Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 25 of 109
Found at i:4262218 original size:11 final size:11
Alignment explanation
Indices: 4262204--4262271 Score: 64
Period size: 11 Copynumber: 5.6 Consensus size: 11
4262194 TTTCATTCAC
4262204 TTTTTTCTTTT
1 TTTTTTCTTTT
*
4262215 TTTTTTCCTTT
1 TTTTTTCTTTT
4262226 TTTTTTCATTTT
1 TTTTTTC-TTTT
*
4262238 CATTTTTCATTTAAT
1 -TTTTTTC-TTT--T
4262253 TTTTTTCTCTTT
1 TTTTTTCT-TTT
4262265 TTTTTTC
1 TTTTTTC
4262272 AAGCATAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
11 17 0.35
12 11 0.23
13 11 0.23
14 8 0.17
15 1 0.02
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:4262256 original size:13 final size:12
Alignment explanation
Indices: 4262191--4262257 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 12
4262181 TTGAGTTCTC
*
4262191 TTTTTTCATTCA
1 TTTTTTCATTTA
*
4262203 CTTTTTTC-TTTT
1 -TTTTTTCATTTA
*
4262215 TTTTTTCCTTT-
1 TTTTTTCATTTA
4262226 TTTTTTCATTT-
1 TTTTTTCATTTA
4262237 TCATTTTTCATTTAA
1 T--TTTTTCATTT-A
4262252 TTTTTT
1 TTTTTT
4262258 TCTCTTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
11 18 0.39
12 5 0.11
13 22 0.48
15 1 0.02
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTCATTTA
Found at i:4262303 original size:19 final size:17
Alignment explanation
Indices: 4262265--4262303 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4262255 TTTTCTCTTT
*
4262265 TTTTTTCAAGCATAGTA
1 TTTTTTCAAGCATAGAA
4262282 TTTTTTCACAGCATCAGAA
1 TTTTTTCA-AGCAT-AGAA
4262301 TTT
1 TTT
4262304 ATAGAAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (17 bp):
TTTTTTCAAGCATAGAA
Found at i:4272925 original size:59 final size:58
Alignment explanation
Indices: 4272690--4273037 Score: 328
Period size: 59 Copynumber: 5.8 Consensus size: 58
4272680 TGCTTTTGTA
* *
4272690 CAAGG-AAATTGATACTTTCAACTTTTTCC-TAAAAA-ATTTTTTAG-AAACTCTAATTT
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTTAAAAATATTTTTTTGAAAACT-TATTTT
* * * * *
4272746 CGAGGAAAATTGATAGTTTCAACTTTTCCTCAAAAAATCTTTTTTTTAAAACTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCT-TAAAAATATTTTTTTGAAAAC-TTATTTT
* * *
4272806 TAAGGAAAATTGATACTTTTCAACTTTTCCTCAAAAAAACCCCTTTTTTTTTTTTGAAAACTTAT
1 CAAGGAAAATTGATAC-TTTCAACTTTTCCT--TAAAAA-------TATTTTTTTGAAAACTTAT
4272871 TTT
56 TTT
* *
4272874 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTG-AAAACTTATTTT
* ** * * *
4272933 TAAGGAAAATAAATACTTTCAATTTTTCCTTAAAAACCT-TTTTTTTGAAGACTTATTCT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAA--TATTTTTTTGAAAACTTATTTT
*
4272992 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTATTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATT-TTTTT
4273038 TTTGGAAGTT
Statistics
Matches: 242, Mismatches: 30, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
56 10 0.04
57 17 0.07
58 15 0.06
59 95 0.39
60 29 0.12
61 16 0.07
62 6 0.02
65 5 0.02
67 14 0.06
68 22 0.09
69 13 0.05
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTGAAAACTTATTTT
Found at i:4273003 original size:186 final size:183
Alignment explanation
Indices: 4272690--4273027 Score: 459
Period size: 186 Copynumber: 1.8 Consensus size: 183
4272680 TGCTTTTGTA
*
4272690 CAAGGAAATTGATACTTTCAACTTTTTCCTAAAAAATTTTTTAGAAACTCTAATTTCGAGGAAAA
1 CAAGGAAATTGATACTTTCAACTTTTTCCTAAAAAATTTTTTAGAAACTCTAATTTCAAGGAAAA
** * * * * *
4272755 TTGATAGTTTCAACTTTTCCTCAAAAAATCTTTTTTTTAAAACTTTATTTTTAAGGAAAATTGAT
66 TAAATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTAAAACTTTATTCTCAAGAAAAATTGAT
4272820 ACTTTTCAACTTTTCCTCAAAAAAACCCCTTTTTTTTTTTTGAAAACTTATTTT
131 AC-TTTCAACTTTTCCTCAAAAAAACCCCTTTTTTTTTTTTGAAAACTTATTTT
* *
4272874 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAAACT-TATTTTTAAG
1 CAAGG-AAATTGATACTTTCAACTTTTTCCT-AAAAA-ATTTTTTAG--AAACTCTAATTTCAAG
* * *
4272937 GAAAATAAATACTTTCAATTTTTCCT-TAAAAACCTTTTTTTTGAAGAC-TTATTCTCAAGAAAA
61 GAAAATAAATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTT-AAAACTTTATTCTCAAGAAAA
*
4273000 ATTGATACTTTCAACTTTTCCTTAAAAA
125 ATTGATACTTTCAACTTTTCCTCAAAAA
4273028 TATTATTTTT
Statistics
Matches: 134, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
184 12 0.09
185 41 0.31
186 43 0.32
187 33 0.25
188 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.42
Consensus pattern (183 bp):
CAAGGAAATTGATACTTTCAACTTTTTCCTAAAAAATTTTTTAGAAACTCTAATTTCAAGGAAAA
TAAATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTAAAACTTTATTCTCAAGAAAAATTGAT
ACTTTCAACTTTTCCTCAAAAAAACCCCTTTTTTTTTTTTGAAAACTTATTTT
Found at i:4273083 original size:5 final size:5
Alignment explanation
Indices: 4273057--4273118 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
4273047 TTATTTAAAG
*
4273057 AAAAT AAAA- AAAAT AAATAT AAAAT AACAAT AAAGAT AAAAAT AGAAT
1 AAAAT AAAAT AAAAT AAA-AT AAAAT AA-AAT AAA-AT -AAAAT AAAAT
4273105 AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAA
4273119 AATACTAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 4 0.08
5 29 0.58
6 14 0.28
7 3 0.06
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4273090 original size:17 final size:14
Alignment explanation
Indices: 4273057--4273118 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 14
4273047 TTATTTAAAG
4273057 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
4273071 AAATATAAAATAACAAT
1 AAA-ATAAAA-AA-AAT
4273088 AAAGATAAAAATAGAAT
1 AAA-ATAAAAA-A-AAT
4273105 AAAATAAAATAAAA
1 AAAATAAAA-AAAA
4273119 AATACTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 3 0.07
15 8 0.20
16 10 0.24
17 20 0.49
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:4273120 original size:23 final size:24
Alignment explanation
Indices: 4273057--4273127 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 24
4273047 TTATTTAAAG
*
4273057 AAAATAAAAAAAATAAATATAAAAT
1 AAAATAAAATAAA-AAATATAAAAT
*
4273082 AACAATAAAGAT--AAAA-ATAGAAT
1 AA-AATAAA-ATAAAAAATATAAAAT
4273105 AAAATAAAATAAAAAATACTAAA
1 AAAATAAAATAAAAAATA-TAAA
4273128 TAATTCTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
21 2 0.05
22 6 0.16
23 12 0.32
24 4 0.11
25 6 0.16
26 6 0.16
27 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (24 bp):
AAAATAAAATAAAAAATATAAAAT
Found at i:4273162 original size:13 final size:14
Alignment explanation
Indices: 4273139--4273168 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4273129 AATTCTAATC
4273139 TAATCAATAAATAA
1 TAATCAATAAATAA
4273153 TAAT-AATAAATAA
1 TAATCAATAAATAA
4273166 TAA
1 TAA
4273169 ATAAAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATCAATAAATAA
Found at i:4273164 original size:7 final size:7
Alignment explanation
Indices: 4273144--4273172 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4273134 TAATCTAATC
4273144 AATAAAT
1 AATAAAT
4273151 AAT-AAT
1 AATAAAT
4273157 AATAAAT
1 AATAAAT
4273164 AATAAAT
1 AATAAAT
4273171 AA
1 AA
4273173 AATGAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:4273830 original size:40 final size:39
Alignment explanation
Indices: 4273771--4274009 Score: 148
Period size: 42 Copynumber: 5.8 Consensus size: 39
4273761 ATCAAATCAA
* *
4273771 ATAA-AAAAATGTTAATAGATAATTAA-AAGAAATAATTAG
1 ATAATAAAAATATTAATAGATAAATAATAA-AAATAA-TAG
*
4273810 ATAATAAAAATATTAATAGATAAATAATAATAATAATAG
1 ATAATAAAAATATTAATAGATAAATAATAAAAATAATAG
* *
4273849 ATAAATAATAATATATAAATAGATAAATAATAATAAATACATAT
1 AT-AATAA-AA-ATATTAATAGATAAATAATAA-AAATA-ATAG
* * * * *
4273893 ATATATTAACAGATAAATA-A-CAATATATAAATAGATAAATA-
1 ATA-ATAAAAATATTAATAGATAAATA-ATAAA-A-AT-AATAG
*
4273934 ATAATAAATATATATTAATAGATAAATAATAAAAAATAA-AA
1 ATAATAAA-A-ATATTAATAGATAAATAAT-AAAAATAATAG
* *
4273975 AAAATAAATATATATTAATAAATAGTAATAATAAA
1 ATAATAAA-A-ATATTAATAGATA--AATAATAAA
4274010 TACATAAGAT
Statistics
Matches: 163, Mismatches: 17, Indels: 37
0.75 0.08 0.17
Matches are distributed among these distances:
39 9 0.06
40 40 0.25
41 37 0.23
42 45 0.28
43 17 0.10
44 15 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (39 bp):
ATAATAAAAATATTAATAGATAAATAATAAAAATAATAG
Found at i:4273840 original size:14 final size:14
Alignment explanation
Indices: 4273783--4273965 Score: 82
Period size: 14 Copynumber: 13.2 Consensus size: 14
4273773 AAAAAAATGT
*
4273783 TAATAGATAATTAA
1 TAATAGATAAATAA
* * *
4273797 -AAGAAATAATTAGA
1 TAATAGATAAATA-A
*
4273811 TAATA-A-AAATAT
1 TAATAGATAAATAA
4273823 TAATAGATAAATAA
1 TAATAGATAAATAA
4273837 TAATA-AT-AATAGA
1 TAATAGATAAATA-A
4273850 TAAATA-AT-AATATA
1 T-AATAGATAAATA-A
4273864 TAAATAGATAAATAA
1 T-AATAGATAAATAA
* *
4273879 TAATAAATACAT-A
1 TAATAGATAAATAA
* * *
4273892 T-ATATATTAACAGA
1 TAATAGATAAATA-A
*
4273906 TAAATA-A-CAATATA
1 T-AATAGATAAATA-A
4273920 TAAATAGATAAATAA
1 T-AATAGATAAATAA
* * *
4273935 TAATAAATATATAT
1 TAATAGATAAATAA
4273949 TAATAGATAAATAA
1 TAATAGATAAATAA
4273963 TAA
1 TAA
4273966 AAAATAAAAA
Statistics
Matches: 132, Mismatches: 23, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
12 15 0.11
13 21 0.16
14 74 0.56
15 11 0.08
16 11 0.08
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (14 bp):
TAATAGATAAATAA
Found at i:4273853 original size:20 final size:20
Alignment explanation
Indices: 4273783--4273940 Score: 134
Period size: 20 Copynumber: 8.0 Consensus size: 20
4273773 AAAAAAATGT
* *
4273783 TAATAGATAATTAA-AAGAAA
1 TAATAGATAAATAATAA-TAA
* *
4273803 TAATTAGAT-AATAAAAATAT
1 TAA-TAGATAAATAATAATAA
4273823 TAATAGATAAATAATAATAA
1 TAATAGATAAATAATAATAA
4273843 TAATAGATAAATAATAATATA
1 TAATAGATAAATAATAATA-A
4273864 TAAATAGATAAATAATAAT-A
1 T-AATAGATAAATAATAATAA
* *
4273884 -AATACAT--AT-AT-ATAT
1 TAATAGATAAATAATAATAA
* *
4273899 TAACAGATAAATAACAATATA
1 TAATAGATAAATAATAATA-A
4273920 TAAATAGATAAATAATAATAA
1 T-AATAGATAAATAATAATAA
4273941 ATATATATTA
Statistics
Matches: 112, Mismatches: 13, Indels: 25
0.75 0.09 0.17
Matches are distributed among these distances:
14 2 0.02
15 2 0.02
16 7 0.06
18 8 0.07
19 6 0.05
20 43 0.38
21 11 0.10
22 33 0.29
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
TAATAGATAAATAATAATAA
Found at i:4273907 original size:56 final size:57
Alignment explanation
Indices: 4273771--4274016 Score: 72
Period size: 56 Copynumber: 4.4 Consensus size: 57
4273761 ATCAAATCAA
* * * * * * *
4273771 ATAAA-AAAATGTTAATAGATAATTAA-AAGAAATAATTAGATAATAAAAATATTAATAG
1 ATAAATAAAATATAAATAGATAA-TAATAATAAATAA--ATATAATAGATATAATAATAG
* * *
4273829 ATAAATAATAATA-ATAATAGATAAATAATAATATATAAATA-GATA-A-ATAATAATAA
1 ATAAATAA-AATATA-AATAGAT-AATAATAATAAATAAATATAATAGATATAATAATAG
* * * * * *
4273885 ATACATATATATATTAACAGAT-A-AATAA-CAATATATA-AATAGATA-AATAATA-
1 ATAAATA-AAATATAAATAGATAATAATAATAAATAAATATAATAGATATAATAATAG
* * * * * * *
4273937 ATAAAT-ATATATTAATAGATAAATAATAAAAAATAAAAAAAATAAATAT-ATATTA-
1 ATAAATAAAATATAAATAGAT-AATAATAATAAATAAATATAATAGATATAATAATAG
