Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 40
Found at i:8106915 original size:20 final size:20
Alignment explanation
Indices: 8106857--8106916 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 20
8106847 AATTTAGAAG
8106857 TTTTTATGTATTTAATTATATAT
1 TTTTTAT-T-TTTAATTA-ATAT
*
8106880 TTTTTAGTTTTT--TTAATCT
1 TTTTTA-TTTTTAATTAATAT
8106899 TTTTTATTTTTAATTAAT
1 TTTTTATTTTTAATTAAT
8106917 TTATATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 5 0.15
19 9 0.27
20 8 0.24
22 3 0.09
23 7 0.21
24 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTTATTTTTAATTAATAT
Found at i:8107179 original size:21 final size:20
Alignment explanation
Indices: 8107153--8107196 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8107143 GTTGATCATT
*
8107153 ACGGTGATGATATGACAGTCC
1 ACGGTGATAAT-TGACAGTCC
* *
8107174 ACGGTGCTAATTGACAGTTC
1 ACGGTGATAATTGACAGTCC
8107194 ACG
1 ACG
8107197 ATGGTTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (20 bp):
ACGGTGATAATTGACAGTCC
Found at i:8107427 original size:21 final size:17
Alignment explanation
Indices: 8107374--8107413 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
8107364 ATACTAAAAA
8107374 TAAAAATT-AA-ATTAT
1 TAAAAATTAAATATTAT
8107389 TAAAAATTAAATATTTAT
1 TAAAAATTAAATA-TTAT
8107407 TAAAAAT
1 TAAAAAT
8107414 ACTAAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 2 0.09
17 1 0.05
18 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAAATTAAATATTAT
Found at i:8117891 original size:20 final size:21
Alignment explanation
Indices: 8117843--8117891 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8117833 ACCAAATAAG
8117843 AAGACAG-AAAATGTGATACA
1 AAGACAGAAAAATGTGATACA
*
8117863 AAGATAGAAAAATGTG-TCACA
1 AAGACAGAAAAATGTGAT-ACA
8117884 AA-ACAGAA
1 AAGACAGAA
8117892 TTATTCTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.57, C:0.10, G:0.18, T:0.14
Consensus pattern (21 bp):
AAGACAGAAAAATGTGATACA
Found at i:8118150 original size:31 final size:31
Alignment explanation
Indices: 8118115--8118179 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
8118105 TCAAAAAACA
* *
8118115 TAATATATGAG-CATTTTCGCTTTTATTTAAT
1 TAATATATG-GTCACTTTCGCTTTTATATAAT
*
8118146 TAATATATGGTCACTTTCGTTTTTATATAAT
1 TAATATATGGTCACTTTCGCTTTTATATAAT
8118177 TAA
1 TAA
8118180 GATGTGATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (31 bp):
TAATATATGGTCACTTTCGCTTTTATATAAT
Found at i:8118191 original size:31 final size:31
Alignment explanation
Indices: 8118119--8118191 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
8118109 AAAACATAAT
* * * *
8118119 ATATGAGCATTTTCGCTTTTATTTAATTAAT
1 ATATGATCACTTTCGCTTTTATATAATTAAG
* *
8118150 ATATGGTCACTTTCGTTTTTATATAATTAAG
1 ATATGATCACTTTCGCTTTTATATAATTAAG
*
8118181 ATGTGATCACT
1 ATATGATCACT
8118192 ACGGGTTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (31 bp):
ATATGATCACTTTCGCTTTTATATAATTAAG
Found at i:8121185 original size:22 final size:22
Alignment explanation
Indices: 8121150--8121194 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8121140 CAAAACATTT
8121150 AAAATTAAAAATATA-AAACTAA
1 AAAATTAAAAATATATAAA-TAA
* *
8121172 AAAATTATATATATATAAATAA
1 AAAATTAAAAATATATAAATAA
8121194 A
1 A
8121195 CATTTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTAAAAATATATAAATAA
Found at i:8121245 original size:27 final size:27
Alignment explanation
Indices: 8121214--8121302 Score: 169
Period size: 27 Copynumber: 3.3 Consensus size: 27
8121204 AGATGCCATG
8121214 TACATATACACATGTACACACGTGTTT
1 TACATATACACATGTACACACGTGTTT
8121241 TACATATACACATGTACACACGTGTTT
1 TACATATACACATGTACACACGTGTTT
8121268 TACATATACACATGTACACACGTGTTT
1 TACATATACACATGTACACACGTGTTT
*
8121295 TATATATA
1 TACATATA
8121303 TAAGAAAGAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (27 bp):
TACATATACACATGTACACACGTGTTT
Found at i:8133110 original size:21 final size:21
Alignment explanation
Indices: 8133045--8133122 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
8133035 TTGGTGCAGA
* *
8133045 GGGAATCGATCCCCCCTG-A-
1 GGGAACCGATTCCCCCTGAAG
*
8133064 GGGAACCGATTCCCCTTTGAAG
1 GGGAACCGATTCCCC-CTGAAG
8133086 GGGAACCGATTCCCCCT-ACAG
1 GGGAACCGATTCCCCCTGA-AG
* *
8133107 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
8133123 CTGGGGTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 13 0.27
20 3 0.06
21 18 0.37
22 15 0.31
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.17
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTGAAG
Found at i:8135437 original size:13 final size:13
Alignment explanation
Indices: 8135419--8135470 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
8135409 CATTTTTTTA
8135419 ATTTCAAAACTTG
1 ATTTCAAAACTTG
* *
8135432 ATTTCAAAATTTTTCTA
1 ATTTCAAAA---CT-TG
8135449 ATTTCAAAACTTG
1 ATTTCAAAACTTG
8135462 ATTTCAAAA
1 ATTTCAAAA
8135471 ATCTTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 19 0.61
14 1 0.03
16 1 0.03
17 10 0.32
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (13 bp):
ATTTCAAAACTTG
Found at i:8135451 original size:30 final size:30
Alignment explanation
Indices: 8135410--8135470 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
8135400 TTCTAATTTC
*
8135410 ATTTTTTTAATTTCAAAACTTGATTTCAAA
1 ATTTTTCTAATTTCAAAACTTGATTTCAAA
8135440 ATTTTTCTAATTTCAAAACTTGATTTCAAA
1 ATTTTTCTAATTTCAAAACTTGATTTCAAA
8135470 A
1 A
8135471 ATCTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.48
Consensus pattern (30 bp):
ATTTTTCTAATTTCAAAACTTGATTTCAAA
Found at i:8154201 original size:33 final size:33
Alignment explanation
Indices: 8154161--8154226 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
8154151 GGTTTTTGTT
*
8154161 TTTGGTGTAGTTGTTAAGTCTTATGTAATTTTG
1 TTTGGTGTAATTGTTAAGTCTTATGTAATTTTG
* *
8154194 TTTGGTGTAATTTTTAAGTCTTATGTACTTTTG
1 TTTGGTGTAATTGTTAAGTCTTATGTAATTTTG
8154227 GTATATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.18, C:0.05, G:0.21, T:0.56
Consensus pattern (33 bp):
TTTGGTGTAATTGTTAAGTCTTATGTAATTTTG
Found at i:8157918 original size:22 final size:22
