Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007938.1 Hibiscus syriacus cultivar Beakdansim tig00110348_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2808856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 14
Found at i:252863 original size:31 final size:32
Alignment explanation
Indices: 252819--252899 Score: 114
Period size: 31 Copynumber: 2.6 Consensus size: 32
252809 ATGTTATTAG
252819 ATTATTATATATTATTAAA-TGTATAAATAAT
1 ATTATTATATATTATTAAATTGTATAAATAAT
* *
252850 ATTATTCAT-TATTAATAAATTGTATTAATAAT
1 ATTATT-ATATATTATTAAATTGTATAAATAAT
252882 -TTATTATATATTATTAAA
1 ATTATTATATATTATTAAA
252900 ATAAAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 2 0.05
31 29 0.66
32 13 0.30
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (32 bp):
ATTATTATATATTATTAAATTGTATAAATAAT
Found at i:252941 original size:18 final size:19
Alignment explanation
Indices: 252907--252953 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
252897 AAAATAAAAA
*
252907 TATAATAT-CTTATATTAT
1 TATAATATAATTATATTAT
252925 TATAATATAATTA-ATTAT
1 TATAATATAATTATATTAT
* *
252943 TTTATTATAAT
1 TATAATATAAT
252954 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATAATATAATTATATTAT
Found at i:252973 original size:22 final size:23
Alignment explanation
Indices: 252945--252991 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
252935 TTAATTATTT
252945 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
252967 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
252990 TA
1 TA
252992 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:252978 original size:30 final size:31
Alignment explanation
Indices: 252813--253021 Score: 102
Period size: 31 Copynumber: 6.8 Consensus size: 31
252803 ATTAAAATGT
* *
252813 TATTAGATTATTAT-ATATTATTAAATGTATAA
1 TATTATATTATTATAATATTAATAAA--TATAA
* *
252845 -ATAATATTATTCAT--TATTAATAAAT-T-G
1 TATTATATTATT-ATAATATTAATAAATATAA
*
252872 TATTAATAATTTATTAT-ATATTATTAAA-ATAA
1 TATT-AT-A-TTATTATAATATTAATAAATATAA
* * * *
252904 AAATATAATATCTTATATTATT-AT-AATATAA
1 TATTAT-AT-TATTATAATATTAATAAATATAA
*
252935 TTAATTATTTTATTATAATATTAA-AAATATAA
1 -T-ATTATATTATTATAATATTAATAAATATAA
*
252967 TATTATATTATTAGAAATATTAATAAATAT-A
1 TATTATATTATTA-TAATATTAATAAATATAA
* *
252998 TTTTATA-TATTTTAATAATTAATA
1 TATTATATTATTATAAT-ATTAATA
253022 TTTTGATTAA
Statistics
Matches: 137, Mismatches: 22, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
28 3 0.02
29 6 0.04
30 28 0.20
31 73 0.53
32 23 0.17
33 4 0.03
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (31 bp):
TATTATATTATTATAATATTAATAAATATAA
Found at i:252996 original size:22 final size:22
Alignment explanation
Indices: 252953--252996 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
252943 TTTATTATAA
*
252953 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
252975 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
252997 ATTTTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:253004 original size:53 final size:51
Alignment explanation
Indices: 252901--253062 Score: 152
Period size: 53 Copynumber: 3.1 Consensus size: 51
252891 ATTATTAAAA
* * *
252901 TAAAAATATAATATCTTATATTATTATAATATAATTAATTATTTTATTATAATAT
1 TAAAAATATAATA--TTATATTATTAAAATATAA-TAAATATATT-TTATAATAT
*
252956 TAAAAATATAATATTATATTATTAGAAATATTAATAAATATATTTTATATATTT
1 TAAAAATATAATATTATATTATTA-AAATA-TAATAAATATATTTTATA-ATAT
* * *
253010 TAATAAT-TAATATT-T-TGATTAAAATGATATTAAA-ATATTTTACTAATAT
1 TAAAAATATAATATTATATTATTAAAAT-ATAATAAATATATTTTA-TAATAT
253059 TAAA
1 TAAA
253063 TTCATAAAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
49 14 0.15
50 12 0.13
51 6 0.06
52 1 0.01
53 23 0.25
54 21 0.23
55 16 0.17
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (51 bp):
TAAAAATATAATATTATATTATTAAAATATAATAAATATATTTTATAATAT
Found at i:253014 original size:60 final size:58
Alignment explanation
Indices: 252885--253019 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 58
252875 TAATAATTTA
* * *
252885 TTATATATTATTAA-AATAAAAATATAATATCTTATATTATTATAATATAATTAATTATT
1 TTATATATT-TTAATATTAAAAATATAATA-CTTATATTATTAAAATATAATAAATTATT
252944 TTAT-TA---TAATATTAAAAATATAATA-TTATATTATTAGAAATATTAATAAATATATT
1 TTATATATTTTAATATTAAAAATATAATACTTATATTATTA-AAATA-TAATAAAT-TATT
253000 TTATATATTTTAATAATTAA
1 TTATATATTTTAAT-ATTAA
253020 TATTTTGATT
Statistics
Matches: 64, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
53 11 0.17
54 7 0.11
55 21 0.33
56 8 0.12
57 2 0.03
58 2 0.03
59 4 0.06
60 4 0.06
61 5 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (58 bp):
TTATATATTTTAATATTAAAAATATAATACTTATATTATTAAAATATAATAAATTATT
Found at i:257234 original size:12 final size:13
Alignment explanation
Indices: 257207--257235 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
257197 TTAATTAGGA
257207 TTTAAGATATTAT
1 TTTAAGATATTAT
257220 TTTAA-ATATTAT
1 TTTAAGATATTAT
257232 TTTA
1 TTTA
257236 TTTTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTAAGATATTAT
Found at i:257958 original size:18 final size:18
Alignment explanation
Indices: 257935--257977 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
257925 CTTTAGATTA
257935 TTTATTTAATTATT-TTCT
1 TTTATTTAATTATTATT-T
*
257953 TTTATTTAATTCTTATTT
1 TTTATTTAATTATTATTT
257971 TTTATTT
1 TTTATTT
257978 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTAATTATTATTT
Found at i:258026 original size:3 final size:3
Alignment explanation
Indices: 258020--258089 Score: 60
Period size: 3 Copynumber: 24.3 Consensus size: 3
258010 TCTTTACTAC
* *
258020 TAT TATT TAT TAT T-T TAT TA- TAT TTT TCT T-T ATAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
258064 TAT TAT TAT TA- TAT T-T TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
258090 TTTAACTTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
2 9 0.16
3 43 0.77
4 4 0.07
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:258090 original size:6 final size:6
Alignment explanation
Indices: 258054--258131 Score: 50
Period size: 6 Copynumber: 12.2 Consensus size: 6
258044 TTTCTTTATA
* * * *
258054 TTATTA TTATTA TTATTA TTATATT TTATTT TTATTT TTAACTTC TT-TTT
1 TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT TT-A-TTT TTATTT
*
258104 TTATTT TACTTTGTT TTATTT TTATTT T
1 TTATTT T--TAT-TT TTATTT TTATTT T
258132 CTCTTTTAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
5 4 0.07
6 39 0.65
7 8 0.13
8 6 0.10
9 3 0.05
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:266094 original size:36 final size:36
Alignment explanation
Indices: 266034--266105 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
266024 TCTTGTCGTA
* *
266034 GAATGCTTTTGGTATCAATCTAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
*
266070 GAATACTTTTGGTATTAATATAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
266106 TGCATATCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (36 bp):
GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
Found at i:267037 original size:28 final size:27
Alignment explanation
Indices: 266981--267038 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
266971 AAGTATTAAT
*
266981 AAAAAAATAATATATATAAATATTATG
1 AAAAAAATAATATATATAAAAATTATG
* *
267008 AAAATAATAAGTATATATAAAAATTTTG
1 AAAAAAATAA-TATATATAAAAATTATG
267036 AAA
1 AAA
267039 GGAAAGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (27 bp):
AAAAAAATAATATATATAAAAATTATG
Found at i:267815 original size:132 final size:131
Alignment explanation
Indices: 267556--267820 Score: 378
Period size: 132 Copynumber: 2.0 Consensus size: 131
267546 TTATTTTTAT
*
267556 AAATAAGATATTTATTTACTTAGAAATATCAGAAAATGACTTCTAGGTGCTTTAAGACAGCCCAT
1 AAATAAGATATTTATTTACTTAGAAATACCAGAAAATGACTTCTAGGTGCTTTAAGACAGCCCAT
267621 TTCTTAATTTAAAAAATAAATAAATATTATTAAAATATTTCTCTAAAAATAATTATATAATTTAT
66 TTCTTAATTTAAAAAATAAATAAATATTA-TAAAATATTTCTCTAAAAATAATTATATAATTTAT
267686 AA
130 AA
* * *
267688 AAATAGGATATTTATTTATTTA-AGAATACCAGAAAATGACTTCTAGGTGCTTTAAGACAGCTCA
1 AAATAAGATATTTATTTACTTAGA-AATACCAGAAAATGACTTCTAGGTGCTTTAAGACAGCCCA
* *
267752 TTTCTTAATATTAAAAAATAAATAACA-ATTA-AAATATGATTTATTTTAAAAATAATT-TA-AA
65 TTTCTTAAT-TTAAAAAATAAATAA-ATATTATAAA-AT-ATTT-CTCTAAAAATAATTATATAA
267813 TTTATAA
125 TTTATAA
267820 A
1 A
267821 TAGAATTTTT
Statistics
Matches: 121, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
131 4 0.03
132 79 0.65
133 25 0.21
134 13 0.11
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (131 bp):
AAATAAGATATTTATTTACTTAGAAATACCAGAAAATGACTTCTAGGTGCTTTAAGACAGCCCAT