* *
4273992 ATAAATAGTAATAATAAATACATAA
1 ATAAATA-AAAT-ATAAATAGATAA
4274017 GATACAAAAA
Statistics
Matches: 143, Mismatches: 27, Indels: 37
0.69 0.13 0.18
Matches are distributed among these distances:
50 13 0.09
52 15 0.10
53 18 0.13
54 8 0.06
55 18 0.13
56 23 0.16
57 6 0.04
58 16 0.11
59 4 0.03
60 13 0.09
61 9 0.06
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (57 bp):
ATAAATAAAATATAAATAGATAATAATAATAAATAAATATAATAGATATAATAATAG
Found at i:4273972 original size:14 final size:14
Alignment explanation
Indices: 4273810--4274058 Score: 71
Period size: 14 Copynumber: 17.0 Consensus size: 14
4273800 AAATAATTAG
*
4273810 ATAATAAAAATATTA
1 ATAATAAAAA-ATAA
*
4273825 ATAGATAAATAAT-A
1 ATA-ATAAAAAATAA
* *
4273839 ATAATAATAGATAA
1 ATAATAAAAAATAA
* *
4273853 ATAATAATATATAA
1 ATAATAAAAAATAA
4273867 ATAGATAAATAATAATAA
1 ATA-AT-AA-AA-AATAA
* * *
4273885 ATACATATATATATTA
1 ATA-ATA-AAAAATAA
* * *
4273901 ACAGATAAATAA-CA
1 ATA-ATAAAAAATAA
*
4273915 ATATATAAATAGATAA
1 ATA-ATAAA-AAATAA
* *
4273931 ATAATAATAAATAT
1 ATAATAAAAAATAA
* * *
4273945 ATATTAATAGATAA
1 ATAATAAAAAATAA
4273959 ATAATAAAAAATAA
1 ATAATAAAAAATAA
*
4273973 A-AA-AAATAAATAT
1 ATAATAAA-AAATAA
* *
4273986 ATATTAATAAATAGTA
1 ATAATAAAAAATA--A
*
4274002 ATAATAAATACATAA
1 ATAATAAA-AAATAA
*
4274017 GATACA-AAAATATAA
1 -ATA-ATAAAAAATAA
*
4274032 A-AATATAAAATACA
1 ATAATAAAAAATA-A
4274046 A-AATAAAAAATAA
1 ATAATAAAAAATAA
4274059 CATGGGCCCA
Statistics
Matches: 173, Mismatches: 42, Indels: 40
0.68 0.16 0.16
Matches are distributed among these distances:
12 4 0.02
13 22 0.13
14 75 0.43
15 22 0.13
16 32 0.18
17 8 0.05
18 10 0.06
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (14 bp):
ATAATAAAAAATAA
Found at i:4274026 original size:51 final size:51
Alignment explanation
Indices: 4273927--4274026 Score: 114
Period size: 51 Copynumber: 2.0 Consensus size: 51
4273917 ATATAAATAG
* * *
4273927 ATAAATAATAATAAATATATATTAATAGATAAATAATAAAAAATAAAAAAA
1 ATAAATAATAATAAATAAATAGTAATAGATAAATAATAAAAAACAAAAAAA
* * *
4273978 ATAAAT-ATATATTAATAAATAGTAATA-ATAAATACATAAGATACAAAAA
1 ATAAATAATA-ATAAATAAATAGTAATAGATAAATA-ATAAAAAACAAAAA
4274027 TATAAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
50 10 0.24
51 31 0.76
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (51 bp):
ATAAATAATAATAAATAAATAGTAATAGATAAATAATAAAAAACAAAAAAA
Found at i:4274201 original size:20 final size:20
Alignment explanation
Indices: 4274176--4274221 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
4274166 CAGTCATCAA
*
4274176 TTTCATTCCAAAACTTTGCT
1 TTTCATTCCAAAACTTTGCC
4274196 TTTCATTCCAAAACTTTGCC
1 TTTCATTCCAAAACTTTGCC
4274216 TTTCAT
1 TTTCAT
4274222 ACCCGTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (20 bp):
TTTCATTCCAAAACTTTGCC
Found at i:4275465 original size:2 final size:2
Alignment explanation
Indices: 4275458--4275483 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4275448 CAATTCTACA
4275458 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
4275484 GCTCTTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4277745 original size:2 final size:2
Alignment explanation
Indices: 4277738--4277799 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
4277728 TCATCTTAAC
*
4277738 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4277780 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
4277800 AGGCAAACAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4280083 original size:123 final size:122
Alignment explanation
Indices: 4279799--4280072 Score: 439
Period size: 122 Copynumber: 2.3 Consensus size: 122
4279789 TTGTACAAGA
* *
4279799 AAAATTGATA-TTTTCAACTTTTCCTCAAAAAAAC-CTTTTTTTTTTTAAAACTTATTTTTAAGA
1 AAAATTGATACTTTTCAACTTTTCCT-AAAAAAACTCTTTTTTTTTTTAAAACTTATTCTCAAGA
4279862 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
65 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
*
4279920 AAAATTGATACTTTTCAACTTTTCCTAAAAAAACTCTTTTTTTTTTTGAAAACTTATTCTCATGA
1 AAAATTGATACTTTTCAACTTTTCCTAAAAAAACTCTTTTTTTTTTT-AAAACTTATTCTCAAGA
* *
4279985 AAAATTGATACTTTCAACTTTTCCTCG-AAATATTTTTTAGAAAACTTATTTTCAAGG
65 AAAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
**
4280042 AAAATTGATAC-TTTCAACTTTTTTTAAAAAA
1 AAAATTGATACTTTTCAACTTTTCCTAAAAAA
4280073 TATTATTTTT
Statistics
Matches: 143, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
121 36 0.25
122 67 0.47
123 40 0.28
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.44
Consensus pattern (122 bp):
AAAATTGATACTTTTCAACTTTTCCTAAAAAAACTCTTTTTTTTTTTAAAACTTATTCTCAAGAA
AAATTGATACTTTCAACTTTTCATCGAAAATATTTTTTAGAAAACTTATTTTCAAAG
Found at i:4280116 original size:5 final size:5
Alignment explanation
Indices: 4280100--4280173 Score: 64
Period size: 5 Copynumber: 14.4 Consensus size: 5
4280090 TTATTTAAAG
4280100 AAAAT -AAA- AAAAT AAAAT AAAAAT AAAAAT AACAAT AAAGAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AA-AAT AAA-AT -AAAAT
* *
4280148 AGACT AAAAT AAAAT -AAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
4280174 GAAATACCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
4 10 0.17
5 25 0.43
6 20 0.34
7 3 0.05
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4280116 original size:6 final size:6
Alignment explanation
Indices: 4280100--4280148 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
4280090 TTATTTAAAG
* * *
4280100 AAAATA AAAAAA TAAAATA AAAATA AAAATA ACAATA AAGATA AAAATA
1 AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
4280149 GACTAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:4280231 original size:17 final size:17
Alignment explanation
Indices: 4280195--4280246 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
4280185 TAATTCTAAT
4280195 ATAATTAAATAATAATAATA
1 ATAA-TAAATAA-AA-AATA
4280215 ATAATAAATAAAAAATA
1 ATAATAAATAAAAAATA
*
4280232 A-AATGAAAGAAAAAA
1 ATAAT-AAATAAAAAA
4280247 AAACCTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.10
17 14 0.47
18 2 0.07
19 7 0.23
20 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (17 bp):
ATAATAAATAAAAAATA
Found at i:4281085 original size:20 final size:20
Alignment explanation
Indices: 4281057--4281224 Score: 100
Period size: 20 Copynumber: 8.6 Consensus size: 20
4281047 AAATAAAATC
*
4281057 AAATAAAAAATGTTAATAGAT
1 AAAT-AAAAATATTAATAGAT
* * *
4281078 AATTAAAAGAAAATAATTAGAT
1 AAATAAAA-ATATTAA-TAGAT
4281100 AAATAAAAATATTAATAGAT
1 AAATAAAAATATTAATAGAT
4281120 AAAT--AAA-A-TAATAGAT
1 AAATAAAAATATTAATAGAT
* *
4281136 AAATAATAATA-T-ATAAAT
1 AAATAAAAATATTAATAGAT
* *
4281154 AAAT--AAATAATAATAAAT
1 AAATAAAAATATTAATAGAT
* * * *
4281172 ACATATATATATTAACAGAT
1 AAATAAAAATATTAATAGAT
* *
4281192 AAATAATAATGTATAAATAGAT
1 AAATAA-AA-ATATTAATAGAT
*
4281214 AAATAATAATA
1 AAATAAAAATA
4281225 AATATATATT
Statistics
Matches: 113, Mismatches: 23, Indels: 23
0.71 0.14 0.14
Matches are distributed among these distances:
16 16 0.14
17 2 0.02
18 23 0.20
19 2 0.02
20 29 0.26
21 14 0.12
22 27 0.24
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (20 bp):
AAATAAAAATATTAATAGAT
Found at i:4281125 original size:4 final size:4
Alignment explanation
Indices: 4281088--4281264 Score: 63
Period size: 4 Copynumber: 46.2 Consensus size: 4
4281078 AATTAAAAGA
* * * * *
4281088 AAAT AATT AGAT AAAT AAA- AATAT TAAT AGAT AAAT AAA- ATAAT AGAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT A-AAT AAAT
* * *
4281136 AAAT -AAT -AAT ATAT AAAT AAAT AAAT -AAT -AAT AAAT ACAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * ** *
4281180 ATAT TAAC AGAT AAAT -AAT -AAT GTAT AAAT AGAT AAAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
4281224 AAAT ATATAT TAAC AGAT AAAT -AAT AAA- AAAA AAAT AAAT A
1 AAAT A-A-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
4281265 TATATTAAAA
Statistics
Matches: 128, Mismatches: 33, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
3 33 0.26
4 89 0.70
5 4 0.03
6 2 0.02
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:4281143 original size:14 final size:14
Alignment explanation
Indices: 4281106--4281250 Score: 92
Period size: 14 Copynumber: 10.6 Consensus size: 14
4281096 AGATAAATAA
*
4281106 AAATATTAATAGAT
1 AAATAATAATAGAT
4281120 AAATAAAATAATAGAT
1 AAAT--AATAATAGAT
*
4281136 AAATAATAATATAT
1 AAATAATAATAGAT
*
4281150 AAAT-A-AATAAAT
1 AAATAATAATAGAT
*
4281162 -AATAATAAATACAT
1 AAATAAT-AATAGAT
* *
4281176 ATATATATTAACAGAT
1 A-A-ATAATAATAGAT
4281192 AAATAATAAT-G-T
1 AAATAATAATAGAT
4281204 --AT-A-AATAGAT
1 AAATAATAATAGAT
*
4281214 AAATAATAATAAAT
1 AAATAATAATAGAT
* * *
4281228 ATATATTAACAGAT
1 AAATAATAATAGAT
4281242 AAATAATAA
1 AAATAATAA
4281251 AAAAAAAATA
Statistics
Matches: 101, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
8 3 0.03
9 2 0.02
10 3 0.03
11 3 0.03
12 10 0.10
13 3 0.03
14 52 0.51
15 1 0.01
16 20 0.20
17 4 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:4281146 original size:22 final size:23
Alignment explanation
Indices: 4281121--4281170 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
4281111 TTAATAGATA
*
4281121 AATAAAAT-AATAGATAAATAAT
1 AATAAAATAAATAAATAAATAAT
*
4281143 AAT-ATATAAATAAATAAATAAT
1 AATAAAATAAATAAATAAATAAT
4281165 AATAAA
1 AATAAA
4281171 TACATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 3 0.13
22 19 0.83
23 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AATAAAATAAATAAATAAATAAT
Found at i:4281182 original size:34 final size:32
Alignment explanation
Indices: 4281088--4281201 Score: 111
Period size: 34 Copynumber: 3.3 Consensus size: 32
4281078 AATTAAAAGA
* *
4281088 AAATAATTAGATAAATAAAAATATTAATAGATAAAT
1 AAATAA-TA-ATAAATAATAATA-T-ATAAATAAAT
4281124 AAAATAATAGATAAATAATAATATATAAATAAAT
1 -AAATAATA-ATAAATAATAATATATAAATAAAT
* * *
4281158 AAATAATAATAAATACATATATATATTAACAGAT
1 AAATAATAATAAATA-ATA-ATATATAAATAAAT
4281192 AAATAATAAT
1 AAATAATAAT
4281202 GTATAAATAG
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
32 7 0.10
33 11 0.16
34 30 0.43
35 1 0.01
36 15 0.21
37 6 0.09
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (32 bp):
AAATAATAATAAATAATAATATATAAATAAAT
Found at i:4281197 original size:56 final size:54
Alignment explanation
Indices: 4281098--4281264 Score: 182
Period size: 56 Copynumber: 3.1 Consensus size: 54
4281088 AAATAATTAG
* * * * *
4281098 ATAAATAAAAAT-ATTAATAGATAAATAAAATAATAGATAAATAATAATATATAA
1 ATAAATAAAAATAATAAATA-ATATATATATTAACAGATAAATAATAATATATAA
*
4281152 ATAAATAAATAATAATAAATACATATATATATTAACAGATAAATAATAATGTATAA
1 ATAAATAAA-AATAATAAATA-ATATATATATTAACAGATAAATAATAATATATAA
* * * *
4281208 ATAGAT--AAATAAT-AATAA-ATATATATTAACAGATAAATAATAAAAAAAAA
1 ATAAATAAAAATAATAAATAATATATATATTAACAGATAAATAATAATATATAA
4281258 ATAAATA
1 ATAAATA
