACATTGAATAATCCTCAAAAAAATAG
65 AAGAGATTATTCAAGATATTTTCTAATCAAAAACACATTGAATAATCCTCAAAAAAATAG
17968575 GAAGG-GATTATTAAAGGTA
1 GAAGGAGATTATTAAAGGTA
17968594 CCTTTAATAA
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
121 2 0.02
122 90 0.74
123 27 0.22
124 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (124 bp):
GAAGGAGATTATTAAAGGTATTTTTAGCCAAAAACGCATTGAATAACCCTATTCAATTTTTTATA
AGAGATTATTCAAGATATTTTCTAATCAAAAACACATTGAATAATCCTCAAAAAAATAG
Found at i:17969071 original size:34 final size:34
Alignment explanation
Indices: 17968997--17969099 Score: 129
Period size: 34 Copynumber: 3.1 Consensus size: 34
17968987 TTCTTGCATT
* * *
17968997 TTGGGTCAAATCCCTAAATTTCTTGTC-GATTTG
1 TTGGGTCAAATCCCTAAACTTCTTATCTGATTTA
*
17969030 TTAGGTCAAATCCCTAAACTTCTTATCTGATTTA
1 TTGGGTCAAATCCCTAAACTTCTTATCTGATTTA
* *
17969064 TTGGGTCAAATCCCAAAACTT-TCTATCTTATTTA
1 TTGGGTCAAATCCCTAAACTTCT-TATCTGATTTA
17969098 TT
1 TT
17969100 ACGTTTCTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
33 25 0.41
34 36 0.59
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (34 bp):
TTGGGTCAAATCCCTAAACTTCTTATCTGATTTA
Found at i:17971610 original size:28 final size:27
Alignment explanation
Indices: 17971554--17971615 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
17971544 TTGGGGGTCA
* **
17971554 TTTGTTTTTGTTTCCATTTTTTGTTTT
1 TTTGTTTTTGTTTCCATTTTTAGAATT
*
17971581 TTTGTTTTCTGTTTTCATTTTTAGAATT
1 TTTGTTTT-TGTTTCCATTTTTAGAATT
17971609 TTT-TTTT
1 TTTGTTTT
17971616 AAATTGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 12 0.40
28 18 0.60
ACGTcount: A:0.08, C:0.06, G:0.10, T:0.76
Consensus pattern (27 bp):
TTTGTTTTTGTTTCCATTTTTAGAATT
Found at i:17971855 original size:16 final size:16
Alignment explanation
Indices: 17971818--17972066 Score: 184
Period size: 15 Copynumber: 15.6 Consensus size: 16
17971808 CTATTGTTAT
17971818 TATATTA-ATAAAATAA
1 TATATTATAT-AAATAA
*
17971834 T-TATTATATAAATAT
1 TATATTATATAAATAA
* *
17971849 TAGATTA-ATACATAA
1 TATATTATATAAATAA
*
17971864 TATATTATATTAATAA
1 TATATTATATAAATAA
17971880 TATATTAT-TAATATAA
1 TATATTATATAA-ATAA
17971896 TATATTAATAAATAAATAA
1 TATATT-AT--ATAAATAA
*
17971915 TGTATTATACTATTAATATA
1 TATATTATA-TA--AATA-A
*
17971935 TTATATTATATTAATATCA
1 -TATATTATA-TAA-ATAA
*
17971954 TATATTATATTAATAA
1 TATATTATATAAATAA
17971970 TATATTA-ATAAATAA
1 TATATTATATAAATAA
*
17971985 TATATTA-CTAAAT-A
1 TATATTATATAAATAA
*
17971999 T-TATT-TATTAATAA
1 TATATTATATAAATAA
*
17972013 TATGTTAT-TAATATAA
1 TATATTATATAA-ATAA
*
17972029 TATATT-TATAAATAT
1 TATATTATATAAATAA
17972044 TATATTAT-TAAAT-A
1 TATATTATATAAATAA
17972058 T-TATTATAT
1 TATATTATAT
17972067 TATTAATAAC
Statistics
Matches: 188, Mismatches: 23, Indels: 46
0.73 0.09 0.18
Matches are distributed among these distances:
13 14 0.07
14 6 0.03
15 64 0.34
16 56 0.30
17 6 0.03
18 11 0.06
19 15 0.08
20 6 0.03
21 10 0.05
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (16 bp):
TATATTATATAAATAA
Found at i:17971856 original size:31 final size:32
Alignment explanation
Indices: 17971815--17972069 Score: 150
Period size: 31 Copynumber: 7.8 Consensus size: 32
17971805 ACACTATTGT
17971815 TATTATATTAATAAAATAAT-TATTATATAAA
1 TATTATATTAATAAAATAATATATTATATAAA
* * *
17971846 TATTAGATTAAT-ACATAATATATTATATTAA
1 TATTATATTAATAAAATAATATATTATATAAA
* * *