TTCTTAATTTAAAAAATAAATAAATATTATAAAATATTTCTCTAAAAATAATTATATAATTTATA
A
Found at i:267925 original size:21 final size:22
Alignment explanation
Indices: 267883--267935 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 22
267873 TAATAATAAT
267883 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
267905 AACATATAA-AATTAAACTATAAATA
1 AACA-ATAATAATTAAA-TAT--ATA
267930 AACAAT
1 AACAAT
267936 GATTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 11 0.41
23 7 0.26
24 2 0.07
25 7 0.26
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:269148 original size:3 final size:3
Alignment explanation
Indices: 269140--269229 Score: 83
Period size: 3 Copynumber: 30.0 Consensus size: 3
269130 TTGTAATATG
* * *
269140 TAA TAA TAA TATT TAT TAT TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
269185 TAA TAA TTA TTA TTA TTA TAA TTA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
269230 AACGGGCCAA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.03
3 73 0.95
4 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:269186 original size:36 final size:36
Alignment explanation
Indices: 269140--269223 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
269130 TTGTAATATG
* *
269140 TAATAATAATATTTATTATTAATAATAATAA-TATAA
1 TAATAATAATAATAATTATT-ATAATAATAATTATAA
* *
269176 TAATAATAATAATAATTATTATTATTATAATTATAA
1 TAATAATAATAATAATTATTATAATAATAATTATAA
269212 TAATAATAATAA
1 TAATAATAATAA
269224 AAATAAAACG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 8 0.19
36 35 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (36 bp):
TAATAATAATAATAATTATTATAATAATAATTATAA
Found at i:269229 original size:39 final size:39
Alignment explanation
Indices: 269140--269223 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
269130 TTGTAATATG
*
269140 TAATAATAATATTTATTATTAATAATAATAATATAATAA
1 TAATAATAATAATTATTATTAATAATAATAATATAATAA
*
269179 TAATAATAATAATTATTATT-ATTATAAT--TATAATAA
1 TAATAATAATAATTATTATTAATAATAATAATATAATAA
269215 TAATAATAA
1 TAATAATAA
269224 AAATAAAACG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 17 0.40
38 7 0.16
39 19 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (39 bp):
TAATAATAATAATTATTATTAATAATAATAATATAATAA
Found at i:271359 original size:26 final size:26
Alignment explanation
Indices: 271298--271361 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
271288 CATTACTGTT
271298 TCTTTGTTCCTT-ACTTTCTTTGTAGC
1 TCTTTGTT-CTTCACTTTCTTTGTAGC
271324 TCTTTGTTCTTCACTTTCTTTGTAGC
1 TCTTTGTTCTTCACTTTCTTTGTAGC
271350 TCTTTGTTCTTC
1 TCTTTGTTCTTC
271362 TTGGGCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 3 0.08
26 34 0.92
ACGTcount: A:0.06, C:0.23, G:0.11, T:0.59
Consensus pattern (26 bp):
TCTTTGTTCTTCACTTTCTTTGTAGC
Found at i:273715 original size:3 final size:3
Alignment explanation
Indices: 273707--273771 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
273697 TTTTATTTAA
* *
273707 ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT -TAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
*
273752 ACT ATAT ATT ATT ATT ATT A
1 ATT AT-T ATT ATT ATT ATT A
273772 AGTAATAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.02
3 48 0.91
4 4 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:273720 original size:18 final size:21
Alignment explanation
Indices: 273694--273771 Score: 88
Period size: 21 Copynumber: 3.6 Consensus size: 21
273684 CACTAATTTT
273694 TTATT-TTATT-TAAATTATTA
1 TTATTATTATTATAAA-TATTA
273714 TTATTATTATTATAAATATTA
1 TTATTATTATTATAAATATTA
*
273735 TTATTATTATTTATATTACTATATA
1 TTATTATTA-TTATA--AATAT-TA
273760 TTATTATTATTA
1 TTATTATTATTA
273772 AGTAATAATA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
20 5 0.10
21 19 0.37
22 9 0.18
24 7 0.14
25 11 0.22
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTATTATTATAAATATTA
Found at i:281359 original size:167 final size:168
Alignment explanation
Indices: 281082--281409 Score: 545
Period size: 167 Copynumber: 2.0 Consensus size: 168
281072 AGAATGAGCA
*
281082 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGATAAAACGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-AAAAACATAATGAGAAAACGA
* * * *
281147 TTTCCATAGTTTCTCATTTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAATAAAACGATTTT
65 TTTCCAAAGTTTCTCATTTTAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
281212 CTTAG-TTTTTTTTACTTAGTAAACTATTTCCAAAAACC
130 CTTAGTTTTTTTTTACTTAGTAAACTATTTCCAAAAACC
* *
281250 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATCTT-GAAACATAATGAGAAAACTA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTAT-TTAAAAACATAATGAGAAAACGA
281314 TTTCCAAAGTTTCTCA-TTTAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
65 TTTCCAAAGTTTCTCATTTTAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
281378 CCTTAGTTTTTTTTTACTTAGTAAACTATTTC
129 CCTTAGTTTTTTTTTACTTAGTAAACTATTTC
281410 ACACATTTGT
Statistics
Matches: 150, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
166 12 0.08
167 70 0.47
168 66 0.44
169 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (168 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAACATAATGAGAAAACGAT
TTCCAAAGTTTCTCATTTTAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
TTAGTTTTTTTTTACTTAGTAAACTATTTCCAAAAACC
Found at i:281612 original size:77 final size:77
Alignment explanation
Indices: 281417--281721 Score: 533
Period size: 77 Copynumber: 4.0 Consensus size: 77
281407 TTCACACATT
* *
281417 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
* *
281482 TTC-GGGTCATA
66 CTCAGGGTCATC
281493 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
281558 CTCAGGGTCATC
66 CTCAGGGTCATC
281570 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
281635 CTCAGGGTCATC
66 CTCAGGGTCATC
* * *
281647 TGTAAGTCCTGCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGCTTTTTAATGTTTTC-AAACC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
281711 CTCAGGGTCAT
66 CTCAGGGTCAT
281722 TCATAAGACC
Statistics
Matches: 221, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
76 81 0.37
77 140 0.63
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (77 bp):
TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
CTCAGGGTCATC
Found at i:281710 original size:153 final size:153
Alignment explanation
Indices: 281417--281721 Score: 531
Period size: 153 Copynumber: 2.0 Consensus size: 153
281407 TTCACACATT
*
281417 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
* * * *
281482 TTCGGGTCATATGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
66 CTCGGGTCATATGTAAGTCCTGCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGCTTTTTAATG
281547 TTTTCAAAACCCTCAGGGTCATC
131 TTTTCAAAACCCTCAGGGTCATC
*
281570 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
*
281635 CTCAGGGTCATCTGTAAGTCCTGCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGCTTTTTAAT
66 CTC-GGGTCATATGTAAGTCCTGCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGCTTTTTAAT
281700 GTTTTC-AAACCCTCAGGGTCAT
130 GTTTTCAAAACCCTCAGGGTCAT
281722 TCATAAGACC
Statistics
Matches: 144, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
153 81 0.56
154 63 0.44
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (153 bp):
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACC
CTCGGGTCATATGTAAGTCCTGCAGTGCATGATATTTCCAAAAAGCCTTCAGGAGCTTTTTAATG
TTTTCAAAACCCTCAGGGTCATC
Found at i:281886 original size:3 final size:3
Alignment explanation
Indices: 281878--281939 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
281868 TTTTACTTAA
* * *
281878 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT -TAT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
281923 ATAT ATT ATT ATT ATT A
1 AT-T ATT ATT ATT ATT A
281940 AGTAATAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 45 0.90
4 4 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:283734 original size:27 final size:29
Alignment explanation
Indices: 283686--283739 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
283676 TCTGACTATA
*
283686 TTAAAATAAATTTTTTGTTA-TTATTTTC
1 TTAAAATAAATTTTTTGATATTTATTTTC
283714 TTAAAA-AAATGTTTTT-ATATTTATTT
1 TTAAAATAAAT-TTTTTGATATTTATTT
283740 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (29 bp):
TTAAAATAAATTTTTTGATATTTATTTTC
Found at i:287217 original size:2 final size:2
Alignment explanation
Indices: 287210--287237 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
287200 TTATTTTAAC
287210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