4281265 TATATTAAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
50 33 0.34
51 1 0.01
52 4 0.04
53 6 0.06
54 10 0.10
55 3 0.03
56 40 0.41
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (54 bp):
ATAAATAAAAATAATAAATAATATATATATTAACAGATAAATAATAATATATAA
Found at i:4281246 original size:36 final size:36
Alignment explanation
Indices: 4281204--4281272 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
4281194 ATAATAATGT
* *
4281204 ATAAATAGAT-AAATAATAATAAATATATATTAACAG
1 ATAAATA-ATAAAAAAAAAATAAATATATATTAACAG
4281240 ATAAATAATAAAAAAAAAATAAATATATATTAA
1 ATAAATAATAAAAAAAAAATAAATATATATTAA
4281273 AAATAGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 2 0.07
36 28 0.93
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (36 bp):
ATAAATAATAAAAAAAAAATAAATATATATTAACAG
Found at i:4281274 original size:18 final size:18
Alignment explanation
Indices: 4281221--4281275 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
4281211 GATAAATAAT
*
4281221 AATAAATATATATTAACA
1 AATAAATATATATTAAAA
* **
4281239 GATAAATA-ATAAAAAAAA
1 AATAAATATAT-ATTAAAA
4281257 AATAAATATATATTAAAA
1 AATAAATATATATTAAAA
4281275 A
1 A
4281276 TAGTAATAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 2 0.07
18 24 0.86
19 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
AATAAATATATATTAAAA
Found at i:4281673 original size:88 final size:88
Alignment explanation
Indices: 4281511--4281893 Score: 310
Period size: 84 Copynumber: 4.4 Consensus size: 88
4281501 AAAATTTGAT
* * * * * ** * *
4281511 CAAAACTCCTCTAAGCAGAGGCTTAACCACTTTGAAAAACATAAATAAAGCTCCTTTAATTAGAT
1 CAAAGCTCCTCTAATCAGAGGCTTAACAACTTTGAAAAACATAAACAAAACTCCTCCAATCAGAG
4281576 GCTCAACGACTTT-AAAAATAAAA
66 GCTCAACGACTTTGAAAAAT-AAA
* * *
4281599 CAAAGCTCCTCCAATCAGAGGCTTAACGACTTTGAAAAACATAAACAAAACTTCTCCAATCAGAG
1 CAAAGCTCCTCTAATCAGAGGCTTAACAACTTTGAAAAACATAAACAAAACTCCTCCAATCAGAG
*
4281664 GCTCTACGACTTTGAAAAATAAA
66 GCTCAACGACTTTGAAAAATAAA
* * * ** * * *
4281687 CAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTG---AATAT-AA-ATTACTCCTCTAAACAAA
1 CAAAGCTCCTCTAATCAGAGGCTTAACAAC-TTTGAAAAACATAAACAAAACTCCTCCAATCAGA
*
4281747 GG--CATCGTAACTTTGAAAAATAAA
65 GGCTCAACG--ACTTTGAAAAATAAA
* *** * * *
4281771 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTG--AAA-AT-AA-ATTGCTTCTCTAAACAGA
1 CAAAGCTCCTCTAATCAGAGGCTTAACAAC-TTTGAAAAACATAAACAAAACTCCTCCAATCAGA
4281831 GGCATCATA--ACTTTGAAAAATAAA
65 GGC-TCA-ACGACTTTGAAAAATAAA
* *
4281855 CAAAGCTCCTCTAATCAGAGGCTCAACAATTTTTGAAAA
1 CAAAGCTCCTCTAATCAGAGGCTTAACAA-CTTTGAAAA
4281894 TAAATTGCTT
Statistics
Matches: 252, Mismatches: 31, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
82 3 0.01
84 132 0.52
85 4 0.02
86 6 0.02
87 2 0.01
88 95 0.38
89 10 0.04
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.25
Consensus pattern (88 bp):
CAAAGCTCCTCTAATCAGAGGCTTAACAACTTTGAAAAACATAAACAAAACTCCTCCAATCAGAG
GCTCAACGACTTTGAAAAATAAA
Found at i:4281759 original size:41 final size:41
Alignment explanation
Indices: 4281695--4281937 Score: 174
Period size: 41 Copynumber: 5.9 Consensus size: 41
4281685 AACAAAGCTT
* * *
4281695 CTCTAATCAGAGGC-TCAACAACTTTTGAATATAAATTACTC
1 CTCTAAACAGAGGCATC-ATAACTTTTGAAAATAAATTACTC
* * **
4281736 CTCTAAACAAAGGCATCGTAAC-TTTGAAAAATAAACAAAGCTC
1 CTCTAAACAGAGGCATCATAACTTTTG-AAAATAAA-TTA-CTC
* * * *
4281779 CTCTAATCAGAGGC-TCAACAACTTTTGAAAATAAATTGCTT
1 CTCTAAACAGAGGCATC-ATAACTTTTGAAAATAAATTACTC
**
4281820 CTCTAAACAGAGGCATCATAAC-TTTGAAAAATAAACAAAGCTC
1 CTCTAAACAGAGGCATCATAACTTTTG-AAAATAAA-TTA-CTC
* * * * *
4281863 CTCTAATCAGAGGC-TCAACAATTTTTGAAAATAAATTGCTT
1 CTCTAAACAGAGGCATC-ATAACTTTTGAAAATAAATTACTC
* * *
4281904 TTTTGAACAGAGGCATCATAAC-TTTGAAAATAAA
1 CTCTAAACAGAGGCATCATAACTTTTGAAAATAAA
4281938 AGGCTCATTG
Statistics
Matches: 155, Mismatches: 34, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
40 20 0.13
41 64 0.41
42 11 0.07
43 52 0.34
44 8 0.05
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (41 bp):
CTCTAAACAGAGGCATCATAACTTTTGAAAATAAATTACTC
Found at i:4281783 original size:84 final size:84
Alignment explanation
Indices: 4281584--4281937 Score: 439
Period size: 84 Copynumber: 4.2 Consensus size: 84
4281574 ATGCTCAACG
* * * *
4281584 ACTTT-AAAAATAAAACAAAGCTCCTCCAATCAGAGGCTTAACGAC-TTTGAAAAACATAAACAA
1 ACTTTGAAAAAT-AAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTG--AAA-AT-AA-AT
** * *
4281647 AACTTCTCCAATCAGAGGC-TC-TA
60 TGCTTCTCTAAACAGAGGCATCATA
* * *
4281670 CGACTTTGAAAAATAAACAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTGAATATAAATTACT
1 --ACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCT
* * *
4281735 CCTCTAAACAAAGGCATCGTA
64 TCTCTAAACAGAGGCATCATA
4281756 ACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTTC
1 ACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTTC
4281821 TCTAAACAGAGGCATCATA
66 TCTAAACAGAGGCATCATA
* *
4281840 ACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAATTTTTGAAAATAAATTGCTTT
1 ACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTTC
* *
4281905 TTTGAACAGAGGCATCATA
66 TCTAAACAGAGGCATCATA
4281924 ACTTTG-AAAATAAA
1 ACTTTGAAAAATAAA
4281938 AGGCTCATTG
Statistics
Matches: 241, Mismatches: 21, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
83 8 0.03
84 179 0.74
85 4 0.02
86 4 0.02
87 2 0.01
88 34 0.14
89 10 0.04
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (84 bp):
ACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATTGCTTC
TCTAAACAGAGGCATCATA
Found at i:4281864 original size:127 final size:130
Alignment explanation
Indices: 4281511--4281877 Score: 315
Period size: 127 Copynumber: 2.8 Consensus size: 130
4281501 AAAATTTGAT
* * * * * * * ** *
4281511 CAAAACTCCTCTAAGCAGAGGCTTAACCACTTTGAAAAACATAAATAAAGCTCCTTTAATTAGAT
1 CAAAACTCCTCCAATCAGAGGCTCAACAACTTTG-AAAA-ATAAACAAAGCTTCTCTAAACAGAG
* * * *
4281576 GCTCAACGACTTT-AAAAATAAAACAAAGCTCCTCCAATCAGAGGCTTAACGACTTTGAAAAACA
64 GCTCAACAACTTTGAAAAAT-AAACAAAGCTCCTCTAAACAAAGGC-TAACGACTTTGAAAAACA
4281640 TAAA
127 TAAA
* * * *
4281644 CAAAACTTCTCCAATCAGAGGCTCTACGACTTTGAAAAATAAACAAAGCTTCTCTAATCAGAGGC
1 CAAAACTCCTCCAATCAGAGGCTCAACAACTTTGAAAAATAAACAAAGCTTCTCTAAACAGAGGC
* ** *
4281709 TCAACAACTTTTG-AATATAAA-TTA-CTCCTCTAAACAAAGGC-ATCGTAACTTTG-AAAA-AT
66 TCAACAAC-TTTGAAAAATAAACAAAGCTCCTCTAAACAAAGGCTAACG--ACTTTGAAAAACAT
4281768 AAA
128 AAA
* * **
4281771 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTG-AAAAT-AA-ATTGCTTCTCTAAACAGAGG
1 CAAAACTCCTCCAATCAGAGGCTCAACAAC-TTTGAAAAATAAACAAAGCTTCTCTAAACAGAGG
* * *
4281833 CATC-ATAACTTTGAAAAATAAACAAAGCTCCTCTAATCAGAGGCT
65 C-TCAACAACTTTGAAAAATAAACAAAGCTCCTCTAAACAAAGGCT
4281878 CAACAATTTT
Statistics
Matches: 191, Mismatches: 33, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
124 4 0.02
125 29 0.15
126 5 0.03
127 53 0.28
128 8 0.04
129 20 0.10
130 1 0.01
131 32 0.17
132 11 0.06
133 28 0.15
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (130 bp):
CAAAACTCCTCCAATCAGAGGCTCAACAACTTTGAAAAATAAACAAAGCTTCTCTAAACAGAGGC
TCAACAACTTTGAAAAATAAACAAAGCTCCTCTAAACAAAGGCTAACGACTTTGAAAAACATAAA
Found at i:4281894 original size:43 final size:43
Alignment explanation
Indices: 4281511--4281897 Score: 335
Period size: 43 Copynumber: 9.0 Consensus size: 43
4281501 AAAATTTGAT
* * * *
4281511 CAAAACTCCTCTAAGCAGAGGCTTAACCACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAA-ATAAA
* * * * *
4281556 TAAAGCTCCTTTAATTAGATGCTCAACGACTTT-AAAAATAAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAAT-AAA
* * *
4281599 CAAAGCTCCTCCAATCAGAGGCTTAACGACTTTGAAAAACATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAA-ATAAA
* * * * *
4281644 CAAAACTTCTCCAATCAGAGGCTCTACGACTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAA
* *
4281687 CAAAGCTTCTCTAATCAGAGGCTCAACAACTTTTG-AATATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAATAAA
** * * **
4281730 -TTA-CTCCTCTAAACAAAGGCATC-GTAACTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGC-TCAACAACTTTGAAAAATAAA
4281771 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTG-AAAAT-AA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAATAAA
** * * *
4281813 -ATTGCTTCTCTAAACAGAGGCATC-ATAACTTTGAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGC-TCAACAACTTTGAAAAATAAA
*
4281855 CAAAGCTCCTCTAATCAGAGGCTCAACAATTTTTG-AAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACAA-CTTTGAAAAATAAA
4281898 TTGCTTTTTT
Statistics
Matches: 277, Mismatches: 48, Indels: 36
0.77 0.13 0.10
Matches are distributed among these distances:
40 8 0.03
41 50 0.18
42 16 0.06
43 123 0.44
44 16 0.06
45 62 0.22
46 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.25
Consensus pattern (43 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAA
Found at i:4282964 original size:9 final size:9
Alignment explanation
Indices: 4282950--4283032 Score: 64
Period size: 9 Copynumber: 9.0 Consensus size: 9
4282940 TTCATTCACT
4282950 TTTTTTTTC
1 TTTTTTTTC
4282959 -TTTTTTTC
1 TTTTTTTTC
*
4282967 --CTTTTTC
1 TTTTTTTTC
* *
4282974 CTTTTTTCC
1 TTTTTTTTC
4282983 TTTTTTTTC
1 TTTTTTTTC
4282992 TTTTTTTTC
1 TTTTTTTTC
*
4283001 ATTTTTCATTTAA
1 -TTTTT--TTT-C
4283014 TTTTTTTCTC
1 TTTTTTT-TC
4283024 TTTTTTTTC
1 TTTTTTTTC
4283033 AAGCATAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
7 6 0.10
8 8 0.13
9 23 0.38
10 14 0.23
11 1 0.02
12 8 0.13
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:4282971 original size:15 final size:15
Alignment explanation
Indices: 4282953--4282987 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4282943 ATTCACTTTT
*
4282953 TTTTTCTTTTTTTCC
1 TTTTTCCTTTTTTCC
4282968 TTTTTCCTTTTTTCC
1 TTTTTCCTTTTTTCC
4282983 TTTTT
1 TTTTT
4282988 TTTCTTTTTT
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCCTTTTTTCC
Found at i:4282972 original size:31 final size:31
Alignment explanation
Indices: 4282934--4283030 Score: 104
Period size: 31 Copynumber: 3.0 Consensus size: 31
4282924 CCTTGAGTTC
*
4282934 TCCTTTTTCATTCACTTTTTTTTTCTTTTTT
1 TCCTTTTTCATTTACTTTTTTTTTCTTTTTT
* * *
4282965 TCCTTTTTCCTTTTTTCCTTTTTTTTCTTTTTTT
1 TCCTTTTT-C-ATTTACTTTTTTTTTC-TTTTTT
* * *
4282999 TCATTTTTCATTTAATTTTTTTCTCTTTTTT
1 TCCTTTTTCATTTACTTTTTTTTTCTTTTTT
4283030 T
1 T
4283031 TCAAGCATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
31 15 0.28
32 12 0.23
33 13 0.25
34 13 0.25
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (31 bp):
TCCTTTTTCATTTACTTTTTTTTTCTTTTTT
Found at i:4282978 original size:24 final size:24
Alignment explanation
Indices: 4282951--4282996 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4282941 TCATTCACTT
*
4282951 TTTTTTTCTTTTTTTCCTTTTTCC
1 TTTTTTCCTTTTTTTCCTTTTTCC
*
4282975 TTTTTTCCTTTTTTTTCTTTTT
1 TTTTTTCCTTTTTTTCCTTTTT
