Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 56 of 290
Found at i:17432632 original size:22 final size:21
Alignment explanation
Indices: 17432597--17432672 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
17432587 AAGAGGTATC
* * *
17432597 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
17432618 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
17432641 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
17432660 TAC-AATCATATCT
1 TACAAATCATATCT
17432673 AAGATTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 6 0.14
19 10 0.23
20 1 0.02
21 3 0.07
22 15 0.34
23 9 0.20
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:17432657 original size:19 final size:19
Alignment explanation
Indices: 17432633--17432723 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
17432623 AATCATATCT
17432633 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
17432652 TCTAAGATTACA-ATCATA
1 TCTAAGATTGCATATCATA
17432670 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
17432687 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17432706 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
17432724 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 36 0.54
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17432689 original size:35 final size:37
Alignment explanation
Indices: 17432626--17432723 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
17432616 ATTACAAAAT
17432626 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTA
*
17432662 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTA
17432697 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
17432724 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 21 0.38
36 19 0.34
37 10 0.18
38 6 0.11
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTA
Found at i:17434220 original size:21 final size:20
Alignment explanation
Indices: 17434188--17434228 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
17434178 ATACATGAGT
17434188 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
17434208 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
17434229 TTATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:17441282 original size:10 final size:10
Alignment explanation
Indices: 17441255--17441314 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
17441245 TGAAATTCTA
17441255 AAAGATAAAT
1 AAAGATAAAT
17441265 ACAA-ATAAAT
1 A-AAGATAAAT
*
17441275 AAAGATAATT
1 AAAGATAAAT
17441285 AAAGATAAAT
1 AAAGATAAAT
*
17441295 AAGGATAAAT
1 AAAGATAAAT
17441305 GAAA-ATAAAT
1 -AAAGATAAAT
17441315 CCTAGAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.86
11 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:17442133 original size:96 final size:97
Alignment explanation
Indices: 17441968--17442154 Score: 295
Period size: 96 Copynumber: 1.9 Consensus size: 97
17441958 ATTCTATTTA
** * * *
17441968 TTTATTTTTACTTAGGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAAAACATATCGAACCTTTTGAGGCGAAGAGAGATGACAGCCAAGCACCCCA
*
17442033 CCCCGGTTACTCAGCCCAACACATTCCTAATT
66 CCCCGGTTACTCAACCCAACACATTCCTAATT
*
17442065 TTTATTTTT-CTTAAAAACATATCGAACCTTTTGAGGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAAAACATATCGAACCTTTTGAGGCGAAGAGAGATGACAGCCAAGCACCCCA
*
17442129 CCCCGGTTACTTAACCCAACACATTC
66 CCCCGGTTACTCAACCCAACACATTC
17442155 TTAAAAATTA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 73 0.89
97 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAAAACATATCGAACCTTTTGAGGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCGGTTACTCAACCCAACACATTCCTAATT
Found at i:17442221 original size:57 final size:57
Alignment explanation
Indices: 17442133--17442246 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
17442123 ACCTCACCCC
*
17442133 GGTTACTTAACCCAACACATTCTTAAAAATTAATTCTAATTAGCGGAGTTTTACCTA
1 GGTTACTTAACCCAACACATTCTTAAAAATTAATTCCAATTAGCGGAGTTTTACCTA
* ** *
17442190 GGTTACTTAGCCCAACACATTCTTAAAAATTAATTCCGGTTAGCGGTGTTTTACCTA
1 GGTTACTTAACCCAACACATTCTTAAAAATTAATTCCAATTAGCGGAGTTTTACCTA
17442247 ACACATCACA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (57 bp):
GGTTACTTAACCCAACACATTCTTAAAAATTAATTCCAATTAGCGGAGTTTTACCTA
Found at i:17443006 original size:18 final size:15
Alignment explanation
Indices: 17442973--17443013 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
17442963 TTAATATCTG
17442973 AAAATAATAAATAAT
1 AAAATAATAAATAAT
*
17442988 AAAATAAT-AA-GAT
1 AAAATAATAAATAAT
17443001 AAAATAA-AAATAA
1 AAAATAATAAATAA
17443014 AAATTGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:17448761 original size:42 final size:43
Alignment explanation
Indices: 17448711--17448816 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
17448701 CCTGATCAGT
*
17448711 ATACGACACATAAAGTTCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * *
17448753 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
17448797 ATACGACGCATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
17448817 GATCAGTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.69
44 16 0.31
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:17448803 original size:23 final size:21
Alignment explanation
Indices: 17448734--17448795 Score: 124
Period size: 21 Copynumber: 3.0 Consensus size: 21
17448724 AGTTCCTAAA
17448734 ACGACACACGAGGTGCCTGAT
1 ACGACACACGAGGTGCCTGAT
17448755 ACGACACACGAGGTGCCTGAT
1 ACGACACACGAGGTGCCTGAT
17448776 ACGACACACGAGGTGCCTGA
1 ACGACACACGAGGTGCCTGA
17448796 AATACGACGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.13
Consensus pattern (21 bp):
ACGACACACGAGGTGCCTGAT
Found at i:17450289 original size:16 final size:17
Alignment explanation
Indices: 17450254--17450289 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
17450244 CCTAATTCTC
17450254 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
17450270 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
17450285 CCTTC
1 CCTTC
17450290 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:17452477 original size:10 final size:9
Alignment explanation
Indices: 17452462--17452516 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
17452452 ATTCTAAAAG
17452462 ATAAATACAA
1 ATAAATA-AA
*
17452472 ATAAATAAG
1 ATAAATAAA
*
17452481 ATAATTAAA
1 ATAAATAAA
17452490 GATAAATAAA
1 -ATAAATAAA
17452500 GATAAATGAAA
1 -ATAAAT-AAA
17452511 ATAAAT
1 ATAAAT
17452517 CCTAGAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.21
10 28 0.72
11 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (9 bp):
ATAAATAAA
Found at i:17458336 original size:52 final size:52
Alignment explanation
Indices: 17458258--17458362 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
17458248 TGCAACTTGC
* *
17458258 AAACATCCAAACTCTAAATTGGACAATTAGGAATTAACCTTAAATTCTTCAA
1 AAACATCCAAACTCTAAATTGGACAATTAGGAATCAACCCTAAATTCTTCAA
17458310 AAACATCCAAACTCTAAATTGGACAATTAGGAATCAACCCTAAATTCTTCAA
1 AAACATCCAAACTCTAAATTGGACAATTAGGAATCAACCCTAAATTCTTCAA
17458362 A
1 A
17458363 TAGGAATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.27
Consensus pattern (52 bp):
AAACATCCAAACTCTAAATTGGACAATTAGGAATCAACCCTAAATTCTTCAA
Found at i:17459117 original size:49 final size:48
Alignment explanation
Indices: 17459044--17459138 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 48
17459034 TGTGAGAAAA
*
17459044 ATAATAGATCATTACTCTAGGTAAGACCCTACAGACGTATATCGAAGAG
1 ATAATAGATCATTACTCTAAGTAAGACCCTACAGAC-TATATCGAAGAG
* *
17459093 ATAATAGATCATTACTCTAAGTAAGGCCCTACAGACTATATTGAAG
1 ATAATAGATCATTACTCTAAGTAAGACCCTACAGACTATATCGAAG
17459139 TTGAAATGCG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
48 9 0.21
49 34 0.79
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (48 bp):
ATAATAGATCATTACTCTAAGTAAGACCCTACAGACTATATCGAAGAG
Found at i:17460802 original size:22 final size:22
Alignment explanation
Indices: 17460763--17460809 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
17460753 AAAAAATAAG
*
17460763 TTAAATTAAAATATTTAAAAAT
1 TTAAATGAAAATATTTAAAAAT
17460785 TTAAATGAGAAATA-TTAAAAAT
1 TTAAATGA-AAATATTTAAAAAT
17460807 TTA
1 TTA
17460810 TTTGAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
TTAAATGAAAATATTTAAAAAT
Found at i:17465606 original size:22 final size:22
Alignment explanation
Indices: 17465578--17465620 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17465568 AAAATATCGT
*
17465578 AAAATAAATAGTATAAAAAAAC
1 AAAATAAATAATATAAAAAAAC
*
17465600 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATAAAAAAA
17465621 TATAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAATAATATAAAAAAAC
Found at i:17465964 original size:19 final size:19
Alignment explanation
Indices: 17465940--17465984 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17465930 ATTTTATAAA
17465940 AATATATAAAGAAAT-ATAT
1 AATATA-AAAGAAATAATAT
* *
17465959 AATATAAAATATATAATAT
1 AATATAAAAGAAATAATAT
17465978 AATATAA
1 AATATAA
17465985 TTTATAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AATATAAAAGAAATAATAT
Found at i:17465968 original size:14 final size:14
Alignment explanation
Indices: 17465938--17466002 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
17465928 CAATTTTATA
17465938 AAAATATATAA-A-
1 AAAATATATAATAT
*
17465950 GAAATATATAATAT
1 AAAATATATAATAT
17465964 AAAATATATAATAT
1 AAAATATATAATAT
* * *
17465978 AATATAATTTATAGAT