Alignment explanation
Indices: 8157890--8157945 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
8157880 TATATTATTC
8157890 TTAAATTCATA-TTTTTATTTTT
1 TTAAATTCATATTTTTTA-TTTT
*
8157912 TTAAATTCATGTTTTTTATTTT
1 TTAAATTCATATTTTTTATTTT
*
8157934 TTAAATTAATAT
1 TTAAATTCATAT
8157946 CTTAAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTAAATTCATATTTTTTATTTT
Found at i:8157952 original size:13 final size:13
Alignment explanation
Indices: 8157934--8157958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8157924 TTTTTATTTT
8157934 TTAAATTAATATC
1 TTAAATTAATATC
8157947 TTAAATTAATAT
1 TTAAATTAATAT
8157959 GAATTTATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAATTAATATC
Found at i:8157992 original size:13 final size:13
Alignment explanation
Indices: 8157974--8158000 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8157964 TATATTTTTT
8157974 AGATATGAATTTA
1 AGATATGAATTTA
8157987 AGATATGAATTTA
1 AGATATGAATTTA
8158000 A
1 A
8158001 AAAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
AGATATGAATTTA
Found at i:8158133 original size:12 final size:12
Alignment explanation
Indices: 8158100--8158135 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8158090 TTAATTTAAG
*
8158100 TTTATATATATA
1 TTTATATATTTA
*
8158112 TATATATATTTA
1 TTTATATATTTA
8158124 TTTATATATTTA
1 TTTATATATTTA
8158136 AAAAAAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTATATATTTA
Found at i:8161785 original size:13 final size:13
Alignment explanation
Indices: 8161745--8161776 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8161735 ATCATAAATC
8161745 TATGACACGCATT
1 TATGACACGCATT
*
8161758 TATGACACACATT
1 TATGACACGCATT
8161771 TATGAC
1 TATGAC
8161777 GCGTATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (13 bp):
TATGACACGCATT
Found at i:8172396 original size:34 final size:33
Alignment explanation
Indices: 8172343--8172446 Score: 129
Period size: 34 Copynumber: 3.1 Consensus size: 33
8172333 CCTTACAAAC
* *
8172343 TCCCTAGTTTTTC-CGGGCTAAACTAGAACATT
1 TCCCTAGTTTTACACGGGCTAAGCTAGAACATT
*
8172375 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTACACGGGCTAAGCTAGAACATT
* * *
8172409 TTCCTAGATTTTACACGGGCTAAGCCAAAACATT
1 TCCCTAG-TTTTACACGGGCTAAGCTAGAACATT
8172443 TCCC
1 TCCC
8172447 CTTTACAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 7 0.11
33 5 0.08
34 49 0.80
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAGCTAGAACATT
Found at i:8172877 original size:21 final size:21
Alignment explanation
Indices: 8172852--8172914 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
8172842 AAACCATTCA
*
8172852 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
8172873 GGGGGAATCTGTACCTCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
8172894 GGGGAAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
8172915 AGAATCTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.19
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:8179830 original size:22 final size:22
Alignment explanation
Indices: 8179791--8179833 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8179781 AATGTTTATG
** *
8179791 GAACTCGTTATGTTGAGGTGAT
1 GAACTCGTTACCTCGAGGTGAT
8179813 GAACTCGTTACCTCGAGGTGA
1 GAACTCGTTACCTCGAGGTGA
8179834 CGAGTTCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (22 bp):
GAACTCGTTACCTCGAGGTGAT
Found at i:8183464 original size:162 final size:163
Alignment explanation
Indices: 8183221--8183546 Score: 645
Period size: 162 Copynumber: 2.0 Consensus size: 163
8183211 CTCAGCACCT
8183221 CACACAATGTTATCGGGATCTTCAAGCTTCAGATTCTACTATTGTCTAACAAATTTCAGTAACAA
1 CACACAATGTTATCGGGATCTTCAAGCTTCAGATTCTACTATTGTCTAACAAATTTCAGTAACAA
8183286 AAAGGAGGCAAAAGCAGCAGAACATGTGA-GTAATTGTTTGGGAAATTGCATTTAGGAACTTCAC
66 AAAGGAGGCAAAAGCAGCAGAACATGTGATGTAATTGTTTGGGAAATTGCATTTAGGAACTTCAC
8183350 CCCAATGAACAGACGTCTAAAAGTGTAACAACG
131 CCCAATGAACAGACGTCTAAAAGTGTAACAACG
8183383 CACACAATGTTATCGGGATCTTCAAGCTTCAGATTCTACTATTGTCTAACAAATTTCAGTAACAA
1 CACACAATGTTATCGGGATCTTCAAGCTTCAGATTCTACTATTGTCTAACAAATTTCAGTAACAA
8183448 AAAGGAGGCAAAAGCAGCAGAACATGTGATGTAATTGTTTGGGAAATTGCATTTAGGAACTTCAC
66 AAAGGAGGCAAAAGCAGCAGAACATGTGATGTAATTGTTTGGGAAATTGCATTTAGGAACTTCAC
8183513 CCCAATGAACAGACGTCTAAAAGTGTAACAACG
131 CCCAATGAACAGACGTCTAAAAGTGTAACAACG
8183546 C
1 C
8183547 CAATCTTACA
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
162 94 0.58
163 69 0.42
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (163 bp):
CACACAATGTTATCGGGATCTTCAAGCTTCAGATTCTACTATTGTCTAACAAATTTCAGTAACAA
AAAGGAGGCAAAAGCAGCAGAACATGTGATGTAATTGTTTGGGAAATTGCATTTAGGAACTTCAC
CCCAATGAACAGACGTCTAAAAGTGTAACAACG
Found at i:8183852 original size:74 final size:76
Alignment explanation
Indices: 8183728--8183878 Score: 252
Period size: 74 Copynumber: 2.0 Consensus size: 76
8183718 TTGATTTATT
* *
8183728 AAAAAATGACACATGGATTGTTGATGTGAAAGGAGCAATGAAATTCAAAATAAAAAATAGAA-GA
1 AAAAAATGACACATGGATTGTTGATGTGAAAGGAGAAATGAAATGCAAAATAAAAAATAGAAGGA
8183792 AAAAAAACTAC
66 AAAAAAACTAC
* *
8183803 AAAAAA-GACACATGGCTTGTTGATGTGAAAGGAGAAATGAAATGGAAAATAAAAAATAGAAGGA
1 AAAAAATGACACATGGATTGTTGATGTGAAAGGAGAAATGAAATGCAAAATAAAAAATAGAAGGA
8183867 AAAAAAACTAC
66 AAAAAAACTAC
8183878 A
1 A
8183879 TCAATACGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 51 0.72
75 20 0.28
ACGTcount: A:0.56, C:0.07, G:0.19, T:0.17
Consensus pattern (76 bp):
AAAAAATGACACATGGATTGTTGATGTGAAAGGAGAAATGAAATGCAAAATAAAAAATAGAAGGA
AAAAAAACTAC
Found at i:8186046 original size:31 final size:30
Alignment explanation
Indices: 8186007--8186080 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
8185997 TCAAACGGTC
*
8186007 GGGGACCATATTGCAAAC-AGACTAAATGTT
1 GGGGACCATATTGCAAACGA-ACGAAATGTT
*
8186037 GGGGAACCATATTGTAAACGAACGAAATGTT
1 GGGG-ACCATATTGCAAACGAACGAAATGTT
*
8186068 GGGAGACTATATT
1 GGG-GACCATATT
8186081 ACAAGTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 4 0.11
31 32 0.84
32 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (30 bp):
GGGGACCATATTGCAAACGAACGAAATGTT
Found at i:8186431 original size:24 final size:23