287238 GCGTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:287334 original size:6 final size:6
Alignment explanation
Indices: 287319--287368 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
287309 CTTTTTATTC
* *
287319 TTTTTA -TTTTA TTTTTTA TTTTT- CTTATA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
287366 TTT
1 TTT
287369 ATCCTTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 8 0.22
6 24 0.65
7 5 0.14
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:287351 original size:17 final size:16
Alignment explanation
Indices: 287327--287358 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
287317 TCTTTTTATT
287327 TTATTTTTTATTTTTC
1 TTATTTTTTATTTTTC
287343 TTATATTTTTATTTTT
1 TTAT-TTTTTATTTTT
287359 ATTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TTATTTTTTATTTTTC
Found at i:287357 original size:23 final size:21
Alignment explanation
Indices: 287310--287379 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 21
287300 ATTATCTTCC
*
287310 TTTTTATTCTTTTTATTTTAT
1 TTTTTATTTTTTTTATTTTAT
287331 TTTTTATTTTTCTTATATTTT-T
1 TTTTTATTTTT-TT-TATTTTAT
*
287353 ATTTTTATTTTTATTTATCCTTAT
1 -TTTTTATTTTT-TTTAT-TTTAT
287377 TTT
1 TTT
287380 CCTTTATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 10 0.24
22 6 0.15
23 24 0.59
24 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTTTTTATTTTAT
Found at i:287370 original size:24 final size:24
Alignment explanation
Indices: 287310--287364 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
287300 ATTATCTTCC
*
287310 TTTTTATTCTT-TT-TA-TTTTAT
1 TTTTTATTTTTCTTATATTTTTAT
287331 TTTTTATTTTTCTTATATTTTTA-
1 TTTTTATTTTTCTTATATTTTTAT
287354 TTTTTATTTTT
1 TTTTTATTTTT
287365 ATTTATCCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 10 0.33
22 2 0.07
23 13 0.43
24 5 0.17
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTATTTTTCTTATATTTTTAT
Found at i:289775 original size:16 final size:18
Alignment explanation
Indices: 289754--289790 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
289744 ATATTTTGCA
289754 TTTTATA-TTTC-ATGTT
1 TTTTATATTTTCTATGTT
289770 TTTTATATTTTCTATGTT
1 TTTTATATTTTCTATGTT
289788 TTT
1 TTT
289791 ACATTCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTATATTTTCTATGTT
Found at i:297408 original size:8 final size:8
Alignment explanation
Indices: 297395--297419 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
297385 TTTATTTTGT
297395 TACGTATA
1 TACGTATA
297403 TACGTATA
1 TACGTATA
297411 TACGTATA
1 TACGTATA
297419 T
1 T
297420 TTTTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (8 bp):
TACGTATA
Found at i:297872 original size:6 final size:6
Alignment explanation
Indices: 297858--297913 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
297848 CTTTTTATTC
* * * *
297858 TTTTTA TTTTCA TTTTTA TTTTT- CTTATA TTTTTA TTTTCA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
297905 TTTTT- TTTT
1 TTTTTA TTTT
297914 ATCCTTATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
5 7 0.17
6 34 0.83
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:297873 original size:21 final size:22
Alignment explanation
Indices: 297840--297896 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
297830 ATATTTACTA
* *
297840 TTATCTTCCTTTTTATTCTT-T
1 TTATTTTCATTTTTATTCTTCT
*
297861 TTATTTTCATTTTTATTTTTCT
1 TTATTTTCATTTTTATTCTTCT
*
297883 TATATTTTTATTTT
1 T-TATTTTCATTTT
297897 CATTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 17 0.57
22 2 0.07
23 11 0.37
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (22 bp):
TTATTTTCATTTTTATTCTTCT
Found at i:297926 original size:29 final size:29
Alignment explanation
Indices: 297861--297924 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
297851 TTTATTCTTT
**
297861 TTATTTTCATTTTTATTTTTCTTATATTT
1 TTATTTTCATTTTTATTTTTCTTATATCC
*
297890 TTATTTTCATTTTTATTTTT-TTTTATCC
1 TTATTTTCATTTTTATTTTTCTTATATCC
297918 TTATTTT
1 TTATTTT
297925 TCCTTTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 12 0.38
29 20 0.62
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.77
Consensus pattern (29 bp):
TTATTTTCATTTTTATTTTTCTTATATCC
Found at i:299525 original size:2 final size:2
Alignment explanation
Indices: 299518--299576 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
299508 CTATCCACTA
299518 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
299560 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
299577 GGTCTATCCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:302344 original size:2 final size:2
Alignment explanation
Indices: 302337--302363 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
302327 TAAGTGACTT
302337 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
302364 TAATTTTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:304329 original size:31 final size:32
Alignment explanation
Indices: 304245--304329 Score: 81
Period size: 30 Copynumber: 2.8 Consensus size: 32
304235 TCGTATGAAC
* *
304245 AAAATTGATACTA-AAATTAGATTTTAGTGCAT
1 AAAATTGATAC-ACAAATTAAAGTTTAGTGCAT
**
304277 AAAATT--TA-AGCATTTTAAAGTTTAGTG-AT
1 AAAATTGATACA-CAAATTAAAGTTTAGTGCAT
304306 AAAATTGATACACAAATTAAAGTT
1 AAAATTGATACACAAATTAAAGTT
304330 AATGGGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
28 1 0.02
29 8 0.19
30 14 0.33
31 12 0.29
32 7 0.17
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (32 bp):
AAAATTGATACACAAATTAAAGTTTAGTGCAT
Found at i:316912 original size:106 final size:106
Alignment explanation
Indices: 316775--317973 Score: 1803
Period size: 106 Copynumber: 11.6 Consensus size: 106
316765 AAAAGTTGTC
* * *
316775 TGTCAACAAACAATTT-TCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 TGTCAATAAACAATTTCT-CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* *
316839 CAGACAACGTAAGTTCAACTTCACGACGAAGTGACCGCTGGT
65 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
316881 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCC
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
316946 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
316987 TGTCAATAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGGATCTT-GACTCT
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
317050 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGGTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
317091 TGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACCACGAAGGATATTGGACTCC
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
317156 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
317197 TGTCAACAAA-TATTTCTCAATTTCAGAGCCAATTTCAACTTCATAACGAAGGATATTGGACTCC
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
317261 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
317302 TGTCAATAACCAACTTCTCAATTTC----CCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
**
317363 AGACAATACAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
317404 TGTCAAT--A-AA-----CAATTTC----CCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
317457 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
317498 TGTCAATAAACAA--T-T---TTT-----CCAATTTCAACTTCTCAACGAAGGATATTGGACTCC
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
317552 AGACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
317593 TGTCAATAAACAATTTCCCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
317658 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
317699 TGTCAATAAACAATTTCTCAATCTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCG
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
317764 AGGCAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
317805 TGTCAATAAACAATTTCCCAATTTCAAAACCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
317870 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * ** *
317911 TGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACT
1 TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
317974 TGGAACAATA
Statistics
Matches: 1009, Mismatches: 64, Indels: 40
0.91 0.06 0.04
Matches are distributed among these distances:
94 88 0.09
95 88 0.09
96 4 0.00
97 3 0.00
99 2 0.00
101 3 0.00
102 80 0.08
104 56 0.06
105 183 0.18
106 501 0.50
107 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
TGTCAATAAACAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:317393 original size:43 final size:43
Alignment explanation
Indices: 317332--317487 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 43
317322 ATTTCCCAAT
317332 TTCAACTTCAC-AGCGAAGGATATTGGACTCCAGACAATACAAG
1 TTCAACTTCACGA-CGAAGGATATTGGACTCCAGACAATACAAG