1 AAAAT-ATATA-ATAT
17465994 AAAATATAT
1 AAAATATAT
17466003 GATAAAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
12 10 0.24
13 1 0.02
14 17 0.40
15 7 0.17
16 7 0.17
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
AAAATATATAATAT
Found at i:17468096 original size:207 final size:206
Alignment explanation
Indices: 17467654--17468349 Score: 1171
Period size: 207 Copynumber: 3.4 Consensus size: 206
17467644 GGTCTGCTTC
*
17467654 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGATC
* * *
17467719 TTGCTTCAGTATAAACATCTGAAAGCCAGATCTGCTATCTGTCTGCTCTCTTGTCGAATATGGAG
66 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTC-CGTCGAATATGGAG
*
17467784 ACGTCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATT
130 ACG-CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
*
17467849 GTAAG-TATGTGAA
194 GTAAGCT-CGTGAA
* * * *
17467862 AGCCAAATCAGCTATGTCTTTGATTTGTTCTTTGTAAGCACAAGGATGCCAAATCATCTTAGATA
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGATC
*
17467927 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCACTCCGTCGAATATGGAGA
66 TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
*
17467992 CGCGAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
131 CGC-AAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCG
17468057 TAAGCTCGTGAA
195 TAAGCTCGTGAA
* * *
17468069 AGCCAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGAT
1 AGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGAT
17468133 CTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAG
65 CTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAG
17468198 ACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
130 ACG-CAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATC
*
17468263 GTAAGCGCGTGAA
194 GTAAGCTCGTGAA
17468276 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGATC
1 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGATC
*
17468341 TTGCCTCAG
66 TTGCTTCAG
17468350 CCAGATCTGC
Statistics
Matches: 459, Mismatches: 24, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
206 2 0.00
207 347 0.76
208 110 0.24
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (206 bp):
AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTAGATC
TTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGA
CGCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGT
AAGCTCGTGAA
Found at i:17480261 original size:5 final size:5
Alignment explanation
Indices: 17480251--17480306 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
17480241 GTTATATATA
* * *
17480251 ATAAT ATAAT ATGAAT AAAAT ATAAGG A-AAT ATAAT ATAA- ATAAT AAAAT
1 ATAAT ATAAT AT-AAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT
17480301 ATAAT A
1 ATAAT A
17480307 AGTAATTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
4 5 0.12
5 31 0.76
6 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (5 bp):
ATAAT
Found at i:17480356 original size:20 final size:21
Alignment explanation
Indices: 17480331--17480370 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17480321 AAAATATAGT
*
17480331 AAAATAAATAGTATA-AAAAC
1 AAAATAAATAATATATAAAAC
17480351 AAAATAAATAATATATAAAA
1 AAAATAAATAATATATAAAA
17480371 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAATAAATAATATATAAAAC
Found at i:17480721 original size:12 final size:13
Alignment explanation
Indices: 17480689--17480760 Score: 67
Period size: 12 Copynumber: 5.5 Consensus size: 13
17480679 TAATTTTATA
17480689 AAAATATATAAA-
1 AAAATATATAAAT
*
17480701 GAAATATATAAAAT
1 AAAATATAT-AAAT
17480715 AAAATATATAATAT
1 AAAATATATAA-AT
* *
17480729 AATAATTTATAGAT
1 AA-AATATATAAAT
*
17480743 AAAATATAT-GAT
1 AAAATATATAAAT
17480755 AAAATA
1 AAAATA
17480761 ATGTATTGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
12 17 0.33
13 11 0.22
14 16 0.31
15 7 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:17480732 original size:26 final size:27
Alignment explanation
Indices: 17480689--17480760 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
17480679 TAATTTTATA
17480689 AAAATATATAA-AGAAATATATA-AAAT
1 AAAATATATAATA-AAATATATATAAAT
* * *
17480715 AAAATATATAATATAATAATTTATAGAT
1 AAAATATATAATAAAAT-ATATATAAAT
*
17480743 AAAATATATGATAAAATA
1 AAAATATATAATAAAATA
17480761 ATGTATTGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
26 14 0.37
27 6 0.16
28 18 0.47
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAATATATAATAAAATATATATAAAT
Found at i:17482731 original size:10 final size:9
Alignment explanation
Indices: 17482709--17482768 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
17482699 CTGCAGTTCT
*
17482709 TTTTGTTTC
1 TTTTATTTC
*
17482718 TTTTACTT-
1 TTTTATTTC
17482726 TTTT-TTTC
1 TTTTATTTC
17482734 TTTTATTTC
1 TTTTATTTC
17482743 -TTTAGTTTC
1 TTTTA-TTTC
17482752 TTTTATTTAC
1 TTTTATTT-C
17482762 -TTTATTT
1 TTTTATTT
17482769 ATTTACTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
7 2 0.05
8 12 0.28
9 24 0.56
10 5 0.12
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTTATTTC
Found at i:17482786 original size:13 final size:13
Alignment explanation
Indices: 17482719--17482780 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
17482709 TTTTGTTTCT
17482719 TTTACTTT-TTT-
1 TTTACTTTATTTA
*
17482730 TTT-CTTTTATTTC
1 TTTAC-TTTATTTA
* *
17482743 TTTAGTTTCTTTTA
1 TTTACTTT-ATTTA
17482757 TTTACTTTATTTA
1 TTTACTTTATTTA
17482770 TTTACTTTATT
1 TTTACTTTATT
17482781 GTTTTAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 1 0.02
11 6 0.15
12 3 0.07
13 21 0.51
14 10 0.24
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTACTTTATTTA
Found at i:17484095 original size:173 final size:173
Alignment explanation
Indices: 17483792--17484282 Score: 665
Period size: 173 Copynumber: 2.9 Consensus size: 173
17483782 CCTTTAGGAG
* * ** * * *
17483792 AAAGAAGAACACCAAGGGCTTTATTTTGTTGTCTAGA-GGAGGAATGGAGTAGCTCATTTTA-GG
1 AAAGAAGAACACTAGGGGCTTTATTTCATTGTTTAGAGGGAGGAACGGAGTAGCTCA-TATACGG
*
17483855 AGGAGTGGTGAAACTGAAACTAGACCCC-AAGAAGTTTATTTTTGTGGAGTTGATA-CTGGGAGA
65 AGGAGTGGTGAAACTGAAACTAGACCCCTAAGAAGTTTATTTTTGTGGAGTTGA-AGCTAGGAGA
*
17483918 TTACTTTGGGTGTAACACCCCCATACACGACCCAAACATCGGGTC
129 TTACTTTGGGTGTAACACCCCCATACACGACCCAAACATCGAGTC
*
17483963 AAAGAAGAACACTAGGGGCTTTATTTCATTGTTTAGATGGGA-GAACGGAGTAGCTCATCTACGG
1 AAAGAAGAACACTAGGGGCTTTATTTCATTGTTTAGA-GGGAGGAACGGAGTAGCTCATATACGG
* * * *
17484027 ATGAATGGTGAAATTGAAACTAGACCCCTAAGAAGTTTATTTTTGTAGAGTTGAAGCTAGGAGAT
65 AGGAGTGGTGAAACTGAAACTAGACCCCTAAGAAGTTTATTTTTGTGGAGTTGAAGCTAGGAGAT
* * * *
17484092 TACTTTGGGTGTAACATCCGCATACTCGACCCGAACATCGAGTC
130 TACTTTGGGTGTAACACCCCCATACACGACCCAAACATCGAGTC
* *
17484136 AAAGAAGAACACT-GAAGGCTTTATTTCATTGTCTT-GAGGGAGGAACGGAGTAGCTCATATACA
1 AAAGAAGAACACTAG-GGGCTTTATTTCATTGT-TTAGAGGGAGGAACGGAGTAGCTCATATACG
* * *
17484199 GAGGAGTGGTGAAACTGAAACTAGA-CCCTAAGAAGTATATTTTTGTGGAGTTGAAGTTTGGAGA
64 GAGGAGTGGTGAAACTGAAACTAGACCCCTAAGAAGTTTATTTTTGTGGAGTTGAAGCTAGGAGA
*
17484263 TTACTTTAGGTGTAACACCC
129 TTACTTTGGGTGTAACACCC
17484283 TTATGCCTGA
Statistics
Matches: 283, Mismatches: 29, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
171 35 0.12
172 100 0.35
173 146 0.52
174 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (173 bp):
AAAGAAGAACACTAGGGGCTTTATTTCATTGTTTAGAGGGAGGAACGGAGTAGCTCATATACGGA
GGAGTGGTGAAACTGAAACTAGACCCCTAAGAAGTTTATTTTTGTGGAGTTGAAGCTAGGAGATT
ACTTTGGGTGTAACACCCCCATACACGACCCAAACATCGAGTC
Found at i:17484675 original size:22 final size:22
Alignment explanation
Indices: 17484649--17484691 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17484639 AATTCCTGAA
17484649 TATATCTTAATAATCAACAAAG
1 TATATCTTAATAATCAACAAAG
* * *
17484671 TATATTTTAGTAATTAACAAA
1 TATATCTTAATAATCAACAAA
17484692 TCATTTCGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
TATATCTTAATAATCAACAAAG
Found at i:17487355 original size:20 final size:20
Alignment explanation
Indices: 17487324--17487372 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
17487314 ATTTATAGCA
*
17487324 TATTCAATTCTCAT-CTTGC
1 TATTCAAATCTCATACTTGC
*
17487343 TATTTCAAATCTCATACTTTC
1 TA-TTCAAATCTCATACTTGC
17487364 TATTCAAAT
1 TATTCAAAT
17487373 GGCTTTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.69
21 6 0.23
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:17488536 original size:14 final size:14
Alignment explanation
Indices: 17488509--17488550 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
17488499 AAAAACCTAG
17488509 CTTTCTC-CTTTTT
1 CTTTCTCTCTTTTT
*
17488522 CTTTCTCTTTTTTT
1 CTTTCTCTCTTTTT
17488536 CTTTCTCTCTTTTT
1 CTTTCTCTCTTTTT
17488550 C
1 C
17488551 CTTTTGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 7 0.27
14 19 0.73
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
CTTTCTCTCTTTTT
Found at i:17488575 original size:19 final size:19
Alignment explanation
Indices: 17488551--17488597 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17488541 TCTCTTTTTC
17488551 CTTTTGTTTCGTTTCAA-TT
1 CTTTTGTTTC-TTTCAATTT
*
17488570 CTTTTGTTTCTTTTAATTT
1 CTTTTGTTTCTTTCAATTT
*
17488589 TTTTTGTTT
1 CTTTTGTTT
17488598 TATTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.72
Consensus pattern (19 bp):
CTTTTGTTTCTTTCAATTT
Found at i:17490212 original size:47 final size:47
Alignment explanation
Indices: 17490158--17490287 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