4282997 TTTCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTTCCTTTTTTTCCTTTTTCC
Found at i:4282995 original size:15 final size:14
Alignment explanation
Indices: 4282953--4283031 Score: 54
Period size: 15 Copynumber: 5.6 Consensus size: 14
4282943 ATTCACTTTT
4282953 TTTTTCTTTTTTTCC
1 TTTTT-TTTTTTTCC
*
4282968 TTTTTCCTTTTTTCC
1 TTTTT-TTTTTTTCC
*
4282983 TTTTTTTTCTTT--
1 TTTTTTTTTTTTCC
** *
4282995 TTTTTCATTTTTCA
1 TTTTTTTTTTTTCC
**
4283009 TTTAATTTTTTTCTC
1 TTTTTTTTTTTTC-C
4283024 TTTTTTTT
1 TTTTTTTT
4283032 CAAGCATAAT
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
12 9 0.19
14 14 0.29
15 25 0.52
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTTTTCC
Found at i:4283006 original size:8 final size:8
Alignment explanation
Indices: 4282951--4282998 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
4282941 TCATTCACTT
4282951 TTTTTTTC
1 TTTTTTTC
4282959 TTTTTTTC
1 TTTTTTTC
* *
4282967 CTTTTTCC
1 TTTTTTTC
*
4282975 TTTTTTCC
1 TTTTTTTC
4282983 TTTTTTTTC
1 -TTTTTTTC
4282992 TTTTTTT
1 TTTTTTT
4282999 TCATTTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 28 0.80
9 7 0.20
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:4283019 original size:32 final size:32
Alignment explanation
Indices: 4282937--4283033 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 32
4282927 TGAGTTCTCC
* * *
4282937 TTTTTCATTCACTTTTTTTTTC-TTTTTTTCC
1 TTTTTCATTTAATTTTTTTTTCTTTTTTTTCA
* **
4282968 TTTTTCCTTTTTTCCTTTTTTTTCTTTTTTTTCA
1 TTTTTCATTTAAT--TTTTTTTTCTTTTTTTTCA
*
4283002 TTTTTCATTTAATTTTTTTCTCTTTTTTTTCA
1 TTTTTCATTTAATTTTTTTTTCTTTTTTTTCA
4283034 AGCATAATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
31 9 0.17
32 18 0.33
33 9 0.17
34 18 0.33
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (32 bp):
TTTTTCATTTAATTTTTTTTTCTTTTTTTTCA
Found at i:4293701 original size:59 final size:58
Alignment explanation
Indices: 4293466--4293813 Score: 328
Period size: 59 Copynumber: 5.8 Consensus size: 58
4293456 TGCTTTTGTA
* *
4293466 CAAGG-AAATTGATACTTTCAACTTTTTCC-TAAAAA-ATTTTTTAG-AAACTCTAATTT
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTTAAAAATATTTTTTTGAAAACT-TATTTT
* * * * *
4293522 CGAGGAAAATTGATAGTTTCAACTTTTCCTCAAAAAAATCTTTTTTTTTAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCT--TAAAAAT-ATTTTTTTGAAAACTTATTTT
* * *
4293583 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCCCTTTTTTTTTTTTGAAAACTTATT
1 CAAGGAAAATTGATACTTTCAACTTTTCCT--TAAAAA-------TATTTTTTTGAAAACTTATT
4293648 TT
57 TT
* *
4293650 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTG-AAAACTTATTTT
* ** * * *
4293709 TAAGGAAAATAAATACTTTCAATTTTTCCTTAAAAACCT-TTTTTTTGAAGACTTATTCT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAA--TATTTTTTTGAAAACTTATTTT
*
4293768 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTATTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATT-TTTTT
4293814 TTTGGAAGTT
Statistics
Matches: 245, Mismatches: 28, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
56 10 0.04
57 17 0.07
58 10 0.04
59 94 0.38
60 7 0.03
61 47 0.19
62 5 0.02
65 5 0.02
67 49 0.20
68 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTGAAAACTTATTTT
Found at i:4293752 original size:185 final size:183
Alignment explanation
Indices: 4293466--4293803 Score: 466
Period size: 185 Copynumber: 1.8 Consensus size: 183
4293456 TGCTTTTGTA
*
4293466 CAAGGAAATTGATACTTTCAACTTTTTCCTAAAAAATTTTTTAGAAACTCTAATTTCGAGGAAAA
1 CAAGGAAATTGATACTTTCAACTTTTTCCTAAAAAATTTTTTAGAAACTCTAATTTCAAGGAAAA
** * * * * * *
4293531 TTGATAGTTTCAACTTTTCCTCAAAAAAATCTTTTTTTTTAAAACTTATTTTTAAGGAAAATTGA
66 TAAATACTTTCAACTTTTCCT-AAAAAAACCTTTTTTTTGAAAACTTATTCTCAAGAAAAATTGA
4293596 TACTTTCAACTTTTCCTCAAAAAAACCCCTTTTTTTTTTTTGAAAACTTATTTT
130 TACTTTCAACTTTTCCTCAAAAAAACCCCTTTTTTTTTTTTGAAAACTTATTTT
* *
4293650 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAAACT-TATTTTTAAG
1 CAAGG-AAATTGATACTTTCAACTTTTTCCT-AAAAA-ATTTTTTAG--AAACTCTAATTTCAAG
* * *
4293713 GAAAATAAATACTTTCAATTTTTCCT-TAAAAACCTTTTTTTTGAAGACTTATTCTCAAGAAAAA
61 GAAAATAAATACTTTCAACTTTTCCTAAAAAAACCTTTTTTTTGAAAACTTATTCTCAAGAAAAA
*
4293777 TTGATACTTTCAACTTTTCCTTAAAAA
126 TTGATACTTTCAACTTTTCCTCAAAAA
4293804 TATTATTTTT
Statistics
Matches: 134, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
184 12 0.09
185 79 0.59
186 9 0.07
187 29 0.22
188 5 0.04
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (183 bp):
CAAGGAAATTGATACTTTCAACTTTTTCCTAAAAAATTTTTTAGAAACTCTAATTTCAAGGAAAA
TAAATACTTTCAACTTTTCCTAAAAAAACCTTTTTTTTGAAAACTTATTCTCAAGAAAAATTGAT
ACTTTCAACTTTTCCTCAAAAAAACCCCTTTTTTTTTTTTGAAAACTTATTTT
Found at i:4293859 original size:5 final size:5
Alignment explanation
Indices: 4293833--4293894 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
4293823 TTATTTAAAG
*
4293833 AAAAT AAAA- AAAAT AAATAT AAAAT AACAAT AAAGAT AAAAAT AGAAT
1 AAAAT AAAAT AAAAT AAA-AT AAAAT AA-AAT AAA-AT -AAAAT AAAAT
4293881 AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAA
4293895 AATACTAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 4 0.08
5 29 0.58
6 14 0.28
7 3 0.06
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4293866 original size:17 final size:14
Alignment explanation
Indices: 4293833--4293894 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 14
4293823 TTATTTAAAG
4293833 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
4293847 AAATATAAAATAACAAT
1 AAA-ATAAAA-AA-AAT
4293864 AAAGATAAAAATAGAAT
1 AAA-ATAAAAA-A-AAT
4293881 AAAATAAAATAAAA
1 AAAATAAAA-AAAA
4293895 AATACTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 3 0.07
15 8 0.20
16 10 0.24
17 20 0.49
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:4293896 original size:23 final size:24
Alignment explanation
Indices: 4293833--4293903 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 24
4293823 TTATTTAAAG
*
4293833 AAAATAAAAAAAATAAATATAAAAT
1 AAAATAAAATAAA-AAATATAAAAT
*
4293858 AACAATAAAGAT--AAAA-ATAGAAT
1 AA-AATAAA-ATAAAAAATATAAAAT
4293881 AAAATAAAATAAAAAATACTAAA
1 AAAATAAAATAAAAAATA-TAAA
4293904 TAATTCTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
21 2 0.05
22 6 0.16
23 12 0.32
24 4 0.11
25 6 0.16
26 6 0.16
27 1 0.03
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (24 bp):
AAAATAAAATAAAAAATATAAAAT
Found at i:4293943 original size:7 final size:7
Alignment explanation
Indices: 4293920--4293959 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
4293910 TAATCTAATC
4293920 AATAAAT
1 AATAAAT
4293927 AATAATAAT
1 AAT-A-AAT
4293936 AATAAAT
1 AATAAAT
4293943 AAATAAAT
1 -AATAAAT
4293951 AATAAAT
1 AATAAAT
4293958 AA
1 AA
4293960 AATGAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 15 0.50
8 9 0.30
9 6 0.20
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:4294582 original size:22 final size:21
Alignment explanation
Indices: 4294557--4294620 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
4294547 TCAAATCAAA
4294557 TAAAAAAATGTTAATAGATAAT
1 TAAAAAAAT-TTAATAGATAAT
* *
4294579 TAAAAGAAA-ATAATTAGATAAA
1 TAAAA-AAATTTAA-TAGATAAT
*
4294601 TAAAAATA-TTAATAGATAAT
1 TAAAAAAATTTAATAGATAAT
4294621 AATAATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 7 0.20
21 8 0.23
22 17 0.49
23 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (21 bp):
TAAAAAAATTTAATAGATAAT
Found at i:4294622 original size:31 final size:29
Alignment explanation
Indices: 4294577--4294692 Score: 97
Period size: 31 Copynumber: 3.7 Consensus size: 29
4294567 TTAATAGATA
* *
4294577 ATTAAAAGAAAATAATTAGATAAATAAAAAT
1 ATTAATAGATAATAA-TA-ATAAATAAAAAT
*
4294608 ATTAATAGATAATAATAATAATAATAATAAT
1 ATTAATAGATAATAATAAT-A-AATAAAAAT
*
4294639 ATAAATAGATAAATAATAATAAATACATATATAT
1 ATTAATAGAT-AATAATAATAAATA-A-A-A-AT
* *
4294673 ATTAACAGATAATAACAATA
1 ATTAATAGATAATAATAATA
4294693 TAAATAGATA
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.03
30 7 0.10
31 32 0.46
32 9 0.13
33 10 0.14
34 10 0.14
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (29 bp):
ATTAATAGATAATAATAATAAATAAAAAT
Found at i:4294624 original size:3 final size:3
Alignment explanation
Indices: 4294599--4294781 Score: 70
Period size: 3 Copynumber: 56.7 Consensus size: 3
4294589 TAATTAGATA
* *
4294599 AAT AAA AAT ATT AAT AGAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * *
4294645 AGAT AAAT AAT AAT AAAT ACAT -AT ATAT ATT AAC AGAT AAT AAC AAT
1 A-AT -AAT AAT AAT -AAT A-AT AAT A-AT AAT AAT A-AT AAT AAT AAT
* *
4294692 -AT AAAT AGAT AAAT AAT AAT AAAT ATAT ATT AAC AGAT AAAT AAT AA-
1 AAT -AAT A-AT -AAT AAT AAT -AAT A-AT AAT AAT A-AT -AAT AAT AAT
* * * *
4294739 AA- AAT AAA AAA AAT AAAT ATAT ATT AAT AAAT AGT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT A-AT AAT AAT -AAT AAT AAT AAT AA
4294782 ATACATAAGA
Statistics
Matches: 138, Mismatches: 20, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
2 10 0.07
3 82 0.59
4 43 0.31
5 3 0.02
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4294650 original size:8 final size:7
Alignment explanation
Indices: 4294596--4294831 Score: 67
Period size: 7 Copynumber: 33.6 Consensus size: 7
4294586 AAATAATTAG
4294596 ATAAATA
1 ATAAATA
4294603 A-AAAT-
1 ATAAATA
*
4294608 ATTAATA
1 ATAAATA
4294615 GAT-AATA
1 -ATAAATA
4294622 AT-AATA
1 ATAAATA
4294628 AT-AATA
1 ATAAATA
4294634 AT-AAT-
1 ATAAATA
4294639 ATAAATA
1 ATAAATA
4294646 GATAAATA
1 -ATAAATA
4294654 AT-AATAA
1 ATAAAT-A
*
4294661 ATACATA
1 ATAAATA
*
4294668 TATATATTA
1 -ATA-AATA
* *
4294677 ACAGATA
1 ATAAATA
4294684 ATAACA-A
1 ATAA-ATA
4294691 TATAAATA
1 -ATAAATA
4294699 GATAAATA
1 -ATAAATA
4294707 AT-AATAA
1 ATAAAT-A
*
4294714 ATATATA
1 ATAAATA
* *
4294721 TTAACA-G
1 ATAA-ATA
4294728 ATAAATA
1 ATAAATA
*
4294735 ATAAAAA
1 ATAAATA
4294742 ATAAA-A
1 ATAAATA
4294748 A-AAATAA
1 ATAAAT-A
4294755 ATATATATTA
1 ATA-A-A-TA
4294765 ATAAATA
1 ATAAATA
*
4294772 GT-AATA
1 ATAAATA
4294778 ATAAATA
1 ATAAATA
4294785 CATAAGATA
1 -ATAA-ATA
*
4294794 CAAAAAT-
1 -ATAAATA
4294801 ATAAA-A
1 ATAAATA
4294807 ATATAA-A
1 ATA-AATA
4294814 ATACAA-A
1 ATA-AATA
*
4294821 ATAAAAA
1 ATAAATA
4294828 ATAA
1 ATAA
4294832 CATGGGCTTA
Statistics
Matches: 178, Mismatches: 22, Indels: 58
0.69 0.09 0.22
Matches are distributed among these distances:
5 6 0.03
6 50 0.28
7 65 0.37
8 40 0.22
9 11 0.06
10 5 0.03
11 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:4294686 original size:47 final size:44
Alignment explanation
Indices: 4294667--4294765 Score: 100
Period size: 47 Copynumber: 2.2 Consensus size: 44
4294657 ATAAATACAT
4294667 ATATATATTAACAGATAATA-ACAAT-ATAAATAGATAAATAATAATAA
1 ATATATATTAACAGATAATATA-AATAATAAATA-AT-AAT-A-AATAA
* *
4294714 ATATATATTAACAGATAA-AT-AATAAAAAATAA-AAAAAATAA
1 ATATATATTAACAGATAATATAAATAATAAATAATAATAAATAA