Alignment explanation
Indices: 8186386--8186437 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
8186376 CAAAATCATA
* *
8186386 TTTAATATTATGTTTTAGTTTTAT
1 TTTAATATTATGTGTTAATTTT-T
8186410 TTTAATATTTAT-TGTTAATTTTT
1 TTTAATA-TTATGTGTTAATTTTT
8186433 TTTAA
1 TTTAA
8186438 AAAATCTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 15 0.60
25 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (23 bp):
TTTAATATTATGTGTTAATTTTT
Found at i:8194881 original size:30 final size:30
Alignment explanation
Indices: 8194819--8194882 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
8194809 GAAGGACCTG
* * *
8194819 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAAATA
* * *
8194849 TCCAGAGGTCATAAAGATCCTCGGCAAATA
1 TCCAGAGGTCACAAAGAACCCCGGCAAATA
8194879 TCCA
1 TCCA
8194883 TATGTTCCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAAATA
Found at i:8195069 original size:17 final size:19
Alignment explanation
Indices: 8195037--8195072 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
8195027 CATATATCTC
8195037 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
8195056 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
8195073 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:8195620 original size:64 final size:62
Alignment explanation
Indices: 8195496--8195643 Score: 167
Period size: 64 Copynumber: 2.4 Consensus size: 62
8195486 TCTTTCAATG
* * * * * *
8195496 AAGGTATGCATCGATGCACTA-CTTGTGCACGGTGCATAAATGATTCGATGTTTTTATTTTAA
1 AAGGAATGCATCGATGCATTATCTTATGCACGATGCATAAAGGATTCGATGTTCTTATTTT-A
*
8195558 AAGG-ATGCATCGATGCATTATC-TATGCATCGATGCATCAAAGGCATTCGATGTTCTTCTTTTA
1 AAGGAATGCATCGATGCATTATCTTATGCA-CGATGCAT-AAAGG-ATTCGATGTTCTTATTTTA
8195621 AAGGAATGCATCGATGCACTTAT
1 AAGGAATGCATCGATGCA-TTAT
8195644 GAATGTGCAT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
61 20 0.27
62 12 0.16
63 9 0.12
64 29 0.39
65 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (62 bp):
AAGGAATGCATCGATGCATTATCTTATGCACGATGCATAAAGGATTCGATGTTCTTATTTTA
Found at i:8201962 original size:108 final size:107
Alignment explanation
Indices: 8201832--8202340 Score: 419
Period size: 108 Copynumber: 4.6 Consensus size: 107
8201822 TCAATAGGGT
8201832 CTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATAAATATTATCAACATAT
1 CTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATAAATATTATCAACATAT
8201897 TAAATAGCGCCTAAAATGTTACCAAATTTTAAGCTGATAGAGC
66 TAAATAGCGCCTAAAATGTTACCAAATTTTAAGCTGAT-GAGC
* * * ** **** ** *
8201940 CTTAGAAATTCAACGATGACAAAATAGGTTAATTACCGAAAACATTATCAACCATAAT-AACATA
1 CTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTAT-AAATATTATCAACATA
** * * * * ** * *
8202004 ACAAGTAACGCTTATTTAATGTAATATGTAACGTCTTTTTAAAGCTGATGTGAC
65 TTAAATAGCGCCTA--AAATGT--TA-CCAA----ATTTT-AAGCTGATGAG-C
* * * *
8202058 CTTAAAAATCCGACGATAATAAAATATGTTAATTACTTAATTTGTTATCAATATTATCAACATAT
1 CTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATAAATATTATCAACATAT
* * *
8202123 TAGATAGCGCCTAAAATATTACCAAAGTTTAAGCTGATCGA-C
66 TAAATAGCGCCTAAAATGTTACCAAATTTTAAGCTGAT-GAGC
* * *
8202165 CTTAGAAATCCGACAATAACAAAATAGGTTAATTACTTATTTTGTTATTAATATTATCAACATAT
1 CTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATAAATATTATCAACATAT
* * * * * * *
8202230 TAAGTATCGCCTAAAATGTTATCAAAATTTAAGTTGATGGGGT
66 TAAATAGCGCCTAAAATGTTACCAAATTTTAAGCTGAT-GAGC
* * ** * ** * * *
8202273 CTTCGAAATCCTACGACGACAAAATATGTTAATTTTTTATTTTGTTATAAATAAATATTAACATA
1 CTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATAAAT-ATTATCAACATA
8202338 TTA
65 TTA
8202341 GGTTGCACCC
Statistics
Matches: 307, Mismatches: 78, Indels: 31
0.74 0.19 0.07
Matches are distributed among these distances:
107 92 0.30
108 105 0.34
109 23 0.07
110 5 0.02
112 2 0.01
113 4 0.01
114 2 0.01
116 4 0.01
117 11 0.04
118 59 0.19
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (107 bp):
CTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATAAATATTATCAACATAT
TAAATAGCGCCTAAAATGTTACCAAATTTTAAGCTGATGAGC
Found at i:8202869 original size:23 final size:23
Alignment explanation
Indices: 8202842--8202913 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
8202832 AACGAGCTAG
* * * *
8202842 TTTAACGTAAGAGGTAACACTTA
1 TTTAACATAATAGGTAGCACCTA
*
8202865 TTTAACATAATAGGTAGCGCCTA
1 TTTAACATAATAGGTAGCACCTA
*
8202888 TTTAACTTAATAGGTAGCACCTA
1 TTTAACATAATAGGTAGCACCTA
8202911 TTT
1 TTT
8202914 TATTTTACCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (23 bp):
TTTAACATAATAGGTAGCACCTA
Found at i:8202969 original size:34 final size:34
Alignment explanation
Indices: 8202926--8202995 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
8202916 TTTTACCATT
8202926 TACATTATTATTAACCTTTAAACAAACTGGTAGC
1 TACATTATTATTAACCTTTAAACAAACTGGTAGC
8202960 TACATTATTATTAACCTTTAAACAAACTGGTAGC
1 TACATTATTATTAACCTTTAAACAAACTGGTAGC
8202994 TA
1 TA
8202996 GTTTAACGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.36
Consensus pattern (34 bp):
TACATTATTATTAACCTTTAAACAAACTGGTAGC
Found at i:8209314 original size:71 final size:73
Alignment explanation
Indices: 8209143--8209376 Score: 226
Period size: 74 Copynumber: 3.2 Consensus size: 73
8209133 TTCAACAGCC
* * *
8209143 TATTTAACCTAATAGGTAGCGCCTATTTTATTTTACCATTACATTATTATTAATCTTTAAACAAA
1 TATTTAACGTAATAGGTAGAGCCTATTTTATTTTACCATTACATTATTAGTAATCTTTAAACAAA
* *
8209208 CATGTAGC
66 CAGGTAGA
** *
8209216 TAGTTTAACGTAATAGGTA-ATTTCTATTTTATTTTACCATT-TA-TATTAGTAA-CATTTAAAC
1 TA-TTTAACGTAATAGGTAGA-GCCTATTTTATTTTACCATTACATTATTAGTAATC-TTTAAAC
* *
8209277 AAACCGGTATA
63 AAACAGGTAGA
* * * *
8209288 TATTTAACGTAATAGGTAGAGCCTATTTT-TTTTACCGTTTGCATTATCAGTAATCTTCAAACAA
1 TATTTAACGTAATAGGTAGAGCCTATTTTATTTTACC-ATTACATTATTAGTAATCTTTAAACAA
* * *
8209352 ACTGATAGG
65 ACAGGTAGA
*
8209361 TAGTTTAACATAATAG
1 TA-TTTAACGTAATAG
8209377 ACAACGCCTA
Statistics
Matches: 131, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
70 7 0.05
71 26 0.20
72 26 0.20
73 26 0.20
74 46 0.35
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (73 bp):