17971877 TAATATATTATTAATATAATATATTAATAAATAAA
1 TATTATATTAATAAAATAATATATT-AT--ATAAA
* * * *
17971912 TAATGTATTATACTATTAATATATTATATTATATTAA
1 T-AT-TA-TAT--TAATAAAATAATATATTATATAAA
*
17971949 TATCATATATT-ATATTAATAATATATTA-ATAAA
1 TAT--TATATTAATA-AAATAATATATTATATAAA
* * *
17971982 TAATATATTACT-AAAT-AT-TATT-TATTAA
1 TATTATATTAATAAAATAATATATTATATAAA
* * * *
17972010 TAATATGTTATTAATATAATATATT-TATAAA
1 TATTATATTAATAAAATAATATATTATATAAA
* *
17972041 TATTATATTATTAAATATTATTATATTAT
1 TATTATATTAATAAA-A-TAATATATTAT
17972070 TAATAACAAA
Statistics
Matches: 175, Mismatches: 29, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
28 18 0.10
29 5 0.03
30 11 0.06
31 57 0.33
32 13 0.07
33 18 0.10
34 12 0.07
35 5 0.03
36 6 0.03
37 9 0.05
38 3 0.02
39 2 0.01
40 16 0.09
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (32 bp):
TATTATATTAATAAAATAATATATTATATAAA
Found at i:17971870 original size:20 final size:19
Alignment explanation
Indices: 17971841--17971878 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
17971831 TAATTATTAT
17971841 ATAAATATTAGATTAATAC
1 ATAAATATTAGATTAATAC
*
17971860 ATAATATATTATATTAATA
1 ATAA-ATATTAGATTAATA
17971879 ATATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
ATAAATATTAGATTAATAC
Found at i:17971870 original size:51 final size:49
Alignment explanation
Indices: 17971815--17972068 Score: 174
Period size: 51 Copynumber: 5.2 Consensus size: 49
17971805 ACACTATTGT
17971815 TATTATATTAATAAAATAATTATTATATAAATATTAGATTAATACATAATA
1 TATTATATTAATAAAATAATTATTATATAAATATTA-ATTAATA-ATAATA
* * *
17971866 TATTATATTAATAATAT-ATTATTAATATAATATATTAATAAATAAATAATG
1 TATTATATTAATAAAATAATTATT-ATATAA-ATATTAATTAAT-AATAATA
* * * * * *
17971917 TATTATACTATTAATATATTATATTATATTAATATCATATATT-ATATTAATA
1 TATTATATTAATAAAATAAT-TATTATATAAATAT--TA-ATTAATAATAATA
* * *
17971969 -A-TATATTAAT-AAATAATATATTA-CTAAATATTATTTATTAATAATA
1 TATTATATTAATAAAATAAT-TATTATATAAATATTAATTAATAATAATA
* * *
17972015 T-GT-TATTAATATAAT-A-TATT-TATAAATATTATATT-ATTA-AATA
1 TATTATATTAATAAAATAATTATTATATAAATATTA-ATTAATAATAATA
17972058 TTATTATATTA
1 -TATTATATTA
17972069 TTAATAACAA
Statistics
Matches: 161, Mismatches: 25, Indels: 39
0.72 0.11 0.17
Matches are distributed among these distances:
43 4 0.02
44 16 0.10
45 5 0.03
46 22 0.14
47 4 0.02
48 6 0.04
49 11 0.07
50 13 0.08
51 52 0.32
52 18 0.11
53 8 0.05
54 2 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (49 bp):
TATTATATTAATAAAATAATTATTATATAAATATTAATTAATAATAATA
Found at i:17971872 original size:5 final size:5
Alignment explanation
Indices: 17971864--17971976 Score: 50
Period size: 5 Copynumber: 21.4 Consensus size: 5
17971854 TAATACATAA
* * * * * *
17971864 TATAT TATAT TAATAA TATAT TATTAA TATAA TATAT TA-A- TAAAT AAATAA
1 TATAT TATAT T-ATAT TATAT TA-TAT TATAT TATAT TATAT TATAT -TATAT
* * *
17971915 TGTAT TATAC TATTAA TATAT TATAT TATAT TAATAT CATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT T-ATAT --TATAT TATAT
*
17971964 TAATAA TATAT TA
1 T-ATAT TATAT TA
17971977 ATAAATAATA
Statistics
Matches: 82, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
3 2 0.02
4 2 0.02
5 51 0.62
6 22 0.27
7 4 0.05
8 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (5 bp):
TATAT
Found at i:17971928 original size:8 final size:7
Alignment explanation