4294755 ATATATATTAA
1 ATATATATTAA
4294766 TAAATAGTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
41 16 0.33
42 1 0.02
43 2 0.04
45 4 0.08
46 7 0.15
47 18 0.38
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (44 bp):
ATATATATTAACAGATAATATAAATAATAAATAATAATAAATAA
Found at i:4294759 original size:88 final size:85
Alignment explanation
Indices: 4294594--4294765 Score: 204
Period size: 88 Copynumber: 2.0 Consensus size: 85
4294584 GAAAATAATT
* * * *
4294594 AGATAAATAAAAATATTAATAGATAATAATAATAATAATAATAATATAAATAGATAAATAATAAT
1 AGATAAATAAAAATATAAATAGATAATAATAATAATAATAATAAGATAAATAGATAAAAAATAAA
* *
4294659 AAATACATATATATATTAAC
66 AAAAACAAATATATATTAAC
* *
4294679 AGAT-AATAACAATATAAATAGATAAATAATAATAAATATATATTAACAGATAAATA-ATAAAAA
1 AGATAAATAAAAATATAAATAGAT-AATAATAAT-AATA-ATAAT-A-AGATAAATAGATAAAAA
*
4294742 ATAAAAAAAATAAATATATATTAA
61 ATAAAAAAAACAAATATATATTAA
4294766 TAAATAGTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
84 17 0.23
85 13 0.18
86 4 0.05
87 4 0.05
88 27 0.37
89 8 0.11
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (85 bp):
AGATAAATAAAAATATAAATAGATAATAATAATAATAATAATAAGATAAATAGATAAAAAATAAA
AAAAACAAATATATATTAAC
Found at i:4300095 original size:15 final size:15
Alignment explanation
Indices: 4300075--4300125 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
4300065 AATTTATGAA
4300075 CTAATAGTGTCATGT
1 CTAATAGTGTCATGT
** * *
4300090 CTAATA-AATAATGGA
1 CTAATAGTGTCAT-GT
4300105 CTAATAGTGTCATGT
1 CTAATAGTGTCATGT
4300120 CTAATA
1 CTAATA
4300126 AATAGAAAGT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (15 bp):
CTAATAGTGTCATGT
Found at i:4301193 original size:13 final size:13
Alignment explanation
Indices: 4301175--4301209 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4301165 TAATCATACA
4301175 AAAATAAATAAAT
1 AAAATAAATAAAT
*
4301188 AAAATAACTAAAT
1 AAAATAAATAAAT
4301201 AAAA-AAATA
1 AAAATAAATA
4301210 CCAAAAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:4302178 original size:4 final size:4
Alignment explanation
Indices: 4302169--4302216 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
4302159 TAAAACCCAA
** * *
4302169 AAAT AAAT AAAT AAAT AACC AAAT AAAT AACT -AAT GAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
4302216 A
1 A
4302217 TGAAAGAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 2 0.06
4 34 0.94
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:4302181 original size:46 final size:49
Alignment explanation
Indices: 4302086--4302185 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 49
4302076 ACCTAATCTA
* **
4302086 ATAATACAAAAAAAGATAAATCATATAAAAAACCCATGAAAAATCAAAT
1 ATAATACAAAAAAAGATAAATCATAGAAAAAACCCAAAAAAAATCAAAT
* *
4302135 ATAA-ACAAAAACAGATAAAT-A-AGATAAAACCCAAAAATAAAT-AAAT
1 ATAATACAAAAAAAGATAAATCATAGAAAAAACCCAAAAA-AAATCAAAT
4302181 A-AATA
1 ATAATA
4302186 ACCAAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
45 2 0.05
46 18 0.41
47 5 0.11
48 15 0.34
49 4 0.09
ACGTcount: A:0.68, C:0.11, G:0.04, T:0.17
Consensus pattern (49 bp):
ATAATACAAAAAAAGATAAATCATAGAAAAAACCCAAAAAAAATCAAAT
Found at i:4305249 original size:21 final size:22
Alignment explanation
Indices: 4305225--4305276 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4305215 TACCGTGCAT
* *
4305225 AAATACTAATAATAA-AATTTA
1 AAATAATAAAAATAATAATTTA
*
4305246 AAATAATAAAAATAATATTTTA
1 AAATAATAAAAATAATAATTTA
*
4305268 AAAAAATAA
1 AAATAATAA
4305277 TTCAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAATAAAAATAATAATTTA
Found at i:4305911 original size:15 final size:15
Alignment explanation
Indices: 4305886--4305926 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
4305876 TTGGATCTGA
*
4305886 CAAGATTTTTTTAT-
1 CAAGTTTTTTTTATG
*
4305900 CTAGTTTTTTTTATG
1 CAAGTTTTTTTTATG
4305915 CAAGTTTTTTTT
1 CAAGTTTTTTTT
4305927 TCAATGGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (15 bp):
CAAGTTTTTTTTATG
Found at i:4306215 original size:3 final size:3
Alignment explanation
Indices: 4306207--4306242 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4306197 AAAAGAAAGA
4306207 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4306243 TGATACTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4310306 original size:24 final size:25
Alignment explanation
Indices: 4310272--4310319 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
4310262 ACCACTTGAT
4310272 ATATATTTAAAAAAATAAAAAATAA
1 ATATATTTAAAAAAATAAAAAATAA
*
4310297 ATAT-TTTAAAAAAATAAGAAATA
1 ATATATTTAAAAAAATAAAAAATA
4310320 TAAAATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (25 bp):
ATATATTTAAAAAAATAAAAAATAA
Found at i:4315546 original size:11 final size:12
Alignment explanation
Indices: 4315531--4315580 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
4315521 GTTTCGTAGG
*
4315531 TTTTTCCTTTTC
1 TTTTTCCTTTTA
4315543 TTTTTCCTTTTA
1 TTTTTCCTTTTA
4315555 -TTTTCCTTTTTA
1 TTTTTCC-TTTTA
*
4315567 TTTTT-ATTTTA
1 TTTTTCCTTTTA
4315578 TTT
1 TTT
4315581 ATTTTATGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 14 0.41
12 16 0.47
13 4 0.12
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTCCTTTTA
Found at i:4315563 original size:18 final size:17
Alignment explanation
Indices: 4315538--4315576 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
4315528 AGGTTTTTCC
*
4315538 TTTTCTTTTTCCTTTTA
1 TTTTCTTTTTACTTTTA
*
4315555 TTTTCCTTTTTATTTTTA
1 TTTT-CTTTTTACTTTTA
4315573 TTTT
1 TTTT
4315577 ATTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTTACTTTTA
Found at i:4315570 original size:23 final size:23
Alignment explanation
Indices: 4315532--4315580 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
4315522 TTTCGTAGGT
*
4315532 TTTTCCTTTTCTTTTTCCTTTTA
1 TTTTCCTTTTCTTTTTCATTTTA
*
4315555 TTTTCCTTTT-TATTTTTATTTTA
1 TTTTCCTTTTCT-TTTTCATTTTA
4315578 TTT
1 TTT
4315581 ATTTTATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCCTTTTCTTTTTCATTTTA
Found at i:4316043 original size:18 final size:20
Alignment explanation
Indices: 4316006--4316046 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
4315996 AAGATTGATT
4316006 TAAACAATGTAAAATAATAA
1 TAAACAATGTAAAATAATAA
*
4316026 TAAA-AATG-AAATTAATAA
1 TAAACAATGTAAAATAATAA
4316044 TAA
1 TAA
4316047 TTGATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAACAATGTAAAATAATAA
Found at i:4316342 original size:50 final size:51
Alignment explanation
Indices: 4316284--4316389 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 51
4316274 TGCTAAAATT
* ** *
4316284 GAGATAATCTTAAAACTTG-TTCA-AAATGTTTAGGATTTCACCGAAGAGTC
1 GAGATAATCTTAAAACTTGTTTAATAAAT-TTTAGGAACTCACCAAAGAGTC
* *
4316334 GAGATAATCTTAAAATTTGTTTAATAAATTTTAGGAACTGACCAAAGAGTC
1 GAGATAATCTTAAAACTTGTTTAATAAATTTTAGGAACTCACCAAAGAGTC
4316385 GAGAT
1 GAGAT
4316390 GTTCCTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 18 0.38
51 26 0.54
52 4 0.08
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (51 bp):
GAGATAATCTTAAAACTTGTTTAATAAATTTTAGGAACTCACCAAAGAGTC
Found at i:4328363 original size:78 final size:78
Alignment explanation
Indices: 4328242--4328602 Score: 447
Period size: 78 Copynumber: 4.6 Consensus size: 78
4328232 GGCTTTTGGA
* * * ** * * *
4328242 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAATTTTTTAAATTTAAATTTTGTTGCCTTTGGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCTTTTTGAATTTAAAGTTCGTTGCCTTTGGTTAA
* *
4328307 AGTATCTTTTTAG
66 AGGAGCTTTTTAG
* * * *
4328320 ATTTAAAGTTTGTTGCCTCTGGTGAGATGAGCCTTTTGAATTTAAAGTTCGTTGCCTCTAGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCTTTTTGAATTTAAAGTTCGTTGCCTTTGGTTAA
*
4328385 AGGAGCTTTTTGG
66 AGGAGCTTTTTAG
* * * * *
4328398 ATTTAAAGTTTGTTACCTCTGGTGAAAGGA-ATTTTTAGAATTTAAATTTTGTTGCCTTTGGTTA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCTTTTT-GAATTTAAAGTTCGTTGCCTTTGGTTA
* * *
4328462 AAGTAGATTTTTGG
65 AAGGAGCTTTTTAG
* *
4328476 ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTGAATTTAAAGTTCGTTGCCTTTGGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCTTTTTGAATTTAAAGTTCGTTGCCTTTGGTTAA
*
4328541 AGGAGCTTTTGA-
66 AGGAGCTTTTTAG
* *
4328553 ATTTAAAGTTCGTTGCCTCTGGTGAGAGAAGCTTTTTGAATTTAAAGTTC
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCTTTTTGAATTTAAAGTTC
4328603 TATAGCCTCT
Statistics
Matches: 240, Mismatches: 41, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
77 50 0.21
78 186 0.77
79 4 0.02
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.44
Consensus pattern (78 bp):
ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCTTTTTGAATTTAAAGTTCGTTGCCTTTGGTTAA
AGGAGCTTTTTAG
Found at i:4328517 original size:156 final size:156
Alignment explanation
Indices: 4328233--4328598 Score: 560
Period size: 156 Copynumber: 2.4 Consensus size: 156
4328223 AGTCCTCTTG
* * *
4328233 GCTTTTGGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAATTTTTTA-AATTTAAATTTTGTTGC
1 GCTTTTGG-ATTTAAAGTTTGTTGCCTCTGGTGAAAGGAACTTTTTAGAATTTAAATTTTGTTGC
** *
4328297 CTTTGGTTAAAGTATCTTTTTAGATTTAAAGTTTGTTGCCTCTGGTGAGATGAGCCTTTTGAATT
65 CTTTGGTTAAAGTAGATTTTTAGATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTGAATT
4328362 TAAAGTTCGTTGCCTCTAGTTAAAGGA
130 TAAAGTTCGTTGCCTCTAGTTAAAGGA
*
4328389 GCTTTTTGGATTTAAAGTTTGTTACCTCTGGTGAAAGGAA-TTTTTAGAATTTAAATTTTGTTGC
1 GC-TTTTGGATTTAAAGTTTGTTGCCTCTGGTGAAAGGAACTTTTTAGAATTTAAATTTTGTTGC
*
4328453 CTTTGGTTAAAGTAGATTTTTGGATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTGAATT
65 CTTTGGTTAAAGTAGATTTTTAGATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTGAATT
* *
4328518 TAAAGTTCGTTGCCTTTGGTTAAAGGA
130 TAAAGTTCGTTGCCTCTAGTTAAAGGA
* * *
4328545 GCTTTTGAATTTAAAGTTCGTTGCCTCTGGTGAGA-GAAGCTTTTT-GAATTTAAA
1 GCTTTTGGATTTAAAGTTTGTTGCCTCTGGTGAAAGGAA-CTTTTTAGAATTTAAA
4328599 GTTCTATAGC
Statistics
Matches: 193, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
154 3 0.02
155 44 0.23
156 140 0.73
157 6 0.03
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.44
Consensus pattern (156 bp):
GCTTTTGGATTTAAAGTTTGTTGCCTCTGGTGAAAGGAACTTTTTAGAATTTAAATTTTGTTGCC
TTTGGTTAAAGTAGATTTTTAGATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTGAATTT
AAAGTTCGTTGCCTCTAGTTAAAGGA
Found at i:4328602 original size:39 final size:39
Alignment explanation
Indices: 4328233--4328601 Score: 365
Period size: 39 Copynumber: 9.5 Consensus size: 39
4328223 AGTCCTCTTG
* *
4328233 GCTTTTGGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAA
1 GCTTTTTGAATTTAAAGTTTGTTGCCTCTGGTTAAA-GAA
* * * * *
4328273 -TTTTTTAAATTTAAATTTTGTTGCCTTTGGTTAAAGTA
1 GCTTTTTGAATTTAAAGTTTGTTGCCTCTGGTTAAAGAA
* * *
4328311 TCTTTTT-AGATTTAAAGTTTGTTGCCTCTGGTGAGATG-A
1 GCTTTTTGA-ATTTAAAGTTTGTTGCCTCTGGTTA-AAGAA
* * * *
4328350 GCCTTTTGAATTTAAAGTTCGTTGCCTCTAGTTAAAGGA