*** ** * * * *
317375 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
1 TTCAACTTCACGACGAA-GGA-TATTGG-ACTC--CAGACAA--T-ACAAG
* **
317426 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACGACGAAGGATATTGGACTCCAGACAATACAAG
317469 TTCAACTTCACGACGAAGG
1 TTCAACTTCACGACGAAGG
317488 GACCGCTGGT
Statistics
Matches: 83, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
43 36 0.43
44 4 0.05
45 3 0.04
46 7 0.08
48 7 0.08
49 3 0.04
50 4 0.05
51 19 0.23
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACGACGAAGGATATTGGACTCCAGACAATACAAG
Found at i:320016 original size:2 final size:2
Alignment explanation
Indices: 320011--320047 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
320001 GTTTTTTATG
320011 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
320048 TTGTTTAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:321814 original size:31 final size:31
Alignment explanation
Indices: 321779--321852 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
321769 AACGTCCAAA
321779 TGACCAAAACTTAATAAAACAATAACGTAAG
1 TGACCAAAACTTAATAAAACAATAACGTAAG
* ** *
321810 TGACCAAAACCTAATAAAATGATAATGTAAG
1 TGACCAAAACTTAATAAAACAATAACGTAAG
*
321841 TGAGCAAAACTT
1 TGACCAAAACTT
321853 GTGTTTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (31 bp):
TGACCAAAACTTAATAAAACAATAACGTAAG
Found at i:324723 original size:14 final size:16
Alignment explanation
Indices: 324704--324742 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
324694 ATTAAAATAA
324704 TATTTTTTATTATTTAT
1 TATTTTTTATTA-TTAT
324721 T-TTATTTTATTATTAT
1 TATT-TTTTATTATTAT
324737 TATTTT
1 TATTTT
324743 ATTTTCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTATTATTAT
Found at i:324756 original size:19 final size:19
Alignment explanation
Indices: 324704--324747 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
324694 ATTAAAATAA
324704 TATTTT-TTATTATTTATTT
1 TATTTTATTATTA-TTATTT
324723 TATTTTATTATTATTATTT
1 TATTTTATTATTATTATTT
324742 TATTTT
1 TATTTT
324748 CATGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TATTTTATTATTATTATTT
Found at i:328909 original size:2 final size:2
Alignment explanation
Indices: 328902--328942 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
328892 TATACCCAGA
*
328902 AT AT AT AT AT AT AT AA 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 AT AT AT AT AT AT AT AT A
328943 CACACACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:330503 original size:37 final size:37
Alignment explanation
Indices: 330462--330592 Score: 151
Period size: 37 Copynumber: 3.6 Consensus size: 37
330452 ACAAAGTGTC
* * *
330462 GTCTCGCTAGAGATAGTTTTTCTTAAAAATAAATTTT
1 GTCTCGCTTGAGACAGTTTTTCTTAAAAACAAATTTT
*
330499 GTCTCGCTTGAGAAAG-TTTTCTCTAAAAACAAATTTT
1 GTCTCGCTTGAGACAGTTTTTCT-TAAAAACAAATTTT
* * * * *
330536 GTCTTGCTTGAGACAATTTCTC-TCAAAACAAATTTC
1 GTCTCGCTTGAGACAGTTTTTCTTAAAAACAAATTTT
330572 GTCTCGCTTGAGACA-TTTTTC
1 GTCTCGCTTGAGACAGTTTTTC
330593 CTTTGAGTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
35 5 0.06
36 32 0.40
37 40 0.49
38 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (37 bp):
GTCTCGCTTGAGACAGTTTTTCTTAAAAACAAATTTT
Found at i:330806 original size:99 final size:100
Alignment explanation
Indices: 330553--330897 Score: 290
Period size: 99 Copynumber: 3.4 Consensus size: 100
330543 TTGAGACAAT
* *** *
330553 TTCTCTCAAAACAAATTTCGTCTCGCTTGAGAC-ATTTTTCCTTTGAGTTACAAATTTCGAATTT
1 TTCTCT-AAAACAAATTTCGTCTCACTTGAGACAATTTTT-CTTTGAAACACAAATTTCGAAGTT
* ** * *
330617 GTTTCACTTGAAATAGTATTGATCTCACTTGAGATTAT
64 GTTTCACTTGAAACAAAATTAATCTCACTTGAGATT-G
* * * * * * * * * *
330655 TTCTCTTAAAGCAAATTTCATCTCGCTTGAGATAA---TCCCTCGGAACAAAAATTTCAAAGTTG
1 TTCTC-TAAAACAAATTTCGTCTCACTTGAGACAATTTTTCTTTGAAACACAAATTTCGAAGTTG
*
330717 TTTTACTTGAAACAAAATTAATCTCACTTGAGATTG
65 TTTCACTTGAAACAAAATTAATCTCACTTGAGATTG
* *
330753 TTCTC-AAAACAAATTTCGTCTCACTTGAGACAATTTTTCTTTAAAACACAAATTTTGAAGTTGT
1 TTCTCTAAAACAAATTTCGTCTCACTTGAGACAATTTTTCTTTGAAACACAAATTTCGAAGTTGT
* *
330817 TTCACTGGAAACAAAATTGATAAAC-CA-TTGAGATTG
66 TTCACTTGAAACAAAA-T--TAATCTCACTTGAGATTG
* * * *
330853 TTTCTCTAGAAAAAAAGTTTTGTCTCAGTTGAGACAATTTCTCTT
1 -TTCTCTA-AAACAAA-TTTCGTCTCACTTGAGACAATTTTTCTT
330898 GAATAAATTT
Statistics
Matches: 193, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
96 24 0.12
98 5 0.03
99 80 0.41
100 11 0.06
101 7 0.04
102 33 0.17
103 8 0.04
104 25 0.13
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (100 bp):
TTCTCTAAAACAAATTTCGTCTCACTTGAGACAATTTTTCTTTGAAACACAAATTTCGAAGTTGT
TTCACTTGAAACAAAATTAATCTCACTTGAGATTG
Found at i:330894 original size:37 final size:39
Alignment explanation
Indices: 330853--330933 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
330843 ATTGAGATTG
*
330853 TTTCTCTAGAA-AAA-AAGTTTTGTCTCAGTTGAGACAA
1 TTTCTCTAGAATAAATAAGTTTTGTCTCACTTGAGACAA
* *** *
330890 TTTCTCTTGAATAAATTTTTTTTGTCTCTCTTGAGACAA
1 TTTCTCTAGAATAAATAAGTTTTGTCTCACTTGAGACAA
330929 TTTCT
1 TTTCT
330934 ATTGAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
37 10 0.28
38 3 0.08
39 23 0.64
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (39 bp):
TTTCTCTAGAATAAATAAGTTTTGTCTCACTTGAGACAA
Found at i:334709 original size:3 final size:3
Alignment explanation
Indices: 334701--334753 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
334691 AGCTTCAGAG
334701 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
334749 TAA TA
1 TAA TA
334754 CACAGCTAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:338534 original size:111 final size:112
Alignment explanation
Indices: 338407--338609 Score: 347
Period size: 112 Copynumber: 1.8 Consensus size: 112
338397 TAACCTTACA
* *
338407 TAAATAAATTTGATAATAAATTAAAAATCA-GAAAAATAATATTTTTCATAAATTATAATCACAA
1 TAAATAAATTTAATAATAAATTAAAAATCATAAAAAATAATATTTTTCATAAATTATAATCACAA
338471 ATATTTTC-TCTATCCCACTAAATGTATCTATTATTGACTTTTAAAGT
66 ATA-TTTCATCTATCCCACTAAATGTATCTATTATTGACTTTTAAAGT
*
338518 TAAATAAATTTAATAATACATTAAAAATCATAAAAAATAATATTTTTCATAAATTATAATCACAA
1 TAAATAAATTTAATAATAAATTAAAAATCATAAAAAATAATATTTTTCATAAATTATAATCACAA
*
338583 GTATTTCATCTATCCCACTAAATGTAT
66 ATATTTCATCTATCCCACTAAATGTAT
338610 ACTTTTAAAA
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
111 32 0.37
112 54 0.63
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (112 bp):
TAAATAAATTTAATAATAAATTAAAAATCATAAAAAATAATATTTTTCATAAATTATAATCACAA
ATATTTCATCTATCCCACTAAATGTATCTATTATTGACTTTTAAAGT
Found at i:339354 original size:31 final size:31
Alignment explanation
Indices: 339319--339377 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
339309 AAGTAAGTCT
*
339319 CTCTTTTCTTT-TGCACTCTACCATTTTCGTA
1 CTCTTCTCTTTCT-CACTCTACCATTTTCGTA
* *
339350 CTCTTCTCTTTCTCTCTCTGCCATTTTC
1 CTCTTCTCTTTCTCACTCTACCATTTTC
339378 TCACTCTGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.08, C:0.34, G:0.05, T:0.53
Consensus pattern (31 bp):
CTCTTCTCTTTCTCACTCTACCATTTTCGTA
Found at i:344553 original size:59 final size:58
Alignment explanation
Indices: 344461--344581 Score: 181
Period size: 59 Copynumber: 2.1 Consensus size: 58
344451 GAAGGGTTGG
* * *
344461 TTAGAGCCATATTATTGAATTTTTCTTTTCATTGCGACTAGGAGGGTTTGATAGGACAC
1 TTAGAGCCATATTATTG-ATTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACAC
344520 TTAGAGCCATATTATCATG-TTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACAC
1 TTAGAGCCATATTAT--TGATTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACAC
344579 TTA
1 TTA
344582 TCCATCTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
59 55 0.96
61 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (58 bp):
TTAGAGCCATATTATTGATTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACAC
Found at i:344728 original size:12 final size:12
Alignment explanation
Indices: 344700--344734 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
344690 TATCTTTTGT
344700 TTATCTTG-TTC
1 TTATCTTGTTTC
*
344711 TAATCTTGTTTC
1 TTATCTTGTTTC
344723 TTATCTTGTTTC
1 TTATCTTGTTTC
344735 CAGCACTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.11, C:0.17, G:0.09, T:0.63
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:349054 original size:50 final size:54
Alignment explanation
Indices: 349000--349135 Score: 163
Period size: 59 Copynumber: 2.5 Consensus size: 54
348990 CACACTCCAA
*
349000 TTTGCCTTTTCATTGTGACTAAGAGGG-T-T-GG-TTAGAGCCATATTATCGAG
1 TTTGCCTTTTCATTGCGACTAAGAGGGTTATAGGATTAGAGCCATATTATCGAG
* *
349050 TTTGCCTTTTCATTGCGACTATGAGGGTTCGATAGGACACTTAGAGCCATATTATCGTG