17490148 ATGCGAATAA
* * * *
17490158 TACCTTGATTTGGCTACCGACCATGGTATAGGTATTCATAGAGAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * *
17490205 TACCTTGATTTAGCTACGGGCTATGGTATAGGTACTCCGAGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
17490252 TACCTTGATTTGGCTTA-GGGCCATGGTATAGGTACT
1 TACCTTGATTTGGC-TACGGGCCATGGTATAGGTACT
17490288 TATCGATTGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 70 0.97
48 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:17495762 original size:46 final size:46
Alignment explanation
Indices: 17495613--17496153 Score: 836
Period size: 46 Copynumber: 11.8 Consensus size: 46
17495603 TGATGTCATA
* * * * * *
17495613 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATG
** ** *
17495659 GTATCTTTCAACCATGGTCTTATTCATTTC-CGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
* *
17495704 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
** *
17495750 GTATCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
17495796 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
17495842 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
17495888 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
* * *
17495934 GTATCTTGCAACCATGGTCTTACACATTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
17495980 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
17496026 GTATCTTTCAACCATGGTCTTACACA-TTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
17496071 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
17496117 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
17496154 ATAGCACACT
Statistics
Matches: 467, Mismatches: 26, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
45 91 0.19
46 376 0.81
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:17506120 original size:25 final size:23
Alignment explanation
Indices: 17506078--17506123 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
17506068 TTAATTTGAA
*
17506078 TATTTCATTTTTTAAAAATAATT
1 TATTTCATTTTTAAAAAATAATT
17506101 TATTTCAATTTTTAATAAAATAA
1 TATTTC-ATTTTTAA-AAAATAA
17506124 AATCAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTTCATTTTTAAAAAATAATT
Found at i:17507065 original size:16 final size:18
Alignment explanation
Indices: 17507030--17507069 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
17507020 TCAGCCGCTG
17507030 CTACCCACGTTTGCCTCCA
1 CTACCCACGTTT-CCTCCA
17507049 CTACCCACG-TT-CTCCA
1 CTACCCACGTTTCCTCCA
17507065 CTACC
1 CTACC
17507070 ATGCGCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.17, C:0.50, G:0.07, T:0.25
Consensus pattern (18 bp):
CTACCCACGTTTCCTCCA
Found at i:17507323 original size:4 final size:4
Alignment explanation
Indices: 17507314--17507369 Score: 55
Period size: 4 Copynumber: 14.2 Consensus size: 4
17507304 TATTTTCGAA
*
17507314 TCTT TCTT TCTT TCTT TCTT TCTT T-TT TATT T-TT T-TT TCTCT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT-T TCTT
*
17507360 CCTT TACTT T
1 TCTT T-CTT T
17507370 TTACATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
3 9 0.20
4 29 0.63
5 8 0.17
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (4 bp):
TCTT
Found at i:17508047 original size:3 final size:3
Alignment explanation
Indices: 17508023--17508103 Score: 74
Period size: 3 Copynumber: 26.3 Consensus size: 3
17508013 TAATTAATTA
* ** *
17508023 ATT ATT CTT ATT AATGT ATT ATT ATT ACC ATT ATT ATT ACT ATT ACTT
1 ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* *
17508071 -TT ATT TTT ATT ACT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
17508104 CATTTTCTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
2 2 0.03
3 53 0.85
4 6 0.10
5 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:17508080 original size:21 final size:21
Alignment explanation
Indices: 17508023--17508104 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
17508013 TAATTAATTA
* *
17508023 ATTATTCTTATTAATGTATTATT
1 ATTATTATTATT-AT-TACTATT
**
17508046 ATTACCATTATTATTACTATT
1 ATTATTATTATTATTACTATT
*
17508067 ACTT-TTATTTTTATTACTATT
1 A-TTATTATTATTATTACTATT
17508088 ATTATTATTATTATTAC
1 ATTATTATTATTATTAC
17508105 ATTTTCTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
20 2 0.04
21 34 0.69
22 4 0.08
23 9 0.18
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (21 bp):
ATTATTATTATTATTACTATT
Found at i:17534760 original size:21 final size:21
Alignment explanation
Indices: 17534687--17534760 Score: 53
Period size: 23 Copynumber: 3.4 Consensus size: 21
17534677 GAAAATAGAT
17534687 ATATA-ATAATAT-TTAAAAGC
1 ATATACATAATATATTAAAA-C
* ** *
17534707 ATATACATAACATACGAAACAAA
1 ATATACATAATATA-TTAA-AAC
17534730 ATATACACATAATATATTAAAAC
1 ATAT--ACATAATATATTAAAAC
17534753 ATATACAT
1 ATATACAT
17534761 GACATACATA
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
20 5 0.12
21 10 0.25
23 12 0.30
24 4 0.10
25 9 0.22
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (21 bp):
ATATACATAATATATTAAAAC
Found at i:17534790 original size:19 final size:18
Alignment explanation
Indices: 17534753--17534793 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17534743 ATATTAAAAC
* *
17534753 ATATACATGACATACATA
1 ATATACATGAAAAACATA
17534771 ATATACATGATAAAACATA
1 ATATACATGA-AAAACATA
17534790 ATAT
1 ATAT
17534794 GATATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (18 bp):
ATATACATGAAAAACATA
Found at i:17535118 original size:23 final size:23
Alignment explanation
Indices: 17535092--17535146 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
17535082 TACATAAAAC
*
17535092 ATATAT-TAGGAACAACAATAATA
1 ATATATATA-GAACAACAATAAGA
* *
17535115 ATATATATATAACAACTATAAGA
1 ATATATATAGAACAACAATAAGA
17535138 ATATATATA
1 ATATATATA
17535147 AAGTATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.31
Consensus pattern (23 bp):
ATATATATAGAACAACAATAAGA
Found at i:17535256 original size:11 final size:11
Alignment explanation
Indices: 17535183--17535258 Score: 57
Period size: 11 Copynumber: 6.8 Consensus size: 11
17535173 AAAAATGTCT
17535183 AAATAATAATA
1 AAATAATAATA
*
17535194 AAAT-ATATTAA
1 AAATAATAAT-A
17535205 AAATAATAATA
1 AAATAATAATA
* * *
17535216 CAAGAATAGTA
1 AAATAATAATA
17535227 AAATAGAATAAT-
1 AAAT--AATAATA
* *
17535239 GAATAATATTA
1 AAATAATAATA
17535250 AAATAATAA
1 AAATAATAA
17535259 AGAGTAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
10 9 0.19
11 27 0.56
12 7 0.15
13 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (11 bp):
AAATAATAATA
Found at i:17538155 original size:13 final size:13
Alignment explanation
Indices: 17538137--17538161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17538127 AAGTGATAAG
17538137 TAAAAAAATTAAC
1 TAAAAAAATTAAC
17538150 TAAAAAAATTAA
1 TAAAAAAATTAA
17538162 AATGTTTATC
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAAATTAAC
Found at i:17540779 original size:78 final size:78
Alignment explanation
Indices: 17540650--17540807 Score: 316
Period size: 78 Copynumber: 2.0 Consensus size: 78
17540640 CGATGAACAT
17540650 GAAAAATGGCAACCATGCAAAGCAAATAGATTTACTTATTCAAGTTTTTGATGAATTGTAACTTG
1 GAAAAATGGCAACCATGCAAAGCAAATAGATTTACTTATTCAAGTTTTTGATGAATTGTAACTTG
17540715 CTAAGAGCAAATA
66 CTAAGAGCAAATA
17540728 GAAAAATGGCAACCATGCAAAGCAAATAGATTTACTTATTCAAGTTTTTGATGAATTGTAACTTG
1 GAAAAATGGCAACCATGCAAAGCAAATAGATTTACTTATTCAAGTTTTTGATGAATTGTAACTTG
17540793 CTAAGAGCAAATA
66 CTAAGAGCAAATA
17540806 GA
1 GA
17540808 TTTGTACTTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (78 bp):
GAAAAATGGCAACCATGCAAAGCAAATAGATTTACTTATTCAAGTTTTTGATGAATTGTAACTTG
CTAAGAGCAAATA
Found at i:17543296 original size:174 final size:177
Alignment explanation
Indices: 17543110--17543429 Score: 556
Period size: 178 Copynumber: 1.8 Consensus size: 177
17543100 AAATTTAAAA
**
17543110 AAAAAAACCTTGTTTTGTCAATTCAATTGTGAGTCTAACAATTTTT-TTT-TTAAAA-TTGAGCT
1 AAAAAAACCTTGTTTTGTCAATTCAATTGTGAGTCTAACAATTTTTCTTTAAAAAAATTTGAGCT
17543172 TTAATTTGCTTCATTAATGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTAATACTAAGAG
66 TTAATTTGCTTCATTAATGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTAATACTAAGAG
17543237 ATATTAAGTTTTTGGTCATTTGAAGTATAAGAAAAACAATATATTGT
131 ATATTAAGTTTTTGGTCATTTGAAGTATAAGAAAAACAATATATTGT
*
17543284 AAAAAAACCTTGTTTTGTTAATTCAATTGTGAGTCTAACAATTTTTCTTTAAAAAAAATTTGAGC
1 AAAAAAACCTTGTTTTGTCAATTCAATTGTGAGTCTAACAATTTTTCTTT-AAAAAAATTTGAGC
* * *
17543349 TTTAATTTGCTTCATTAGTGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTATTATTAAGA
65 TTTAATTTGCTTCATTAATGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTAATACTAAGA
17543414 GATATTAAGTTTTTGG
130 GATATTAAGTTTTTGG
17543430 CATAAGAACA
Statistics
Matches: 136, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
174 45 0.33
175 3 0.02
177 4 0.03
178 84 0.62
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (177 bp):
AAAAAAACCTTGTTTTGTCAATTCAATTGTGAGTCTAACAATTTTTCTTTAAAAAAATTTGAGCT
TTAATTTGCTTCATTAATGGCAGTGAACTCAAGCTAATGAAAAATGAATTGATTAATACTAAGAG
ATATTAAGTTTTTGGTCATTTGAAGTATAAGAAAAACAATATATTGT
Found at i:17546887 original size:13 final size:13
Alignment explanation
Indices: 17546869--17546895 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17546859 GAAGTATGAG
17546869 ATATATTCCTTCT
1 ATATATTCCTTCT
17546882 ATATATTCCTTCT
1 ATATATTCCTTCT
17546895 A
1 A
