Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 143 of 295
Found at i:44258699 original size:2 final size:2
Alignment explanation
Indices: 44258692--44258716 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44258682 GACAGATCAG
44258692 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
44258717 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44258721 original size:2 final size:2
Alignment explanation
Indices: 44258716--44258742 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44258706 ATATATATAT
44258716 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
44258743 TTACTATAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44262062 original size:18 final size:18
Alignment explanation
Indices: 44262022--44262065 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44262012 TTACTAAAAC
*
44262022 TAAAAAATAATATTTTATT
1 TAAAAAAT-ATATTTTATA
44262041 TAAAAAAT-TATTTTAATA
1 TAAAAAATATATTTT-ATA
44262059 TAAAAAA
1 TAAAAAA
44262066 AAGAGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 9 0.39
19 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAAATATATTTTATA
Found at i:44262582 original size:23 final size:23
Alignment explanation
Indices: 44262555--44262599 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
44262545 GTAATTATTG
44262555 TTGCAACTTGTAGTAGCCTCTAT
1 TTGCAACTTGTAGTAGCCTCTAT
44262578 TTGCAACTTGTAGTAGCCTCTA
1 TTGCAACTTGTAGTAGCCTCTA
44262600 CCTCATCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (23 bp):
TTGCAACTTGTAGTAGCCTCTAT
Found at i:44268167 original size:73 final size:73
Alignment explanation
Indices: 44268090--44268236 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
44268080 TCTAAGAATT
44268090 AAAACAATCTTTTAATGCTTCATTTATAAAACTTATCTTCAAATTCTCTTTTATATTTCACCATA
1 AAAACAATCTTTTAATGCTTCATTTATAAAACTTATCTTCAAATTCTCTTTTATATTTCACCATA
44268155 TCAAGTCC
66 TCAAGTCC
* * *
44268163 AAAACAATCTTTTAATGCTTCATTTATAAAATTTATCTTCAATTTCTCTTTTATATTTCACTATA
1 AAAACAATCTTTTAATGCTTCATTTATAAAACTTATCTTCAAATTCTCTTTTATATTTCACCATA
44268228 TCAAGTCC
66 TCAAGTCC
44268236 A
1 A
44268237 GGAATGTTAC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (73 bp):
AAAACAATCTTTTAATGCTTCATTTATAAAACTTATCTTCAAATTCTCTTTTATATTTCACCATA
TCAAGTCC
Found at i:44282187 original size:8 final size:8
Alignment explanation
Indices: 44282152--44282186 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
44282142 GTCGTGGCCC
44282152 TTTCTTTT
1 TTTCTTTT
44282160 TTTCTTTT
1 TTTCTTTT
44282168 TTTCTTGTT
1 TTTCTT-TT
44282177 TTT-TTTT
1 TTTCTTTT
44282184 TTT
1 TTT
44282187 TGGGGGGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 16 0.62
9 5 0.19
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (8 bp):
TTTCTTTT
Found at i:44288233 original size:18 final size:18
Alignment explanation
Indices: 44288207--44288241 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44288197 AAATAGTTAA
*
44288207 AATTGTTGAAAATTTTGT
1 AATTGTTGAAAACTTTGT
*
44288225 AATTTTTGAAAACTTTG
1 AATTGTTGAAAACTTTG
44288242 AAGCATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (18 bp):
AATTGTTGAAAACTTTGT
Found at i:44290206 original size:38 final size:38
Alignment explanation
Indices: 44290155--44290230 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
44290145 TCTAAACAAT
44290155 AACAATCCCTCACAACATGAATTGTTGTTTCGATAGTC
1 AACAATCCCTCACAACATGAATTGTTGTTTCGATAGTC
44290193 AACAATCCCTCACAACATGAATTGTTGTTTCGATAGTC
1 AACAATCCCTCACAACATGAATTGTTGTTTCGATAGTC
44290231 TCCCCACACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
AACAATCCCTCACAACATGAATTGTTGTTTCGATAGTC
Found at i:44292468 original size:14 final size:14
Alignment explanation
Indices: 44292449--44292477 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44292439 AGCTTAATAG
44292449 TATATTTTAAAAAA
1 TATATTTTAAAAAA
44292463 TATATTTTAAAAAA
1 TATATTTTAAAAAA
44292477 T
1 T
44292478 CCGAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATTTTAAAAAA
Found at i:44293002 original size:287 final size:288
Alignment explanation
Indices: 44292473--44293649 Score: 1768
Period size: 287 Copynumber: 4.1 Consensus size: 288
44292463 TATATTTTAA
* * * * *
44292473 AAAATCCGAAAATAAAAT--AAAAAAGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAATAT
1 AAAATCCGAAAACAAAATAAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
*
44292536 ACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAAATAAAATACGAAAATAGT
66 ACTAAAATAATAC--ATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
* * * *
44292601 ATATTTTAAAAAATAAAATTCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTTAC
129 ATATTTTAAAAAATAAAATCCAAAAAT-AAA-AAAAAACAAAGGGCCAAAATCAGAGTTTTTTTC
*
44292666 TAAATTAATATAAAAAAACTAAAATAATACATTTG--A-ATCATGTACTAAAATAATATAAAAAA
192 TAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAA
* *
44292728 ATAAAATACTAAAATATTATATTTTAAAAAAT
257 ATAAAATACAAAAATAGTATATTTTAAAAAAT
*
44292760 AAAATTCGGGAAAACAAAATAAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATAT-AAA
1 AAAA-TC-CGAAAACAAAATAAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAA
* *
44292824 AAACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAACAAAATACGAAAATAAT
64 AAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
* *
44292888 ATATTTTAAAAAATAAAATCCAAAAATAAAAATAAA-AAAGGGCCAAAATCATAGTTTTTTTCTA
129 ATATTTTAAAAAATAAAATCCAAAAATAAAAAAAAACAAAGGGCCAAAATCAGAGTTTTTTTCTA
*
44292952 AATTAATATAAAAAAACTAAAATAATACATTTAAAACATTATGTACTAAAATAATATAAAAAAAT
194 AATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAAT
*
44293017 AAAATACGAAAATAGTATATTTTAAAAAAT
259 AAAATACAAAAATAGTATATTTTAAAAAAT
*
44293047 AAAATCCGAAAACAAAAT-GAAAAAAGAGCCAAAATCACAGATTTTTACTAAATTAATATAAAAA
1 AAAATCCGAAAACAAAATAAAAAAAAG-GCCAAAATCACAGATTTTTACTAAATTAATATAAAAA
*
44293111 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATCCGAAAATAGTA
65 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTA
* *
44293176 TATTTTAAAAAATAAAATCCAAAAATAAAAATAAA-AAAGGGCTAAAATCAGAGTTTTTTTCTAA
130 TATTTTAAAAAATAAAATCCAAAAATAAAAAAAAACAAAGGGCCAAAATCAGAGTTTTTTTCTAA
44293240 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
195 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATA
44293305 AAATACAAAAATAGTATATTTTAAAAAAT
260 AAATACAAAAATAGTATATTTTAAAAAAT
* * * * * *
44293334 AAAATCCAAAAATAAAATAAAAAATAAACGGCCAGAATCAGAGTTTTTTATTAAATTAATATAAA
1 AAAATCCGAAAACAAAAT-AAAAA-AAA-GGCCAAAATCACAGATTTTTACTAAATTAATATAAA
44293399 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
63 AAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
* * * *
44293464 AGTATATTTTAAAAAGTAAAATCCGAAAATAAAATAAAAAAACAAATGGCCAAAATTAGAGTTTT
126 AGTATATTTTAAAAAATAAAATCC-AAAA-ATAA-AAAAAAACAAAGGGCCAAAATCAGAGTTTT
*
44293529 TTAT-TAAATTAATATAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
188 TT-TCTAAATTAATATAAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
* *
44293593 --AAAAATAAAATACAAAAATAATATATTTTGAAAAAT
251 AAAAAAATAAAATACAAAAATAGTATATTTTAAAAAAT
*
44293629 AAAATCCGAAAATAAAATAAA
1 AAAATCCGAAAACAAAATAAA
44293650 TACCAAAATA
Statistics
Matches: 822, Mismatches: 46, Indels: 37
0.91 0.05 0.04
Matches are distributed among these distances:
284 64 0.08
285 48 0.06
286 51 0.06
287 298 0.36
288 28 0.03
289 13 0.02
290 67 0.08
291 38 0.05
292 68 0.08
293 4 0.00
294 6 0.01
295 57 0.07
296 38 0.05
297 42 0.05
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (288 bp):
AAAATCCGAAAACAAAATAAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
ACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAT
ATTTTAAAAAATAAAATCCAAAAATAAAAAAAAACAAAGGGCCAAAATCAGAGTTTTTTTCTAAA
TTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAA
AATACAAAAATAGTATATTTTAAAAAAT
Found at i:44293070 original size:145 final size:144
Alignment explanation
Indices: 44292473--44293649 Score: 1716
Period size: 145 Copynumber: 8.1 Consensus size: 144
44292463 TATATTTTAA
* *
44292473 AAAATCCGAAAATAAAAT-AAAAAA-GGCCAAAATCAGAGTTTTTTACTAAATTAATATAAATAT
1 AAAATCCGAAAATAAAATAAAAAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
* *
44292536 ACTAAAATAATACATATGAAACATTATGTACTAAAATAATAAAAAAAATAAAATACGAAAATAGT
66 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
44292601 ATATTTTAAAAAAT
131 ATATTTTAAAAAAT
* *
44292615 AAAATTCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
1 AAAATCCGAAAATAAAAT--AAAA-AAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
* *
44292680 AAAACTAAAATAATACATTTG--A-ATCATGTACTAAAATAATATAAAAAAATAAAATACTAAAA
63 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAA
*
44292742 TATTATATTTTAAAAAAT
127 TAGTATATTTTAAAAAAT
* * * * *
44292760 AAAATTCGGGAAAACAAAATAAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATAT-AAA
1 AAAA-TC-CGAAAATAAAATAAAAAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAA
*
44292824 AAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATAT-AAAAACAAAATACGAAAATA
64 AAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
*
44292886 ATATATTTTAAAAAAT
129 GTATATTTTAAAAAAT
* * *
44292902 AAAATCCAAAAATAAAA-ATAAAAAAGGGCCAAAATCATAGTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAATA-AAAAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAA
*
44292966 AACTAAAATAATACATTTAAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATA
65 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATA
44293031 GTATATTTTAAAAAAT
129 GTATATTTTAAAAAAT
* * * * *
44293047 AAAATCCGAAAACAAAATGAAAAAAGAGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAATAAAAAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
*
44293112 ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATCCGAAAATAGT
66 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
44293175 ATATTTTAAAAAAT
131 ATATTTTAAAAAAT
* * *
44293189 AAAATCCAAAAATAAAA-ATAAAAAAGGGCTAAAATCAGAGTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAATA-AAAAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAA
*
44293253 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATA
65 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATA
44293318 GTATATTTTAAAAAAT
129 GTATATTTTAAAAAAT
* * * *
44293334 AAAATCCAAAAATAAAATAAAAAATAAACGGCCAGAATCAGAGTTTTTTATTAAATTAATATAAA