1 TTTGCCTTTTCATTGCGACTAAGAGGGTT--ATAGG--A-TTAGAGCCATATTATCGAG
*
349109 TTTGCCTTTTCATTGCGACTAGGAGGG
1 TTTGCCTTTTCATTGCGACTAAGAGGG
349136 CTCGATAGGA
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
50 25 0.34
51 1 0.01
54 1 0.01
55 2 0.03
59 44 0.60
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.37
Consensus pattern (54 bp):
TTTGCCTTTTCATTGCGACTAAGAGGGTTATAGGATTAGAGCCATATTATCGAG
Found at i:349123 original size:59 final size:59
Alignment explanation
Indices: 349031--349151 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
349021 AGAGGGTTGG
* *
349031 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTATGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACAC
*
349090 TTAGAGCCATATTATCGTGTTTGCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACAC
349149 TTA
1 TTA
349152 TCCATCTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGAGGGCTCGATAGGACAC
Found at i:350985 original size:2 final size:2
Alignment explanation
Indices: 350978--351004 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
350968 TTTCAACTTT
350978 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
351005 TAGGATCTAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:351130 original size:2 final size:2
Alignment explanation
Indices: 351118--351167 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
351108 CTCTTCTATT
*
351118 TA TA T- TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
351159 TA TA TA TA T
1 TA TA TA TA T
351168 TAATTTACTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:352920 original size:17 final size:18
Alignment explanation
Indices: 352892--352931 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
352882 CAAATTTCAA
352892 TAAAACTATATAAAAATT
1 TAAAACTATATAAAAATT
* *
352910 TAAAA-TATATAATAGTT
1 TAAAACTATATAAAAATT
352927 TAAAA
1 TAAAA
352932 ATTTTAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAACTATATAAAAATT
Found at i:353433 original size:23 final size:24
Alignment explanation
Indices: 353407--353458 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
353397 ATTTATGTCA
353407 TTGTGACACAC-TTTTCTATGCTC
1 TTGTGACACACTTTTTCTATGCTC
** *
353430 TTGTGGTACACTTTTTCTCTGCTC
1 TTGTGACACACTTTTTCTATGCTC
353454 TTGTG
1 TTGTG
353459 GCACGTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.48
Consensus pattern (24 bp):
TTGTGACACACTTTTTCTATGCTC
Found at i:353452 original size:24 final size:23
Alignment explanation
Indices: 353414--353459 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
353404 TCATTGTGAC
353414 ACACTTTTCTATGCTCTTGTGGT
1 ACACTTTTCTATGCTCTTGTGGT
*
353437 ACACTTTTTCTCTGCTCTTGTGG
1 ACAC-TTTTCTATGCTCTTGTGG
353460 CACGTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (23 bp):
ACACTTTTCTATGCTCTTGTGGT
Found at i:360799 original size:24 final size:25
Alignment explanation
Indices: 360753--360799 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
360743 AGCATTTTTA
* **
360753 TTTTACTTTTTCATTTTTTTTATAG
1 TTTTACTTGTTCATTTTCCTTATAG
360778 TTTTACTTGTT-ATTTTCCTTAT
1 TTTTACTTGTTCATTTTCCTTAT
360800 CTTTTTCAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTACTTGTTCATTTTCCTTATAG
Found at i:370777 original size:26 final size:27
Alignment explanation
Indices: 370721--370779 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
370711 GTAAAAACCC
**
370721 ATATTTTTAATTTAGTCACTAAAATTC
1 ATATTTTTAATTTAGTCACTAAAATAA
* *
370748 ATATTTTTAATTTAGTTACT-TAATAA
1 ATATTTTTAATTTAGTCACTAAAATAA
370774 ATATTT
1 ATATTT
370780 ATTTTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (27 bp):
ATATTTTTAATTTAGTCACTAAAATAA
Found at i:372066 original size:9 final size:9
Alignment explanation
Indices: 372052--372085 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
372042 TAGGGATAAA
372052 ATTTATTTT
1 ATTTATTTT
372061 ATTTATTTT
1 ATTTATTTT
*
372070 ATTGATTTTT
1 ATTTA-TTTT
372080 ATTTAT
1 ATTTAT
372086 CTGGATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (9 bp):
ATTTATTTT
Found at i:372918 original size:25 final size:25
Alignment explanation
Indices: 372886--372934 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
372876 GCATAATCTA
372886 CTGGTTGATGTAGATTATTCATCAT
1 CTGGTTGATGTAGATTATTCATCAT
372911 CTGGTTGATGTAGATTATTCATCA
1 CTGGTTGATGTAGATTATTCATCA
372935 ACTATATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (25 bp):
CTGGTTGATGTAGATTATTCATCAT
Found at i:373013 original size:24 final size:24
Alignment explanation
Indices: 372986--373034 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
372976 GCTCGATACT
372986 CAGCTTCAGTGGTTGACAATAATA
1 CAGCTTCAGTGGTTGACAATAATA
373010 CAGCTTCAGTGGTTGACAATAATA
1 CAGCTTCAGTGGTTGACAATAATA
373034 C
1 C
373035 CGTTGGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (24 bp):
CAGCTTCAGTGGTTGACAATAATA
Found at i:379422 original size:21 final size:21
Alignment explanation
Indices: 379393--379445 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
379383 ATTCTGACTA
379393 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
379414 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
379435 TCGCAATGCGA
1 TCGCATTGCGA
379446 ATACGTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:379456 original size:20 final size:20
Alignment explanation
Indices: 379435--379547 Score: 172
Period size: 20 Copynumber: 5.7 Consensus size: 20
379425 TTTTCCTAAT
*
379435 TCGCAATGCGAATACGTAAT
1 TCGCAATGCGAATACGTAAA
*
379455 TCGCAATGCGAATACGTAAT
1 TCGCAATGCGAATACGTAAA
*
379475 TCGCAATGCGAATACGAAAA
1 TCGCAATGCGAATACGTAAA
379495 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
379515 TCGCAACGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*
379535 TCGCAACGCGAAT
1 TCGCAATGCGAAT
379548 CTGACTATCG
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:379557 original size:20 final size:20
Alignment explanation
Indices: 379534--379600 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
379524 GAATATGTAA
*
379534 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
*
379554 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
* *
379574 ATCGCAATGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
*
379594 ATTGCAA
1 ATCGCAA
379601 TATTGAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:379601 original size:20 final size:20
Alignment explanation
Indices: 379547--379601 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
379537 GCAACGCGAA
*
379547 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAATGAGAT
379567 TCTGACTATCGCAATGAGAT
1 TCTGACTATCGCAATGAGAT
*
379587 TCTGACTATTGCAAT
1 TCTGACTATCGCAAT
379602 ATTGAATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (20 bp):
TCTGACTATCGCAATGAGAT
Found at i:380705 original size:15 final size:14
Alignment explanation
Indices: 380687--380722 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
380677 GAAAAAGAAG
380687 AAGAATAAATCCCCA
1 AAGAA-AAATCCCCA
*
380702 AAGAAAAGTCCCCA
1 AAGAAAAATCCCCA
380716 AAGAAAA
1 AAGAAAA
380723 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.11, T:0.08
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:381878 original size:20 final size:20
Alignment explanation
Indices: 381853--382031 Score: 179
Period size: 20 Copynumber: 9.6 Consensus size: 20
381843 GTAAAATTCC
*
381853 CATTGCGATAGTCATTTTCA
1 CATTGCGATAGTCATTTTCG
381873 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
381893 CGTTGCGAT--T--TTGTT-G
1 CATTGCGATAGTCATT-TTCG
*
381909 --TTGCGATTGTCA-TTTCG
1 CATTGCGATAGTCATTTTCG
*
381926 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
*
381942 --TTACGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
381960 CATTGTGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
381980 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
382000 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
382020 CATTGCGATAGT
1 CATTGCGATAGT
382032 AAACTATTCT
Statistics
Matches: 135, Mismatches: 10, Indels: 28
0.78 0.06 0.16
Matches are distributed among these distances:
14 13 0.10
16 12 0.09
17 6 0.04
18 5 0.04
19 7 0.05
20 92 0.68
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:383963 original size:20 final size:20
Alignment explanation
Indices: 383905--383974 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
383895 GAAACTTTAA
* **
383905 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
383925 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
383945 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
383965 ATCGCAACGC
1 ATCGCAACGC