TATTTAACGTAATAGGTAGAGCCTATTTTATTTTACCATTACATTATTAGTAATCTTTAAACAAA
CAGGTAGA
Found at i:8209930 original size:21 final size:21
Alignment explanation
Indices: 8209900--8209966 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
8209890 GATTTACATA
*
8209900 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
8209921 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
8209942 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
8209961 TTCGCG
1 TTCGCG
8209967 ACTGGTGGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 15 0.42
21 21 0.58
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.33
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:8209964 original size:19 final size:19
Alignment explanation
Indices: 8209906--8209964 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
8209896 CATATTCGCA
8209906 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
** *
8209927 TTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCG
*
8209946 TTGCGATAGTCGAAGTTCG
1 TTGCGATAGTCCAAGTTCG
8209965 CGACTGGTGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 17 0.55
21 14 0.45
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (19 bp):
TTGCGATAGTCCAAGTTCG
Found at i:8210077 original size:11 final size:11
Alignment explanation
Indices: 8210047--8210123 Score: 97
Period size: 11 Copynumber: 7.1 Consensus size: 11
8210037 CGTATTACCA
8210047 CGACCACGACC
1 CGACCACGACC
*
8210058 ACAACCACGACC
1 -CGACCACGACC
8210070 CGACCACGACC
1 CGACCACGACC
8210081 CGACC-CGACC
1 CGACCACGACC
*
8210091 CGACCACGACA
1 CGACCACGACC
8210102 CGACC-CGACC
1 CGACCACGACC
8210112 ACGACC-CGACC
1 -CGACCACGACC
8210123 C
1 C
8210124 AACCTGAGAC
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
10 15 0.25
11 34 0.58
12 10 0.17
ACGTcount: A:0.29, C:0.55, G:0.17, T:0.00
Consensus pattern (11 bp):
CGACCACGACC
Found at i:8210084 original size:5 final size:5
Alignment explanation
Indices: 8210065--8210123 Score: 82
Period size: 5 Copynumber: 11.2 Consensus size: 5
8210055 ACCACAACCA
*
8210065 CGACC CGACC ACGACC CGACC CGACC CGACC ACGACA CGACC CGACC ACGACC
1 CGACC CGACC -CGACC CGACC CGACC CGACC -CGACC CGACC CGACC -CGACC
8210118 CGACC C
1 CGACC C
8210124 AACCTGAGAC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
5 35 0.71
6 14 0.29
ACGTcount: A:0.25, C:0.56, G:0.19, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:8210086 original size:16 final size:16
Alignment explanation
Indices: 8210043--8210123 Score: 110
Period size: 16 Copynumber: 4.9 Consensus size: 16
8210033 GACACGTATT
*
8210043 ACCACGACCACGACCACA
1 ACCACGACC-CGACC-CG
8210061 ACCACGACCCGACCACG
1 ACCACGACCCGACC-CG
8210078 ACC-CGACCCGACCCG
1 ACCACGACCCGACCCG
*
8210093 ACCACGACACGACCCG
1 ACCACGACCCGACCCG
8210109 ACCACGACCCGACCC
1 ACCACGACCCGACCC
8210124 AACCTGAGAC
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
15 5 0.08
16 35 0.59
17 10 0.17
18 9 0.15
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (16 bp):
ACCACGACCCGACCCG
Found at i:8210772 original size:42 final size:42
Alignment explanation
Indices: 8210724--8210860 Score: 220
Period size: 42 Copynumber: 3.3 Consensus size: 42
8210714 TACGATTTTG
* *
8210724 GACTATCGCAACAAATTTGAAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
8210766 GACTATCGCAATGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
8210808 GACTATCGTAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
8210850 GACTATCGCAA
1 GACTATCGCAA
8210861 TGCGAATATG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:8210773 original size:21 final size:21
Alignment explanation
Indices: 8210749--8210866 Score: 100
Period size: 21 Copynumber: 5.6 Consensus size: 21
8210739 TTTGAAATAA
*
8210749 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* *
8210770 ATCGCAA--TGAACTTGGAAT
1 ATCGCAACGCGAACTTGGACT
8210789 AAATCGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTGGACT
* * *
8210812 ATCGTAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
*
8210831 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
*
8210854 ATCGCAATGCGAA
1 ATCGCAACGCGAA
8210867 TATGTAATCG
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
19 19 0.25
21 38 0.50
23 19 0.25
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:8211136 original size:2 final size:2
Alignment explanation
Indices: 8211129--8211170 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
8211119 TATAAACACT
* *
8211129 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TC TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
8211171 CTACCGATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8216955 original size:13 final size:13
Alignment explanation
Indices: 8216937--8216963 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8216927 TTAACCCATG
8216937 TCCTGGTGTCATT
1 TCCTGGTGTCATT
8216950 TCCTGGTGTCATT
1 TCCTGGTGTCATT
8216963 T
1 T
8216964 TCAAGTATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.48
Consensus pattern (13 bp):
TCCTGGTGTCATT
Found at i:8225149 original size:2 final size:2
Alignment explanation
Indices: 8225142--8225168 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8225132 AGCATAGACT
8225142 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
8225169 CTTCTAGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8228251 original size:21 final size:20
Alignment explanation
Indices: 8228227--8228277 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8228217 TTAAAATGAT
*
8228227 AATAAATTTTATATGTATAAA
1 AATAAATTTAATAT-TATAAA
* *
8228248 AATAAATTTAATATTTTTAA
1 AATAAATTTAATATTATAAA
8228268 AATAAATTTA
1 AATAAATTTA
8228278 TAAATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AATAAATTTAATATTATAAA
Found at i:8228269 original size:20 final size:19
Alignment explanation
Indices: 8228227--8228295 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
8228217 TTAAAATGAT
* *
8228227 AATAAATTTTATATGTATAAA
1 AATAAA-TTTATAT-TTTTAA
8228248 AATAAATTTAATATTTTTAA
1 AATAAATTT-ATATTTTTAA
**
8228268 AATAAATTTATAAATTTAA
1 AATAAATTTATATTTTTAA
*