1 AAAATCCGAAAATAAAAT--AAAA-AAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAA
44293399 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
63 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
*
44293464 AGTATATTTTAAAAAGT
128 AGTATATTTTAAAAAAT
* * *
44293481 AAAATCCGAAAATAAAATAAAAAAACAAATGGCCAAAATTAGAGTTTTTTATTAAATTAATATAA
1 AAAATCCGAAAATAAAAT---AAAA-AAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAA
* *
44293546 AAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACAAAA
62 AAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAA
* *
44293610 ATAATATATTTTGAAAAAT
126 ATAGTATATTTTAAAAAAT
44293629 AAAATCCGAAAATAAAATAAA
1 AAAATCCGAAAATAAAATAAA
44293650 TACCAAAATA
Statistics
Matches: 943, Mismatches: 64, Indels: 53
0.89 0.06 0.05
Matches are distributed among these distances:
139 1 0.00
140 44 0.05
141 23 0.02
142 160 0.17
143 70 0.07
144 97 0.10
145 207 0.22
146 4 0.00
147 119 0.13
148 177 0.19
149 41 0.04
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (144 bp):
AAAATCCGAAAATAAAATAAAAAAAGGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAA
ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
ATATTTTAAAAAAT
Found at i:44293346 original size:13 final size:12
Alignment explanation
Indices: 44293326--44293361 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
44293316 TAGTATATTT
44293326 TAAAAAATAAAA
1 TAAAAAATAAAA
*
44293338 TCCAAAAATAAAA
1 T-AAAAAATAAAA
44293351 TAAAAAATAAA
1 TAAAAAATAAA
44293362 CGGCCAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:44293649 original size:54 final size:53
Alignment explanation
Indices: 44293546--44293649 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 53
44293536 ATTAATATAA
* * ** * *
44293546 AAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAT
1 AAAATACAAAAATAATACATTTGAAAAATAAAATACGAAAATAAAATAAAAAT
* *
44293599 AAAATACAAAAATAATATATTTTGAAAAATAAAATCCGAAAATAAAATAAA
1 AAAATACAAAAATAATACA-TTTGAAAAATAAAATACGAAAATAAAATAAA
44293650 TACCAAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 18 0.43
54 24 0.57
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (53 bp):
AAAATACAAAAATAATACATTTGAAAAATAAAATACGAAAATAAAATAAAAAT
Found at i:44296812 original size:9 final size:9
Alignment explanation
Indices: 44296798--44296834 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
44296788 TCTTCTATTC
44296798 TCTTTCTTT
1 TCTTTCTTT
44296807 TCTTTCTTT
1 TCTTTCTTT
* *
44296816 TTTTTCTAT
1 TCTTTCTTT
44296825 TCTTTCTTT
1 TCTTTCTTT
44296834 T
1 T
44296835 GTTTATGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (9 bp):
TCTTTCTTT
Found at i:44296857 original size:5 final size:5
Alignment explanation
Indices: 44296842--44296914 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
44296832 TTTGTTTATG
44296842 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
44296890 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
44296915 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:44296867 original size:19 final size:19
Alignment explanation
Indices: 44296843--44296885 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
44296833 TTGTTTATGT
44296843 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
44296862 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
44296881 ATATA
1 ATATA
44296886 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:44296895 original size:24 final size:25
Alignment explanation
Indices: 44296849--44296913 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
44296839 ATGTATATAT
* *
44296849 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
44296873 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
44296898 TTACTATAATATAATA
1 ATAATATAATATAATA
44296914 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:44302720 original size:22 final size:22
Alignment explanation
Indices: 44302694--44302735 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
44302684 AAAATTACCT
44302694 TTTCTTTTCTTTC-TTCTTCTCC
1 TTTC-TTTCTTTCTTTCTTCTCC
44302716 TTTCTTTCTTTCTTTCTTCT
1 TTTCTTTCTTTCTTTCTTCT
44302736 TCCTCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCTTTCTTTCTTTCTTCTCC
Found at i:44302844 original size:27 final size:27
Alignment explanation
Indices: 44302814--44302884 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
44302804 GAGTCAAAGT
**
44302814 TGTGAGAAAGGCACCACTGGTGCCACC
1 TGTGAGAAACCCACCACTGGTGCCACC
* ** *
44302841 TGTGGGGTACCCTCCACTGGTGCCACC
1 TGTGAGAAACCCACCACTGGTGCCACC
* *
44302868 TGTGGGATACCCACCAC
1 TGTGAGAAACCCACCAC
44302885 CCTTATTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.18
Consensus pattern (27 bp):
TGTGAGAAACCCACCACTGGTGCCACC
Found at i:44311622 original size:12 final size:12
Alignment explanation
Indices: 44311607--44311633 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44311597 GTATCATGAC
44311607 ATGTATATATAT
1 ATGTATATATAT
44311619 ATGTATATATAT
1 ATGTATATATAT
44311631 ATG
1 ATG
44311634 ACTAGTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:44319622 original size:27 final size:27
Alignment explanation
Indices: 44319591--44319921 Score: 144
Period size: 27 Copynumber: 12.3 Consensus size: 27
44319581 AGAATTATTG
* *
44319591 AATACATTTGGTTTATAAAATTACCAA
1 AATACACTTGATTTATAAAATTACCAA
* * * *
44319618 AATAC-CCTCAATTAGAAAAATTACCAA
1 AATACACTTGATTTA-TAAAATTACCAA
* * * *
44319645 AATACCCTTGGTTTGTAAAATTGCCAA
1 AATACACTTGATTTATAAAATTACCAA
* * *
44319672 AATAC-CATTGATTTGTGAAATTACCGA
1 AATACAC-TTGATTTATAAAATTACCAA
* * * **
44319699 AATAGC-CCTGATTTGTGAAATTACTGA
1 AATA-CACTTGATTTATAAAATTACCAA
* * *
44319726 AATATCA-TTGACTTGTAAAATTACCGA
1 AATA-CACTTGATTTATAAAATTACCAA
* **
44319753 AATACCCTTGATTTGGAAAATTACCAA
1 AATACACTTGATTTATAAAATTACCAA
* *
44319780 AATAC-CATTGATTTAGAAAATTACAAA
1 AATACAC-TTGATTTATAAAATTACCAA
* * * * *
44319807 AATACCCCTAATTTACAAAATTACAAA
1 AATACACTTGATTTATAAAATTACCAA
44319834 AATAC-CATTGACTTTCA-AAAATTA-CAGA
1 AATACAC-TTGA-TTT-ATAAAATTACCA-A
* * **
44319862 AATAC-CATTGGTTTGTAAAATTACTGA
1 AATACAC-TTGATTTATAAAATTACCAA
* * *
44319889 AATA-ACCTTGATTTGTAGATTTACCAA
1 AATACA-CTTGATTTATAAAATTACCAA
44319916 AA-ACAC
1 AATACAC
44319922 CCTTGTAGGG
Statistics
Matches: 242, Mismatches: 45, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
26 10 0.04
27 202 0.83
28 29 0.12
29 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (27 bp):
AATACACTTGATTTATAAAATTACCAA
Found at i:44319665 original size:54 final size:54
Alignment explanation
Indices: 44319606--44319899 Score: 220
Period size: 54 Copynumber: 5.4 Consensus size: 54
44319596 ATTTGGTTTA
* * *
44319606 TAAAATTACCAAAATACCCTCAATTAGAAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCTTGAATTAGAAAAATTACCAAAATACCCTTGATTTG
* * ** *
44319660 TAAAATTGCCAAAATACCATTG-ATTTGTGAAATTACCGAAATAGCCC-TGATTTG
1 TAAAATTACCAAAATACC-TTGAATTAGAAAAATTACCAAAATA-CCCTTGATTTG
* ** * * * *
44319714 TGAAATTACTGAAATATCATTGACTT-GTAAAATTACCGAAATACCCTTGATTTG
1 TAAAATTACCAAAATA-CCTTGAATTAGAAAAATTACCAAAATACCCTTGATTTG
* * * * * *
44319768 GAAAATTACCAAAATACCATTGATTTAG-AAAATTACAAAAATACCCCTAATTTA
1 TAAAATTACCAAAATACC-TTGAATTAGAAAAATTACCAAAATACCCTTGATTTG
* * * ** * *
44319822 CAAAATTACAAAAATACCATTGACTTTCAAAAATTA-CAGAAATACCATTGGTTTG
1 TAAAATTACCAAAATACC-TTGAATTAGAAAAATTACCA-AAATACCCTTGATTTG
**
44319877 TAAAATTACTGAAATAACCTTGA
1 TAAAATTACCAAAAT-ACCTTGA
44319900 TTTGTAGATT
Statistics
Matches: 190, Mismatches: 40, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
53 4 0.02
54 141 0.74
55 42 0.22
56 3 0.02
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (54 bp):
TAAAATTACCAAAATACCTTGAATTAGAAAAATTACCAAAATACCCTTGATTTG
Found at i:44319696 original size:81 final size:79
Alignment explanation
Indices: 44319607--44319867 Score: 211
Period size: 81 Copynumber: 3.2 Consensus size: 79
44319597 TTTGGTTTAT
* ** *
44319607 AAAATTACCAAAATACCCTCAATTAGAAAAATTACCAAAATACCCTTGGTTTGTAAAATTGCCAA
1 AAAATTACCAAAATACCCT-AATTAG-AAAATTACAAAAATACCCTTGACTTGTAAAATTACCAA
44319672 AATACCATTGATTTGTG
64 AATACCATTGATTTG-G
* * * * ** * * *
44319689 -AAATTACCGAAATAGCCCTGATTTGTGAAATTACTGAAATATCATTGACTTGTAAAATTACCGA
1 AAAATTACCAAAATA-CCCTAATTAG-AAAATTACAAAAATACCCTTGACTTGTAAAATTACCAA
*
44319753 AATACCCTTGATTTGG
64 AATACCATTGATTTGG
* * * * * ** *
44319769 AAAATTACCAAAATACCATTGATTTAGAAAATTACAAAAATACCCCTAATTTACAAAATTACAAA
1 AAAATTACCAAAATACC-CT-AATTAGAAAATTACAAAAATACCCTTGACTTGTAAAATTACCAA
**
44319834 AATACCATTGACTTTCA
64 AATACCATTGA-TTTGG
44319851 AAAATTA-CAGAAATACC
1 AAAATTACCA-AAATACC
44319868 ATTGGTTTGT
Statistics
Matches: 139, Mismatches: 34, Indels: 12
0.75 0.18 0.06
Matches are distributed among these distances:
80 3 0.02
81 112 0.81
82 24 0.17
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (79 bp):
AAAATTACCAAAATACCCTAATTAGAAAATTACAAAAATACCCTTGACTTGTAAAATTACCAAAA
TACCATTGATTTGG
Found at i:44319756 original size:108 final size:108
Alignment explanation
Indices: 44319633--44319902 Score: 312
Period size: 108 Copynumber: 2.5 Consensus size: 108
44319623 CCTCAATTAG
* * * *
44319633 AAAAATTACCAAAATACCCTTGGTTTGTAAAATTGCCAAAATACCATTGATTT-GTGAAATTACC
1 AAAAATTACCGAAATACCCTTGGTTTGTAAAATTACCAAAATACCATTGATTTAG-AAAATTACA
* * * *** ** *
44319697 GAAATAGCCCTGATTTGTGAAATTACTGAAATATCATTGACTTGT
65 AAAATACCCCTAATTTACAAAATTACAAAAATACCATTGACTT-T
* *
44319742 -AAAATTACCGAAATACCCTTGATTTGGAAAATTACCAAAATACCATTGATTTAGAAAATTACAA
1 AAAAATTACCGAAATACCCTTGGTTTGTAAAATTACCAAAATACCATTGATTTAGAAAATTACAA
44319806 AAATACCCCTAATTTACAAAATTACAAAAATACCATTGACTTT
66 AAATACCCCTAATTTACAAAATTACAAAAATACCATTGACTTT
* * **
44319849 CAAAAATTACAGAAATACCATTGGTTTGTAAAATTACTGAAATAACC-TTGATTT
1 -AAAAATTACCGAAATACCCTTGGTTTGTAAAATTACCAAAAT-ACCATTGATTT
44319903 GTAGATTTAC
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
107 1 0.01
108 89 0.65
109 43 0.32
110 3 0.02
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.31
Consensus pattern (108 bp):
AAAAATTACCGAAATACCCTTGGTTTGTAAAATTACCAAAATACCATTGATTTAGAAAATTACAA
AAATACCCCTAATTTACAAAATTACAAAAATACCATTGACTTT
Found at i:44320856 original size:27 final size:26
Alignment explanation