383975 AAGAATCGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:384013 original size:33 final size:34
Alignment explanation
Indices: 383945--384017 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
383935 GAAAATGACT
* ** *
383945 ATCGCAACGCGAATTTGACTATCGCAACGCAAGA
1 ATCGCAACGCGAATATGAAAATCACAACGCAAGA
383979 ATCGCAACGCGAA-ATGAAAATCACAACG-ACAGA
1 ATCGCAACGCGAATATGAAAATCACAACGCA-AGA
384012 ATCGCA
1 ATCGCA
384018 TTGCGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.59
34 13 0.38
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGAATATGAAAATCACAACGCAAGA
Found at i:384182 original size:21 final size:21
Alignment explanation
Indices: 384156--384196 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
384146 CAGTATTGGC
384156 AGCAATCGAA-TGAATATAATA
1 AGCAATCGAAGTGAA-ATAATA
*
384177 AGCAATCTAAGTGAAATAAT
1 AGCAATCGAAGTGAAATAAT
384197 TAATCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (21 bp):
AGCAATCGAAGTGAAATAATA
Found at i:384378 original size:22 final size:22
Alignment explanation
Indices: 384344--384397 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
384334 TGACAGTGAA
*
384344 TGATTTCGCCGGAGATGGAGAC
1 TGATATCGCCGGAGATGGAGAC
*
384366 TGATATCGTCGGAGATGGAGAC
1 TGATATCGCCGGAGATGGAGAC
* *
384388 GGATGTCGCC
1 TGATATCGCC
384398 TTAGAGAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (22 bp):
TGATATCGCCGGAGATGGAGAC
Found at i:384606 original size:20 final size:20
Alignment explanation
Indices: 384583--384673 Score: 164
Period size: 20 Copynumber: 4.5 Consensus size: 20
384573 CGATAGTCAG
*
384583 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
384603 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
384623 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
384643 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
384663 ATTCGCATTGC
1 ATTCGCATTGC
384674 AAATTAGGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:384704 original size:21 final size:21
Alignment explanation
Indices: 384675--384717 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
384665 TCGCATTGCA
384675 AATTAGGAAAATCCCAACGCG
1 AATTAGGAAAATCCCAACGCG
* * *
384696 AATTTGGAAAATCGCAATGCG
1 AATTAGGAAAATCCCAACGCG
384717 A
1 A
384718 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (21 bp):
AATTAGGAAAATCCCAACGCG
Found at i:385943 original size:31 final size:31
Alignment explanation
Indices: 385900--385960 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
385890 TAAAACATGG
*
385900 TCATTTTTGTTTTTATTTAATTAAGATGTGA
1 TCATTTTCGTTTTTATTTAATTAAGATGTGA
385931 TCATTTTCGTTTTTATTTAATTAAGATGTG
1 TCATTTTCGTTTTTATTTAATTAAGATGTG
385961 GTTATAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.57
Consensus pattern (31 bp):
TCATTTTCGTTTTTATTTAATTAAGATGTGA
Found at i:387300 original size:32 final size:32
Alignment explanation
Indices: 387257--387333 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
387247 GTGAAATTGA
* *
387257 TTTTTTTAGTTCGGTTTAATTTGATAATTCAG
1 TTTTTTCAGTTCGGTTCAATTTGATAATTCAG
387289 TTTTTTCAGTTCGGTTCAATTTGATAATTCAG
1 TTTTTTCAGTTCGGTTCAATTTGATAATTCAG
*
387321 TTTTTTCGGTTCG
1 TTTTTTCAGTTCG
387334 ATTTTTCAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.18, C:0.10, G:0.17, T:0.55
Consensus pattern (32 bp):
TTTTTTCAGTTCGGTTCAATTTGATAATTCAG
Found at i:389230 original size:2 final size:2
Alignment explanation
Indices: 389223--389252 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
389213 CCAAAAACAA
389223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
389253 GCAATATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:392455 original size:37 final size:38
Alignment explanation
Indices: 392387--392465 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 38
392377 CTCATGCTCG
*
392387 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGT
1 GAAGACTTACTGATGGATTTGCTTCACTACTCTTCCGT
* * *
392425 GAAGACTTA-TGATGGATTTGTTTCATTACTCTTCTGT
1 GAAGACTTACTGATGGATTTGCTTCACTACTCTTCCGT
392462 GAAG
1 GAAG
392466 GCTTTAGAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 29 0.78
38 8 0.22
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (38 bp):
GAAGACTTACTGATGGATTTGCTTCACTACTCTTCCGT
Found at i:392529 original size:116 final size:114
Alignment explanation
Indices: 392321--392623 Score: 425
Period size: 116 Copynumber: 2.7 Consensus size: 114
392311 TATCAAATCT
* * *
392321 TGGATTTGCTTCACTAATCTT-TCGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCCTCATGCT
1 TGGATTTGATTCACTACTCTTCT-GTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCT
392385 CGGAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGACTTATGA
65 CGGAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGACTTA--A
* * * * * *
392437 TGGATTTGTTTCATTACTCTTCTGTGAAGGCTTTAGAAGGCCCGGAGGACTTAATCATCATGTTT
1 TGGATTTGATTCACTACTCTTCTGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTC
* * *
392502 GGAAGGCTTACTGATGGATTTGTTTCACTACTCTTCGGTGAAGGCTTAA
66 GGAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGACTTAA
* *
392551 --GA-TTAATTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTC
1 TGGATTTGATTCACTACTCTTCTGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTC
392613 GGAAGGCTTAC
66 GGAAGGCTTAC
392624 AAATGACCCG
Statistics
Matches: 167, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
111 63 0.38
112 2 0.01
114 1 0.01
116 100 0.60
117 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (114 bp):
TGGATTTGATTCACTACTCTTCTGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTC
GGAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGACTTAA
Found at i:392566 original size:32 final size:32
Alignment explanation
Indices: 392525--392585 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
392515 ATGGATTTGT
392525 TTCACTACTCTTCGGTGAAGGCTTAAGATTAA
1 TTCACTACTCTTCGGTGAAGGCTTAAGATTAA
392557 TTCACTACTCTTCGGTGAAGGCTTAAGAT
1 TTCACTACTCTTCGGTGAAGGCTTAAGAT
392586 GGCCCGGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (32 bp):
TTCACTACTCTTCGGTGAAGGCTTAAGATTAA
Found at i:392618 original size:41 final size:42
Alignment explanation
Indices: 392573--392677 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
392563 ACTCTTCGGT
* *
392573 GAAGGCTTA-AGATGGCCCGGAGGACTTAATCATCATGCTCG
1 GAAGGCTTACAGATGGCCCGAAGGACTTAAGCATCATGCTCG
* * ** *
392614 GAAGGCTTACAAATGACCCGAAGGGTTTAAGCCTCATGCTCG
1 GAAGGCTTACAGATGGCCCGAAGGACTTAAGCATCATGCTCG
*
392656 G-AGGACTTACTGATGGCCCGAA
1 GAAGG-CTTACAGATGGCCCGAA
392678 AGACATATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 12 0.23
42 40 0.77
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.21
Consensus pattern (42 bp):
GAAGGCTTACAGATGGCCCGAAGGACTTAAGCATCATGCTCG
Found at i:394940 original size:20 final size:21
Alignment explanation
Indices: 394917--394960 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
394907 TATTTTTCTC
*
394917 TTTTTCTCTTTT-TTTTATTT
1 TTTTTCTCTTTTCTTTCATTT
*
394937 TTTTTTTCTTTTCTTTCATTT
1 TTTTTCTCTTTTCTTTCATTT
394958 TTT
1 TTT
394961 GCTATATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTCTCTTTTCTTTCATTT
Found at i:395227 original size:2 final size:2
Alignment explanation
Indices: 395220--395247 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
395210 ACCACAAGGG
395220 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
395248 TTAAAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:397368 original size:12 final size:13
Alignment explanation
Indices: 397347--397378 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
397337 TGTTGAATAT
397347 ATGC-AATGCT-A
1 ATGCAAATGCTAA
397358 ATGCAAATGCTAA
1 ATGCAAATGCTAA
397371 ATGCAAAT
1 ATGCAAAT
397379 ACAAAAGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 4 0.21
12 6 0.32
13 9 0.47
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (13 bp):
ATGCAAATGCTAA
Found at i:404274 original size:37 final size:37
Alignment explanation
Indices: 404219--404345 Score: 193
Period size: 37 Copynumber: 3.4 Consensus size: 37
404209 GTCATTCTCG
404219 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCTGT
1 GAAGGCTTA-TGATGGATTTGCTTCACTACTCTTCTGT
404257 GAAGGCTTATGATGGATTTGCTTCACTACTCTTCTGT
1 GAAGGCTTATGATGGATTTGCTTCACTACTCTTCTGT
* * *
404294 GAAGGCTT-TAGATTGATTTGTTTCACTACTCTTCGGT
1 GAAGGCTTAT-GATGGATTTGCTTCACTACTCTTCTGT
*
404331 GAAGGCTTAAGATGG
1 GAAGGCTTATGATGG
404346 CCCGGAAGAC
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
36 1 0.01
37 72 0.88
38 9 0.11
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (37 bp):
GAAGGCTTATGATGGATTTGCTTCACTACTCTTCTGT