1 GCTTTTTGAATTTAAAGTTTGTTGCCTCTGGTTAAAGAA
* * *
4328389 GCTTTTTGGATTTAAAGTTTGTTACCTCTGGTGAAAGGAA
1 GCTTTTTGAATTTAAAGTTTGTTGCCTCTGGTTAAA-GAA
* * *
4328429 --TTTTTAGAATTTAAATTTTGTTGCCTTTGGTTAAAGTA
1 GCTTTTT-GAATTTAAAGTTTGTTGCCTCTGGTTAAAGAA
* * *
4328467 GATTTTTGGATTTAAAGTTTGTTGCCTCTGGTGAGAAG-A
1 GCTTTTTGAATTTAAAGTTTGTTGCCTCTGGTTA-AAGAA
* * * *
4328506 GCCTTTTGAATTTAAAGTTCGTTGCCTTTGGTTAAAGGA
1 GCTTTTTGAATTTAAAGTTTGTTGCCTCTGGTTAAAGAA
* * *
4328545 GC-TTTTGAATTTAAAGTTCGTTGCCTCTGGTGAGAGAA
1 GCTTTTTGAATTTAAAGTTTGTTGCCTCTGGTTAAAGAA
4328583 GCTTTTTGAATTTAAAGTT
1 GCTTTTTGAATTTAAAGTT
4328602 CTATAGCCTC
Statistics
Matches: 274, Mismatches: 43, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
38 49 0.18
39 212 0.77
40 13 0.05
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.44
Consensus pattern (39 bp):
GCTTTTTGAATTTAAAGTTTGTTGCCTCTGGTTAAAGAA
Found at i:4328794 original size:3 final size:3
Alignment explanation
Indices: 4328781--4328825 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
4328771 TTATTCTTTT
*
4328781 TTA TATA TTA TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4328826 TTAAAAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:4329307 original size:20 final size:20
Alignment explanation
Indices: 4329267--4329307 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4329257 ATTCGAGAAA
*
4329267 ATTTGAATTTTTCGGCCACC
1 ATTTGAATTTTTCGACCACC
*
4329287 ATTTGAATTTTTCGACTACC
1 ATTTGAATTTTTCGACCACC
4329307 A
1 A
4329308 AAATCTGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (20 bp):
ATTTGAATTTTTCGACCACC
Found at i:4332609 original size:51 final size:52
Alignment explanation
Indices: 4332527--4332630 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 52
4332517 TATAAGCATA
* * *
4332527 CAAATTTGCCTATTAAAAATCTCTTTCCTCTTAAAATTTTTCTTCTGCAAGT
1 CAAACTTGCCTATTAAAAATCTATTTCCTCTTAAAATTCTTCTTCTGCAAGT
* *
4332579 CAAACTTGCCTATT-AAAATCTATTTCCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAAAATCTATTTCCTCTTAAAATTCTTCTTCTGCAAGT
4332630 C
1 C
4332631 TTATTATCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 34 0.72
52 13 0.28
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (52 bp):
CAAACTTGCCTATTAAAAATCTATTTCCTCTTAAAATTCTTCTTCTGCAAGT
Found at i:4337488 original size:26 final size:27
Alignment explanation
Indices: 4337450--4337500 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
4337440 ATGAAACAGG
*
4337450 AAATGAAAAATGAAAAGTGTTTTTAAA
1 AAATGAAAAATGAAAAATGTTTTTAAA
4337477 AAAT-AAAAATGAAAAATGTTTTTA
1 AAATGAAAAATGAAAAATGTTTTTA
4337501 GATATCAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATGAAAAATGAAAAATGTTTTTAAA
Found at i:4339389 original size:2 final size:2
Alignment explanation
Indices: 4339384--4339408 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4339374 TACCCACGTG
4339384 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 T
4339409 TATTTTATCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4340136 original size:25 final size:25
Alignment explanation
Indices: 4340104--4340171 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
4340094 TATTAATATA
*
4340104 ATTATTAAAATATTAAAAATTATTT
1 ATTATTAAAATATTAAAAATTACTT
**
4340129 ATTATTAAAATATATTGAAATTACTT
1 ATTATTAAAATAT-TAAAAATTACTT
4340155 ATTATTAAAATTATTAA
1 ATTATTAAAA-TATTAA
4340172 TATTAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.36
26 20 0.56
27 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTACTT
Found at i:4340156 original size:26 final size:26
Alignment explanation
Indices: 4340104--4340176 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 26
4340094 TATTAATATA
* *
4340104 ATTATTAAAATAT-TAAAAATTATTT
1 ATTATTAAAATATATTAAAATTACTT
*
4340129 ATTATTAAAATATATTGAAATTACTT
1 ATTATTAAAATATATTAAAATTACTT
*
4340155 ATTATTAAAAT-TATTAATATTA
1 ATTATTAAAATATATTAAAATTA
4340177 AAAATAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 22 0.52
26 20 0.48
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
ATTATTAAAATATATTAAAATTACTT
Found at i:4340177 original size:15 final size:15
Alignment explanation
Indices: 4340140--4340220 Score: 56
Period size: 16 Copynumber: 5.0 Consensus size: 15
4340130 TTATTAAAAT
*
4340140 ATATTGAAATTACTTA
1 ATATTAAAATTA-TTA
*
4340156 TTATTAAAATTATTA
1 ATATTAAAATTATTA
*
4340171 ATATTAAAAATAATTA
1 ATATT-AAAATTATTA
*
4340187 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TA-TTA
4340207 ATATTAAAA-TATTA
1 ATATTAAAATTATTA
4340221 TGTTAACATA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
14 3 0.06
15 9 0.17
16 21 0.40
17 7 0.13
18 2 0.04
19 7 0.13
20 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:4340283 original size:15 final size:15
Alignment explanation
Indices: 4340265--4340540 Score: 149
Period size: 15 Copynumber: 18.5 Consensus size: 15
4340255 TATTATTCTT
4340265 TATATTATTTATT-A
1 TATATTATTTATTAA
4340279 -ATA-TA-TTA-TAA
1 TATATTATTTATTAA
4340290 --TATTATTTATTAA
1 TATATTATTTATTAA
4340303 TA-A-TATTTATTAA
1 TATATTATTTATTAA
4340316 TATATTATTTATTAA
1 TATATTATTTATTAA
*
4340331 TATCTTA-TTA-TAA
1 TATATTATTTATTAA
*
4340344 TAT-TTATTAATTAAA
1 TATATTATTTATT-AA
*
4340359 TTAATAATATTTTATT-A
1 -T-ATATTA-TTTATTAA
4340376 TAATATTATTTATTAATA
1 T-ATATTATTTATT-A-A
4340394 GTATATTATTTATTAA
1 -TATATTATTTATTAA
* *
4340410 TATATTA-TAATATGA
1 TATATTATTTAT-TAA
* * *
4340425 TTTATTAATATAATAA
1 TATATT-ATTTATTAA
*
4340441 AATA-TATTTATTAGTA
1 TATATTATTTATTA--A
4340457 TAATATTATTTATTAA
1 T-ATATTATTTATTAA
*
4340473 TATTAATATTTTATT-A
1 TA-TATTA-TTTATTAA
*
4340489 TA-A-TATTTATTTA
1 TATATTATTTATTAA
*
4340502 TAATATTGTTTATTAA
1 T-ATATTATTTATTAA
4340518 TATATTA-TTATATAA
1 TATATTATTTAT-TAA
*
4340533 TTTATTAT
1 TATATTAT
4340541 AATATTATAA
Statistics
Matches: 206, Mismatches: 22, Indels: 66
0.70 0.07 0.22
Matches are distributed among these distances:
10 3 0.01
11 6 0.03
12 14 0.07
13 30 0.15
14 21 0.10
15 55 0.27
16 33 0.16
17 14 0.07
18 24 0.12
19 6 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:4340309 original size:13 final size:13
Alignment explanation
Indices: 4340270--4340569 Score: 132
Period size: 13 Copynumber: 23.9 Consensus size: 13
4340260 TTCTTTATAT
4340270 TATTTATTAAT-A
1 TATTTATTAATAA
*
4340282 TA-TTA-TAATAT
1 TATTTATTAATAA
4340293 TATTTATTAATAA
1 TATTTATTAATAA
4340306 TATTTATTAATATA
1 TATTTATTAATA-A
4340320 TTATTTATTAAT-A
1 -TATTTATTAATAA
*
4340333 T-CTTATT-ATAA
1 TATTTATTAATAA
4340344 TATTTATTAAT--
1 TATTTATTAATAA
*
4340355 TA--AATTAATAA
1 TATTTATTAATAA
*
4340366 TATTTTATTATAATAT
1 TA-TTTA-T-TAATAA
*
4340382 TATTTATTAATAG
1 TATTTATTAATAA
*
4340395 TATATTATTTATTAA
1 TAT-TTA-TTAATAA
4340410 TATATTA-TAAT-A
1 TAT-TTATTAATAA
4340422 TGATTTATTAAT-A
1 T-ATTTATTAATAA
* *
4340435 TA-ATA-AAAT-A
1 TATTTATTAATAA
4340445 TATTTATTAGTATAA
1 TATTTATTA--ATAA
*
4340460 TA-TTATT--TAT
1 TATTTATTAATAA
*
4340470 TA-ATATTAAT-A
1 TATTTATTAATAA
4340481 T-TTTATT-ATAA
1 TATTTATTAATAA
*
4340492 TATTTATTTATAA
1 TATTTATTAATAA
*
4340505 TATTGT-TTATTAA
1 TATT-TATTAATAA
4340518 TATATTATT-AT-A
1 TAT-TTATTAATAA
4340530 TAATTTATT-ATAA
1 T-ATTTATTAATAA
* *
4340543 TATTATAATATTATA
1 TATT-TATTAATA-A
*
4340558 TTTTTATTAATA
1 TATTTATTAATA
4340570 CAATATTATT
Statistics
Matches: 223, Mismatches: 27, Indels: 74
0.69 0.08 0.23
Matches are distributed among these distances:
9 6 0.03
10 22 0.10
11 27 0.12
12 37 0.17
13 64 0.29
14 25 0.11
15 35 0.16
16 7 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (13 bp):
TATTTATTAATAA
Found at i:4340320 original size:51 final size:49
Alignment explanation
Indices: 4340265--4340579 Score: 216
Period size: 51 Copynumber: 6.2 Consensus size: 49
4340255 TATTATTCTT
4340265 TATATTATTTATTAATATATTATAATATTATTTATTAATAATATTTATTAA
1 TATATTA-TTATTAATATATTATAATATTATTTATTAATAATA-TTATTAA
* * * *
4340316 TATATTATTTATTAATATCTTATTATAATATTTATTAATTAA-ATTAATAA
1 TATATTA-TTATTAATATATTATAATATTATTTATTAA-TAATATTATTAA
* *
4340366 TATTTTATTATAATATTATTTATTAATAGTATATTATTTATTAAT-ATATTA-TAA
1 TATATTATTAT--TA--ATATATT-ATA--ATATTATTTATTAATAATATTATTAA
* * *
4340420 TATGA-T-TTATTAATATAATAAAATA-TATTTATTAGTATAATATTATTTA
1 TAT-ATTATTATTAATATATTATAATATTATTTATTA--ATAATATTATTAA
* * * * * *
4340469 T-TAATATTAATATTTTATTATAATATTTATTTA-TAATATTGTTTATTAA
1 TATATTATTATTAATATATTATAATA-TTATTTATTAATAAT-ATTATTAA
* * * *
4340518 TATATTATTATATAATTTATTATAATATTATAATATT-ATATTTTTATTAA
1 TATATTATTAT-TAATATATTATAATATTAT-TTATTAATAATATTATTAA
* *
4340568 TACAATATTATT
1 TATATTATTATT
4340580 TATAAGTAAA
Statistics
Matches: 213, Mismatches: 28, Indels: 48
0.74 0.10 0.17
Matches are distributed among these distances:
45 9 0.04
46 3 0.01
47 3 0.01
48 14 0.07
49 34 0.16
50 42 0.20
51 67 0.31
52 4 0.02
53 9 0.04
54 10 0.05
55 5 0.02
56 13 0.06
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (49 bp):
TATATTATTATTAATATATTATAATATTATTTATTAATAATATTATTAA
Found at i:4340347 original size:19 final size:18
Alignment explanation
Indices: 4340274--4340547 Score: 71
Period size: 16 Copynumber: 15.3 Consensus size: 18
4340264 TTATATTATT
4340274 TATTAATA--TATTATAA
1 TATTAATATTTATTATAA
4340290 TA-T--TATTTATTAATAA
1 TATTAATATTTATT-ATAA
* * *
4340306 TATTTATTAATATATTAT-T
1 TA-TTAAT-ATTTATTATAA
4340325 TATTAATATCTTATTATAA
1 TATTAATAT-TTATTATAA
*
4340344 TATT--TATTAATTA-AA
1 TATTAATATTTATTATAA
*
4340359 TTAATAATATTTTATTATAA
1 -TATTAATA-TTTATTATAA
* * *
4340379 TATTATTTATTAATAGTATAT
1 TATTA-ATATT--TATTATAA
* *
4340400 TATTTATTAATATATTATAA
1 TA-TTAAT-ATTTATTATAA
* * *
4340420 TA-TGATTTATTAATATAA
1 TATTAATAT-TTATTATAA
**
4340438 TAAAATATATTTATTAGT-A
1 TATTA-ATATTTATTA-TAA
* *
4340457 TAATATTATTTA-T-TAA
1 TATTAATATTTATTATAA
4340473 TATTAATATTTTATTATAA
1 TATTAATA-TTTATTATAA
* *
4340492 TATT--TATTTATAATAT
1 TATTAATATTTATTATAA
* * *
4340508 TGTT--TA-TTAATATAT
1 TATTAATATTTATTATAA
4340523 TATTATATAATTTATTATAA
1 TATTA-AT-ATTTATTATAA
4340543 TATTA
1 TATTA
4340548 TAATATTATA
Statistics
Matches: 189, Mismatches: 36, Indels: 62
0.66 0.13 0.22
Matches are distributed among these distances:
13 2 0.01
15 18 0.10
16 36 0.19
17 13 0.07
18 32 0.17
19 36 0.19
20 31 0.16
21 16 0.08
22 5 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (18 bp):
TATTAATATTTATTATAA
Found at i:4340383 original size:22 final size:23
Alignment explanation
Indices: 4340270--4340508 Score: 87
Period size: 23 Copynumber: 9.8 Consensus size: 23
4340260 TTCTTTATAT
* *
4340270 TATTTATTAATATATTA-TAATAT
1 TATTTATTAAT-TAATATTAATAA
*
4340293 TATTTATTAA-TAATATTTATTAA
1 TATTTATTAATTAATA-TTAATAA
*
4340316 TATATTATTTATTAATATCTTATTATAA
1 TAT-TTATTAATTAATA--TTA--ATAA
4340344 TATTTATTAATTAA-ATTAATAA
1 TATTTATTAATTAATATTAATAA
* * *
4340366 TATTTTATTATAATATTATTTATTAA
1 TA-TTTATTA-ATTAATA-TTAATAA