Indices: 44320811--44320869 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
44320801 TGTTTTTGGT
* * *
44320811 TGGGCTGAGCCCAATTGAT-TCTGTTA
1 TGGGCTGAACCCAAATGATAT-TGTAA
44320837 TGGGCTGCAACCCAAATGATATTGTAA
1 TGGGCTG-AACCCAAATGATATTGTAA
44320864 TGGGCT
1 TGGGCT
44320870 TTGGCCCACG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.25
27 20 0.71
28 1 0.04
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (26 bp):
TGGGCTGAACCCAAATGATATTGTAA
Found at i:44321645 original size:32 final size:32
Alignment explanation
Indices: 44321609--44321672 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
44321599 ACTCAAGGAG
44321609 ATGAGATTCTGTCGTAAATCAGGTACATACCT
1 ATGAGATTCTGTCGTAAATCAGGTACATACCT
*
44321641 ATGAGATTCTTTCGTAAATCAGGTACATACCT
1 ATGAGATTCTGTCGTAAATCAGGTACATACCT
44321673 GACATCTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (32 bp):
ATGAGATTCTGTCGTAAATCAGGTACATACCT
Found at i:44325989 original size:33 final size:33
Alignment explanation
Indices: 44325947--44326012 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
44325937 CCAAATCTTG
44325947 TTTCCTTTTTATGGTGATTCCATATTGGAAGAT
1 TTTCCTTTTTATGGTGATTCCATATTGGAAGAT
44325980 TTTCCTTTTTATGGTGATTCCATATTGGAAGAT
1 TTTCCTTTTTATGGTGATTCCATATTGGAAGAT
44326013 CTGGTGGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCCTTTTTATGGTGATTCCATATTGGAAGAT
Found at i:44331666 original size:47 final size:46
Alignment explanation
Indices: 44331602--44331817 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 46
44331592 ATTGTTGGCT
* * * *
44331602 AGTGTAAAAGATGTCTGGGACATGCATCAACCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAACCACATGACGAGAGCC
* * * *
44331648 AGTATAAGACCATGTCTGGGACATGGCATC-AGCA-TTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAACCACAT--GACGAGAGCC
*
44331696 AGTGTAAGACATGTCTGGGACATGCATCGATCTC-CA-GACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-AAC-CACATGACG-AGAGCC
* * * * **
44331742 AGTGTAAGACATGTCTGGGACATGCATCAACTACAAGATGATAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCAACCACATGACGAGAGCC
44331788 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
44331818 GACACCTTAC
Statistics
Matches: 138, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
45 5 0.04
46 62 0.45
47 45 0.33
48 25 0.18
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCACATGACGAGAGCC
Found at i:44331746 original size:46 final size:48
Alignment explanation
Indices: 44331641--44331819 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 48
44331631 ACCACATTAT
* *
44331641 GAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCAGCAT-T-GAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ATCTCAAGAC
* *
44331689 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGATCTCCAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGATCTCAAGAC
* *
44331735 GTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-AACTACAAGAT
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGATCT-CAAGAC
* **
44331781 GATAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
44331820 CACCTTACCT
Statistics
Matches: 114, Mismatches: 9, Indels: 15
0.83 0.07 0.11
Matches are distributed among these distances:
44 2 0.02
45 6 0.05
46 57 0.50
47 29 0.25
48 19 0.17
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGATCTCAAGAC
Found at i:44332808 original size:28 final size:28
Alignment explanation
Indices: 44332768--44332823 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
44332758 ACACGGGCTA
44332768 GGACACGGGCGTGTTGT-GGCCGTGTGAG
1 GGACACGGGCGTG-TGTCGGCCGTGTGAG
*
44332796 GGACATGGGCGTGTGTCCGGCCGTGTGA
1 GGACACGGGCGTGTGT-CGGCCGTGTGA
44332824 AAACCCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 3 0.12
28 12 0.48
29 10 0.40
ACGTcount: A:0.11, C:0.20, G:0.48, T:0.21
Consensus pattern (28 bp):
GGACACGGGCGTGTGTCGGCCGTGTGAG
Found at i:44332981 original size:20 final size:21
Alignment explanation
Indices: 44332943--44332981 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44332933 TCGAGTTGGT
*
44332943 CACACGGGCGTGTTGCCCTCC
1 CACACGGGCATGTTGCCCTCC
44332964 CACACGGGCATG-TGCCCT
1 CACACGGGCATGTTGCCCT
44332982 GTCTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.41, G:0.28, T:0.18
Consensus pattern (21 bp):
CACACGGGCATGTTGCCCTCC
Found at i:44338859 original size:30 final size:31
Alignment explanation
Indices: 44338825--44338884 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
44338815 TTTTTGAGCA
*
44338825 TAGGGGTAAAATGGTCATTTTACC-AAGATC
1 TAGGGGCAAAATGGTCATTTTACCGAAGATC
44338855 TAGGGGCAAAATGGTCATTTTACCGAAGAT
1 TAGGGGCAAAATGGTCATTTTACCGAAGAT
44338885 GTGAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (31 bp):
TAGGGGCAAAATGGTCATTTTACCGAAGATC
Found at i:44339364 original size:46 final size:46
Alignment explanation
Indices: 44339219--44339434 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 46
44339209 CTTGTTAGCT
* * * * *
44339219 AGTGTAAGAGATGTCTGAGACATGCATCAGCCA-C-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATCGA-AACGAGAGCC
* * * * *
44339265 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAAACGAGAGCC
*
44339313 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAAACG-AGAGCC
* * * * * *
44339359 AGTGTAAGACATGTCTGGGACATGTATCGAC-TACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAAACGAGAGCC
*
44339405 AGTGTAAGACCATGTCTGGGATATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
44339435 TACTTGAGAT
Statistics
Matches: 141, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 70 0.50
47 42 0.30
48 26 0.18
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAAACGAGAGCC
Found at i:44339423 original size:93 final size:95
Alignment explanation
Indices: 44339261--44339434 Score: 241
Period size: 93 Copynumber: 1.9 Consensus size: 95
44339251 ACATTATGAG
* *
44339261 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCTATCGAGATGAGAGCTAGTGTAAGACATG
44339326 TCTGGGACAT-GCATCGGCCTCGAAACGTA
66 TCTGGGACATGGCATCGGCCTCGAAACGTA
* *
44339355 AGCCAGTGTAAGA-CATGTCTGGGACAT-GTATCGACTA-CGAGATGATAG-TCAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CTATCGAGATGAGAGCT-AGTGTAAGA-C
*
44339416 ATGTCTGGGATATGGCATC
63 ATGTCTGGGACATGGCATC
44339435 TACTTGAGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
91 1 0.01
92 23 0.32
93 29 0.41
94 18 0.25
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCTATCGAGATGAGAGCTAGTGTAAGACATG
TCTGGGACATGGCATCGGCCTCGAAACGTA
Found at i:44339444 original size:47 final size:48
Alignment explanation
Indices: 44339261--44339483 Score: 203
Period size: 47 Copynumber: 4.7 Consensus size: 48
44339251 ACATTATGAG
* *
44339261 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTA-TTGAGATGA-G
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGG-ACTCGAGATGATA
* * * *
44339309 AGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAAACG-TA
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGACTCGAGATGATA
*
44339355 AGCCAGTGTAAGACATGTCTGGGACAT-GTATC-GACTACGAGATGAT-
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGACT-CGAGATGATA
* * * * *
44339401 AGTCAGTGTAAGACCATGTCTGGGATATGGCATC-TACTTGAGAT-ATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGACTCGAGATGATA
* * *
44339448 AGCCAGTGTAAGATCGTGTTTGGGATATGGCATCGG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGG
44339484 CACTTTACCC
Statistics
Matches: 146, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.02
46 61 0.42
47 63 0.43
48 19 0.13
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGACTCGAGATGATA
Found at i:44339452 original size:93 final size:94
Alignment explanation
Indices: 44339260--44339482 Score: 231
Period size: 93 Copynumber: 2.4 Consensus size: 94
44339250 CACATTATGA
* *
44339260 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATGAGAGCTAGTGTAAGACAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCTATCGAGATGAGAGCTAGTGTAAGACAT
* *
44339325 GTCTGGGACATGCATCGGCCTCGAAACGT
66 GTCTGGGACATGCATCGGACTCGAAACAT
* * *
44339354 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GTATCGACTA-CGAGATGATAG-TCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CTATCGAGATGAGAGCT-AGTGTAAGA-
* * * * *
44339415 CATGTCTGGGATATGGCATC-TACTTGAGATAT
63 CATGTCTGGGACAT-GCATCGGACTCGAAACAT
* * * *
44339447 GAGCCAGTGTAAGATCGTGTTTGGGATATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
44339483 GCACTTTACC
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
91 1 0.01
92 23 0.22
93 48 0.45
94 29 0.27
95 5 0.05
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (94 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCTATCGAGATGAGAGCTAGTGTAAGACAT
GTCTGGGACATGCATCGGACTCGAAACAT
Found at i:44342634 original size:15 final size:15
Alignment explanation
Indices: 44342614--44342644 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44342604 ATTCCAAGCC
44342614 TAGCCAATTTTTACA
1 TAGCCAATTTTTACA
44342629 TAGCCAATTTTTACA
1 TAGCCAATTTTTACA
44342644 T
1 T
44342645 GTCAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TAGCCAATTTTTACA
Found at i:44351871 original size:26 final size:26
Alignment explanation
Indices: 44351838--44351900 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
44351828 ACTCAACTCA
44351838 ACGAGCTCGGATGCCTTTTACATCTC
1 ACGAGCTCGGATGCCTTTTACATCTC
*
44351864 ACGAGCTCGGATGCCTTTTTCATCTC
1 ACGAGCTCGGATGCCTTTTACATCTC
*
44351890 ACGAACTCGGA
1 ACGAGCTCGGA
44351901 CTCAACTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.29
Consensus pattern (26 bp):
ACGAGCTCGGATGCCTTTTACATCTC
Found at i:44355750 original size:21 final size:21
Alignment explanation
Indices: 44355720--44355771 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
44355710 GCACCACTCG
*
44355720 AGTTGAAAGAATTAAAAGCAC
1 AGTTGCAAGAATTAAAAGCAC
44355741 AGTTGCAAGAATTAAAAGCAC
1 AGTTGCAAGAATTAAAAGCAC
44355762 AGTTGCAAGA
1 AGTTGCAAGA
44355772 GCTGACGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (21 bp):
AGTTGCAAGAATTAAAAGCAC
Found at i:44356263 original size:21 final size:21
Alignment explanation
Indices: 44356239--44356282 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44356229 CAGACCTTAC
44356239 AGGAAAAGCAATTGTATGCTA