Found at i:406682 original size:16 final size:16
Alignment explanation
Indices: 406656--406754 Score: 114
Period size: 16 Copynumber: 6.1 Consensus size: 16
406646 GTTTGATCAG
406656 TTTTATTTCTTTTTTTC
1 TTTT-TTTCTTTTTTTC
*
406673 TTTTTTTCTTTCTTT-
1 TTTTTTTCTTTTTTTC
*
406688 TTCTTTTC-TTTTTTC
1 TTTTTTTCTTTTTTTC
406703 TTTCTTTTC-TTTTTTC
1 TTT-TTTTCTTTTTTTC
406719 TTTCTTTTCTTTTTTTC
1 TTT-TTTTCTTTTTTTC
406736 TTTTCTTTCATTTTTTTC
1 TTTT-TTTC-TTTTTTTC
406754 T
1 T
406755 ATATTTATTT
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
14 5 0.07
15 9 0.12
16 32 0.44
17 18 0.25
18 9 0.12
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTC
Found at i:406694 original size:5 final size:5
Alignment explanation
Indices: 406661--406743 Score: 73
Period size: 5 Copynumber: 16.4 Consensus size: 5
406651 ATCAGTTTTA
* * *
406661 TTTCT TTTTT TCTTTT TTTC- TTTCTT TTTCT TTTCT TTTTT CTTTCT
1 TTTCT TTTCT T-TTCT TTTCT TTTC-T TTTCT TTTCT TTTCT -TTTCT
*
406708 TTTCT TTTTT CTTTCT TTTC- TTT-T TTTCT TTTCT TT
1 TTTCT TTTCT -TTTCT TTTCT TTTCT TTTCT TTTCT TT
406744 CATTTTTTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
4 10 0.15
5 38 0.58
6 17 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTCT
Found at i:406716 original size:38 final size:39
Alignment explanation
Indices: 406661--406749 Score: 130
Period size: 38 Copynumber: 2.3 Consensus size: 39
406651 ATCAGTTTTA
406661 TTTCTTT-TTTTCTTTTTTTCTTTCTTTTTCTTTTCTT-T
1 TTTCTTTCTTTTCTTTTTTTCTTTC-TTTTCTTTTCTTCT
*
406699 TTTCTTTCTTTTC-TTTTTTCTTTCTTTTCTTTTTTTCT
1 TTTCTTTCTTTTCTTTTTTTCTTTCTTTTCTTTTCTTCT
406737 TTTCTTTCATTTT
1 TTTCTTTC-TTTT
406750 TTTCTATATT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
37 11 0.23
38 27 0.57
39 9 0.19
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (39 bp):
TTTCTTTCTTTTCTTTTTTTCTTTCTTTTCTTTTCTTCT
Found at i:413350 original size:2 final size:2
Alignment explanation
Indices: 413339--413368 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
413329 GACTACACAT
413339 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
413369 GCAATATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:417469 original size:21 final size:22
Alignment explanation
Indices: 417443--417488 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
417433 TCAATAAAAA
417443 TTTACCTAAAACATT-ATTTGT
1 TTTACCTAAAACATTAATTTGT
* *
417464 TTTACCTAAAATATTAATTTTT
1 TTTACCTAAAACATTAATTTGT
417486 TTT
1 TTT
417489 TTAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTACCTAAAACATTAATTTGT
Found at i:418400 original size:19 final size:19
Alignment explanation
Indices: 418376--418413 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
418366 TTGATTTTGA
*
418376 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGAGAGTT
418395 AAAATGTGTTGCGAGAGTT
1 AAAATGTGTTGCGAGAGTT
418414 TGAAAAACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (19 bp):
AAAATGTGTTGCGAGAGTT
Found at i:418457 original size:19 final size:20
Alignment explanation
Indices: 418373--418461 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 20
418363 ATTTTGATTT
*
418373 TGAAAAATGTGTTGCGATAG
1 TGAAAAACGTGTTGCGATAG
* * *
418393 T-TAAAATGTGTTGCGAGAG
1 TGAAAAACGTGTTGCGATAG
**
418412 TTTGAAAAACGTGTTATTGTTATAG
1 --TGAAAAACGTG---TTGCGATAG
418437 TGAAAAA-GTGTTGCGATAG
1 TGAAAAACGTGTTGCGATAG
418456 TGAAAA
1 TGAAAA
418462 TCCAAAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
19 29 0.54
20 1 0.02
21 1 0.02
22 10 0.19
23 7 0.13
25 6 0.11
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (20 bp):
TGAAAAACGTGTTGCGATAG
Found at i:418848 original size:21 final size:21
Alignment explanation
Indices: 418824--418892 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
418814 GAAAATCACA
418824 TTGCGATTTTGTACTATCGCG
1 TTGCGATTTTGTACTATCGCG
* **
418845 TTGCGA--TAGTCAGAATCGCG
1 TTGCGATTTTGT-ACTATCGCG
* *
418865 TTGCGATTGTGTATTATCGCG
1 TTGCGATTTTGTACTATCGCG
418886 TTGCGAT
1 TTGCGAT
418893 AGTCAGAATC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 3 0.08
20 13 0.34
21 20 0.53
22 2 0.05
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (21 bp):
TTGCGATTTTGTACTATCGCG
Found at i:418864 original size:20 final size:20
Alignment explanation
Indices: 418839--418907 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
418829 ATTTTGTACT
418839 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* * **
418859 ATCGCGTTGCGATTGTGTATT
1 ATCGCGTTGCGATAGT-CAGA
418880 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
418900 ATCGCGTT
1 ATCGCGTT
418908 ATGATTCTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:418883 original size:41 final size:41
Alignment explanation
Indices: 418824--418907 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
418814 GAAAATCACA
*
418824 TTGCGATTTTGTACTATCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTGTGTACTATCGCGTTGCGATAGTCAGAATCGCG
*
418865 TTGCGATTGTGTATTATCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTGTGTACTATCGCGTTGCGATAGTCAGAATCGCG
418906 TT
1 TT
418908 ATGATTCTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (41 bp):
TTGCGATTGTGTACTATCGCGTTGCGATAGTCAGAATCGCG
Found at i:420204 original size:23 final size:23
Alignment explanation
Indices: 420178--420247 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
420168 AAGGGTACTG
420178 ATGCAATTGATGTAAGTTTATTT
1 ATGCAATTGATGTAAGTTTATTT
** * *
420201 ATGC-A-TGA--TAAGGGTACTA
1 ATGCAATTGATGTAAGTTTATTT
*
420220 ATGCAGTTGATGTAAGTTTATTT
1 ATGCAATTGATGTAAGTTTATTT
420243 ATGCA
1 ATGCA
420248 TGATTAAGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 11 0.32
21 6 0.18
22 1 0.03
23 16 0.47
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (23 bp):
ATGCAATTGATGTAAGTTTATTT
Found at i:420212 original size:42 final size:42
Alignment explanation
Indices: 420165--420251 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
420155 TGATCTGATG
*
420165 GATAAGGGTACTGATGCAATTGATGTAAGTTTATTTATGCAT
1 GATAAGGGTACTAATGCAATTGATGTAAGTTTATTTATGCAT
*
420207 GATAAGGGTACTAATGCAGTTGATGTAAGTTTATTTATGCAT
1 GATAAGGGTACTAATGCAATTGATGTAAGTTTATTTATGCAT
420249 GAT
1 GAT
420252 TAAGAATCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (42 bp):
GATAAGGGTACTAATGCAATTGATGTAAGTTTATTTATGCAT
Found at i:420740 original size:108 final size:108
Alignment explanation
Indices: 420551--420766 Score: 378
Period size: 108 Copynumber: 2.0 Consensus size: 108
420541 ATTACTACTC
*
420551 CCATTCGTTCATGTTTTGTTTTTGGTGAATTCAGTGCTACTTTTTCTTCTATTGTATTAACATAG
1 CCATTCGTTCATGTCTTGTTTTTGGTGAATTCAGTGCTACTTTTTCTTCTATTGTATTAACATAG
*
420616 ATGTATTGGTTAATGTCTTAGCATTTGGAAAGTGTAGTCAAGT
66 ATGTATTGGTTAATGTCTTAGCATTTGGAAAGTGTAATCAAGT
* * *
420659 CCATTCGTTCATGTCTTGTTTTTGGTGATTTCAGTGCTACTTTTTCTTCTATTTTATTATCATAG
1 CCATTCGTTCATGTCTTGTTTTTGGTGAATTCAGTGCTACTTTTTCTTCTATTGTATTAACATAG
*
420724 ATGTATTGGTTAATGTCTTAGTATTTGGAAAGTGTAATCAAGT
66 ATGTATTGGTTAATGTCTTAGCATTTGGAAAGTGTAATCAAGT
420767 ACAGAATCCC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (108 bp):
CCATTCGTTCATGTCTTGTTTTTGGTGAATTCAGTGCTACTTTTTCTTCTATTGTATTAACATAG
ATGTATTGGTTAATGTCTTAGCATTTGGAAAGTGTAATCAAGT
Found at i:426940 original size:20 final size:20
Alignment explanation
Indices: 426915--426961 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
426905 TTGATTCGTT
426915 GGTTTTTGTTTTTTGTTTAA
1 GGTTTTTGTTTTTTGTTTAA
426935 GGTTTTTGTTTTTTGTTTAA
1 GGTTTTTGTTTTTTGTTTAA
426955 -GTTTTTG
1 GGTTTTTG
426962 AGCTTCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.09, C:0.00, G:0.21, T:0.70
Consensus pattern (20 bp):
GGTTTTTGTTTTTTGTTTAA
Found at i:427418 original size:70 final size:71
Alignment explanation
Indices: 427280--427418 Score: 176
Period size: 70 Copynumber: 2.0 Consensus size: 71
427270 AATGTTGTCG
* *
427280 ATTGAACTTCAATTTTCATTAGGCAATATTCCAAAGAGTATCTCTAACGTTTGATTAAATAATTA
1 ATTGAACTTCAATTTTCATTAGGCAATATTCCAAAGAATACCTCTAACGTTTGATTAAATAATTA
427345 TTTTTT
66 TTTTTT
* * ** *
427351 ATTGAACTTTAATTTTCTTTAGG-AATTATGT-CAAA-AATACCTCTAGTGTTTTATTAAATAAT
1 ATTGAACTTCAATTTTCATTAGGCAA-TAT-TCCAAAGAATACCTCTAACGTTTGATTAAATAAT
427413 TATTTT
64 TATTTT
427419 GATATATATC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
70 30 0.51
71 28 0.47
72 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (71 bp):
ATTGAACTTCAATTTTCATTAGGCAATATTCCAAAGAATACCTCTAACGTTTGATTAAATAATTA
TTTTTT
Found at i:442685 original size:14 final size:14
Alignment explanation
Indices: 442666--442692 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