* *
4340392 TAGTATATTATTTATTAATATATTATAA
1 TA-TTTATTA---ATTAATAT-TAATAA
* *
4340420 TA-TGATTTATTAATA-TAATAA
1 TATTTATTAATTAATATTAATAA
* * * * *
4340441 AATATATTTATTAGTA-TAATAT
1 TATTTATTAATTAATATTAATAA
4340463 TATTTATTAATATTAATATTTTATTATAA
1 TATTTATT-A-ATTAATA--TTA--ATAA
*
4340492 TATTTATTTA-TAATATT
1 TATTTATTAATTAATATT
4340509 GTTTATTAAT
Statistics
Matches: 163, Mismatches: 31, Indels: 43
0.69 0.13 0.18
Matches are distributed among these distances:
21 10 0.06
22 27 0.17
23 31 0.19
24 20 0.12
25 6 0.04
26 26 0.16
27 14 0.09
28 18 0.11
29 11 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TATTTATTAATTAATATTAATAA
Found at i:4340438 original size:18 final size:18
Alignment explanation
Indices: 4340266--4340582 Score: 161
Period size: 18 Copynumber: 17.6 Consensus size: 18
4340256 ATTATTCTTT
4340266 ATATTATTTATTAATATA
1 ATATTATTTATTAATATA
* * *
4340284 TTATAATATTATTTAT-TA
1 ATATTAT-TTATTAATATA
*
4340302 ATAATATTTATTAATATA
1 ATATTATTTATTAATATA
* *
4340320 TTATTTATTAATATCTTATTATA
1 ATA-TTATT--TA--TTAATATA
*
4340343 ATATTTATTAATTAA-ATTA
1 ATA-TTATTTATTAATA-TA
* *
4340362 ATAATA-TT-TTATTATA
1 ATATTATTTATTAATATA
4340378 ATATTATTTATTAATAGT-
1 ATATTATTTATTAATA-TA
4340396 ATATTATTTATTAATATA
1 ATATTATTTATTAATATA
4340414 TTATAATATGATTTATTAATATA
1 --AT-AT-T-ATTTATTAATATA
*
4340437 ATAAAATATATTTATTAGTATA
1 AT---AT-TATTTATTAATATA
4340459 ATATTATTTATTAATATTA
1 ATATTATTTATTAATA-TA
4340478 ATA-T-TTTA-T--TAT-
1 ATATTATTTATTAATATA
4340490 A-A-TATTTATT--TATA
1 ATATTATTTATTAATATA
*
4340504 ATATTGTTTATTAATATA
1 ATATTATTTATTAATATA
* *
4340522 TTATTA--TA-TAATTTA
1 ATATTATTTATTAATATA
* * *
4340537 TTATAATATTA-TAATATT
1 ATATTAT-TTATTAATATA
*
4340555 ATATT-TTTATTAATACA
1 ATATTATTTATTAATATA
4340572 ATATTATTTAT
1 ATATTATTTAT
4340583 AAGTAAATTT
Statistics
Matches: 235, Mismatches: 31, Indels: 66
0.71 0.09 0.20
Matches are distributed among these distances:
11 2 0.01
12 5 0.02
13 5 0.02
14 3 0.01
15 12 0.05
16 23 0.10
17 27 0.11
18 74 0.31
19 27 0.11
20 2 0.01
21 7 0.03
22 15 0.06
23 33 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (18 bp):
ATATTATTTATTAATATA
Found at i:4340506 original size:113 final size:114
Alignment explanation
Indices: 4340339--4340582 Score: 286
Period size: 113 Copynumber: 2.1 Consensus size: 114
4340329 AATATCTTAT
*
4340339 TATAATATTTATTAATTAAATTAATAATATTTTATTATAATATTATTTATTAATAGTATATTATT
1 TATAATA-TTATTTATTAAATTAATAATATTTTATTATAATATTA-TT-TT-ATA--ATATTATT
* *
4340404 TATTAATATATTATAATATGATTTA-T-TAATATAATAA-A-ATATATTTATTAG
60 TATTAATATATTATAATATAATTTATTATAATATAATAATATATATATTTATTAA
* *
4340455 TATAATATTATTTATT-AA-TATTAATATTTTATTATAATATT-TATTTATAATATTGTTTATTA
1 TATAATATTATTTATTAAATTAATAATATTTTATTATAATATTAT-TTTATAATATTATTTATTA
* * *
4340517 ATATATTATTATATAATTTATTATAATATTATAATATTATATTTTTATTAA
65 ATATATTATAATATAATTTATTATAATATAATAATA-TATATATTTATTAA
*
4340568 TACAATATTATTTAT
1 TATAATATTATTTAT
4340583 AAGTAAATTT
Statistics
Matches: 113, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
108 30 0.27
109 1 0.01
110 13 0.12
111 4 0.04
112 1 0.01
113 47 0.42
114 2 0.02
115 8 0.07
116 7 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (114 bp):
TATAATATTATTTATTAAATTAATAATATTTTATTATAATATTATTTTATAATATTATTTATTAA
TATATTATAATATAATTTATTATAATATAATAATATATATATTTATTAA
Found at i:4342568 original size:53 final size:53
Alignment explanation
Indices: 4342468--4342576 Score: 164
Period size: 53 Copynumber: 2.1 Consensus size: 53
4342458 AAATTTATTT
* * *
4342468 TATTTTACAAGTTTTATTTCTAAATTTTTCACTATGTGGGCCTAATTTAGAAA
1 TATTTTACAAGTTTCATTTCTAAATTTTTCACTATGTGAGCCAAATTTAGAAA
* * *
4342521 TATTTTACAAGTTTCATTTCTAAATTTTTCACTATTTTAGTCAAATTTAGAAA
1 TATTTTACAAGTTTCATTTCTAAATTTTTCACTATGTGAGCCAAATTTAGAAA
4342574 TAT
1 TAT
4342577 CTTTTTTAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (53 bp):
TATTTTACAAGTTTCATTTCTAAATTTTTCACTATGTGAGCCAAATTTAGAAA
Found at i:4344518 original size:79 final size:80
Alignment explanation
Indices: 4344426--4344584 Score: 257
Period size: 79 Copynumber: 2.0 Consensus size: 80
4344416 GCACAGTCTT
*
4344426 TCTTAGCATTGTTTCCACAATCTTGGCAGTTCATGCCTC-GTCTCGTAACCATAAAACCTACTGA
1 TCTTAGCATTGTTTCCACAATCTTGGCAGTTCATGCCTCTGTCTCATAACCATAAAACCTACTGA
4344490 TCTCGAAGACGACTC
66 TCTCGAAGACGACTC
* * *
4344505 TCTTAGCTTTGTTTCCACAATCTTGGCAGTTCATGCCTCTTTGTCTCATAGCCATAAAACCTGCT
1 TCTTAGCATTGTTTCCACAATCTTGGCAGTTCATGCCTC--TGTCTCATAACCATAAAACCTACT
4344570 GATCTCGAAGACGAC
64 GATCTCGAAGACGAC
4344585 ACATCAGAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
79 38 0.52
82 35 0.48
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (80 bp):
TCTTAGCATTGTTTCCACAATCTTGGCAGTTCATGCCTCTGTCTCATAACCATAAAACCTACTGA
TCTCGAAGACGACTC
Found at i:4366320 original size:20 final size:20
Alignment explanation
Indices: 4366287--4366324 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4366277 AAAAAATTTT
* *
4366287 AATTTTTTATTTAATTTATA
1 AATTTATTAATTAATTTATA
4366307 AATTTATTAATTAATTTA
1 AATTTATTAATTAATTTA
4366325 ATATTGTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTATTAATTAATTTATA
Found at i:4366462 original size:29 final size:29
Alignment explanation
Indices: 4366399--4366464 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
4366389 TAACAGATAT
4366399 TTAATATATTATTTAAATTTTAAAAATTT-
1 TTAATATATTATTTAAA-TTTAAAAATTTA
* *
4366428 TTAATATGTTATTTAAA-TTATAAATTTA
1 TTAATATATTATTTAAATTTAAAAATTTA
4366456 TTAA-ATATT
1 TTAATATATT
4366465 GTAACATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 13 0.39
28 4 0.12
29 16 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TTAATATATTATTTAAATTTAAAAATTTA
Found at i:4366588 original size:114 final size:114
Alignment explanation
Indices: 4366383--4366589 Score: 306
Period size: 114 Copynumber: 1.8 Consensus size: 114
4366373 TAAATATCAT
* * * *
4366383 ATTAATTAACAGATATTTAATATATTATTTAAATTTTAAAAATTTTTAATATGTTATTTAAATTA
1 ATTAATTAACAAATATTCAATATAATATTTAAATTTTAAAAATTTTTAATATCTTATTTAAATTA
* * *
4366448 TAAATTTATTAAATATTGTAACATTTTATAGATTGTTTTTCATTGTTAC
66 TAAATTTATTAAATAATATAAAATTTTATAGATTGTTTTTCATTGTTAC
* * * *
4366497 ATTAATTAATAAATATTCAATGTAATATTTACATTTTTAAAATTTTTAATATCTTATTTAAATTA
1 ATTAATTAACAAATATTCAATATAATATTTAAATTTTAAAAATTTTTAATATCTTATTTAAATTA
*
4366562 TAAATTTATTAATTAATATAAAATTTTA
66 TAAATTTATTAAATAATATAAAATTTTA
4366590 AAAAAAATTA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
114 81 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (114 bp):
ATTAATTAACAAATATTCAATATAATATTTAAATTTTAAAAATTTTTAATATCTTATTTAAATTA
TAAATTTATTAAATAATATAAAATTTTATAGATTGTTTTTCATTGTTAC
Found at i:4366614 original size:16 final size:15
Alignment explanation
Indices: 4366592--4366635 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
4366582 AAATTTTAAA
4366592 AAAAATTATTATCATT
1 AAAAATTATTAT-ATT
*
4366608 TAAAATTAATTATATT
1 AAAAATT-ATTATATT
*
4366624 AAAAATAATTAT
1 AAAAATTATTAT
4366636 TATATTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 14 0.58
17 5 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAAATTATTATATT
Found at i:4366627 original size:15 final size:17
Alignment explanation
Indices: 4366593--4366635 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
4366583 AATTTTAAAA
4366593 AAAATT-ATTATCATTT
1 AAAATTAATTATCATTT
4366609 AAAATTAATTAT-A-TT
1 AAAATTAATTATCATTT
*
4366624 AAAAATAATTAT
1 AAAATTAATTAT
4366636 TATATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 13 0.52
16 7 0.28
17 5 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAATTATCATTT
Found at i:4367847 original size:146 final size:146
Alignment explanation
Indices: 4367583--4367870 Score: 540
Period size: 146 Copynumber: 2.0 Consensus size: 146
4367573 AAGGGGTTAC
* *
4367583 ACGGTAGAGATCGTTAGGCCCCTCGGTTTCCTCTCCTTGAACCGGAAAGATTACGATATGGCATT
1 ACGGTAGAGATCGTTAGGCCCCTCGGTTTCCCCTCCTTGAACCGAAAAGATTACGATATGGCATT
4367648 TGAGTAGGAGGGATGCCATCGAGCCTAAGGGATGCGCGAGCTAGCAAGCAGGCACGCTGCTAGAC
66 TGAGTAGGAGGGATGCCATCGAGCCTAAGGGATGCGCGAGCTAGCAAGCAGGCACGCTGCTAGAC
*
4367713 TCTTATGGCTAAAGAG
131 CCTTATGGCTAAAGAG
4367729 ACGGTAGAGATCGTTAGGCCCCTCGGTTTCCCCTCCTTGAACCGAAAAGATTACGATATGGCATT
1 ACGGTAGAGATCGTTAGGCCCCTCGGTTTCCCCTCCTTGAACCGAAAAGATTACGATATGGCATT
*
4367794 TGAGTAGGAGGGATGCCATCGAGCCTGAGGGATGCGCGAGCTAGCAAGCAGGCACGCTGCTAGAC
66 TGAGTAGGAGGGATGCCATCGAGCCTAAGGGATGCGCGAGCTAGCAAGCAGGCACGCTGCTAGAC
4367859 CCTTATGGCTAA
131 CCTTATGGCTAA
4367871 TCTTTAGAGG
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 138 1.00
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.22
Consensus pattern (146 bp):
ACGGTAGAGATCGTTAGGCCCCTCGGTTTCCCCTCCTTGAACCGAAAAGATTACGATATGGCATT
TGAGTAGGAGGGATGCCATCGAGCCTAAGGGATGCGCGAGCTAGCAAGCAGGCACGCTGCTAGAC
CCTTATGGCTAAAGAG
Found at i:4378237 original size:72 final size:71
Alignment explanation
Indices: 4378121--4378262 Score: 216
Period size: 72 Copynumber: 2.0 Consensus size: 71
4378111 ACGGAACAGG
* * *
4378121 GCTGTTCTTACTTTGTCTTATGTTCCTAGTTTATTCCTAATGAATG-CATATACTTCATTCCTGC
1 GCTGTTCTTACTTTGTCTTAAGTTCCTAGTTTATTCCTAATGAATGTCA-ATACTTCAATCCAGC
4378185 AAGCAAA
65 AAGCAAA
4378192 GCTGTTCTTACTTTTAGTC-TAAGTTCCTAGTTTATTCCTAATGAATGTCAATACTTCAATCCAG
1 GCTGTTCTTAC-TTT-GTCTTAAGTTCCTAGTTTATTCCTAATGAATGTCAATACTTCAATCCAG
4378256 CAAGCAA
64 CAAGCAA
4378263 TCAATGACAA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
71 11 0.17
72 49 0.75
73 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (71 bp):
GCTGTTCTTACTTTGTCTTAAGTTCCTAGTTTATTCCTAATGAATGTCAATACTTCAATCCAGCA
AGCAAA
Found at i:4379155 original size:29 final size:29
Alignment explanation
Indices: 4379122--4379182 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
4379112 CAAACATAGA
*
4379122 CAAAAAATATACATACATATGTATTATAT
1 CAAAAAATATACATACATAAGTATTATAT
4379151 CAAAAAATATACATACATAAGTATTATAT
1 CAAAAAATATACATACATAAGTATTATAT
4379180 CAA
1 CAA
4379183 TCAGAACAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (29 bp):
CAAAAAATATACATACATAAGTATTATAT
Found at i:4379308 original size:19 final size:19
Alignment explanation
Indices: 4379284--4379324 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4379274 AGTATAGCTG
*
4379284 AGATGAAACAAATAAGATT
1 AGATGAAACAAACAAGATT
*
4379303 AGATGAAACATACAAGATT
1 AGATGAAACAAACAAGATT
4379322 AGA
1 AGA
4379325 CTGCAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.07, G:0.17, T:0.20
Consensus pattern (19 bp):
AGATGAAACAAACAAGATT
Found at i:4386975 original size:134 final size:134
Alignment explanation
Indices: 4386778--4387046 Score: 520
Period size: 134 Copynumber: 2.0 Consensus size: 134
4386768 AATCCTGACA
*
4386778 ATGGCCGCTTATTGGGGTCACACCTATCTATCCCAGATTTTTTGTACCAAAAAAAAAAAAAAAAG