17546896 AGGCAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATTCCTTCT
Found at i:17559211 original size:22 final size:22
Alignment explanation
Indices: 17559186--17559248 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
17559176 TTGAATTGGT
17559186 CACACGGGTGTGTTGCCCCTCC
1 CACACGGGTGTGTTGCCCCTCC
*
17559208 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGTGTGTTGCCCCTCC
* *
17559230 TACACGGGTGT-CTGCCCCT
1 CACACGGGTGTGTTGCCCCT
17559249 GTGGCTAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 7 0.19
22 30 0.81
ACGTcount: A:0.10, C:0.41, G:0.27, T:0.22
Consensus pattern (22 bp):
CACACGGGTGTGTTGCCCCTCC
Found at i:17564851 original size:15 final size:16
Alignment explanation
Indices: 17564826--17564865 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
17564816 GGTTATAGGG
17564826 ATTTTATTTATTTATT
1 ATTTTATTTATTTATT
17564842 ATTTTA-TTATTTATT
1 ATTTTATTTATTTATT
17564857 -TTTCTATTT
1 ATTT-TATTT
17564866 TCCTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 11 0.50
16 8 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTATTTATTTATT
Found at i:17566847 original size:27 final size:28
Alignment explanation
Indices: 17566817--17566876 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
17566807 GAAATCAGTA
* *
17566817 TAGTCTGA-CAGGACAATAAATATAGGG
1 TAGTCTCATCAGGACAATAAACATAGGG
* *
17566844 TAGTC-CATCGGGACAGTAAACATAGGG
1 TAGTCTCATCAGGACAATAAACATAGGG
17566871 TAGTCT
1 TAGTCT
17566877 ACCGAGACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (28 bp):
TAGTCTCATCAGGACAATAAACATAGGG
Found at i:17566898 original size:26 final size:27
Alignment explanation
Indices: 17566828--17566902 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
17566818 AGTCTGACAG
* * * *
17566828 GACAATAAATATAGGGTAGTCCATCGG
1 GACAGTAAACATAGGGTAGTCCACCGA
*
17566855 GACAGTAAACATAGGGTAGTCTACCGA
1 GACAGTAAACATAGGGTAGTCCACCGA
*
17566882 GACAGT-AACATGGGGTAGTCC
1 GACAGTAAACATAGGGTAGTCC
17566903 GTCGGGATAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 13 0.32
27 28 0.68
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (27 bp):
GACAGTAAACATAGGGTAGTCCACCGA
Found at i:17566914 original size:26 final size:26
Alignment explanation
Indices: 17566838--17566915 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
17566828 GACAATAAAT
17566838 ATAGGGTAGTCCATCGGGACAGTAAAC
1 ATAGGGTAGTCCATCGGGACAGT-AAC
* * *
17566865 ATAGGGTAGTCTACCGAGACAGTAAC
1 ATAGGGTAGTCCATCGGGACAGTAAC
* * *
17566891 ATGGGGTAGTCCGTCGGGATAGTAA
1 ATAGGGTAGTCCATCGGGACAGTAA
17566916 ATACGAGGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 22 0.52
27 20 0.48
ACGTcount: A:0.31, C:0.17, G:0.32, T:0.21
Consensus pattern (26 bp):
ATAGGGTAGTCCATCGGGACAGTAAC
Found at i:17570481 original size:31 final size:31
Alignment explanation
Indices: 17570446--17570617 Score: 224
Period size: 31 Copynumber: 5.5 Consensus size: 31
17570436 TTGTAGCCGA
*
17570446 AGCTACCACTATTCACTGATCAGGTAGCTAG
1 AGCTACCACTTTTCACTGATCAGGTAGCTAG
* *
17570477 AGCTACCATTTTTCACTGATCAGGTAG-TCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCT-AG
* *
17570508 AGCTACCATTTTTCACTGATCAGTTAGC-AG
1 AGCTACCACTTTTCACTGATCAGGTAGCTAG
* *
17570538 AAGCTACCACTTTTCACTGATCAGGTAGCAAA
1 -AGCTACCACTTTTCACTGATCAGGTAGCTAG
17570570 AGCTACCACTTTTCACTGATCAGGTAGCT-G
1 AGCTACCACTTTTCACTGATCAGGTAGCTAG
*
17570600 AAACTACCACTTTTCACT
1 -AGCTACCACTTTTCACT
17570618 TGTCATTTGT
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
30 2 0.02
31 122 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCTAG
Found at i:17570607 original size:93 final size:93
Alignment explanation
Indices: 17570439--17570617 Score: 270
Period size: 93 Copynumber: 1.9 Consensus size: 93
17570429 TTATCACTTG
* * * *
17570439 TAGCCGAAGCTACCACTATTCACTGATCAGGTAGCTAGAGCTACCATTTTTCACTGATCAGGTAG
1 TAGCAGAAGCTACCACTATTCACTGATCAGGTAGCAAAAGCTACCACTTTTCACTGATCAGGTAG
* * *
17570504 TCGGAGCTACCATTTTTCACTGATCAGT
66 TCGAAACTACCACTTTTCACTGATCAGT
*
17570532 TAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCAAAAGCTACCACTTTTCACTGATCAGGTAG
1 TAGCAGAAGCTACCACTATTCACTGATCAGGTAGCAAAAGCTACCACTTTTCACTGATCAGGTAG
17570597 -CTGAAACTACCACTTTTCACT
66 TC-GAAACTACCACTTTTCACT
17570618 TGTCATTTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 1 0.01
93 76 0.99
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (93 bp):
TAGCAGAAGCTACCACTATTCACTGATCAGGTAGCAAAAGCTACCACTTTTCACTGATCAGGTAG
TCGAAACTACCACTTTTCACTGATCAGT
Found at i:17570687 original size:50 final size:51
Alignment explanation
Indices: 17570593--17570721 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
17570583 CACTGATCAG
* * * * * *
17570593 GTAGCTGAAACTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
*
17570644 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
17570694 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
17570722 TGCCATGGTC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 47 0.68
51 22 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:17575383 original size:15 final size:17
Alignment explanation
Indices: 17575360--17575391 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17575350 TGAAAATGCA
17575360 AAATGATT-AAATTATG
1 AAATGATTAAAATTATG
17575376 AAAT-ATTAAAATTATG
1 AAATGATTAAAATTATG
17575392 TGGTTAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
AAATGATTAAAATTATG
Found at i:17577345 original size:27 final size:26
Alignment explanation
Indices: 17577315--17577366 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
17577305 GGGAAAATCG
17577315 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
17577342 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
17577367 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:17578531 original size:43 final size:43
Alignment explanation
Indices: 17578484--17578633 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
17578474 GTTACCGAGA
17578484 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
17578527 TGTGATTACGTGTAAGACCATGTATGGGACATTGGCA-T-TAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * * * * *
17578568 TAATCGATTTCGTGTGAGACCCTGTCTAGGACAGTGGCATCG-AT
1 T-GT-GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
17578612 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
17578634 ATCTAGGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 4 0.05
42 2 0.02
43 76 0.88
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:17579197 original size:29 final size:29
Alignment explanation
Indices: 17579165--17579223 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
17579155 CGAGATAGAA
17579165 TGGTGAAACCATATGAATTATATCATGTT
1 TGGTGAAACCATATGAATTATATCATGTT
*
17579194 TGGTGAAATCATATGAATTATATCATGTT
1 TGGTGAAACCATATGAATTATATCATGTT
17579223 T
1 T
17579224 TGAGTAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (29 bp):
TGGTGAAACCATATGAATTATATCATGTT
Found at i:17584587 original size:19 final size:20
Alignment explanation
Indices: 17584553--17584592 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
17584543 ATATTGAATC
17584553 AAATTAAACTTTCATGCATA
1 AAATTAAACTTTCATGCATA
* *
17584573 AAATTATAC-TTCATGTATA
1 AAATTAAACTTTCATGCATA
17584592 A
1 A
17584593 CATTGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATTAAACTTTCATGCATA
Found at i:17585786 original size:4 final size:4
Alignment explanation
Indices: 17585777--17585803 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
17585767 TCTGATCTCG
17585777 GTTA GTTA GTTA GTTA GTTA GTTA GTT
1 GTTA GTTA GTTA GTTA GTTA GTTA GTT
17585804 GACATATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (4 bp):
GTTA
Found at i:17591637 original size:14 final size:14
Alignment explanation
Indices: 17591618--17591670 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
17591608 AGTTATTAAA
17591618 TTATTTAAAAAAAT
1 TTATTTAAAAAAAT
17591632 TTATTTAAATCATTAAA-
1 TTATTTAAA--A--AAAT
17591649 TTATTTAAAAAAAT
1 TTATTTAAAAAAAT
17591663 TTATTTAA
1 TTATTTAA
17591671 TTTATTGGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.09
14 17 0.50
15 1 0.03
16 1 0.03
17 9 0.26
18 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TTATTTAAAAAAAT
Found at i:17591647 original size:31 final size:31
Alignment explanation
Indices: 17591612--17591670 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
17591602 TAAAATAGTT
17591612 ATTAAATTATTTAAAAAAATTTATTTAAATC
1 ATTAAATTATTTAAAAAAATTTATTTAAATC
17591643 ATTAAATTATTTAAAAAAATTTATTTAA
1 ATTAAATTATTTAAAAAAATTTATTTAA
17591671 TTTATTGGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
ATTAAATTATTTAAAAAAATTTATTTAAATC
Found at i:17591654 original size:17 final size:15
Alignment explanation
Indices: 17591612--17591670 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 15
17591602 TAAAATAGTT
17591612 ATTAAATTATTTAAA
1 ATTAAATTATTTAAA
17591627 A--AAATTTATTTAAA
1 ATTAAA-TTATTTAAA
17591641 TCATTAAATTATTTAAA
1 --ATTAAATTATTTAAA
17591658 A--AAATTTATTTAA
1 ATTAAA-TTATTTAA
17591671 TTTATTGGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 6 0.16
14 17 0.45
15 2 0.05
16 1 0.03
17 9 0.24
18 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATTATTTAAA
Found at i:17594365 original size:20 final size:20
Alignment explanation
Indices: 17594338--17594376 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17594328 TGTTTATTTT
*