8228287 AATTAATTT
1 AATAAATTT
8228296 TATCAAACCT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.38
20 16 0.38
21 10 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (19 bp):
AATAAATTTATATTTTTAA
Found at i:8228920 original size:12 final size:12
Alignment explanation
Indices: 8228903--8228927 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8228893 TATTGTTCAT
8228903 TGCTACAGTAAC
1 TGCTACAGTAAC
8228915 TGCTACAGTAAC
1 TGCTACAGTAAC
8228927 T
1 T
8228928 TTCGAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (12 bp):
TGCTACAGTAAC
Found at i:8232060 original size:22 final size:19
Alignment explanation
Indices: 8232030--8232080 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 19
8232020 ATTAAATACA
8232030 TAAA-TAATATCATTTATAAT
1 TAAATTAATAT-ATTT-TAAT
*
8232050 TAAATTTAATAATATTTTTAT
1 TAAA-TTAAT-ATATTTTAAT
8232071 TAAATTAATA
1 TAAATTAATA
8232081 AATAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
21 7 0.26
22 8 0.30
23 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATTAATATATTTTAAT
Found at i:8232084 original size:24 final size:26
Alignment explanation
Indices: 8232011--8232089 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 26
8232001 ATTAGATTAT
*
8232011 TATATTAATATTAAA-TACATAAATAA
1 TATATTTATATTAAATTA-ATAAATAA
8232037 TATCATTTATAATTAAATT--T-AATAA
1 TAT-ATTTAT-ATTAAATTAATAAATAA
8232062 TAT-TTT-TATTAAATTAATAAATAA
1 TATATTTATATTAAATTAATAAATAA
8232086 TATA
1 TATA
8232090 AATTTTATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
21 8 0.18
22 1 0.02
23 4 0.09
24 8 0.18
25 8 0.18
26 4 0.09
27 5 0.11
28 6 0.13
29 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (26 bp):
TATATTTATATTAAATTAATAAATAA
Found at i:8235756 original size:2 final size:2
Alignment explanation
Indices: 8235751--8235776 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8235741 AAAAAAAAAC
8235751 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
8235777 TCCACTCATT
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:8237079 original size:6 final size:6
Alignment explanation
Indices: 8237068--8237099 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
8237058 TTAGAATTGC
8237068 CCCAAG CCCAAG CCCAAG CCCAAG CCCAAG CC
1 CCCAAG CCCAAG CCCAAG CCCAAG CCCAAG CC
8237100 AAAATCTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
CCCAAG
Found at i:8244482 original size:19 final size:19
Alignment explanation
Indices: 8244458--8244507 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
8244448 TCGACCCTCC
*
8244458 AGTATCGGTACCTACCCTT
1 AGTATCGATACCTACCCTT
8244477 AGTATCGATACCTACCCTT
1 AGTATCGATACCTACCCTT
*
8244496 AGTATTGATACC
1 AGTATCGATACC
8244508 GAAATTGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (19 bp):
AGTATCGATACCTACCCTT
Found at i:8244605 original size:18 final size:18
Alignment explanation
Indices: 8244582--8244630 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
8244572 ACCTTGTTAG
8244582 GGTATCGATACCATCCTA
1 GGTATCGATACCATCCTA
8244600 GGTATCGATACCATCCTA
1 GGTATCGATACCATCCTA
8244618 GGTATCGATACCA
1 GGTATCGATACCA
8244631 AAATTGGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (18 bp):
GGTATCGATACCATCCTA
Found at i:8244722 original size:20 final size:21
Alignment explanation
Indices: 8244683--8244735 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
8244673 CCCTATCCTC
*
8244683 AGTATCGGTACCCCAAGAAT-
1 AGTATCGATACCCCAAGAATA
* *
8244703 AGTATCGATACCCTATGAATA
1 AGTATCGATACCCCAAGAATA
8244724 GAGTATCGATAC
1 -AGTATCGATAC
8244736 TACTGACCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.61
22 11 0.39
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (21 bp):
AGTATCGATACCCCAAGAATA
Found at i:8246846 original size:29 final size:30
Alignment explanation
Indices: 8246795--8246855 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
8246785 AAATTTTATC
* **
8246795 TAGTGACTAAAGTGTAAGTTTTG-AAAGTT
1 TAGTGACTAAAGTATAAACTTTGAAAAGTT
*
8246824 TAGTGGCTAAAGTATAAACTTTGAAAAGTT
1 TAGTGACTAAAGTATAAACTTTGAAAAGTT
8246854 TA
1 TA
8246856 AAGAATGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (30 bp):
TAGTGACTAAAGTATAAACTTTGAAAAGTT
Found at i:8248391 original size:17 final size:17
Alignment explanation
Indices: 8248369--8248411 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
8248359 TGATTATGGA
*
8248369 ATTTATTTTGGAAATGT
1 ATTTATGTTGGAAATGT
8248386 ATTTATGTTGGAAATGT
1 ATTTATGTTGGAAATGT
8248403 ATTTATGTT
1 ATTTATGTT
8248412 AGTACAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (17 bp):
ATTTATGTTGGAAATGT
Found at i:8248607 original size:24 final size:24
Alignment explanation
Indices: 8248580--8248628 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
8248570 TGCATGACAT
*
8248580 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGATTTATACATCA
8248604 TGTACATAGATGATTTATACATCA
1 TGTACATAGATGATTTATACATCA
8248628 T
1 T
8248629 CAGGAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (24 bp):
TGTACATAGATGATTTATACATCA
Found at i:8249714 original size:20 final size:20
Alignment explanation
Indices: 8249689--8249736 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8249679 ATGAACAGTA
* * *
8249689 GTGAACATTACCGATACTGT
1 GTGAACAGTACCAATAATGT
8249709 GTGAACAGTACCAATAATGT
1 GTGAACAGTACCAATAATGT
8249729 GTGAACAG
1 GTGAACAG
8249737 CAATGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (20 bp):
GTGAACAGTACCAATAATGT
Found at i:8249935 original size:21 final size:20
Alignment explanation
Indices: 8249902--8249940 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8249892 TTTTTGTAGA
*
8249902 AAAAAATCTCCAAACGGCTCC
1 AAAAAATC-CCCAACGGCTCC
*
8249923 AAAACATCCCCAACGGCT
1 AAAAAATCCCCAACGGCT
8249941 ATATACGACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.41, C:0.36, G:0.10, T:0.13
Consensus pattern (20 bp):
AAAAAATCCCCAACGGCTCC
Found at i:8250508 original size:14 final size:14
Alignment explanation
Indices: 8250491--8250531 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
8250481 GTAAAATATG
*
8250491 GTATGAACAGTGTC