1 ATGGCCACTTATTGGGGTCACACCTATCTATCCCAGATTTTTTGTACCAAAAAAAAAAAAAAAAG
4386843 GCTTTCAGAGTAAACAAATTGGAAAGTTCTGGCCACTGGAAACTTAATTCAGGACCCATATAAAG
66 GCTTTCAGAGTAAACAAATTGGAAAGTTCTGGCCACTGGAAACTTAATTCAGGACCCATATAAAG
4386908 TAAG
131 TAAG
*
4386912 ATGGCCACTTGTTGGGGTCACACCTATCTATCCCAGATTTTTTGTACCAAAAAAAAAAAAAAAAG
1 ATGGCCACTTATTGGGGTCACACCTATCTATCCCAGATTTTTTGTACCAAAAAAAAAAAAAAAAG
4386977 GCTTTCAGAGTAAACAAATTGGAAAGTTCTGGCCACTGGAAACTTAATTCAGGACCCATATAAAG
66 GCTTTCAGAGTAAACAAATTGGAAAGTTCTGGCCACTGGAAACTTAATTCAGGACCCATATAAAG
4387042 TAAG
131 TAAG
4387046 A
1 A
4387047 GTTTCAGATC
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (134 bp):
ATGGCCACTTATTGGGGTCACACCTATCTATCCCAGATTTTTTGTACCAAAAAAAAAAAAAAAAG
GCTTTCAGAGTAAACAAATTGGAAAGTTCTGGCCACTGGAAACTTAATTCAGGACCCATATAAAG
TAAG
Found at i:4388645 original size:33 final size:34
Alignment explanation
Indices: 4388577--4388646 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
4388567 ATAATTTTCA
* * *
4388577 AAAATATACTTTTGATAAATTATAACACTTTTTG
1 AAAATAAACTTTTGATAAATTATAACAATTCTTG
*
4388611 AAAATAAATTTTTGATAAATT-TAACAATTCTTG
1 AAAATAAACTTTTGATAAATTATAACAATTCTTG
4388644 AAA
1 AAA
4388647 TCCAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (34 bp):
AAAATAAACTTTTGATAAATTATAACAATTCTTG
Found at i:4388847 original size:20 final size:20
Alignment explanation
Indices: 4388822--4388859 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4388812 ATATAAAATA
*
4388822 ATAAATATAATTTTTATTTT
1 ATAAATATAAATTTTATTTT
*
4388842 ATAAATTTAAATTTTATT
1 ATAAATATAAATTTTATT
4388860 ATTTTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATAAATATAAATTTTATTTT
Found at i:4389273 original size:16 final size:16
Alignment explanation
Indices: 4389252--4389282 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4389242 AAATAAATGT
4389252 TTTTATTAATTTTAAA
1 TTTTATTAATTTTAAA
*
4389268 TTTTATTATTTTTAA
1 TTTTATTAATTTTAA
4389283 TAATAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTAATTTTAAA
Found at i:4389899 original size:30 final size:30
Alignment explanation
Indices: 4389840--4389899 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
4389830 ATATATTTTT
* * * * *
4389840 TTATTTATATATATGTGAATTATATATAAA
1 TTATTTACATATATATAAATTAAAAATAAA
4389870 TTATTTACATATATATAAATTAAAAATAAA
1 TTATTTACATATATATAAATTAAAAATAAA
4389900 AATTATATAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (30 bp):
TTATTTACATATATATAAATTAAAAATAAA
Found at i:4389937 original size:13 final size:13
Alignment explanation
Indices: 4389919--4389957 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4389909 GTTTACTATA
4389919 TAATTTTTATTTT
1 TAATTTTTATTTT
* * *
4389932 TAATTTTGATATA
1 TAATTTTTATTTT
4389945 TAATTTTTATTTT
1 TAATTTTTATTTT
4389958 ATATATATAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TAATTTTTATTTT
Found at i:4389966 original size:20 final size:20
Alignment explanation
Indices: 4389927--4389964 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
4389917 TATAATTTTT
4389927 ATTTTTAATTTTGATATATA
1 ATTTTTAATTTTGATATATA
4389947 ATTTTT-ATTTT-ATATATA
1 ATTTTTAATTTTGATATATA
4389965 TATGAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
ATTTTTAATTTTGATATATA
Found at i:4392851 original size:17 final size:18
Alignment explanation
Indices: 4392822--4392859 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4392812 AATGTTTTAA
4392822 AAAATATATAAAATA-TT
1 AAAATATATAAAATACTT
4392839 AAAATAT-TAAAAATACTT
1 AAAATATAT-AAAATACTT
4392857 AAA
1 AAA
4392860 TAACAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 13 0.68
18 5 0.26
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATATAAAATACTT
Found at i:4394469 original size:65 final size:66
Alignment explanation
Indices: 4394359--4394489 Score: 203
Period size: 65 Copynumber: 2.0 Consensus size: 66
4394349 CATGTTTTAT
* * *
4394359 TTTTTAAAATTAATTTTTTATATATACCCTAAAAAAATAAATCATTATCTTAATATTAGTTATGA
1 TTTTTAAAATTAATTTTTTATATATACACTAAAAAAACAAATCATTATCTTAATATTACTTATGA
4394424 A
66 A
*
4394425 TTTTT-AAATTAATTTTTTTATATATACACT-AAAAAACACATCATTATCTTAATATTACTTATG
1 TTTTTAAAATTAA-TTTTTTATATATACACTAAAAAAACAAATCATTATCTTAATATTACTTATG
4394488 AA
65 AA
4394490 ATTAAAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 39 0.65
66 21 0.35
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (66 bp):
TTTTTAAAATTAATTTTTTATATATACACTAAAAAAACAAATCATTATCTTAATATTACTTATGA
A
Found at i:4402598 original size:25 final size:25
Alignment explanation
Indices: 4402548--4402599 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
4402538 TTATGCACAT
* *
4402548 TTTAATAATTATATAAATTAATAAA
1 TTTAATAATTATATAAAATAAAAAA
*
4402573 TTTAAT-ATTATTTAAAAATAAAAAA
1 TTTAATAATTATAT-AAAATAAAAAA
4402598 TT
1 TT
4402600 GTAAAATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTAATAATTATATAAAATAAAAAA
Found at i:4402796 original size:17 final size:17
Alignment explanation
Indices: 4402742--4402796 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 17
4402732 TTTTAATAAA
*
4402742 ATAAAAATAAAAT-TAC
1 ATAAAAATAAAATATAT
* *
4402758 AT-TATATAAAATAT-T
1 ATAAAAATAAAATATAT
4402773 A-AAAAATAAAATATAT
1 ATAAAAATAAAATATAT
4402789 ATAAAAAT
1 ATAAAAAT
4402797 TATTTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
15 19 0.63
16 5 0.17
17 6 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAATAAAATATAT
Found at i:4408107 original size:37 final size:37
Alignment explanation
Indices: 4408037--4408108 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
4408027 TAGCAAGAGT
* * * *
4408037 TAGTTGAAATGTAGAAATCACATAGTGCCAAACTTGC
1 TAGTTGAAATGCACAAATCACATAGGGCAAAACTTGC
**
4408074 TAGTTGAAATGCACAAATCATGTAGGGCAAAACTT
1 TAGTTGAAATGCACAAATCACATAGGGCAAAACTT
4408109 ACTGCTACAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (37 bp):
TAGTTGAAATGCACAAATCACATAGGGCAAAACTTGC
Found at i:4424781 original size:33 final size:33
Alignment explanation
Indices: 4424744--4424806 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
4424734 TGATTAATGC
* *
4424744 TTTTGCTTTTTGTCTTT-TATTCATTTTTTTATT
1 TTTTGCCTTTTG-CTTTCTATACATTTTTTTATT
4424777 TTTTGCCTTTTGCTTTCTATACATTTTTTT
1 TTTTGCCTTTTGCTTTCTATACATTTTTTT
4424807 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (33 bp):
TTTTGCCTTTTGCTTTCTATACATTTTTTTATT
Found at i:4429409 original size:21 final size:20
Alignment explanation
Indices: 4429383--4429428 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
4429373 TATATTTATA
4429383 TTAAAAATAATATT-TTATATT
1 TTAAAAAT-ATATTATTA-ATT
*
4429404 TTAAAAATATTTTATTAATT
1 TTAAAAATATATTATTAATT
4429424 TTAAA
1 TTAAA
4429429 TCAAATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAAAATATATTATTAATT
Found at i:4429424 original size:20 final size:18
Alignment explanation
Indices: 4429377--4429428 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
4429367 TAATTTTATA
**
4429377 TTTATATTAAAAATAATAT
1 TTTATATTTTAAA-AATAT
4429396 TTTATATTTTAAAAATAT
1 TTTATATTTTAAAAATAT
4429414 TTTATTAATTTTAAA
1 TTTA-T-ATTTTAAA
4429429 TCAAATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 12 0.41
20 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATATTTTAAAAATAT
Found at i:4429459 original size:31 final size:32
Alignment explanation
Indices: 4429414--4429498 Score: 84
Period size: 33 Copynumber: 2.7 Consensus size: 32
4429404 TTAAAAATAT
*
4429414 TTTAT-TAATTTTAAATCAAATCAAA-TAAAA
1 TTTATATAATATTAAATCAAATCAAATTAAAA
* * * *
4429444 TTTATATAATATTAAATCATATTAAATTTATA
1 TTTATATAATATTAAATCAAATCAAATTAAAA
* *
4429476 TATTATAAAATATAAAATCAAAT
1 T-TTATATAATATTAAATCAAAT
4429499 TAAAATTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 5 0.11
31 17 0.39
32 4 0.09
33 18 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (32 bp):
TTTATATAATATTAAATCAAATCAAATTAAAA
Found at i:4429461 original size:26 final size:26
Alignment explanation
Indices: 4429431--4429486 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
4429421 ATTTTAAATC
*
4429431 AAATCAAATAAAATTTATATAATATT
1 AAATCAAATAAAATTTATATAATATA
* * *
4429457 AAATCATATTAAATTTATATATTATA
1 AAATCAAATAAAATTTATATAATATA
4429483 AAAT
1 AAAT
4429487 ATAAAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATCAAATAAAATTTATATAATATA
Found at i:4431656 original size:14 final size:14
Alignment explanation
Indices: 4431637--4431672 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4431627 AATTTTTTTC
4431637 TTAAAAATTATATT
1 TTAAAAATTATATT
* *
4431651 TTAAAACTTTTATT
1 TTAAAAATTATATT
4431665 TTAAAAAT
1 TTAAAAAT
4431673 ATACGTGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAAAATTATATT
Found at i:4450514 original size:3 final size:3
Alignment explanation
Indices: 4450506--4450562 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
4450496 AATCATGGTT
* * *
4450506 ATG ATG ATG ATG ATG ATG ATG GTG ATG GTG ATG ATG ATG ATG GTG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
4450554 ATG ATG ATG
1 ATG ATG ATG
4450563 GAGTTCCGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.39, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:4450526 original size:15 final size:15
Alignment explanation
Indices: 4450500--4450563 Score: 101
Period size: 15 Copynumber: 4.3 Consensus size: 15
4450490 CAAGATAATC
*
4450500 ATGGTTATGATGATG
1 ATGGTGATGATGATG
* *
4450515 ATGATGATGATGGTG
1 ATGGTGATGATGATG
4450530 ATGGTGATGATGATG
1 ATGGTGATGATGATG
4450545 ATGGTGATGATGATG
1 ATGGTGATGATGATG
4450560 ATGG
1 ATGG
4450564 AGTTCCGGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.34
Consensus pattern (15 bp):
ATGGTGATGATGATG
Found at i:4455281 original size:30 final size:29
Alignment explanation
Indices: 4455238--4455307 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
4455228 TTCGTCAATC
*
4455238 TAAAAAATCAATTGAATAGAAATAAAAAAT
1 TAAAAAATTAATTG-ATAGAAATAAAAAAT
* * * *
4455268 TAAAAACTTAATTGATTGTAATAAAATAT
1 TAAAAAATTAATTGATAGAAATAAAAAAT
*
4455297 TAAAAATTTAA
1 TAAAAAATTAA
4455308 ATAATTATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (29 bp):
TAAAAAATTAATTGATAGAAATAAAAAAT
Found at i:4461797 original size:21 final size:20
Alignment explanation
Indices: 4461764--4461803 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4461754 CTAATTTTTT
*
4461764 AAAAATTATATATAAATTTA
1 AAAAATTAAATATAAATTTA
*
4461784 AAAAATTAAAATATATATTT
1 AAAAATT-AAATATAAATTT
4461804 TATATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTAAATATAAATTTA
Found at i:4462020 original size:13 final size:13
Alignment explanation
Indices: 4462002--4462026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4461992 TTGAAAAATC
4462002 TTAAATGAAATTT
1 TTAAATGAAATTT
4462015 TTAAATGAAATT
1 TTAAATGAAATT
4462027 CGTTAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAAATGAAATTT
Done.