1 AGGAAAAGCAATTGTATGCTA
*
44356260 AGGAAAAGCAATTGTGTGCTA
1 AGGAAAAGCAATTGTATGCTA
44356281 AG
1 AG
44356283 TTTAGCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (21 bp):
AGGAAAAGCAATTGTATGCTA
Found at i:44363509 original size:18 final size:18
Alignment explanation
Indices: 44363481--44363515 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44363471 ACATGGCCAA
44363481 GGCCAACATGGGCCGTGTG
1 GGCCAACATGGG-CGTGTG
44363500 GGCC-ACATGGGCGTGT
1 GGCCAACATGGGCGTGT
44363516 AAGACCACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.14, C:0.26, G:0.43, T:0.17
Consensus pattern (18 bp):
GGCCAACATGGGCGTGTG
Found at i:44370389 original size:30 final size:30
Alignment explanation
Indices: 44370353--44370425 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
44370343 GACTTGGGAA
* *
44370353 ACATGCCTATGTGTGTTACTCGTGTGTGAC
1 ACATGCCCATGTGTGTTACCCGTGTGTGAC
* *
44370383 ACATGCCCATGTGTGTTGCCCGTTTGTGAC
1 ACATGCCCATGTGTGTTACCCGTGTGTGAC
**
44370413 ACACACCCATGTG
1 ACATGCCCATGTG
44370426 GCCAAGCTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.32
Consensus pattern (30 bp):
ACATGCCCATGTGTGTTACCCGTGTGTGAC
Found at i:44372185 original size:38 final size:38
Alignment explanation
Indices: 44372143--44372333 Score: 238
Period size: 38 Copynumber: 5.0 Consensus size: 38
44372133 AAACGTAATA
* *
44372143 TTATTCGGGCTATGTGCTTAGCAAGCTTTGTGCCGGTG
1 TTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
*
44372181 TTATTCGGGCTATGTGCCTAGCAGGCTTTGTACCGGTG
1 TTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
* * * * *
44372219 TTATTCGAGCTAGGTGCCTAGCAGGCTTTGGGACAGTG
1 TTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
** * *
44372257 TTATTCGGGCTATGCACCTAGCAGGCTTTGTGCCAGTT
1 TTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
* * * *
44372295 TTATTCAGGCTCTGTGCCTAGCAGGCTTAGTGCTGGTG
1 TTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
44372333 T
1 T
44372334 ATTGAAAATT
Statistics
Matches: 129, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 129 1.00
ACGTcount: A:0.15, C:0.20, G:0.31, T:0.34
Consensus pattern (38 bp):
TTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTG
Found at i:44374042 original size:12 final size:12
Alignment explanation
Indices: 44374025--44374065 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
44374015 TCTCAAGTCA
44374025 TCATTTCATATC
1 TCATTTCATATC
*
44374037 TCATTTCGTATC
1 TCATTTCATATC
*
44374049 TCATTATCATTTC
1 TCATT-TCATATC
44374062 TCAT
1 TCAT
44374066 CTTTTCCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (12 bp):
TCATTTCATATC
Found at i:44374276 original size:37 final size:33
Alignment explanation
Indices: 44374235--44374316 Score: 103
Period size: 32 Copynumber: 2.4 Consensus size: 33
44374225 AATTGGTATT
44374235 CAGTGCCTTATCGGATAAACTGAAGCAAATTGGCACA
1 CAGTGCCTTATCGGAT--A--GAAGCAAATTGGCACA
*
44374272 CAGTGCCTTATC-GATAGAAGCAAATTGGCACC
1 CAGTGCCTTATCGGATAGAAGCAAATTGGCACA
*
44374304 CAGTGCCTCATCG
1 CAGTGCCTTATCG
44374317 ACTCGAGGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 26 0.62
34 1 0.02
36 3 0.07
37 12 0.29
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (33 bp):
CAGTGCCTTATCGGATAGAAGCAAATTGGCACA
Found at i:44374297 original size:32 final size:32
Alignment explanation
Indices: 44374256--44374317 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
44374246 CGGATAAACT
*
44374256 GAAGCAAATTGGCACACAGTGCCTTATCGATA
1 GAAGCAAATTGGCACACAGTGCCTCATCGATA
*
44374288 GAAGCAAATTGGCACCCAGTGCCTCATCGA
1 GAAGCAAATTGGCACACAGTGCCTCATCGA
44374318 CTCGAGGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (32 bp):
GAAGCAAATTGGCACACAGTGCCTCATCGATA
Found at i:44384616 original size:20 final size:19
Alignment explanation
Indices: 44384587--44384631 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
44384577 TTCATTCAAC
*
44384587 TTTCACATCTCAATTCATCA
1 TTTCATATCTCAATTC-TCA
*
44384607 TTTCATATCTCATTTCTCA
1 TTTCATATCTCAATTCTCA
44384626 TTTCAT
1 TTTCAT
44384632 TATTATTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTCATATCTCAATTCTCA
Found at i:44384860 original size:37 final size:37
Alignment explanation
Indices: 44384805--44384901 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
44384795 GCACTATATA
* **
44384805 AAATTGGCACCCAATGCCTCATCTGATAAACAGAAGC
1 AAATTGGCACCCAGTGCCTCATCACATAAACAGAAGC
* *
44384842 AAATTGGCAGCCAGTGCCTCATCACATAGACAGAAGC
1 AAATTGGCACCCAGTGCCTCATCACATAAACAGAAGC
44384879 AAATTGGCACCCAGTGCCTCATC
1 AAATTGGCACCCAGTGCCTCATC
44384902 GACTCGAGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.19
Consensus pattern (37 bp):
AAATTGGCACCCAGTGCCTCATCACATAAACAGAAGC
Found at i:44385915 original size:21 final size:23
Alignment explanation
Indices: 44385886--44385927 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
44385876 TAATAAACAT
*
44385886 ACATTTATACA-ATT-TATTATA
1 ACATATATACATATTATATTATA
44385907 ACATATATACATATTATATTA
1 ACATATATACATATTATATTA
44385928 ACATAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (23 bp):
ACATATATACATATTATATTATA
Found at i:44387503 original size:19 final size:19
Alignment explanation
Indices: 44387479--44387521 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
44387469 AGCTCTCACA
44387479 AGCTTCTGTTCAGCTTTCG
1 AGCTTCTGTTCAGCTTTCG
44387498 AGCTTCTGTTCAGCTTTCG
1 AGCTTCTGTTCAGCTTTCG
*
44387517 CGCTT
1 AGCTT
44387522 ATATTGGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.28, G:0.21, T:0.42
Consensus pattern (19 bp):
AGCTTCTGTTCAGCTTTCG
Found at i:44402974 original size:5 final size:5
Alignment explanation
Indices: 44402960--44403013 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
44402950 AAGATATGAT
* *
44402960 TTTTA TTTTTA TTTTA -TTTA TTTAAA TATTA TTTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTT-TA TTTTA -TTTTA TTTTA TTTTA
44403007 TTTTA TT
1 TTTTA TT
44403014 ATTAAATTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
4 4 0.10
5 25 0.61
6 12 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:44403476 original size:6 final size:6
Alignment explanation
Indices: 44403420--44403473 Score: 83
Period size: 6 Copynumber: 9.2 Consensus size: 6
44403410 TCACTATTAT
*
44403420 TATTT- TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TTTTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
*
44403467 TTTTTA T
1 TATTTA T
44403474 TTTGTTATCC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
5 5 0.11
6 42 0.89
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TATTTA
Found at i:44403488 original size:84 final size:84
Alignment explanation
Indices: 44403400--44403560 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 84
44403390 TTAACTAATT
44403400 TAATA-TATTATCACTATTAT-TATTTTATTTATATTTATATTTATATTTATAT-TT-ATATTTA
1 TAATACTATTATCA-TATT-TCTA-TTTA-TTATATTTATATTTATATTTATATATTAATA-TTA
*
44403461 TTTTT-ATTTTTATTTTGTTATCC
61 TTTTTCATTATTATTTTGTTATCC
* * *
44403484 TAATACTATTATTATATTTCTATTTATTATATTTTTATTTTTATTTATATATTAATATTATTTTT
1 TAATACTATTATCATATTTCTATTTATTATATTTATATTTATATTTATATATTAATATTATTTTT
44403549 CATTATTATTTT
66 CATTATTATTTT
44403561 TCTTATATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
82 22 0.32
83 15 0.22
84 24 0.35
85 7 0.10
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (84 bp):
TAATACTATTATCATATTTCTATTTATTATATTTATATTTATATTTATATATTAATATTATTTTT
CATTATTATTTTGTTATCC
Found at i:44403512 original size:15 final size:15
Alignment explanation
Indices: 44403492--44403527 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
44403482 CCTAATACTA
44403492 TTATTATATTTCTAT
1 TTATTATATTTCTAT
*
44403507 TTATTATATTTTTAT
1 TTATTATATTTCTAT
44403522 TT-TTAT
1 TTATTAT
44403528 TTATATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTATATTTCTAT
Found at i:44403513 original size:18 final size:18
Alignment explanation
Indices: 44403416--44403542 Score: 68
Period size: 18 Copynumber: 7.1 Consensus size: 18
44403406 ATTATCACTA
*
44403416 TTATTATTTTATTTATAT
1 TTATTATTATATTTATAT
44403434 TTA-TATTTATATTTATAT
1 TTATTA-TTATATTTATAT
*
44403452 TTA-TATT-TATTTTTAT
1 TTATTATTATATTTATAT
* * *
44403468 TT-TTATTTTGTTATCCTAAT
1 TTATTATTATATT-T-AT-AT
* *
44403488 ACTATTATTATATTTCTAT
1 -TTATTATTATATTTATAT
* *
44403507 TTATTA-TATTTTTATTT
1 TTATTATTATATTTATAT
*
44403524 TTATT-TATATATTAATAT
1 TTATTAT-TATATTTATAT
44403542 T
1 T
44403543 ATTTTTCATT
Statistics
Matches: 85, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
16 14 0.16
17 20 0.24
18 34 0.40
19 3 0.04
20 4 0.05
21 2 0.02
22 8 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (18 bp):
TTATTATTATATTTATAT
Found at i:44403522 original size:29 final size:28
Alignment explanation
Indices: 44403490--44403576 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
44403480 ATCCTAATAC
44403490 TATTATTATATTTCTATTTATTATATTTT
1 TATTATTATATTTCTATTTA-TATATTTT
*
44403519 TATT-TT-TATTTATATATTAATATTATTTT
1 TATTATTATATTTCTAT-TT-ATA-TATTTT
* *
44403548 TCATTATTATTTTTCT-TATATATATTTT
1 T-ATTATTATATTTCTATTTATATATTTT
44403576 T
1 T
44403577 TACTCTTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
27 8 0.17
28 13 0.27
29 15 0.31
30 4 0.08
31 3 0.06
32 5 0.10
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (28 bp):
TATTATTATATTTCTATTTATATATTTT
Found at i:44403548 original size:23 final size:22
Alignment explanation
Indices: 44403416--44403566 Score: 75
Period size: 22 Copynumber: 6.7 Consensus size: 22
44403406 ATTATCACTA
*
44403416 TTATTAT-TTTATTTATATTTAT
1 TTATTATATTTA-TTATTTTTAT
* *
44403438 AT-TTATATTTA-TATTTATAT
1 TTATTATATTTATTATTTTTAT
*
44403458 TTATTTTTATTT-TTATTTTGTTAT
1 TTA-TTATATTTATTA-TTT-TTAT
* *
44403482 CCTAATACTA-TTATTATATTTCTAT
1 -TTATTA-TATTTATTAT-TTT-TAT
44403507 TTATTATATTT-TTATTTTTAT
1 TTATTATATTTATTATTTTTAT
44403528 TTA-TATATTAATATTATTTTTCA-
1 TTATTATATT--TATTATTTTT-AT
* *
44403551 TTATTATTTTTCTTAT
1 TTATTATATTTATTAT
44403567 ATATATTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
20 14 0.14
21 10 0.10
22 23 0.23
23 20 0.20
24 20 0.20
25 12 0.12
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (22 bp):
TTATTATATTTATTATTTTTAT
Found at i:44403575 original size:15 final size:14