1 GTATGAACAGTGCC
8250505 GTATGAACAGTGCC
1 GTATGAACAGTGCC
8250519 G--TGAACAGTGCC
1 GTATGAACAGTGCC
8250531 G
1 G
8250532 AATTCTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 12 0.46
14 14 0.54
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (14 bp):
GTATGAACAGTGCC
Found at i:8250525 original size:12 final size:13
Alignment explanation
Indices: 8250493--8250532 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
8250483 AAAATATGGT
*
8250493 ATGAACAGTGTCG
1 ATGAACAGTGCCG
8250506 TATGAACAGTGCCG
1 -ATGAACAGTGCCG
8250520 -TGAACAGTGCCG
1 ATGAACAGTGCCG
8250532 A
1 A
8250533 ATTCTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (13 bp):
ATGAACAGTGCCG
Found at i:8251370 original size:31 final size:31
Alignment explanation
Indices: 8251332--8251459 Score: 141
Period size: 31 Copynumber: 4.1 Consensus size: 31
8251322 GAACCTCGAC
*
8251332 AACTGTCCATATGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
** **
8251363 AACTGTCCATATGTTTCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
*
8251394 TACTGTCCATATGTCCCGAA-AGACATAGGTTA
1 AACTGTCCATATGTCCCGAAGA-ACATAGG-TA
** * *
8251426 TTCTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
8251457 AAC
1 AAC
8251460 CCTCGACTCT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
30 1 0.01
31 51 0.65
32 26 0.33
33 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:8251454 original size:63 final size:62
Alignment explanation
Indices: 8251333--8251456 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 62
8251323 AACCTCGACA
* * *
8251333 ACTGTCCATATGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTTCTTAGAACATAGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATAGGTAT
**
8251395 ACTGTCCATATGTCCCGAA-AGACATAGGTTATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTCCCGAAGA-ACATAGG-TAAACTGTCCATATGTTCCGTAGAACATAGGTA
8251457 AACCCTCGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 1 0.02
62 25 0.45
63 29 0.53
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (62 bp):
ACTGTCCATATGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATAGGTAT
Found at i:8251812 original size:30 final size:31
Alignment explanation
Indices: 8251725--8251812 Score: 90
Period size: 32 Copynumber: 2.8 Consensus size: 31
8251715 ATTCATATAT
* *
8251725 ATATAGTTCACTTTCACATATCATATTTAATC
1 ATATGGTTCACTTTCACATATCACATTT-ATC
* * * *
8251757 ATATGGTTTACTTGCACGTAGCACATTT-TC
1 ATATGGTTCACTTTCACATATCACATTTATC
8251787 ATA-GGATTCACTTTCACATATCACAT
1 ATATGG-TTCACTTTCACATATCACAT
8251813 ATTCCTTTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
29 2 0.04
30 21 0.47
32 22 0.49
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (31 bp):
ATATGGTTCACTTTCACATATCACATTTATC
Found at i:8256525 original size:29 final size:28
Alignment explanation
Indices: 8256492--8256656 Score: 134
Period size: 29 Copynumber: 5.8 Consensus size: 28
8256482 ACCGGGTGAC
*
8256492 ATTTTGGGAATTAATTTGAAATTGGAGCT
1 ATTTTGGGAATTAATTTGAAA-AGGAGCT
* *
8256521 ATTTTGGGAATTAATTCGAAAAGGTGCT
1 ATTTTGGGAATTAATTTGAAAAGGAGCT
* *
8256549 ATTTTGGGAATTTAATTTTAAAA-GTGCT
1 ATTTTGGGAA-TTAATTTGAAAAGGAGCT
* ** * *
8256577 ATTTTTGGAATTTAATTCAAAAAAGTGCT
1 ATTTTGGGAA-TTAATTTGAAAAGGAGCT
* ** *
8256606 ATTTTGGAAATTAATTCAAAAAGGGTGCT
1 ATTTTGGGAATTAATTTGAAAA-GGAGCT
* * *
8256635 ATTTTGGTAATTATTTTTAAAA
1 ATTTTGGGAATTAATTTGAAAA
8256657 AAAAGGGTAC
Statistics
Matches: 118, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
28 52 0.44
29 66 0.56
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.42
Consensus pattern (28 bp):
ATTTTGGGAATTAATTTGAAAAGGAGCT
Found at i:8256558 original size:28 final size:28
Alignment explanation
Indices: 8256492--8256647 Score: 170
Period size: 28 Copynumber: 5.5 Consensus size: 28
8256482 ACCGGGTGAC
* ** *
8256492 ATTTTGGGAATTAATTTGAAATTGGAGCT
1 ATTTTGGGAATTAA-TTCAAAAAGGTGCT
*
8256521 ATTTTGGGAATTAATTCGAAAAGGTGCT
1 ATTTTGGGAATTAATTCAAAAAGGTGCT
**
8256549 ATTTTGGGAATTTAATTTTAAAA-GTGCT
1 ATTTTGGGAA-TTAATTCAAAAAGGTGCT
* *
8256577 ATTTTTGGAATTTAATTCAAAAAAGTGCT
1 ATTTTGGGAA-TTAATTCAAAAAGGTGCT
*
8256606 ATTTTGGAAATTAATTCAAAAAGGGTGCT
1 ATTTTGGGAATTAATTCAAAAA-GGTGCT
*
8256635 ATTTTGGTAATTA
1 ATTTTGGGAATTA
8256648 TTTTTAAAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
28 56 0.51
29 54 0.49
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (28 bp):
ATTTTGGGAATTAATTCAAAAAGGTGCT
Found at i:8256583 original size:57 final size:55
Alignment explanation
Indices: 8256492--8256647 Score: 168
Period size: 57 Copynumber: 2.7 Consensus size: 55
8256482 ACCGGGTGAC
** * * *
8256492 ATTTTGGGAATTAATTTGAAATTGGAGCTATTTTGGGAATTAATTCGAAAAGGTGCT
1 ATTTTGGGAATTAATTT-AAA-AAGTGCTATTTTGGGAATTAATTCAAAAAAGTGCT
* *
8256549 ATTTTGGGAATTTAATTTTAAAAGTGCTATTTTTGGAATTTAATTCAAAAAAGTGCT
1 ATTTTGGGAA-TTAATTTAAAAAGTGCTATTTTGGGAA-TTAATTCAAAAAAGTGCT
* * *
8256606 ATTTTGGAAATTAATTCAAAAAGGGTGCTATTTTGGTAATTA
1 ATTTTGGGAATTAATTTAAAAA--GTGCTATTTTGGGAATTA
8256648 TTTTTAAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
56 23 0.28
57 40 0.48
58 20 0.24
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (55 bp):
ATTTTGGGAATTAATTTAAAAAGTGCTATTTTGGGAATTAATTCAAAAAAGTGCT
Found at i:8263755 original size:28 final size:28
Alignment explanation
Indices: 8263693--8263867 Score: 185
Period size: 29 Copynumber: 6.1 Consensus size: 28
8263683 ATTGGGTGAC
* ** *
8263693 ATTTTAGGAATTAATTCGAAATGGGTGTT
1 ATTTTGGGAATTAATTC-AAAAAGGTGCT
8263722 ATTTTGGGAATTAATTCAAAAAGGTGCT
1 ATTTTGGGAATTAATTCAAAAAGGTGCT
8263750 ATTTTGGGAATTTAATTCTAAAAA-GTGCT
1 ATTTTGGGAA-TTAATTC-AAAAAGGTGCT
**
8263779 ATTTTGGGAATTTAATTTGAAAA-GTGCT
1 ATTTTGGGAA-TTAATTCAAAAAGGTGCT
*
8263807 ATTTTGGAAATTAATTCAAAAATGGTGCT
1 ATTTTGGGAATTAATTCAAAAA-GGTGCT
* * *
8263836 ATTTTGGTAATT-ATTAAAAAAAGGTGTT
1 ATTTTGGGAATTAATT-CAAAAAGGTGCT
8263864 ATTT
1 ATTT
8263868 CTGTAAAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
27 10 0.08
28 48 0.37
29 66 0.51
30 5 0.04
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (28 bp):
ATTTTGGGAATTAATTCAAAAAGGTGCT