17594338 ATTTCAT-AATTTTTTAAAA
1 ATTTCATAAATATTTTAAAA
17594357 ATTTACATAAATATTTTAAA
1 ATTT-CATAAATATTTTAAA
17594377 TTATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTCATAAATATTTTAAAA
Found at i:17594453 original size:19 final size:19
Alignment explanation
Indices: 17594429--17594467 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17594419 ATTTTTTATA
17594429 TTTTAAAATTTATGAGAAT
1 TTTTAAAATTTATGAGAAT
* *
17594448 TTTTAAATTTTATTAGAAT
1 TTTTAAAATTTATGAGAAT
17594467 T
1 T
17594468 AGGATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTAAAATTTATGAGAAT
Found at i:17595768 original size:28 final size:28
Alignment explanation
Indices: 17595732--17595858 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
17595722 ACAGCCTGAC
*
17595732 ACACACCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
17595760 ACACGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
** *
17595788 ACACGCCAATGTCCTTCACATGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
17595816 ACACGCCCGTGTCCTTCACACGGCCATG
1 ACACGCCCGTGTCCTTCACACGGCCATG
*
17595844 ACACGCCTGTGTCCT
1 ACACGCCCGTGTCCT
17595859 AGCCCGTGTC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 91 1.00
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.20
Consensus pattern (28 bp):
ACACGCCCGTGTCCTTCACACGGCCATG
Found at i:17596996 original size:46 final size:48
Alignment explanation
Indices: 17596813--17597077 Score: 234
Period size: 46 Copynumber: 5.6 Consensus size: 48
17596803 GTATAATACT
* * * * *
17596813 GATGCCATGTCTCAGACATAGTCTTACACTGGC-T-CATCCATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACAT-C-TCGTAGCC
* **
17596860 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATATCCGT-TTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG--CTTACATCT-CGTAGCC
*
17596910 GATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCGTAGCC
*
17596956 GATG-CATGTCCTAGACAT-GTCTTACACTAGCTTACATCTCG-AGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA-GCC
* * *
17597002 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTC-AATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATCTCGTA-GCC
17597048 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
17597078 GGATCTCATA
Statistics
Matches: 185, Mismatches: 18, Indels: 29
0.80 0.08 0.12
Matches are distributed among these distances:
44 11 0.06
45 18 0.10
46 61 0.33
47 44 0.24
48 11 0.06
49 3 0.02
50 34 0.18
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGCC
Found at i:17597101 original size:94 final size:95
Alignment explanation
Indices: 17596812--17597126 Score: 280
Period size: 94 Copynumber: 3.4 Consensus size: 95
17596802 GGTATAATAC
* * *
17596812 TGATGCCATGTCTCAGACATAGTCTTACACTGGCTCATC-CATCAA-GTCGATGCCATGTCCCAG
1 TGATGCCATGTCCCAGACATAGTCTTACACTAGCTC-TCTC-TCAATGCCGATGCCATGTCCCAG
** *
17596875 ACATGGTCTTACACTAGCTCTTACATATCCGTT
64 ACATGGTCTTACACTAGCTC-TACATATGAGGT
* * * *
17596908 TCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTCGT--A-GCTGATG-CATGTCCT
1 T-GATGCCATGTCCCAGACATAGTCTTACACTAG-CTC-TCTC-TCAATGCCGATGCCATGTCCC
* *
17596968 AGACAT-GTCTTACACTAGCT-TACATCTCGAGGC
62 AGACATGGTCTTACACTAGCTCTACATAT-GAGGT
**
17597001 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 TGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTC-TCTCAATGCCGATGCCATGTCCCAGA
* * *
17597064 CATGGTCTTACACTGGATCT-CATAATGTGGT
65 CATGGTCTTACACTAGCTCTACAT-ATGAGGT
*
17597095 TGATG-CATGTTCCAGACAT-GTCTTACACTAGC
1 TGATGCCATGTCCCAGACATAGTCTTACACTAGC
17597127 ACACAAATAA
Statistics
Matches: 181, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
89 3 0.02
90 14 0.08
91 16 0.09
92 15 0.08
93 14 0.08
94 61 0.34
95 15 0.08
96 8 0.04
97 33 0.18
98 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (95 bp):
TGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCTCTCAATGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTACATATGAGGT
Found at i:17597104 original size:47 final size:46
Alignment explanation
Indices: 17596811--17597126 Score: 204
Period size: 46 Copynumber: 6.7 Consensus size: 46
17596801 GGGTATAATA
* * *
17596811 CTGATGCCATGTCTCAGACATAGTCTTACACTGGCTCATCCATCAAGT--
1 CTGATGCCATGTCCCAGACAT-GTCTTACACTAGCTC-T-CAT-ATGTGG
**
17596859 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATATCCGTTT
1 CTGATGCCATGTCCCAGACAT-GTCTTACACTAGCTC-T-CATAT--GTGG
* * * *
17596909 C-GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAG
1 CTGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAT-GTGG
* * *
17596954 CTGATG-CATGTCCTAGACATGTCTTACACTAGCT-TACATCTCGAGG
1 CTGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATAT-GTGG
** * * *
17597000 CCAATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-G
1 CTGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAT--GTGG
* * *
17597046 CCGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGG
1 CTGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-ATGTGG
* *
17597094 TTGATG-CATGTTCCAGACATGTCTTACACTAGC
1 CTGATGCCATGTCCCAGACATGTCTTACACTAGC
17597127 ACACAAATAA
Statistics
Matches: 220, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.05
45 18 0.08
46 69 0.31
47 65 0.30
48 25 0.11
49 2 0.01
50 31 0.14
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CTGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATATGTGG
Found at i:17597113 original size:140 final size:141
Alignment explanation
Indices: 17596865--17597126 Score: 363
Period size: 140 Copynumber: 1.9 Consensus size: 141
17596855 AAGTCGATGC
** **
17596865 CATGTCCCAGACATGGTCTTACACTAGCTCTTACATATCCGTTTCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTTACATATCAATGCCGATGCCATGTCCCAGACATG
*
17596930 GTCTTACACTGACACATCTCGTAGCTGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCT
66 GTCTTACACTGACACATATCGTAGCTGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCT
17596995 CGAGGCCAATG
131 CGAGGCCAATG
* *
17597006 CATGTCCCAGACAT-GTCTTACACTAGCTC-T-CGTCTCAATGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTTACATATCAATGCCGATGCCATGTCCCAGACATG
* * *
17597068 GTCTTACACTGGATCTCATAAT-GTGGTTGATGCATGTTCC-AGACATGTCTTACACTAGC
66 GTCTTACACT-GA-CACAT-ATCGTAGCTGATGCATG-TCCTAGACATGTCTTACACTAGC
17597127 ACACAAATAA
Statistics
Matches: 107, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 36 0.34
139 3 0.03
140 50 0.47
141 18 0.17
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (141 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTTACATATCAATGCCGATGCCATGTCCCAGACATG
GTCTTACACTGACACATATCGTAGCTGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCT
CGAGGCCAATG
Found at i:17598783 original size:13 final size:13
Alignment explanation
Indices: 17598746--17598789 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
17598736 AAGATTTAGT
17598746 ATTTATTAGTATA
1 ATTTATTAGTATA
*
17598759 ATATATT--TATA
1 ATTTATTAGTATA
*
17598770 ATTTATTAGCATA
1 ATTTATTAGTATA
17598783 ATTTATT
1 ATTTATT
17598790 TGACCTACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 10 0.38
13 16 0.62
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:17599468 original size:25 final size:23
Alignment explanation
Indices: 17599440--17599485 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
17599430 ACGAGCACAA
17599440 AAGTACTAAGAAATCATGAGCACTG
1 AAGTACT-AGAAAT-ATGAGCACTG
* *
17599465 AAGTGCTGGAAATATGAGCAC
1 AAGTACTAGAAATATGAGCAC
17599486 ATAAGTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 5 0.26
25 6 0.32
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (23 bp):
AAGTACTAGAAATATGAGCACTG
Found at i:17600444 original size:31 final size:31
Alignment explanation
Indices: 17600386--17600444 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
17600376 TTTAATTTAA
* *
17600386 CCCTTCAACTTTTGAATATTTATTATTTGAC
1 CCCTTCAACTTTTCAATATTTACTATTTGAC
*
17600417 CCCTTC-ACTTTTCACTAGTTTACTATTT
1 CCCTTCAACTTTTCAATA-TTTACTATTT
17600445 AGTCTATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (31 bp):
CCCTTCAACTTTTCAATATTTACTATTTGAC
Found at i:17602627 original size:15 final size:15
Alignment explanation
Indices: 17602604--17602635 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17602594 GTTTGCCAGT
*
17602604 AAAATATTTTTGGAA
1 AAAAAATTTTTGGAA
17602619 AAAAAATTTTTGGAA
1 AAAAAATTTTTGGAA
17602634 AA
1 AA
17602636 TGATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (15 bp):
AAAAAATTTTTGGAA
Found at i:17602655 original size:19 final size:21
Alignment explanation
Indices: 17602625--17602666 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
17602615 GGAAAAAAAA
17602625 TTTTTGGAAAATGATTTA-TT
1 TTTTTGGAAAATGATTTACTT
17602645 TTTTTGG-AAATGATTTACTT
1 TTTTTGGAAAATGATTTACTT
17602665 TT
1 TT
17602667 CTAGTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.57
Consensus pattern (21 bp):
TTTTTGGAAAATGATTTACTT
Found at i:17603190 original size:32 final size:29
Alignment explanation
Indices: 17603132--17603192 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 29
17603122 TGACTCAAGT
*
17603132 TTTTGATAATTAAAAAAATTAGAAAATAA
1 TTTTGATAATTAAAAAAATTAAAAAATAA
17603161 TTTTGATAATTTAATACAAAATTAAAAAATAA
1 TTTTGATAA-TTAA-A-AAAATTAAAAAATAA
17603193 AATAAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 9 0.32
30 4 0.14
31 1 0.04
32 14 0.50
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