Indices: 17971917--17972069 Score: 51
Period size: 8 Copynumber: 19.9 Consensus size: 7
17971907 ATAAATAATG
17971917 TATTATA
1 TATTATA
17971924 CTATTAATA
1 -TATT-ATA
17971933 TATTATA
1 TATTATA
17971940 T-TATATTAA
1 TAT-TA-T-A
*
17971949 TATCATA
1 TATTATA
17971956 TATTATA
1 TATTATA
*
17971963 TTAATAATA
1 -T-ATTATA
17971972 TATTAATA
1 TATT-ATA
* *
17971980 AATAATA
1 TATTATA
17971987 TATTACTAAA
1 TATTA-T--A
*
17971997 TATTATT
1 TATTATA
17972004 TATTA-A
1 TATTATA
* *
17972010 TAATATGT
1 TATTAT-A
17972018 TATTA-A
1 TATTATA
*
17972024 TATAATA
1 TATTATA
17972031 TATTTATAAA
1 TA-TTAT--A
17972041 TATTATA
1 TATTATA
*
17972048 TTATTAAA
1 -TATTATA
17972056 TATTATTA
1 TATTA-TA
17972064 TATTAT
1 TATTAT
17972070 TAATAACAAA
Statistics
Matches: 108, Mismatches: 18, Indels: 39
0.65 0.11 0.24
Matches are distributed among these distances:
6 9 0.08
7 36 0.33
8 37 0.34
9 16 0.15
10 10 0.09
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (7 bp):
TATTATA
Found at i:17971960 original size:23 final size:21
Alignment explanation
Indices: 17971845--17971972 Score: 67
Period size: 19 Copynumber: 6.9 Consensus size: 21
17971835 TATTATATAA
*
17971845 ATATTAGATTAATACATA--AT
1 ATATTATATTAATA-ATATCAT
17971865 ATATTATATTAATAATAT-AT
1 ATATTATATTAATAATATCAT
17971885 -TATTA-A-T-ATAATAT-AT
1 ATATTATATTAATAATATCAT
* * * *
17971901 -TAATAAATAAATAATGT-AT
1 ATATTATATTAATAATATCAT
17971920 -TA-TACTATTAAT-ATAT--T
1 ATATTA-TATTAATAATATCAT
17971937 ATATTATA-T--TAATATCAT
1 ATATTATATTAATAATATCAT
17971955 ATATTATATTAATAATAT
1 ATATTATATTAATAATAT
17971973 ATTAATAAAT
Statistics
Matches: 88, Mismatches: 7, Indels: 25
0.73 0.06 0.21
Matches are distributed among these distances:
15 1 0.01
16 17 0.19
17 4 0.05
18 19 0.22
19 26 0.30
20 15 0.17
21 6 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTATATTAATAATATCAT
Found at i:17971974 original size:23 final size:23
Alignment explanation
Indices: 17971930--17971974 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17971920 TATACTATTA
*
17971930 ATATATTATATTATATTAATATC
1 ATATATTATATTATATAAATATC
17971953 ATATATTATATTA-ATAATATAT
1 ATATATTATATTATATAA-ATAT
17971975 TAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATATTATATTATATAAATATC
Found at i:17972050 original size:74 final size:73
Alignment explanation
Indices: 17971818--17972057 Score: 197
Period size: 74 Copynumber: 3.2 Consensus size: 73
17971808 CTATTGTTAT
* * *
17971818 TATATTAATAAAATAAT-TATTATATAAATATTAGATTAATACATAATATATTA-TATTAATAAT
1 TATATTAAT-AAATAATATATTA-ATAAATATTA-TTTATTA-ATAATAT-TTATTAAT-ATAAT
17971881 ATA-TTATTAATATAA
60 ATATTTA-TAA-ATAA
* * * * *
17971896 TATATTAATAAATAA-ATAATGTATTATACTATTAATATATT-AT-AT-TATATTAATATCATAT
1 TATATTAATAAATAATAT-AT-TAATA-AATATT-ATTTATTAATAATATTTATTAATATAATAT
*
17971957 ATTATATTAATAA
62 ATT-TATAAATAA
*
17971970 TATATTAATAAATAATATATTACTAAATATTATTTATTAATAATATGTTATTAATATAATATATT
1 TATATTAATAAATAATATATTAATAAATATTATTTATTAATAATAT-TTATTAATATAATATATT
*
17972035 TATAAATAT
65 TATAAATAA
*
17972044 TATATTATTAAATA
1 TATATTAATAAATA
17972058 TTATTATATT
Statistics
Matches: 132, Mismatches: 17, Indels: 30
0.74 0.09 0.17
Matches are distributed among these distances:
71 6 0.05
72 7 0.05
73 6 0.05
74 51 0.39
75 25 0.19
76 4 0.03
77 9 0.07
78 13 0.10
79 10 0.08
80 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (73 bp):