Found at i:8263782 original size:57 final size:56
Alignment explanation
Indices: 8263693--8263867 Score: 178
Period size: 57 Copynumber: 3.1 Consensus size: 56
8263683 ATTGGGTGAC
** * *
8263693 ATTTTAGG-AATTAATTCGAAATGGGTGTTATTTTGGGAATTAATTCAAAAAGGTGCT
1 ATTTT-GGAAATTAATTC-AAAAAGGTGCTATTTTGGGAATTAATTAAAAAAGGTGCT
* **
8263750 ATTTTGGGAATTTAATTCTAAAAA-GTGCTATTTTGGGAATTTAATTTGAAAA-GTGCT
1 ATTTT-GGAAATTAATTC-AAAAAGGTGCTATTTTGGGAA-TTAATTAAAAAAGGTGCT
* *
8263807 ATTTTGGAAATTAATTCAAAAATGGTGCTATTTTGGTAATT-ATTAAAAAAAGGTGTT
1 ATTTTGGAAATTAATTCAAAAA-GGTGCTATTTTGGGAATTAATT-AAAAAAGGTGCT
8263864 ATTT
1 ATTT
8263868 CTGTAAAATA
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
55 8 0.08
56 17 0.17
57 53 0.54
58 21 0.21
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (56 bp):
ATTTTGGAAATTAATTCAAAAAGGTGCTATTTTGGGAATTAATTAAAAAAGGTGCT
Found at i:8263873 original size:28 final size:29
Alignment explanation
Indices: 8263716--8263867 Score: 134
Period size: 28 Copynumber: 5.3 Consensus size: 29
8263706 ATTCGAAATG
* * *
8263716 GGTGTTATTTTGGGAATTAATT-CAAAAA
1 GGTGCTATTTTGGTAATTAATTAAAAAAA
* **
8263744 GGTGCTATTTTGGGAATTTAATTCTAAAAA
1 GGTGCTATTTTGGTAA-TTAATTAAAAAAA
* **
8263774 -GTGCTATTTTGGGAATTTAATT-TGAAAA
1 GGTGCTATTTTGGTAA-TTAATTAAAAAAA
* * *
8263802 -GTGCTATTTTGGAAATTAATTCAAAAAT
1 GGTGCTATTTTGGTAATTAATTAAAAAAA
8263830 GGTGCTATTTTGGTAATT-ATTAAAAAAA
1 GGTGCTATTTTGGTAATTAATTAAAAAAA
*
8263858 GGTGTTATTT
1 GGTGCTATTT
8263868 CTGTAAAATA
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.06
28 54 0.50
29 44 0.40
30 5 0.05
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTAAAAAAA
Found at i:8264615 original size:48 final size:48
Alignment explanation
Indices: 8264563--8264683 Score: 233
Period size: 48 Copynumber: 2.5 Consensus size: 48
8264553 TGAATAGTTA
8264563 TCTGATCTGTTACCTGACCTGAATTTTTATATGCTACTTGACATGGAT
1 TCTGATCTGTTACCTGACCTGAATTTTTATATGCTACTTGACATGGAT
*
8264611 TCTGATATGTTACCTGACCTGAATTTTTATATGCTACTTGACATGGAT
1 TCTGATCTGTTACCTGACCTGAATTTTTATATGCTACTTGACATGGAT
8264659 TCTGATCTGTTACCTGACCTGAATT
1 TCTGATCTGTTACCTGACCTGAATT
8264684 ATGTTTTAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (48 bp):
TCTGATCTGTTACCTGACCTGAATTTTTATATGCTACTTGACATGGAT
Found at i:8264618 original size:24 final size:24
Alignment explanation
Indices: 8264591--8264664 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
8264581 CTGAATTTTT
8264591 ATATGCTACTTGACATGGATTCTG
1 ATATGCTACTTGACATGGATTCTG
* * * * * *
8264615 ATATGTTACCTGACCTGAATTTTT
1 ATATGCTACTTGACATGGATTCTG
8264639 ATATGCTACTTGACATGGATTCTG
1 ATATGCTACTTGACATGGATTCTG
8264663 AT
1 AT
8264665 CTGTTACCTG
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (24 bp):
ATATGCTACTTGACATGGATTCTG
Found at i:8265162 original size:2 final size:2
Alignment explanation
Indices: 8265155--8265179 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8265145 ATATTGTAAG
8265155 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8265180 AACTCTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8268616 original size:6 final size:6
Alignment explanation
Indices: 8268607--8268634 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8268597 AGTCGAAGTA
8268607 GAAGGT GAAGGT GAAGGT GAAGGT GAAG
1 GAAGGT GAAGGT GAAGGT GAAGGT GAAG
8268635 AGGAAGAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.50, T:0.14
Consensus pattern (6 bp):
GAAGGT
Found at i:8272346 original size:20 final size:20
Alignment explanation
Indices: 8272317--8272358 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
8272307 AGAATTTGTC
*
8272317 CCGAATGACCACATAGATGT
1 CCGAAGGACCACATAGATGT
*
8272337 CCGAAGGACCACATATATGT
1 CCGAAGGACCACATAGATGT
8272357 CC
1 CC
8272359 CGAATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (20 bp):
CCGAAGGACCACATAGATGT
Found at i:8277719 original size:3 final size:3
Alignment explanation
Indices: 8277690--8277746 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
8277680 AAATATTTAT
* * *
8277690 TAA T-A TAA TAC TAA TAA AAA T-A TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8277736 TAA TAA -AA TAA
1 TAA TAA TAA TAA
8277747 AAAATAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 6 0.13
3 39 0.87
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8277733 original size:29 final size:28
Alignment explanation
Indices: 8277675--8277746 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 28
8277665 CTGTAATGTA
* * *
8277675 AATAAAAATAT-TTATTAATATAATACT
1 AATAAAAATATAATAATAATATAATAAT
8277702 AATAAAAATATAATAATAATTATAATAAT
1 AATAAAAATATAATAATAA-TATAATAAT
* *
8277731 AATAATAATAAAATAA
1 AATAAAAATATAATAA
8277747 AAAATAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 11 0.29
28 5 0.13
29 22 0.58
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (28 bp):
AATAAAAATATAATAATAATATAATAAT
Found at i:8277752 original size:12 final size:14
Alignment explanation
Indices: 8277701--8277755 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
8277691 AATATAATAC
* *
8277701 TAATAAAAATATAA
1 TAATAATAATAAAA
*
8277715 TAATAATTATAATAA
1 TAATAATAATAA-AA
8277730 TAATAATAATAAAA
1 TAATAATAATAAAA
8277744 TAA-AA-AATAAAA
1 TAATAATAATAAAA
8277756 ATGTGACAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 7 0.19
13 2 0.06
14 14 0.39
15 13 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:8278128 original size:17 final size:17
Alignment explanation
Indices: 8278106--8278165 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
8278096 GTTGAACAAA
8278106 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* *
8278123 TTCTTCTCATTCTTCAGATGAG
1 TTCTTCTCATT-AT--GA--AC
8278145 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
8278162 TTCT
1 TTCT
8278166 CTCTGGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 16 0.47
18 1 0.03
19 2 0.06
20 2 0.06
21 1 0.03
22 12 0.35
ACGTcount: A:0.20, C:0.23, G:0.08, T:0.48
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:8278391 original size:36 final size:36
Alignment explanation