TTTTGATAATTAAAAAAATTAAAAAATAA
Found at i:17604964 original size:14 final size:15
Alignment explanation
Indices: 17604942--17604973 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17604932 GAATTATGTT
17604942 AGTTGTATTATCATA
1 AGTTGTATTATCATA
17604957 AGTT-TATTATCATA
1 AGTTGTATTATCATA
17604971 AGT
1 AGT
17604974 ATAAATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
AGTTGTATTATCATA
Found at i:17616993 original size:16 final size:15
Alignment explanation
Indices: 17616972--17617002 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
17616962 AAGTTGGTTC
17616972 TCTTTTCTTTTTTTTT
1 TCTTTT-TTTTTTTTT
17616988 TCTTTTTTTTTTTTT
1 TCTTTTTTTTTTTTT
17617003 AAATATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TCTTTTTTTTTTTTT
Found at i:17617000 original size:12 final size:11
Alignment explanation
Indices: 17616974--17616999 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17616964 GTTGGTTCTC
17616974 TTTTCTTTTTT
1 TTTTCTTTTTT
17616985 TTTTCTTTTTT
1 TTTTCTTTTTT
17616996 TTTT
1 TTTT
17617000 TTTAAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:17629303 original size:13 final size:13
Alignment explanation
Indices: 17629285--17629312 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17629275 TAAATGACTA
17629285 AAAATATTTTTTT
1 AAAATATTTTTTT
17629298 AAAATATTTTTTT
1 AAAATATTTTTTT
17629311 AA
1 AA
17629313 TTTTTAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAAATATTTTTTT
Found at i:17634342 original size:14 final size:15
Alignment explanation
Indices: 17634323--17634352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17634313 ATGCTAATAA
17634323 ATACTAA-AAATATT
1 ATACTAATAAATATT
17634337 ATACTAATAAATATT
1 ATACTAATAAATATT
17634352 A
1 A
17634353 AATCTTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
ATACTAATAAATATT
Found at i:17635167 original size:21 final size:21
Alignment explanation
Indices: 17635138--17635179 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17635128 TTGGGTTGAT
* *
17635138 GTCTTGAGACAAGACGAATAA
1 GTCTCGAGACAAGAAGAATAA
*
17635159 GTCTCGAGATAAGAAGAATAA
1 GTCTCGAGACAAGAAGAATAA
17635180 AAGTTGTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (21 bp):
GTCTCGAGACAAGAAGAATAA
Found at i:17636798 original size:24 final size:24
Alignment explanation
Indices: 17636770--17636830 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
17636760 TAAATATATT
*
17636770 ATATGTTATTATTATATCATTTTA
1 ATATGTTATTATTATATAATTTTA
17636794 ATATGAATT-TT-TTATATAATTTTA
1 ATATG--TTATTATTATATAATTTTA
*
17636818 ATATATTATTATT
1 ATATGTTATTATT
17636831 TAAAATAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 23 0.74
25 2 0.06
26 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (24 bp):
ATATGTTATTATTATATAATTTTA
Found at i:17638959 original size:14 final size:13
Alignment explanation
Indices: 17638919--17638998 Score: 63
Period size: 13 Copynumber: 6.7 Consensus size: 13
17638909 TTATTGTATT
17638919 TATTTGATTTAAT-
1 TATTT-ATTTAATA
17638932 TATTT-TTTAA-A
1 TATTTATTTAATA
17638943 TATTATATTTAATA
1 TATT-TATTTAATA
17638957 TA-TTATTT--T-
1 TATTTATTTAATA
17638966 TA-TTATTTAA-A
1 TATTTATTTAATA
17638977 TATTATATTTAATA
1 TATT-TATTTAATA
17638991 TA-TTATTT
1 TATTTATTT
17638999 TTATTATACT
Statistics
Matches: 57, Mismatches: 0, Indels: 21
0.73 0.00 0.27
Matches are distributed among these distances:
9 8 0.14
10 1 0.02
11 11 0.19
12 12 0.21
13 19 0.33
14 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (13 bp):
TATTTATTTAATA
Found at i:17638975 original size:34 final size:34
Alignment explanation
Indices: 17638931--17639005 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
17638921 TTTGATTTAA
*
17638931 TTATTTTTTAAATATTATATTTAATATATTATTT
1 TTATTATTTAAATATTATATTTAATATATTATTT
17638965 TTATTATTTAAATATTATATTTAATATATTATTT
1 TTATTATTTAAATATTATATTTAATATATTATTT
17638999 TTATTAT
1 TTATTAT
17639006 ACTCAATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (34 bp):
TTATTATTTAAATATTATATTTAATATATTATTT
Found at i:17638979 original size:20 final size:21
Alignment explanation
Indices: 17638948--17638987 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17638938 TTAAATATTA
*
17638948 TATTTAATATATTATTTTTAT
1 TATTTAATATATTATATTTAT
17638969 TATTTAA-ATATTATATTTA
1 TATTTAATATATTATATTTA
17638988 ATATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTAATATATTATATTTAT
Found at i:17639001 original size:14 final size:14
Alignment explanation
Indices: 17638930--17639006 Score: 57
Period size: 14 Copynumber: 5.1 Consensus size: 14
17638920 ATTTGATTTA
17638930 ATTATTTTTTAA-AT
1 ATTA-TTTTTAATAT
*
17638944 ATTATATTTAATAT
1 ATTATTTTTAATAT
17638958 ATTATTTTTATTATTTAAAT
1 ATTATTTTTA--A--T--AT
*
17638978 ATTATATTTAATAT
1 ATTATTTTTAATAT
*
17638992 ATTATTTTTATTAT
1 ATTATTTTTAATAT
17639006 A
1 A
17639007 CTCAATAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
13 6 0.12
14 30 0.59
16 2 0.04
18 2 0.04
20 11 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATTTTTAATAT
Found at i:17639295 original size:8 final size:8
Alignment explanation
Indices: 17639284--17639355 Score: 60
Period size: 8 Copynumber: 9.0 Consensus size: 8
17639274 TTAATTAATT
17639284 TTTTAAAA
1 TTTTAAAA
17639292 TTTTAAAA
1 TTTTAAAA
17639300 TTTTAAAA
1 TTTTAAAA
* *
17639308 ATTCAAAA
1 TTTTAAAA
*
17639316 TTTT--AT
1 TTTTAAAA
17639322 TTTTAAAA
1 TTTTAAAA
*
17639330 -ATTAAAA
1 TTTTAAAA
17639337 TTTATTAAAA
1 -TT-TTAAAA
17639347 TTATTAAAA
1 TT-TTAAAA
17639356 AATATAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
6 5 0.10
7 6 0.12
8 25 0.49
9 9 0.18
10 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (8 bp):
TTTTAAAA
Found at i:17639329 original size:21 final size:21
Alignment explanation
Indices: 17639299--17639339 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17639289 AAATTTTAAA
17639299 ATTTT-AAAAATTCAAAATTTT
1 ATTTTAAAAAATT-AAAATTTT
*
17639320 ATTTTTAAAAATTAAAATTT
1 ATTTTAAAAAATTAAAATTT
17639340 ATTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTAAAAAATTAAAATTTT
Found at i:17645246 original size:131 final size:131
Alignment explanation
Indices: 17645012--17645403 Score: 624
Period size: 131 Copynumber: 3.0 Consensus size: 131
17645002 TAATTATTCA
* * ** *
17645012 TTTAAAAATTCTT-AAAAGCGAAGGAAATGTTCGATGTTTGGCAATTCGGGAAATCGTGCCCTAT
1 TTTAAAAACTCTTCAAAA-CGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * *
17645076 CGTGCTGGGTTGCGATTTCCCGTTAGTTCAAAACAATCGAATATTCCTTTGGAACTTCACTCATG
65 CGTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATG
17645141 TC
130 TC
*
17645143 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTGTC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
17645208 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
17645273 C
131 C
*
17645274 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCAGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * * *
17645339 GTGCTGAGTTGCGATCTCCTGTTTGTTCGAAATAACCGAATATTCCTTTAGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
17645404 TCTCTAAATT
Statistics
Matches: 243, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 239 0.98
132 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (131 bp):
TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
C
Found at i:17652641 original size:3 final size:3
Alignment explanation
Indices: 17652635--17652741 Score: 62
Period size: 3 Copynumber: 35.3 Consensus size: 3
17652625 ATATATAAAA
* * ** * *
17652635 ATT ATT ATT ATT ATT ATT -TGT TTT ATT TTT AAC CTT ATT TTT A-T
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
*
17652679 ATT ATAT ATT A-T ATA ATT ATT -TT ATT ATAT ATT ATTT ATT -TT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT ATT ATT
17652724 ATT ATTT ATT ATAT ATT A
1 ATT A-TT ATT AT-T ATT A
17652742 CTTTTCACGA
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
2 9 0.11
3 55 0.69
4 16 0.20
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:17652688 original size:7 final size:7
Alignment explanation
Indices: 17652676--17652741 Score: 69
Period size: 7 Copynumber: 9.0 Consensus size: 7
17652666 ACCTTATTTT
17652676 TATATTA
1 TATATTA
17652683 TATATTA
1 TATATTA
17652690 TATAATTA
1 TAT-ATTA
*
17652698 TTTTATTA
1 -TATATTA
17652706 TATATTA
1 TATATTA
* *
17652713 TTTATTT
1 TATATTA
17652720 TATTATTA
1 TA-TATTA
*
17652728 TTTATTA
1 TATATTA
17652735 TATATTA
1 TATATTA
17652742 CTTTTCACGA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
7 33 0.69
8 13 0.27
9 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TATATTA
Found at i:17652697 original size:15 final size:15
Alignment explanation
Indices: 17652679--17652738 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
17652669 TTATTTTTAT
*
17652679 ATTATATATTATATA
1 ATTATTTATTATATA
17652694 ATTATTTTATTATAT-
1 ATTA-TTTATTATATA
* *
17652709 ATTATTTATTTTATT
1 ATTATTTATTATATA
17652724 ATTATTTATTATATA
1 ATTATTTATTATATA
17652739 TTACTTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 9 0.23
15 21 0.54
16 9 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTTATTATATA
Found at i:17652711 original size:30 final size:29
Alignment explanation
Indices: 17652676--17652741 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
17652666 ACCTTATTTT
17652676 TATATTATATATTATATAATTATTTTATTA
1 TATATTATATATTATATAATTA-TTTATTA