Alignment explanation
Indices: 44403538--44403576 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
44403528 TTATATATTA
44403538 ATATTATTTTTCAT
1 ATATTATTTTTCAT
*
44403552 -TATTATTTTTCTT
1 ATATTATTTTTCAT
44403565 ATATATATTTTT
1 ATAT-TATTTTT
44403577 TACTCTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 3 0.14
15 7 0.32
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
ATATTATTTTTCAT
Found at i:44403793 original size:15 final size:15
Alignment explanation
Indices: 44403773--44403807 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44403763 TGTAATAGGG
44403773 CCATTTCGCCCGAGC
1 CCATTTCGCCCGAGC
*
44403788 CCATTTCGCCCGGGC
1 CCATTTCGCCCGAGC
44403803 CCATT
1 CCATT
44403808 AGAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.46, G:0.20, T:0.23
Consensus pattern (15 bp):
CCATTTCGCCCGAGC
Found at i:44405674 original size:16 final size:16
Alignment explanation
Indices: 44405655--44405686 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44405645 TTCATATAAC
44405655 TTTATGTAAATATTTT
1 TTTATGTAAATATTTT
*
44405671 TTTATGTATATATTTT
1 TTTATGTAAATATTTT
44405687 CTTTTAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTATGTAAATATTTT
Found at i:44423312 original size:20 final size:21
Alignment explanation
Indices: 44423289--44423327 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
44423279 AAGAAAACAT
44423289 TAATAAATAAAT-GAAATGAG
1 TAATAAATAAATGGAAATGAG
* *
44423309 TAATTAATAGATGGAAATG
1 TAATAAATAAATGGAAATG
44423328 GAAACGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (21 bp):
TAATAAATAAATGGAAATGAG
Found at i:44431247 original size:29 final size:29
Alignment explanation
Indices: 44431206--44431290 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
44431196 CTAAACTTTG
44431206 ATTAAAA-TTACATTTTAATCACTCAACTT
1 ATTAAAAGTTACATTTT-ATCACTCAACTT
* *
44431235 -TTAAAAGTTACATAATTATCACTAAACTT
1 ATTAAAAGTTACAT-TTTATCACTCAACTT
* *
44431264 ATCAAAATGTTACATTTTGTTCACTCA
1 ATTAAAA-GTTACATTTT-ATCACTCA
44431291 TTCGTTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
28 6 0.13
29 17 0.38
30 9 0.20
31 13 0.29
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (29 bp):
ATTAAAAGTTACATTTTATCACTCAACTT
Found at i:44432442 original size:17 final size:17
Alignment explanation
Indices: 44432411--44432460 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
44432401 TGATTGACTT
44432411 TTTTTTGAATGTTTTATA
1 TTTTTTGAAT-TTTTATA
*
44432429 TTTTTT-AATATTTTATT
1 TTTTTTGAAT-TTTTATA
44432446 TTTTTTGAATTTTTA
1 TTTTTTGAATTTTTA
44432461 GAATTTGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTTTTGAATTTTTATA
Found at i:44445359 original size:19 final size:19
Alignment explanation
Indices: 44445331--44445390 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
44445321 TTAAAAAATT
*
44445331 AAAAATAAAAAGTTATAAA
1 AAAAAGAAAAAGTTATAAA
44445350 AAAAAGAAAAAAGTTATAAA
1 AAAAAG-AAAAAGTTATAAA
* *
44445370 ATATAAGAAAAA-TTACAAA
1 A-AAAAGAAAAAGTTATAAA
44445389 AA
1 AA
44445391 TATTAAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.03
19 12 0.33
20 19 0.53
21 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (19 bp):
AAAAAGAAAAAGTTATAAA
Found at i:44445360 original size:20 final size:21
Alignment explanation
Indices: 44445337--44445381 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
44445327 AATTAAAAAT
44445337 AAAAAGTTATAAAA-AAAAGA
1 AAAAAGTTATAAAATAAAAGA
*
44445357 AAAAAGTTATAAAATATAAGA
1 AAAAAGTTATAAAATAAAAGA
44445378 AAAA
1 AAAA
44445382 TTACAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (21 bp):
AAAAAGTTATAAAATAAAAGA
Found at i:44445430 original size:19 final size:19
Alignment explanation
Indices: 44445391--44445445 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
44445381 ATTACAAAAA
* *
44445391 TATTAAAACTGATATAAACT
1 TATTAAAA-TCATAAAAACT
44445411 TATTAAAATCATAAAAACT
1 TATTAAAATCATAAAAACT
* *
44445430 TATAAAAATTATAAAA
1 TATTAAAATCATAAAA
44445446 TTAATAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 23 0.74
20 8 0.26
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (19 bp):
TATTAAAATCATAAAAACT
Found at i:44445436 original size:10 final size:9
Alignment explanation
Indices: 44445357--44445523 Score: 79
Period size: 10 Copynumber: 17.6 Consensus size: 9
44445347 AAAAAAAAGA
44445357 AAAAAGTTAT
1 AAAAA-TTAT
* *
44445367 AAAATATAAG
1 AAAA-ATTAT
*
44445377 AAAAATTAC
1 AAAAATTAT
44445386 AAAAA-TATT
1 AAAAATTA-T
* *
44445395 AAAACTGAT
1 AAAAATTAT
*
44445404 ATAAACTTAT
1 A-AAAATTAT
* *
44445414 TAAAATCAT
1 AAAAATTAT
44445423 AAAAACTTAT
1 AAAAA-TTAT
44445433 AAAAATTAT
1 AAAAATTAT
44445442 -AAAATTAAT
1 AAAAATT-AT
*
44445451 AAAACTTAAT
1 AAAAATT-AT
**
44445461 AGAAAAAAATT
1 A-AAAATTA-T
*
44445472 AAAAA-AAT
1 AAAAATTAT
*
44445480 TAAAATTGAT
1 AAAAATT-AT
*
44445490 ATAAACTTAT
1 A-AAAATTAT
44445500 AAAAATTAT
1 AAAAATTAT
44445509 AAAAAATTAT
1 -AAAAATTAT
44445519 AAAAA
1 AAAAA
44445524 CTTGAACTGA
Statistics
Matches: 122, Mismatches: 22, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
8 13 0.11
9 44 0.36
10 54 0.44
11 11 0.09
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:44445976 original size:49 final size:52
Alignment explanation
Indices: 44445920--44446036 Score: 138
Period size: 49 Copynumber: 2.3 Consensus size: 52
44445910 CCAGTTCAAA
44445920 TTTTTATGATTTTTTTATA-AATTTT-ATAAG-TTTATATAA-ATTTTAAAT-T-
1 TTTTTATGA--TTTTTATAGAATTTTAATAAGCTTT-TATAATATTTTAAATATG
*
44445969 TTTTTATGATTTTTATAGAATTTTAATAAGCTTTTATAATGTTTTAAATATG
1 TTTTTATGATTTTTATAGAATTTTAATAAGCTTTTATAATATTTTAAATATG
* *
44446021 TTTTTATTAATTTTAT
1 TTTTTATGATTTTTAT
44446037 GATTTTTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
47 8 0.14
48 6 0.10
49 19 0.32
50 11 0.19
51 1 0.02
52 14 0.24
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (52 bp):
TTTTTATGATTTTTATAGAATTTTAATAAGCTTTTATAATATTTTAAATATG
Found at i:44446077 original size:8 final size:8
Alignment explanation
Indices: 44446059--44446128 Score: 59
Period size: 8 Copynumber: 7.9 Consensus size: 8
44446049 ATTTATTAAA
44446059 ATTTATTAT
1 ATTT-TTAT
44446068 ATTTTTAT
1 ATTTTTAT
44446076 ATTTTTAT
1 ATTTTTAT
44446084 ATCAATTTTAAT
1 AT---TTTT-AT
*
44446096 ATTTTTTT
1 ATTTTTAT
*
44446104 AATATTTAAT
1 -AT-TTTTAT
44446114 ATTTTTAT
1 ATTTTTAT
44446122 ATTTTTA
1 ATTTTTA
44446129 ATAAATTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
8 27 0.53
9 12 0.24
10 4 0.08
11 4 0.08
12 4 0.08
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTTAT
Found at i:44452740 original size:34 final size:33
Alignment explanation
Indices: 44452697--44452805 Score: 102
Period size: 34 Copynumber: 3.4 Consensus size: 33
44452687 CTCCTTGAAT
44452697 TTAATTTTTATACTTTTTATTTGTCATTTCTAAC
1 TTAATTTTTATACTTTTTATTTGTCATTT-TAAC
** **
44452731 TTAATTTTTATA---AAT-TTTGAAATTTTAATC
1 TTAATTTTTATACTTTTTATTTGTCATTTTAA-C
*
44452761 TTAA-TTTTATACTTTTTATATGTCATTTTTAAC
1 TTAATTTTTATACTTTTTATTTGTCA-TTTTAAC
*
44452794 TTGATTTTTATA
1 TTAATTTTTATA
44452806 AAAATTTAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
29 10 0.17
30 13 0.22
31 1 0.02
32 1 0.02
33 8 0.14
34 25 0.43
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (33 bp):
TTAATTTTTATACTTTTTATTTGTCATTTTAAC
Found at i:44452831 original size:63 final size:63
Alignment explanation
Indices: 44452697--44452840 Score: 166
Period size: 63 Copynumber: 2.3 Consensus size: 63
44452687 CTCCTTGAAT
* * * * *
44452697 TTAATTTTTATACTTTTTATTTGTCATTTCTAACTTAATTTTTATAAATTTTGAAATTTTAATC
1 TTAA-TTTTATACTTTTTATATGTCATTTCTAACTTAATTTTTATAAAATTTGAAAATGTAATA
* * *
44452761 TTAATTTTATACTTTTTATATGTCATTTTTAACTTGATTTTTATAAAAATTT-AAAATGTATTA
1 TTAATTTTATACTTTTTATATGTCATTTCTAACTTAATTTTTAT-AAAATTTGAAAATGTAATA
* *
44452824 TTGATTTT-TACTATTTA
1 TTAATTTTATACTTTTTA
44452841 CAAAATATAC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 8 0.12
63 51 0.74
64 10 0.14
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (63 bp):
TTAATTTTATACTTTTTATATGTCATTTCTAACTTAATTTTTATAAAATTTGAAAATGTAATA
Found at i:44460179 original size:20 final size:20
Alignment explanation
Indices: 44460141--44460188 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
44460131 TAAATTCTAA
* **
44460141 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
44460161 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
44460181 AAA-ATAAA
1 AAAGATAAA
44460189 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:44460232 original size:15 final size:15
Alignment explanation
Indices: 44460212--44460241 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44460202 ATAATCCTAA
*
44460212 TAATTATCTTAATAT
1 TAATTATCCTAATAT
44460227 TAATTATCCTAATAT
1 TAATTATCCTAATAT
44460242 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:44461810 original size:5 final size:5
Alignment explanation
Indices: 44461793--44461860 Score: 54
Period size: 5 Copynumber: 13.4 Consensus size: 5
44461783 AATAATAAAT
*
44461793 AATAA AAT-- AATAA GATAA AATAAA AATAA AATAAA AATAAA AATAAA
1 AATAA AATAA AATAA AATAA AAT-AA AATAA AAT-AA AAT-AA AAT-AA
44461840 AATAA AA-AA TAA-AA AATAA AA
1 AATAA AATAA -AATAA AATAA AA
44461861 CTGGGTTGCC
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 26 0.47
6 22 0.40
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:44461820 original size:6 final size:6
Alignment explanation
Indices: 44461786--44461860 Score: 84
Period size: 6 Copynumber: 12.2 Consensus size: 6
44461776 ATCTGAAAAT
44461786 AATAAA TAAT-AA AATAATA AGAT-AA AATAAA AAT-AA AATAAA AATAAA
1 AATAAA -AATAAA AATAA-A A-ATAAA AATAAA AATAAA AATAAA AATAAA
44461834 AATAAA AATAAAA AATAAAA AATAAA A
1 AATAAA AAT-AAA AAT-AAA AATAAA A
44461861 CTGGGTTGCC
Statistics
Matches: 62, Mismatches: 0, Indels: 13
0.83 0.00 0.17
Matches are distributed among these distances:
5 10 0.16
6 31 0.50
7 19 0.31
8 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:44461836 original size:36 final size:37
Alignment explanation
Indices: 44461786--44461860 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 37
44461776 ATCTGAAAAT
* *
44461786 AATAAATAATAAAATAATAAGATAAAAT-AAAAATAA
1 AATAAATAATAAAATAAAAAGAAAAAATAAAAAATAA
*