442656 CCTAAAAACA
442666 TAATATAAATAACT
1 TAATATAAATAACT
442680 TAATATAAATAAC
1 TAATATAAATAAC
442693 AATTATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATATAAATAACT
Found at i:444818 original size:21 final size:23
Alignment explanation
Indices: 444793--444838 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
444783 AATTTGAAAT
444793 AATATTT-AATAAAA-ATATTTA
1 AATATTTAAATAAAACATATTTA
*
444814 AATATTTAAATAAAACATTTTTA
1 AATATTTAAATAAAACATATTTA
444837 AA
1 AA
444839 AATAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATTTAAATAAAACATATTTA
Found at i:447596 original size:31 final size:31
Alignment explanation
Indices: 447558--447617 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
447548 ATTACGTCAG
* *
447558 GGACCATATTGCAAACGGACTAAATGTTGAT
1 GGACCATATCGCAAACAGACTAAATGTTGAT
447589 GGACCATATCGCAAACAGACTAAATGTTG
1 GGACCATATCGCAAACAGACTAAATGTTG
447618 GGAGATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (31 bp):
GGACCATATCGCAAACAGACTAAATGTTGAT
Found at i:451715 original size:22 final size:22
Alignment explanation
Indices: 451666--451716 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
451656 ATCATATAAA
*
451666 ATTTTATTTTAAAAATAATTAT
1 ATTTTATTTTAAAAATAATGAT
* *
451688 AATTTATTTTAAAAA-ACTCGAT
1 ATTTTATTTTAAAAATAAT-GAT
451710 ATTTTAT
1 ATTTTAT
451717 GAAATTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTATTTTAAAAATAATGAT
Found at i:452170 original size:26 final size:26
Alignment explanation
Indices: 452120--452181 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
452110 AAATTTTGGA
*
452120 TTTTTTAAAAAATATATAATTTTAAG
1 TTTTTTAAAAAATATATAATATTAAG
452146 TTTTTTAATATAAATA-A-AATATTAAG
1 TTTTTTAA-A-AAATATATAATATTAAG
*
452172 ATTTTATAAA
1 -TTTTTTAAA
452182 TGTGACATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 17 0.55
27 9 0.29
28 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (26 bp):
TTTTTTAAAAAATATATAATATTAAG
Found at i:453264 original size:20 final size:18
Alignment explanation
Indices: 453231--453285 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
453221 AAACTACAAG
*
453231 GAAAGTTTCAAAACTCTTAT
1 GAAAGTTTCGAAACT-TT-T
*
453251 GAAAGTTTTGAAACTTTT
1 GAAAGTTTCGAAACTTTT
*
453269 GTAAAGTTTGGAAACTT
1 G-AAAGTTTCGAAACTT
453286 ATGGTCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.06
19 16 0.52
20 13 0.42
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (18 bp):
GAAAGTTTCGAAACTTTT
Found at i:453460 original size:2 final size:2
Alignment explanation
Indices: 453453--453506 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
453443 ACAAAAATCA
453453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
453495 AT AT AT AT AT AT
1 AT AT AT AT AT AT
453507 TATGTCATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:454124 original size:21 final size:21
Alignment explanation
Indices: 454098--454144 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
454088 ATCTTTATGA
*
454098 TTTGGATGTTAGTTTTCATAC
1 TTTGGATGTCAGTTTTCATAC
454119 TTTGGATGTCAGTTTTCATAC
1 TTTGGATGTCAGTTTTCATAC
454140 TTTGG
1 TTTGG
454145 TTGTGGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.11, G:0.21, T:0.51
Consensus pattern (21 bp):
TTTGGATGTCAGTTTTCATAC
Found at i:463545 original size:3 final size:3
Alignment explanation
Indices: 463539--463603 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
463529 TTTATATATA
** *
463539 TAT TAT TAT TAT CGT TAT TTT TAT TAT TAT TATT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
*
463584 TAT TCAT TAT CAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT T
463604 TACATATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:463562 original size:15 final size:15
Alignment explanation
Indices: 463527--463605 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
463517 TGTCCGTTTT
463527 TTTTTA-TAT-ATATA
1 TTTTTATTATCAT-TA
* *
463541 TTATTATTATCGTTA
1 TTTTTATTATCATTA
*
463556 TTTTTATTATTATTA
1 TTTTTATTATCATTA
*
463571 --TTTATTATTATTA
1 TTTTTATTATCATTA
* *
463584 TATTCATTATCATTA
1 TTTTTATTATCATTA
463599 TTATTTA
1 TT-TTTA
463606 CATATTTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
13 13 0.25
14 5 0.10
15 29 0.57
16 4 0.08
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (15 bp):
TTTTTATTATCATTA
Found at i:463576 original size:31 final size:30
Alignment explanation
Indices: 463521--463584 Score: 83
Period size: 34 Copynumber: 2.0 Consensus size: 30
463511 CGTTTTTGTC
463521 CGTTTTTTTTTATATATATATTATTATTAT
1 CGTTTTTTTTTATATATATATTATTATTAT
*
463551 CGTTATTTTTATTATTATTATTTATTATTATTAT
1 CGTT-TTTTT-TTA-TA-TATATATTATTATTAT
463585 ATTCATTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 4 0.14
31 5 0.17
32 3 0.10
33 2 0.07
34 15 0.52
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (30 bp):
CGTTTTTTTTTATATATATATTATTATTAT
Found at i:471887 original size:105 final size:105
Alignment explanation
Indices: 471697--471933 Score: 299
Period size: 105 Copynumber: 2.3 Consensus size: 105
471687 TGAGAATTTT
* *
471697 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTCCTTTGAGATACAAATTTTGAATTTGATTC
1 AAAACAAATTTCGTCTCGCTTGAGACACTTTTCCTCCTTTGAGATACAAATTTTGAATTTGATTC
*
471762 ACTTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 ACTTAAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* *
471805 AAAACAAATTTCGTCTCGCTTGAGAC-CTTTT-C-CCTTTGAGATCCAAATTTTGAATTTGTTTC
1 AAAACAAATTTCGTCTCGCTTGAGACACTTTTCCTCCTTTGAGATACAAATTTTGAATTTGATTC
* *
471867 ACATT-AAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 AC-TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
471907 AAAACAAACTTT-GTCTCGCTTGAGACA
1 AAAACAAA-TTTCGTCTCGCTTGAGACA
471934 ATTTCTCTAA
Statistics
Matches: 117, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
101 2 0.02
102 22 0.19
103 7 0.06
104 4 0.03
105 50 0.43
106 3 0.03
107 4 0.03
108 25 0.21
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (105 bp):
AAAACAAATTTCGTCTCGCTTGAGACACTTTTCCTCCTTTGAGATACAAATTTTGAATTTGATTC
ACTTAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:471929 original size:36 final size:36
Alignment explanation
Indices: 471884--471960 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
471874 ACAAAGTTGA
**
471884 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
471920 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
471956 TCTCA
1 TCTCA
471961 TTTGTACTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 7 0.20
36 28 0.80
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:472366 original size:28 final size:27
Alignment explanation
Indices: 472284--472370 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
472274 TTTGAACAAA
* *
472284 AAAAAAATCTTGGAGTTTGTTCCTTTTG
1 AAAAAAATCTTTGAG-TTGTTTCTTTTG
472312 AATAAAAATCTTTGAGTTGTTTCTTTTG
1 AA-AAAAATCTTTGAGTTGTTTCTTTTG
* *
472340 AAAAAAATCTTTGAGTCTATTTATTTTG
1 AAAAAAATCTTTGAGT-TGTTTCTTTTG
472368 AAA
1 AAA
472371 CAAAGTTTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
27 14 0.26
28 27 0.51
29 12 0.23
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (27 bp):
AAAAAAATCTTTGAGTTGTTTCTTTTG
Found at i:472457 original size:50 final size:52
Alignment explanation
Indices: 472366--472467 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
472356 CTATTTATTT
* *
472366 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAGTC
1 TGAAACAAAGTTTTG-CTCTATTGAGACAATTTCGCGAAAAAATCTTTGAGTC
*
472418 TGAAACAAAGTTTTG-TCTATTGAGACAATTTTGCGAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGCTCTATTGAGACAATTTCGCG-AAAAAATCTTTGAG
472468 ATTGTTTCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 17 0.38
52 28 0.62
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (52 bp):
TGAAACAAAGTTTTGCTCTATTGAGACAATTTCGCGAAAAAATCTTTGAGTC
Found at i:472491 original size:30 final size:30
Alignment explanation
Indices: 472455--472585 Score: 88
Period size: 30 Copynumber: 4.1 Consensus size: 30
472445 ATTTTGCGAA
*
472455 AAAAATCTTTGAGAT-TGTTTCATTT-GATAC
1 AAAAATCTTTGAG-TCTGTTTC-TTTGGAAAC
472485 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
* ** * *
472515 AAAATGTTGTTTCTCTT-AGGATAATTTCTTTTGAAAC
1 AAAA------ATCT-TTGAGTCT-GTTTCTTTGGAAAC
*
472552 AAAAATCTGTGAGTCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
472582 AAAA
1 AAAA
472586 TTTTGTCTCT
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
29 4 0.05
30 44 0.56
31 6 0.08
36 6 0.08
37 18 0.23
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (30 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
Done.