* * *
17652706 TATATTATTTATTTTATTATTATTTATTA
1 TATATTATATATTATATAATTATTTATTA
17652735 TATATTA
1 TATATTA
17652742 CTTTTCACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TATATTATATATTATATAATTATTTATTA
Found at i:17652836 original size:22 final size:22
Alignment explanation
Indices: 17652681--17652912 Score: 78
Period size: 22 Copynumber: 10.5 Consensus size: 22
17652671 ATTTTTATAT
17652681 TATATATTATATAATTA-TTTTA
1 TATATATTATAT-ATTATTTTTA
* *
17652703 TTATATATTATTTATT-TTATTA
1 -TATATATTATATATTATTTTTA
* *
17652725 TTATTTATTATATATTACTTTTCA
1 -TATATATTATATATTA-TTTTTA
*
17652749 CGA-A-A-TAT-TATTA-TTTTA
1 -TATATATTATATATTATTTTTA
* *
17652767 CAT-TATTAT-TATTATATTTTT
1 TATATATTATATATTAT-TTTTA
* * **
17652788 TGTATAATATAT-TTAGTAATTA
1 TATATATTATATATTA-TTTTTA
17652810 TATATATTATATATTATTTTTACA
1 TATATATTATATATTATTTTT--A
*
17652834 TATATACTT-TCATATTA-TATTA
1 TATATA-TTAT-ATATTATTTTTA
*
17652856 TAATTATTTTATATTATATTATTTTTA
1 T-A-TA-TAT-TA-TATATTATTTTTA
* * *
17652883 TA-CTATTATATATT-TTTATC
1 TATATATTATATATTATTTTTA
17652903 TATATATTAT
1 TATATATTAT
17652913 TATCATTAAA
Statistics
Matches: 155, Mismatches: 30, Indels: 50
0.66 0.13 0.21
Matches are distributed among these distances:
17 1 0.01
18 5 0.03
19 8 0.05
20 11 0.07
21 20 0.13
22 49 0.32
23 19 0.12
24 19 0.12
25 10 0.06
26 7 0.05
27 6 0.04
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (22 bp):
TATATATTATATATTATTTTTA
Found at i:17652883 original size:21 final size:20
Alignment explanation
Indices: 17652845--17652912 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
17652835 ATATACTTTC
**
17652845 ATATTATATTATAATTATTTT
1 ATATTATATTATTTTTA-TTT
17652866 ATATTATATTATTTTTA--T
1 ATATTATATTATTTTTATTT
17652884 ACTATTATA-TATTTTTATCTAT
1 A-TATTATATTATTTTTAT-T-T
17652906 ATATTAT
1 ATATTAT
17652913 TATCATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 10 0.25
19 7 0.17
21 21 0.52
22 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTATATTATTTTTATTT
Found at i:17652891 original size:14 final size:15
Alignment explanation
Indices: 17652673--17652913 Score: 64
Period size: 15 Copynumber: 16.1 Consensus size: 15
17652663 TTAACCTTAT
17652673 TTTTATATTATA-TA
1 TTTTATATTATATTA
* *
17652687 TTATATAATTATTTTA
1 TTTTAT-ATTATATTA
*
17652703 TTATATATTAT-TTA
1 TTTTATATTATATTA
17652717 TTTTATTATTAT-TTA
1 TTTTA-TATTATATTA
* *
17652732 TTATATA-T-TACT-
1 TTTTATATTATATTA
* * *
17652744 TTTCACGA-AATATTA
1 TTTTA-TATTATATTA
* *
17652759 --TTATTTTACATTA
1 TTTTATATTATATTA
*
17652772 TTAT-TATTATATT-
1 TTTTATATTATATTA
* *
17652785 TTTTGTATAATA-TA
1 TTTTATATTATATTA
17652799 -TTTAGTAATTATATATA
1 TTTTA-T-ATTATAT-TA
*
17652816 TTATATATTAT-TT-
1 TTTTATATTATATTA
**
17652829 TTACATA-TATACTTTCA
1 TTTTATATTATA--TT-A
*
17652846 TATTATATTATAATTA
1 TTTTATATTAT-ATTA
17652862 TTTTATATTATATTA
1 TTTTATATTATATTA
*
17652877 TTTTTATACTATTATATA
1 -TTTTATATTA-TAT-TA
*
17652895 TTTTTATCTATATATTA
1 -TTTTATAT-TATATTA
17652912 TT
1 TT
17652914 ATCATTAAAG
Statistics
Matches: 168, Mismatches: 31, Indels: 54
0.66 0.12 0.21
Matches are distributed among these distances:
12 7 0.04
13 23 0.14
14 32 0.19
15 36 0.21
16 35 0.21
17 14 0.08
18 18 0.11
19 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (15 bp):
TTTTATATTATATTA
Found at i:17652891 original size:19 final size:18
Alignment explanation
Indices: 17652851--17652913 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 18
17652841 TTTCATATTA
17652851 TATTATAATTA-TTTTA--
1 TATTAT-ATTATTTTTATC
17652867 TATTATATTATTTTTATAC
1 TATTATATTATTTTTAT-C
17652886 TATTATA-TATTTTTATC
1 TATTATATTATTTTTATC
17652903 TA-TATATTATT
1 TATTATATTATT
17652914 ATCATTAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.10
16 15 0.36
17 7 0.17
18 9 0.21
19 7 0.17
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTATATTATTTTTATC
Found at i:17652901 original size:24 final size:26
Alignment explanation
Indices: 17652860--17652915 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
17652850 ATATTATAAT
* * *
17652860 TATTTTATATTATATTATTTTTATAC
1 TATTATATATTATATTATCTATATAC
*
17652886 TATTATATATT-T-TTATCTATATAT
1 TATTATATATTATATTATCTATATAC
17652910 TATTAT
1 TATTAT
17652916 CATTAAAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 15 0.58
25 1 0.04
26 10 0.38
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTATATATTATATTATCTATATAC
Found at i:17652915 original size:53 final size:53
Alignment explanation
Indices: 17652795--17652912 Score: 123
Period size: 53 Copynumber: 2.2 Consensus size: 53
17652785 TTTTGTATAA
* *
17652795 TATATTTAGTAATTA-TATATATTATATATTATTTTTACATATATACTTTCATAT
1 TATA-TTA-TAATTATTTTATATTATATATTATTTATACATATATACTTTCATAT
* * *
17652849 TATATTATAATTATTTTATATTATATTATT-TTTATACTATTATATATTTTTATCT
1 TATATTATAATTATTTTATATTATA-TATTATTTATAC-A-TATATACTTTCATAT
17652904 ATATATTAT
1 -TATATTAT
17652913 TATCATTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
52 6 0.11
53 19 0.35
54 9 0.17
55 12 0.22
56 8 0.15
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (53 bp):
TATATTATAATTATTTTATATTATATATTATTTATACATATATACTTTCATAT
Found at i:17653215 original size:18 final size:17
Alignment explanation
Indices: 17653157--17653215 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
17653147 TTCTAAACCA
*
17653157 ATATATATTTTTATTTT
1 ATATAAATTTTTATTTT
*
17653174 ATATATAATTATTATTCTT
1 ATATA-AATTTTTATT-TT
* *
17653193 TTATAAATTTTTGTTATT
1 ATATAAATTTTTATT-TT
17653211 ATATA
1 ATATA
17653216 TTATATATTG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 5 0.15
18 22 0.67
19 6 0.18
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATAAATTTTTATTTT
Found at i:17665245 original size:206 final size:206
Alignment explanation
Indices: 17664827--17665374 Score: 832
Period size: 206 Copynumber: 2.7 Consensus size: 206
17664817 TGGTTGAAGC
*
17664827 AGATCCAAGATGGTTTGGCATCCTTGTGCTTATAAGGAGCAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
* *
17664892 TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAA
66 TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * * * * *
17664957 TCGAAGCCTGGCATTCTCCACTTCGACGGAGGGCAGACACGTAGCAGATCCACCCTTCAGATGTT
131 TCGAAGCCTGGCATTCTCCACTTCAACAGAGAGCAGACACATAACAGACCCACCCTTCAGATATT
* **
17665022 TATACTGAAGT
196 TACACTGAACA
17665033 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
*
17665098 TTTCACGTGCTTACGTTGAAGCGAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * *
17665163 TCGAAGTCTGGCA-TCTCCATTTCAACAGAGAGCAGACATATAACAGACCTCA-CCTTCAGATAA
131 TCGAAGCCTGGCATTCTCCACTTCAACAGAGAGCAGACACATAACAGACC-CACCCTTCAGAT-A
17665226 TTT-CACTGAAACA
194 TTTACACTG-AACA
* * * * *
17665239 AGATCCAAGATGATTCGGCATTCTTGTGCTTACAAGGAACAAATCGAATACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
* *
17665304 TTTCGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
17665369 TCGAAG
131 TCGAAG
17665375 AAGCAGATTT
Statistics
Matches: 314, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
205 41 0.13
206 273 0.87
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (206 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGCCTGGCATTCTCCACTTCAACAGAGAGCAGACACATAACAGACCCACCCTTCAGATATT
TACACTGAACA
Found at i:17667213 original size:29 final size:27
Alignment explanation
Indices: 17667163--17667285 Score: 69
Period size: 26 Copynumber: 4.5 Consensus size: 27
17667153 TTTTACATTA
* * *
17667163 TTATTATTATATTTTTTGTATAATATAT
1 TTATTATTATATATATTATATAATAT-T
*
17667191 TTATTAATTATATATATTATATATTATT
1 TTATT-ATTATATATATTATATAATATT
* *
17667219 TTA-CA-TATATACT-TTCATATTATATT
1 TTATTATTATATA-TATT-ATATAATATT
* *
17667245 ATAATTATT-T-TATATTATATTAT-TT
1 -TTATTATTATATATATTATATAATATT
17667270 TTATACTATTATATAT
1 TTAT--TATTATATAT
17667286 TTTTTATCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
24 3 0.04
25 10 0.14
26 22 0.30
27 7 0.09
28 14 0.19
29 18 0.24
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (27 bp):
TTATTATTATATATATTATATAATATT
Found at i:17667229 original size:40 final size:38
Alignment explanation
Indices: 17667118--17667305 Score: 128
Period size: 35 Copynumber: 4.9 Consensus size: 38
17667108 AACCTTATTT
*
17667118 TTATATTATATATTACTTTTCACGAAATATTATTATTTTACATTA
1 TTATATTATATATTA-TTTT-AC-ATATA-TATTA--TTA-ATTA
*
17667163 TTATTATTATAT-TT-TTTGTATA-ATATATTTATTAATTA
1 TTA-TATTATATATTATTT-TACATATATA-TTATTAATTA
* *
17667201 TATATATTATATATTATTTTACATATATACT-TTCA-TA
1 T-TATATTATATATTATTTTACATATATATTATTAATTA
* *
17667238 TTATATTATA-ATTATTTTATAT-TATATTATT-TTTA
1 TTATATTATATATTATTTTACATATATATTATTAATTA
17667273 -TACTATTATATATT-TTTTATC-TATATATTATTA
1 TTA-TATTATATATTATTTTA-CATATATATTATTA
17667306 TCATTAAAGG
Statistics
Matches: 121, Mismatches: 8, Indels: 36
0.73 0.05 0.22
Matches are distributed among these distances:
34 7 0.06
35 28 0.23
36 21 0.17
37 3 0.02
38 16 0.13
39 11 0.09
40 10 0.08
41 6 0.05
42 1 0.01
43 4 0.03
44 1 0.01
45 5 0.04
46 8 0.07
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (38 bp):
TTATATTATATATTATTTTACATATATATTATTAATTA
Found at i:17667281 original size:14 final size:15
Alignment explanation
Indices: 17667210--17667311 Score: 62
Period size: 16 Copynumber: 6.1 Consensus size: 15
17667200 ATATATATTA
*
17667210 TATATTATTTTACAT
1 TATATTATTTTATAT
*
17667225 ATATACTTTCATATTATAT
1 -TATA--TT-ATTTTATAT