44461822 AATAAA-AATAAAAATAAAAATAAAAAATAAAAAATAA
1 AATAAATAAT-AAAATAAAAAGAAAAAATAAAAAATAA
44461859 AA
1 AA
44461861 CTGGGTTGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 3 0.09
36 21 0.62
37 10 0.29
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.19
Consensus pattern (37 bp):
AATAAATAATAAAATAAAAAGAAAAAATAAAAAATAA
Found at i:44461859 original size:7 final size:7
Alignment explanation
Indices: 44461781--44461860 Score: 76
Period size: 7 Copynumber: 11.3 Consensus size: 7
44461771 TTAATATCTG
44461781 AAAATAA
1 AAAATAA
*
44461788 TAAATAA
1 AAAATAA
44461795 TAAAATAA
1 -AAAATAA
*
44461803 TAAGATAA
1 -AAAATAA
*
44461811 AATAAAAA
1 AA-AATAA
44461819 TAAAAT-A
1 -AAAATAA
44461826 AAAAT-A
1 AAAATAA
44461832 AAAAT-A
1 AAAATAA
44461838 AAAATAA
1 AAAATAA
44461845 AAAATAA
1 AAAATAA
44461852 AAAATAA
1 AAAATAA
44461859 AA
1 AA
44461861 CTGGGTTGCC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
6 17 0.27
7 26 0.41
8 18 0.29
9 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.19
Consensus pattern (7 bp):
AAAATAA
Found at i:44468241 original size:20 final size:20
Alignment explanation
Indices: 44468203--44468250 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
44468193 TAAATTCTAA
* **
44468203 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
44468223 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
44468243 AAA-ATAAA
1 AAAGATAAA
44468251 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:44468294 original size:15 final size:15
Alignment explanation
Indices: 44468274--44468303 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44468264 ATAATCCTAA
*
44468274 TAATTATCTTAATAT
1 TAATTATCCTAATAT
44468289 TAATTATCCTAATAT
1 TAATTATCCTAATAT
44468304 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:44469180 original size:24 final size:24
Alignment explanation
Indices: 44469153--44469207 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
44469143 AAATAGAAAA
44469153 ATTCAATCCATTTAAACCACTAGT
1 ATTCAATCCATTTAAACCACTAGT
44469177 ATTCAATCCATTTAAACCACTAGT
1 ATTCAATCCATTTAAACCACTAGT
44469201 ATTCAAT
1 ATTCAAT
44469208 TTAGTCCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTCAATCCATTTAAACCACTAGT
Found at i:44472458 original size:40 final size:40
Alignment explanation
Indices: 44472407--44472911 Score: 859
Period size: 40 Copynumber: 12.6 Consensus size: 40
44472397 CATTTGAATG
44472407 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44472447 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44472487 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44472527 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44472567 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44472607 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44472647 ATATCCGGGCTAAGACCTGAAGGCATTTGTGAGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44472687 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44472727 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44472767 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44472807 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
44472847 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44472887 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
44472912 ATTGAGCTTG
Statistics
Matches: 440, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.00
40 437 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:44474316 original size:26 final size:26
Alignment explanation
Indices: 44474287--44474373 Score: 83
Period size: 26 Copynumber: 3.5 Consensus size: 26
44474277 AAGTGGTTGT
*
44474287 TTTGGTATGTTTAGGTTTATATGCAA
1 TTTGGAATGTTTAGGTTTATATGCAA
* ** *
44474313 TTTGGAATGTTTGAAG-TGGT-TG--T
1 TTTGGAATGTTT-AGGTTTATATGCAA
*
44474336 TTTGGTATGTTTAGGTTTATATGCAA
1 TTTGGAATGTTTAGGTTTATATGCAA
44474362 TTTGGAATGTTT
1 TTTGGAATGTTT
44474374 GAAGCTTGAT
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
22 2 0.04
23 13 0.29
24 2 0.04
25 2 0.04
26 24 0.53
27 2 0.04
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (26 bp):
TTTGGAATGTTTAGGTTTATATGCAA
Found at i:44474349 original size:49 final size:49
Alignment explanation
Indices: 44474277--44474377 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
44474267 TGTTACATAC
44474277 AAGTGGTTGTTTTGGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
1 AAGTGGTTGTTTTGGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
44474326 AAGTGGTTGTTTTGGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
1 AAGTGGTTGTTTTGGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
44474375 AAG
1 AAG
44474378 CTTGATGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (49 bp):
AAGTGGTTGTTTTGGTATGTTTAGGTTTATATGCAATTTGGAATGTTTG
Found at i:44488700 original size:43 final size:42
Alignment explanation
Indices: 44488642--44488792 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 42
44488632 GATTGCCAAG
* *
44488642 ATGTGATTACATGTAAGACCATGTATGGGACATTGGCATTG-T
1 ATGTGATTACGTGTAAGACCATGT-TGGGACATTGGCATCGTT
*
44488684 ATTGTGAATACGTGTAAGACCATGTTTGGGACATTGGCATCGTT
1 A-TGTGATTACGTGTAAGACCATG-TTGGGACATTGGCATCGTT
* * *
44488728 ATGTGATTTCGTGTAAGATCATAGTTGGG-CTATTGGCATCGAT
1 ATGTGATTACGTGTAAGACCAT-GTTGGGAC-ATTGGCATCGTT
* * *
44488771 ATGAGATAACATGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
44488793 ATTTGGGATA
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.02
43 86 0.93
44 4 0.04
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (42 bp):
ATGTGATTACGTGTAAGACCATGTTGGGACATTGGCATCGTT
Found at i:44488799 original size:43 final size:43
Alignment explanation
Indices: 44488696--44488808 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
44488686 TGTGAATACG
* * * ** *
44488696 TGTAAGACCATGTTTGGGAC-ATTGGCATCGTTATGTGATTTCG
1 TGTAAGACCATATTTGGG-CTATTGGCATCGATATGAGATAACA
* *
44488739 TGTAAGATCATAGTTGGGCTATTGGCATCGATATGAGATAACA
1 TGTAAGACCATATTTGGGCTATTGGCATCGATATGAGATAACA
*
44488782 TGTAAGACCATATTTGGGATA-TGGCAT
1 TGTAAGACCATATTTGGGCTATTGGCAT
44488809 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 7 0.12
43 51 0.88
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATATTTGGGCTATTGGCATCGATATGAGATAACA
Found at i:44490202 original size:41 final size:41
Alignment explanation
Indices: 44490155--44490234 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
44490145 TAAAGTCTCG
44490155 TAGAGCCTTATAAGGGACAATATGATTATGTTTGATTAACA
1 TAGAGCCTTATAAGGGACAATATGATTATGTTTGATTAACA
*
44490196 TAGAGCCTTATAAGGGACAATTTGATTATGTTTGATTAA
1 TAGAGCCTTATAAGGGACAATATGATTATGTTTGATTAA
44490235 TATTTATGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (41 bp):
TAGAGCCTTATAAGGGACAATATGATTATGTTTGATTAACA
Found at i:44492417 original size:43 final size:43
Alignment explanation
Indices: 44492320--44492427 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
44492310 ATCAATATGT
* * * *
44492320 GATTACATGTAAGACCATGTCTGGGACATTGACATTGTATTGA
1 GATTATATGTAAGACCATGTCTGGGACATTGACATGGTAATCA
* *
44492363 GATTATGTGTAAGACCATGTCTGGGACATTGGCATCGGTAATCA
1 GATTATATGTAAGACCATGTCTGGGACATTGACAT-GGTAATCA
* *
44492407 -ATTTTATGTAAGACCCTGTCT
1 GATTATATGTAAGACCATGTCT
44492428 AGGATAGTGG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 50 0.91
44 5 0.09
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTATATGTAAGACCATGTCTGGGACATTGACATGGTAATCA
Found at i:44494837 original size:16 final size:16
Alignment explanation
Indices: 44494818--44494849 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44494808 ATGTACAAAA
44494818 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
*
44494834 ATATATGTGTGTTTAT
1 ATATATATGTGTTTAT
44494850 TTGAAGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
ATATATATGTGTTTAT
Found at i:44495303 original size:24 final size:24
Alignment explanation
Indices: 44495276--44495608 Score: 243
Period size: 24 Copynumber: 13.9 Consensus size: 24
44495266 GAAATGATTT
*
44495276 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44495300 TGGCACTATGTGTGTGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44495324 TGGCACTATGTGTGCGGATTTGGA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44495348 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
44495373 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
44495396 TGGCACTATATCTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
44495420 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44495444 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
* *
44495469 -GGCATTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44495492 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
44495516 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44495540 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
44495565 T-GCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
44495588 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
44495609 CCTTGCTTGA
Statistics
Matches: 239, Mismatches: 52, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 5 0.02
24 217 0.91
25 10 0.04
26 3 0.01
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.37
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:44495328 original size:48 final size:48
Alignment explanation
Indices: 44495276--44495579 Score: 319
Period size: 48 Copynumber: 6.3 Consensus size: 48
44495266 GAAATGATTT
* * * **
44495276 TGGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGTGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTACTA
* * *
44495324 TGGCACTATGTGTGCGGATTTGGATGTCAATATGTATGTGAATTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTACTA
* * * * * * *
44495372 AGGCACTATGTGTGCGAATTTGTATGGCACTATATCTGCGGATTTA-TA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATG-TGAATTACTA
* *
44495420 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTACTA
* * * ** *
44495468 AGGCATTATGTGTGCGAATTTGTATGGCACTATATGTGCG-GATTTA-TA
1 TGGCACTATGTGTGCGAATTTGAATGGCA--ATATGTATGTGAATTACTA
* *
44495516 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTACT-A
44495565 T-GCACTATGTGTGCG
1 TGGCACTATGTGTGCG
44495580 GGTTAACATG
Statistics
Matches: 207, Mismatches: 42, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