TATATTAATAAATAATATATTAATAAATATTATTTATTAATAATATTTATTAATATAATATATTT
ATAAATAA
Found at i:17972052 original size:18 final size:18
Alignment explanation
Indices: 17972017--17972075 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 18
17972007 TAATAATATG
* *
17972017 TTATTAATATAATA-TAT
1 TTATAAATATTATATTAT
17972034 TTATAAATATTATATTA-
1 TTATAAATATTATATTAT
17972051 TTA-AATATTATTATATTAT
1 TTATAA-A-TATTATATTAT
*
17972070 TAATAA
1 TTATAA
17972076 CAAATGGAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 2 0.06
17 16 0.47
18 12 0.35
19 2 0.06
20 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAAATATTATATTAT
Found at i:17972643 original size:5 final size:5
Alignment explanation
Indices: 17972636--17972679 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
17972626 TTGACGCTAT
* * * *
17972636 ATATT ATATC ATATC ATATC ATAGC TTATC ATATC ATAAC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATAT
17972680 GTGGACAACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:17973010 original size:3 final size:3
Alignment explanation
Indices: 17972997--17973032 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
17972987 TTAGGACTTC
17972997 ATT ACTT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17973033 GAAAAATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:17976134 original size:16 final size:16
Alignment explanation
Indices: 17976115--17976170 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
17976105 TAAGCAATAC
17976115 TTTAAAGGGTCAATTA
1 TTTAAAGGGTCAATTA
* * *
17976131 TTTAAAATAGATTAA-TA
1 TTT-AAA-GGGTCAATTA
17976148 CTTTAAAGGGTCAATTA
1 -TTTAAAGGGTCAATTA
17976165 TTTAAA
1 TTTAAA
17976171 TTTGATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
16 13 0.43
17 10 0.33
18 7 0.23
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (16 bp):
TTTAAAGGGTCAATTA
Found at i:17976148 original size:34 final size:34
Alignment explanation
Indices: 17976110--17976181 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
17976100 ACGTATAAGC
17976110 AATACTTTAAAGGGTCAATTATTTAAAATAGATT
1 AATACTTTAAAGGGTCAATTATTTAAAATAGATT
* *
17976144 AATACTTTAAAGGGTCAATTATTTAAATTTGATT
1 AATACTTTAAAGGGTCAATTATTTAAAATAGATT
17976178 AATA
1 AATA
17976182 GTATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (34 bp):
AATACTTTAAAGGGTCAATTATTTAAAATAGATT
Found at i:17987240 original size:16 final size:16
Alignment explanation
Indices: 17987196--17987247 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
17987186 ATTTTTTACT
17987196 TTTAAAAA-ATTT-TA
1 TTTAAAAATATTTATA
* *
17987210 TTTAATTAATAATTTATT
1 TTTAA-AAAT-ATTTATA
17987228 TTTAAAAATATTTATA
1 TTTAAAAATATTTATA
17987244 TTTA
1 TTTA
17987248 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 5 0.17
15 2 0.07
16 10 0.33
17 7 0.23
18 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAAAATATTTATA
Found at i:17987262 original size:22 final size:23
Alignment explanation
Indices: 17987212--17987262 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
17987202 AAATTTTATT
*
17987212 TAATTAATAATTTATTTTTAAAA
1 TAATTTATAATTTATTTTTAAAA
17987235 -ATATTTAT-ATTTATTTTTAAAA
1 TA-ATTTATAATTTATTTTTAAAA
17987257 TAATTT
1 TAATTT
17987263 CTTAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATTTATAATTTATTTTTAAAA
Done.