17667244 TATAATTATTTTATAT
1 TAT-ATTATTTTATAT
*
17667260 TATATTATTTTTATAC
1 TATATTA-TTTTATAT
*
17667276 TATTATATATTTTTTAT
1 TA-TAT-TATTTTATAT
17667293 CTATA-TATTATTATCAT
1 -TATATTATT-TTAT-AT
17667310 TA
1 TA
17667312 AAGGTTTTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
15 8 0.12
16 29 0.42
17 15 0.22
18 9 0.13
19 8 0.12
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTATTTTATAT
Found at i:17667292 original size:19 final size:19
Alignment explanation
Indices: 17667241--17667300 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
17667231 TTTCATATTA
*
17667241 TATTATA-ATTATTT-TA-
1 TATTATATATTTTTTATAC
17667257 TATTATAT-TATTTTTATAC
1 TATTATATAT-TTTTTATAC
17667276 TATTATATATTTTTTAT-C
1 TATTATATATTTTTTATAC
17667294 TA-TATAT
1 TATTATAT
17667301 TATTATCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
16 8 0.21
17 9 0.24
18 5 0.13
19 15 0.39
20 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTATATATTTTTTATAC
Found at i:17667473 original size:16 final size:15
Alignment explanation
Indices: 17667460--17667506 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
17667450 ATTCTAAACT
17667460 TATAT-TTATATAAA
1 TATATATTATATAAA
17667474 TATATATTATAT-AA
1 TATATATTATATAAA
*
17667488 T-TATTTTATTATAAA
1 TATATATTA-TATAAA
17667503 TATA
1 TATA
17667507 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 6 0.21
14 11 0.39
15 9 0.32
16 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATTATATAAA
Found at i:17669442 original size:154 final size:154
Alignment explanation
Indices: 17669162--17669472 Score: 586
Period size: 154 Copynumber: 2.0 Consensus size: 154
17669152 CACTTAAAGA
* *
17669162 AAAACTGTGCCAAGTTTAAAAGTTGGCTTGAGAAGAAAAGTAAATCAATCTCACTTGTTTGTTTT
1 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAAGTAAATCAATCTCACTTGTTTGCTTT
*
17669227 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGATTCTGGTTCTACAATCTATAT
66 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
17669292 ATCAAATTCCTTACATGGATTAAG
131 ATCAAATTCCTTACATGGATTAAG
*
17669316 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAGGTAAATCAATCTCACTTGTTTGCTTT
1 AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAAGTAAATCAATCTCACTTGTTTGCTTT
17669381 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
66 GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
17669446 ATCAAATTCCTTACATGGATTAAG
131 ATCAAATTCCTTACATGGATTAAG
17669470 AAA
1 AAA
17669473 CCTGAGGGAA
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 153 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (154 bp):
AAAACTGTGCCAAGTTTAAAAGCTGGCTTGAGAAGAAAAGTAAATCAATCTCACTTGTTTGCTTT
GAGTCCAATATGGTTGATCTTAGTTATAACACATGGTGAATTGAGTCTGGTTCTACAATCTATAT
ATCAAATTCCTTACATGGATTAAG
Found at i:17690046 original size:31 final size:31
Alignment explanation
Indices: 17690011--17690071 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
17690001 AGAAAAGGTG
* *
17690011 GCACCTAATGGTCATGCCTTGGGCACAGGCA
1 GCACCCAATGGTCATGCCTTCGGCACAGGCA
* *
17690042 GCACCCACTGGTCATGCCTTCGGCAGAGGC
1 GCACCCAATGGTCATGCCTTCGGCACAGGC
17690072 GGCGCCACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.18
Consensus pattern (31 bp):
GCACCCAATGGTCATGCCTTCGGCACAGGCA
Found at i:17690082 original size:30 final size:31
Alignment explanation
Indices: 17690019--17690085 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
17690009 TGGCACCTAA
*
17690019 TGGTCATGCCTTGGGCACAGGCAGCACCCAC
1 TGGTCATGCCTTCGGCACAGGCAGCACCCAC
* * *
17690050 TGGTCATGCCTTCGGCAGAGGCGGC-GCCAC
1 TGGTCATGCCTTCGGCACAGGCAGCACCCAC
17690080 TGGTCA
1 TGGTCA
17690086 CACCATCTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 10 0.31
31 22 0.69
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (31 bp):
TGGTCATGCCTTCGGCACAGGCAGCACCCAC
Found at i:17692264 original size:20 final size:20
Alignment explanation
Indices: 17692241--17692294 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
17692231 GATTTAGGAT
*
17692241 TTATTTTTATTTATCTTCAA
1 TTATTTTTATTTATATTCAA
* * *
17692261 TTATCTTTAATTATATTTAA
1 TTATTTTTATTTATATTCAA
*
17692281 TTATTTGTATTTAT
1 TTATTTTTATTTAT
17692295 TTCTAGGAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATTTTTATTTATATTCAA
Found at i:17696041 original size:18 final size:18
Alignment explanation
Indices: 17696018--17696097 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
17696008 TTTATTTCTC
* *
17696018 TTTATTTTTATTTTTTAT
1 TTTATTTTAATTATTTAT
17696036 TTTATTTTAATTATTTATTAT
1 TTTATTTTAATTA--T-TTAT
* *
17696057 TTTATCTTAATGATTTA-
1 TTTATTTTAATTATTTAT
* *
17696074 -TTA-TGTAATTATTAAT
1 TTTATTTTAATTATTTAT
17696090 TTTATTTT
1 TTTATTTT
17696098 GGATATTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
15 8 0.17
16 3 0.06
17 3 0.06
18 16 0.34
19 1 0.02
20 1 0.02
21 15 0.32
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTATTTTAATTATTTAT
Found at i:17696049 original size:21 final size:21
Alignment explanation
Indices: 17696025--17696077 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
17696015 CTCTTTATTT
* *
17696025 TTATTTTTTATTTTATTTTAA
1 TTATTTATTATTTTATCTTAA
17696046 TTATTTATTATTTTATCTTAA
1 TTATTTATTATTTTATCTTAA
*
17696067 TGATTTATTAT
1 TTATTTATTAT
17696078 GTAATTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTTATTATTTTATCTTAA
Found at i:17697171 original size:96 final size:94
Alignment explanation
Indices: 17696990--17697180 Score: 269
Period size: 94 Copynumber: 2.0 Consensus size: 94
17696980 ATTAATTTTA
*
17696990 AGAATATGTTGAGCTGAGTAACCGGGGTGAGGTGGTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
1 AGAATATGTTGAGCTGAGTAACCGGGGT-AGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
* * *
17697055 TTCGATATGTTCTTAAGAAAAATAAA-AATT
65 TTCAATATATTCCTAAG-AAAATAAATAATT
* *
17697085 AGAAGTATGTTGGGCTGAGTAACTGGGGT-GGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
1 AGAA-TATGTTGAGCTGAGTAACCGGGGTAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGG
17697149 TTCAATATATTCCTAAGTGAAAATAAATAATT
65 TTCAATATATTCCTAA--GAAAATAAATAATT
17697181 TAAATTAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
94 47 0.55
95 12 0.14
96 27 0.31
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (94 bp):
AGAATATGTTGAGCTGAGTAACCGGGGTAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
TCAATATATTCCTAAGAAAATAAATAATT
Found at i:17697956 original size:30 final size:30
Alignment explanation
Indices: 17697921--17697980 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17697911 TATTTTATTA
*
17697921 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
17697951 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
17697981 CTTATTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:17698585 original size:10 final size:10
Alignment explanation
Indices: 17698570--17698621 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
17698560 TAAATTTAGG
17698570 ATTTATTTTT
1 ATTTATTTTT
* *
17698580 ATTTATCTTC
1 ATTTATTTTT
* *
17698590 AATTATCTTT
1 ATTTATTTTT
*
17698600 ATTTATTTAT
1 ATTTATTTTT
17698610 ATTTATCTTTT
1 ATTTAT-TTTT
17698621 A
1 A
17698622 GAATTTAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
10 29 0.88
11 4 0.12
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:17698619 original size:20 final size:21
Alignment explanation
Indices: 17698570--17698619 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
17698560 TAAATTTAGG
*
17698570 ATTTATTTTTATTTATCTTCA
1 ATTTATCTTTATTTATCTTCA
17698591 A-TTATCTTTATTTAT-TT-A
1 ATTTATCTTTATTTATCTTCA
17698609 TATTTATCTTT
1 -ATTTATCTTT
17698620 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 21 0.81
21 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTATCTTTATTTATCTTCA
Found at i:17699357 original size:17 final size:18
Alignment explanation
Indices: 17699329--17699362 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
17699319 TATTCTCCAT
17699329 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
17699347 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
17699363 CAATTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:17701585 original size:25 final size:25
Alignment explanation
Indices: 17701556--17701605 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
17701546 CCTTATAATA
* * *
17701556 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
17701581 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
17701606 GTTTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:17701672 original size:20 final size:20
Alignment explanation
Indices: 17701649--17701707 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
17701639 TAAACATGGT
17701649 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
17701669 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
17701689 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
17701708 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:17701689 original size:11 final size:11
Alignment explanation
Indices: 17701653--17701707 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17701643 CATGGTATGT
17701653 ATGATATGCAC
1 ATGATATGCAC
* *
17701664 ATGACATG--T
1 ATGATATGCAC
17701673 ATGATATGCAC
1 ATGATATGCAC
*
17701684 ATGATATG--T
1 ATGATATGCAC
17701693 ATGATATGCAC
1 ATGATATGCAC
17701704 ATGA
1 ATGA
17701708 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Done.