46 7 0.03
47 10 0.05
48 171 0.83
49 12 0.06
50 7 0.03
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (48 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGTGAATTACTA
Found at i:44495596 original size:96 final size:96
Alignment explanation
Indices: 44495277--44495579 Score: 516
Period size: 96 Copynumber: 3.2 Consensus size: 96
44495267 AAATGATTTT
* * * * * *
44495277 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTGTGAATTTGTATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
*
44495342 TTTGGATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
44495373 GGCACTATGTGTGCGAATTTGTATGGCACTATATCTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
44495438 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
44495469 GGCATTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
44495534 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
44495565 TGCACTATGTGTGCG
1 GGCACTATGTGTGCG
44495580 GGTTAACATG
Statistics
Matches: 195, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 195 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:44503121 original size:43 final size:43
Alignment explanation
Indices: 44503074--44503177 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
44503064 GATTACATAT
* *
44503074 AAGACCATGTCTGGGACATTGGCAT-TTTATTGAGATTATGTGC
1 AAGACCATGTCTGGGACATTGGCATCGTTAAT-AGATTATGTGC
* * * *
44503117 AAGACCATGTCTGGAACATTGGCATCGTTAATCGATTTTGTGT
1 AAGACCATGTCTGGGACATTGGCATCGTTAATAGATTATGTGC
*
44503160 AAGACCTTGTCTGGGACA
1 AAGACCATGTCTGGGACA
44503178 GTGGAATTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 48 0.92
44 4 0.08
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
AAGACCATGTCTGGGACATTGGCATCGTTAATAGATTATGTGC
Found at i:44505628 original size:45 final size:45
Alignment explanation
Indices: 44505564--44505725 Score: 240
Period size: 45 Copynumber: 3.6 Consensus size: 45
44505554 TATTGTACGG
* * *
44505564 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCCGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
44505609 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
44505654 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
44505699 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGC
44505726 GAAATGCTGG
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
43 17 0.15
44 5 0.05
45 87 0.79
46 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:44505772 original size:41 final size:41
Alignment explanation
Indices: 44505716--44505819 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
44505706 GGGCTTCGAG
* *
44505716 CCTAGCAGGCGAAATGCTGGTGGATGAATTCAGGTTTAAAA
1 CCTAGCAGGCAAAATGCCGGTGGATGAATTCAGGTTTAAAA
* *
44505757 CCTAGTAGGCAAAATGCCAGTGGATGAATTCAGGTTTAAAA
1 CCTAGCAGGCAAAATGCCGGTGGATGAATTCAGGTTTAAAA
*
44505798 CCTAGCAGGCTAAATGCCGGTG
1 CCTAGCAGGCAAAATGCCGGTG
44505820 ATTTGATAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCAAAATGCCGGTGGATGAATTCAGGTTTAAAA
Found at i:44507126 original size:34 final size:34
Alignment explanation
Indices: 44507083--44507158 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
44507073 GCCATGAGAT
44507083 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
1 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
*
44507117 TTGGCTTGTAAATGTTGGAATATGGCCATTTAAG
1 TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
44507151 TTGGCTTG
1 TTGGCTTG
44507159 AATTATATGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.39
Consensus pattern (34 bp):
TTGGCTTGTAAATGTTGGAATATGACCATTTAAG
Found at i:44507325 original size:23 final size:24
Alignment explanation
Indices: 44507294--44507339 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
44507284 TATATTTTGG
* *
44507294 TATGATTTGAGGAGGATGAATTGA
1 TATGATTTGAGAAGCATGAATTGA
44507318 TATG-TTTGAGAAGCATGAATTG
1 TATGATTTGAGAAGCATGAATTG
44507340 GTTGATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (24 bp):
TATGATTTGAGAAGCATGAATTGA
Found at i:44513560 original size:15 final size:15
Alignment explanation
Indices: 44513540--44513571 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44513530 ATCCTACTGA
44513540 AAAGTAACATTAAAT
1 AAAGTAACATTAAAT
44513555 AAAGTAACATTAAAT
1 AAAGTAACATTAAAT
44513570 AA
1 AA
44513572 TATAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (15 bp):
AAAGTAACATTAAAT
Found at i:44516835 original size:46 final size:46
Alignment explanation
Indices: 44516785--44516960 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
44516775 TGATTGAGCA
44516785 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44516831 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
44516876 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44516924 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44516961 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.54
47 29 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44516941 original size:93 final size:93
Alignment explanation
Indices: 44516782--44516953 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
44516772 GGATGATTGA
44516782 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
44516847 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44516875 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
*
44516939 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
44516954 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44524409 original size:46 final size:46
Alignment explanation
Indices: 44524359--44524534 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
44524349 TGATTGAGCA
44524359 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
44524405 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44524450 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44524498 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44524535 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 27 0.25
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44524515 original size:93 final size:93
Alignment explanation
Indices: 44524356--44524527 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
44524346 GGATGATTGA
44524356 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
44524421 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
44524449 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
44524513 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
44524528 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44533213 original size:43 final size:43
Alignment explanation
Indices: 44533162--44533260 Score: 130
Period size: 42 Copynumber: 2.3 Consensus size: 43
44533152 TCCCAGATGT
* * *
44533162 GGTCTTACATGTAATCACAT-TTCGATGTCACTGTCCCAGACAG
1 GGTCTTACACGTAA-CACATATACGATGTCAATGTCCCAGACAG
* *
44533205 GGTCTTACACG-AACTCATATACGATGTCAATGTCCCAGACAT
1 GGTCTTACACGTAACACATATACGATGTCAATGTCCCAGACAG
44533247 GGTCTTACACGTAA
1 GGTCTTACACGTAA
44533261 ATCAAAAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.08
42 33 0.67
43 12 0.24
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAACACATATACGATGTCAATGTCCCAGACAG
Found at i:44542354 original size:47 final size:47
Alignment explanation
Indices: 44542297--44542406 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 47
44542287 GAATAATATG
* ** * *
44542297 TTGATTTGGCTACGAGCCATCATATAAGTATTTTGAGAGGAGTTACT
1 TTGATTTGGCTACGAGCCATCATATAAGTACTCAGAGAGAAGTTACC
** * *
44542344 TTGATTTGGCTAC-AGGCCATGGTATAAGTACTCAGGGATAAGTTACC
1 TTGATTTGGCTACGA-GCCATCATATAAGTACTCAGAGAGAAGTTACC
44542391 TTGATTTGGCTACGAG
1 TTGATTTGGCTACGAG
44542407 TCATTTTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.96
48 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (47 bp):
TTGATTTGGCTACGAGCCATCATATAAGTACTCAGAGAGAAGTTACC
Found at i:44544391 original size:21 final size:21
Alignment explanation
Indices: 44544367--44544408 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
44544357 CACATGTAAC
*
44544367 TCCTAAATGTTAGG-TGAACAA
1 TCCTAAATATT-GGATGAACAA
44544388 TCCTAAATATTGGATGAACAA
1 TCCTAAATATTGGATGAACAA
44544409 CTCTTGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (21 bp):
TCCTAAATATTGGATGAACAA
Found at i:44551056 original size:50 final size:48
Alignment explanation
Indices: 44550995--44551128 Score: 131
Period size: 40 Copynumber: 2.9 Consensus size: 48
44550985 AGTTTCGATA
*
44550995 TGTGATCCCATGTAAGACCATGTCGGGGACATGGCATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCAT-TC-AGGACATGGCATTGGCATCGATATG
*
44551045 TGTGATGCCATGT-----C--T-AGGACATGGCATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATTCAGGACATGGCATTGGCATCGATATG
* * *
44551085 TATGAACCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCAT-TC-AGGACATGGCATTGGCATC
44551129 TCACTATGTG
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
40 34 0.50
42 1 0.01
45 2 0.03
48 1 0.01
50 30 0.44
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATTCAGGACATGGCATTGGCATCGATATG
Found at i:44552903 original size:19 final size:19
Alignment explanation
Indices: 44552881--44552922 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
44552871 AGACACGGGA
44552881 GTGTCCCTAGCACACAGGC
1 GTGTCCCTAGCACACAGGC
*
44552900 GTGTCCCTAGCACACGGGC
1 GTGTCCCTAGCACACAGGC
44552919 GTGT
1 GTGT
44552923 GCTCTATACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (19 bp):
GTGTCCCTAGCACACAGGC
Found at i:44554104 original size:47 final size:46
Alignment explanation
Indices: 44553864--44554176 Score: 189
Period size: 47 Copynumber: 6.7 Consensus size: 46
44553854 AGTGAAAGCC
* *
44553864 AGTGTAAGA-CATGTTTGGGACAT-GCATC-AGCTTTGAGATGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TTGAGATGATA-CT
* ** * * *
44553910 AGTGTAAGA-CATGCCTGAAACAT-GCATCGGCCTCGAGATATGCATGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAG--ATG-ATACT
* *
44553958 AGTGTAAGACCATGTCTGGGACATGGCATCGGTA-TTGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGAGATGA-TACT
* * * * * * *
44554006 AGTGTAAGA-CGTGTCTAGGACA-CGTATTGGCCTTGATGATGATAGT
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGACTTGA-GATGATACT
*
44554052 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAACT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATG-ATACT
* * * * *
44554100 AGTGTAAAACCATGTCTGGAACATGGCATCGGCTTGACATG-T-GT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGATACT
* *
44554144 CAGTATAAGACC-TGTCTGGGACACGGCATCGAC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGAC
44554177 ATAGATGGAC
Statistics
Matches: 208, Mismatches: 42, Indels: 36
0.73 0.15 0.13
Matches are distributed among these distances:
44 19 0.09
45 9 0.04
46 37 0.18
47 68 0.33
48 50 0.24
49 14 0.07
50 11 0.05
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGATACT
Found at i:44554136 original size:95 final size:91
Alignment explanation
Indices: 44553863--44554176 Score: 286
Period size: 95 Copynumber: 3.4 Consensus size: 91
44553853 TAGTGAAAGC
* *
44553863 CAGTGTAAGA-CATGTTTGGGACAT-GCATC-AGCTTTGAGATGAAAGCTAGTGTAAGACATGCC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGA-C-TTGAGATGAAA-CTAGTGTAAGACATGTC
* *
44553925 TGAAACATGCATCGGCCTCGAGAT-ATGCAT
63 TGGAACATGCATCGGCCTTGAGATGATG--T
* ** *
44553955 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTA-TTGAGACGAGTGCTAGTGTAAGACGTG
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGAGATGA-AACTAGTGTAAGACATG
* * *
44554019 TCTAGG-ACACGTATTGGCCTTGATGATGATAGT
61 TCT-GGAACATGCATCGGCCTTGA-GATGAT-GT
*
44554052 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTAAACTAGTGTAAAACCATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATG-AAACTAGTGTAAGA-CATGTCT
*
44554117 GGAACATGGCATCGG-CTTGACATG-TGT
64 GGAACAT-GCATCGGCCTTGAGATGATGT
* *
44554144 CAGTATAAGACC-TGTCTGGGACACGGCATCGAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC
44554177 ATAGATGGAC
Statistics
Matches: 183, Mismatches: 22, Indels: 34
0.77 0.09 0.14
Matches are distributed among these distances:
91 20 0.11
92 13 0.07
93 3 0.02
94 32 0.17
95 58 0.32
96 48 0.26
97 5 0.03
98 2 0.01
99 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (91 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGAAACTAGTGTAAGACATGTCTGG
AACATGCATCGGCCTTGAGATGATGT
Found at i:44560776 original size:94 final size:93
Alignment explanation
Indices: 44560517--44560785 Score: 259
Period size: 94 Copynumber: 2.9 Consensus size: 93
44560507 GTTATTGTGG
* * * * * * *
44560517 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGTGATGATAACCAGTGTAAGACCATGT
** *
44560581 CTGGGACATGGCATCGGCATTGAGATGAAT
66 CTGGGACAT-GCATCGGCATCAAAATG-AT
* *
44560611 GCTAGTGTAAGACATGTTTGGGACATGCATCA-CCTCGG-GACG-TAAGCCAGTGTAATG--CAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGTGATGATAA-CCAGTGTAA-GACCAT
* *
44560671 GTTTGGGACATGCATTGGC-TACAAAATG-T
64 GTCTGGGACATGCATCGGCAT-CAAAATGAT
*
44560700 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGGTGATGATAACCAATGTAAGACCA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGGTGATGATAACCAGTGTAAGACCA
44560764 TGTCTGGGACATGGCATCGGCA
63 TGTCTGGGACAT-GCATCGGCA
44560786 ACTTGCCCGT
Statistics
Matches: 142, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
88 1 0.01
89 11 0.08
90 14 0.10
91 17 0.12
92 21 0.15
93 25 0.18
94 46 0.32
95 7 0.05
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGTGATGATAACCAGTGTAAGACCATGT
CTGGGACATGCATCGGCATCAAAATGAT
Found at i:44561598 original size:30 final size:30
Alignment explanation
Indices: 44561557--44561614 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
44561547 TGAGACATGG
* * *
44561557 CCGTGTGTCTCAGTCGTGTGGAGGACACGA
1 CCGTCTGTCTCAGCCGTATGGAGGACACGA
44561587 CCGTCTGTCTCAGCCGTATGGAGGACAC
1 CCGTCTGTCTCAGCCGTATGGAGGACAC
44561615 AGCCTAGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (30 bp):
CCGTCTGTCTCAGCCGTATGGAGGACACGA
Found at i:44564970 original size:16 final size:16
Alignment explanation
Indices: 44564949--44564979 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44564939 AGACTATAAA
44564949 CCATTCCATTTACTTT
1 CCATTCCATTTACTTT
44564965 CCATTCCATTTACTT
1 CCATTCCATTTACTT
44564980 ACTTTCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (16 bp):
CCATTCCATTTACTTT
Found at i:44564983 original size:20 final size:20
Alignment explanation
Indices: 44564958--44565020 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
44564948 ACCATTCCAT
44564958 TTACTTTCCATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
*
44564978 TTACTTTCCATTTCATTTAC
1 TTACTTTCCATTCCATTTAC
*
44564998 TTATTTTCCATTCCATTTAC
1 TTACTTTCCATTCCATTTAC
44565018 TTA
1 TTA
44565021 GCATAAGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (20 bp):
TTACTTTCCATTCCATTTAC
Found at i:44566527 original size:41 final size:40
Alignment explanation
Indices: 44566481--44566562 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 40
44566471 CAACTAATAC
*
44566481 TTCAAATTAATCATTTAACATCTAAAATCACAAAAAAATCA
1 TTCAAACTAATCATTTAACATCTAAAATCA-AAAAAAATCA
*
44566522 TTCAAACTAATCATTTAACATCTAAAATCAAAAAAATTCA
1 TTCAAACTAATCATTTAACATCTAAAATCAAAAAAAATCA
44566562 T
1 T
44566563 CAATGGAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 10 0.26
41 29 0.74
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (40 bp):
TTCAAACTAATCATTTAACATCTAAAATCAAAAAAAATCA
Found at i:44572129 original size:39 final size:39
Alignment explanation
Indices: 44572042--44572257 Score: 317
Period size: 39 Copynumber: 5.5 Consensus size: 39
44572032 ACAAAGCATG
* * * *
44572042 CGGGACTTTAAGCCCAGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
44572082 CAGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
44572121 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
44572160 CGGGACTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
44572199 CGGGACTTAGCCCGAATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
44572238 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
44572258 TATCTCACAC
Statistics
Matches: 161, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 19 0.12
39 137 0.85
40 5 0.03
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:44578254 original size:46 final size:46
Alignment explanation
Indices: 44578204--44578379 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
44578194 TGGTTGAGCA
*
44578204 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *** * * * * *
44578250 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACCAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
* *
44578297 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
44578343 CCCGAGCTCATTGAGTTGAGTCCAAGTTCACTAATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
44578380 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:44578360 original size:93 final size:93
Alignment explanation
Indices: 44578201--44578371 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
44578191 GGATGGTTGA
* * *
44578201 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
44578266 TGAGTCCGAGTTCGAGAGATGTAACCAG
66 TGAGTCCAAGTTCGAGAGATGTAACCAG
* * *
44578294 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
44578359 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
44578372 ACTAATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCAAGTTCGAGAGATGTAACCAG
Found at i:44581332 original size:39 final size:39
Alignment explanation
Indices: 44581243--44581458 Score: 326
Period size: 39 Copynumber: 5.5 Consensus size: 39
44581233 ACAAAGCATG
* * *
44581243 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
44581283 CAGGATTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
44581322 CGGGACTTAGCCCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
44581361 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
44581400 CGGGACTTAGCCCGAATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
44581439 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
44581459 TATCTCACAC
Statistics
Matches: 162, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 20 0.12
39 138 0.85
40 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:44585472 original size:46 final size:46
Alignment explanation
Indices: 44585139--44585470 Score: 427
Period size: 46 Copynumber: 7.2 Consensus size: 46
44585129 CGTCTCCCAT
* * * * *
44585139 CCATGGTCTTATTTATCTT--TGACATGATGCCATAGTGTCTTTCAA
1 CCATGGTCTTATTCAT-TTCATGTCATGTTGCCATGGTATCTTTCAA
* *
44585184 CTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCA-TTTCATGTCATGTTGCCATGGTATCTTTCAA
* *
44585230 CCATGGTCTTATTCTTTTCATGTCATGTTGTCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
* ***
44585276 CCATGGTCTTATTCATTTCATGTTACACTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
* ***
44585322 CCATGGTCTTATTAATTTCCCATCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
* *
44585368 CCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
** *
44585414 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAA
1 CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
44585460 CCATGGTCTTA
1 CCATGGTCTTA
44585471 CATATTTTAT
Statistics
Matches: 248, Mismatches: 36, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
45 18 0.07
46 230 0.93
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (46 bp):
CCATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCAA
Found at i:44587343 original size:11 final size:11
Alignment explanation
Indices: 44587325--44587383 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
44587315 CTTTATATAC
*
44587325 TAATAAAATGA
1 TAATAAAATAA
*
44587336 TGATAAAATAA
1 TAATAAAATAA
*
44587347 TAATAAAATATCT
1 TAATAAAATA--A
* *
44587360 TATTAAAATAT
1 TAATAAAATAA
44587371 TAATAAAATAA
1 TAATAAAATAA
44587382 TA
1 TA
44587384 TTTATCTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 30 0.77
13 9 0.23
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:44599717 original size:17 final size:17
Alignment explanation
Indices: 44599669--44599719 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
44599659 GTATATTTAA
44599669 ATTTAATTCAAATCA--
1 ATTTAATTCAAATCATT
* *
44599684 ATTTATAGTTTATATCATT
1 ATTTA-A-TTCAAATCATT
44599703 ATTTAATTCAAATCATT
1 ATTTAATTCAAATCATT
44599720 TAATATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 5 0.18
16 1 0.04
17 16 0.57
18 1 0.04
19 5 0.18
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTTAATTCAAATCATT
Done.