Indices: 8278343--8278615 Score: 185
Period size: 36 Copynumber: 7.5 Consensus size: 36
8278333 AGTGAAACTG
* * *
8278343 TCTCAAGCGAGATGAATCTTGATTTAAGAAAAACAA
1 TCTCAAGTGAGATAAATTTTGATTTAAGAAAAACAA
* * ** ***
8278379 TCTCAAGTGAGATAAATTGCT-ATTTCGAGTGAAATTG
1 TCTCAAGTGAGATAAATT-TTGATTT-AAGAAAAACAA
* ** *
8278416 TCTCAAGCGAGGCAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAATTTTGATTTAAGAAAAACAA
* ** **
8278452 TCTCAAGTGAGATAAATTTCTG-TTTCGAGTGAAACTG
1 TCTCAAGTGAGATAAATTT-TGATTT-AAGAAAAACAA
* *
8278489 TCTCGAGTGAGATAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAATTTTGATTTAAGAAAAACAA
* ** **
8278525 TCTCAAGTGAGATAAATTACT-ATTTCAAGTGAAACTT
1 TCTCAAGTGAGATAAATT-TTGATTT-AAGAAAAACAA
* * *
8278562 TCTCCAGTGAGA-AATAGTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAA-ATTTTGATTTAAGAAAAACAA
*
8278598 TCTCAAGTGAGAAAAATT
1 TCTCAAGTGAGATAAATT
8278616 GCTATTTGAA
Statistics
Matches: 174, Mismatches: 52, Indels: 22
0.70 0.21 0.09
Matches are distributed among these distances:
36 95 0.55
37 79 0.45
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (36 bp):
TCTCAAGTGAGATAAATTTTGATTTAAGAAAAACAA
Found at i:8278396 original size:73 final size:73
Alignment explanation
Indices: 8278319--8278615 Score: 382
Period size: 73 Copynumber: 4.1 Consensus size: 73
8278309 CGAGTGATGG
* * * * *
8278319 AAATTTATGTTTCTAGTGAAACTGTCTCAAGCGAGATGAATCTTGATTTAAGAAAAACAATCTCA
1 AAATTTATATTTCGAGTGAAACTGTCTCAAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCA
8278384 AGTGAGAT
66 AGTGAGAT
** * **
8278392 AAATTGCTATTTCGAGTGAAATTGTCTCAAGCGAGGCAAATTTTGTTTTAAGAAAAACAATCTCA
1 AAATTTATATTTCGAGTGAAACTGTCTCAAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCA
8278457 AGTGAGAT
66 AGTGAGAT
* * * *
8278465 AAATTTCTGTTTCGAGTGAAACTGTCTCGAGTGAGATAAATTTTGTTTTAAGAAAAACAATCTCA
1 AAATTTATATTTCGAGTGAAACTGTCTCAAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCA
8278530 AGTGAGAT
66 AGTGAGAT
* * * * *
8278538 AAA-TTACTATTTCAAGTGAAACTTTCTCCAGTGAGA-AATAGTTTGTTTTAAGAAAAACAATCT
1 AAATTTA-TATTTCGAGTGAAACTGTCTCAAGCGAGATAA-ATTTTGTTTTAAGAAAAACAATCT
*
8278601 CAAGTGAGAA
64 CAAGTGAGAT
8278611 AAATT
1 AAATT
8278616 GCTATTTGAA
Statistics
Matches: 197, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
72 4 0.02
73 192 0.97
74 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (73 bp):
AAATTTATATTTCGAGTGAAACTGTCTCAAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCA
AGTGAGAT
Found at i:8278583 original size:146 final size:146
Alignment explanation
Indices: 8278319--8278615 Score: 438
Period size: 146 Copynumber: 2.0 Consensus size: 146
8278309 CGAGTGATGG
* *
8278319 AAATTTATGTTTCTAGTGAAACTGTCTCAAGCGAGATGAATCTTGATTTAAGAAAAACAATCTCA
1 AAATTTATGTTTCGAGTGAAACTGTCTCAAGCGAGATAAATCTTGATTTAAGAAAAACAATCTCA
* *
8278384 AGTGAGATAAATTGCTATTTCGAGTGAAATTGTCTCAAGCGAGGCAAATTTTGTTTTAAGAAAAA
66 AGTGAGATAAATTACTATTTCAAGTGAAATTGTCTCAAGCGAGGCAAATTTTGTTTTAAGAAAAA
*
8278449 CAATCTCAAGTGAGAT
131 CAATCTCAAGTGAGAA
* * * * *
8278465 AAATTTCTGTTTCGAGTGAAACTGTCTCGAGTGAGATAAATTTTGTTTTAAGAAAAACAATCTCA
1 AAATTTATGTTTCGAGTGAAACTGTCTCAAGCGAGATAAATCTTGATTTAAGAAAAACAATCTCA
* *
8278530 AGTGAGATAAATTACTATTTCAAGTGAAACTT-TCTCCAGTGA-G-AAATAGTTTGTTTTAAGAA
66 AGTGAGATAAATTACTATTTCAAGTGAAA-TTGTCTCAAGCGAGGCAAAT--TTTGTTTTAAGAA
8278592 AAACAATCTCAAGTGAGAA
128 AAACAATCTCAAGTGAGAA
8278611 AAATT
1 AAATT
8278616 GCTATTTGAA
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
144 4 0.03
145 1 0.01
146 129 0.95
147 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (146 bp):
AAATTTATGTTTCGAGTGAAACTGTCTCAAGCGAGATAAATCTTGATTTAAGAAAAACAATCTCA
AGTGAGATAAATTACTATTTCAAGTGAAATTGTCTCAAGCGAGGCAAATTTTGTTTTAAGAAAAA
CAATCTCAAGTGAGAA
Found at i:8284052 original size:8 final size:8
Alignment explanation
Indices: 8284039--8284076 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
8284029 CCCCCCTTTT
8284039 TTTTTTCC
1 TTTTTTCC
8284047 TTTTTTCC
1 TTTTTTCC
8284055 TTTTTTCC
1 TTTTTTCC
8284063 TTTTTTCC
1 TTTTTTCC
8284071 TTTTTT
1 TTTTTT
8284077 TTGTTTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCC
Found at i:8288357 original size:28 final size:27
Alignment explanation
Indices: 8288315--8288371 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
8288305 ACATTAATAA
*
8288315 AATAATATATATAAATATTAGGAAAAT
1 AATAATATATATAAAAATTAGGAAAAT
**
8288342 AATAAGTATATATAAAAATTTTGAAAAT
1 AATAA-TATATATAAAAATTAGGAAAAT
8288370 AA
1 AA
8288372 AGAATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (27 bp):
AATAATATATATAAAAATTAGGAAAAT
Found at i:8290811 original size:27 final size:27
Alignment explanation
Indices: 8290780--8290840 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
8290770 CTGTAATGTA
* * *
8290780 AATAAAAATATTTATTAAT-ATAATACT
1 AATAAAAATA-ATAATAATAATAATAAT
8290807 AATAAAAATAATAATAATAATAATAAT
1 AATAAAAATAATAATAATAATAATAAT
8290834 AATAAAA
1 AATAAAA
8290841 TAAAAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
AATAAAAATAATAATAATAATAATAAT
Found at i:8290821 original size:3 final size:3
Alignment explanation
Indices: 8290795--8290843 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
8290785 AAATATTTAT
* *
8290795 TAA T-A TAA TAC TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8290841 TAA
1 TAA
8290844 AAAATGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:8295028 original size:18 final size:18
Alignment explanation
Indices: 8294985--8295020 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8294975 TTTAACTCAT
*
8294985 GCAGCTGATGGATTAGTA
1 GCAGCTGATGGATTAGGA
8295003 GCAGCTGATGGATTAGGA
1 GCAGCTGATGGATTAGGA
8295021 CAAGCTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.25
Consensus pattern (18 bp):
GCAGCTGATGGATTAGGA
Found at i:8303188 original size:20 final size:20
Alignment explanation
Indices: 8303160--8303219 Score: 50
Period size: 21 Copynumber: 3.0 Consensus size: 20
8303150 TGTCAAATAA
*
8303160 TTATTAAATTTTATTAAAAT
1 TTATAAAATTTTATTAAAAT
** *
8303180 TTATAAAATAAATATTAAATT
1 TTATAAAAT-TTTATTAAAAT
* *
8303201 TTATCAGATTTTA-TAAAAT
1 TTATAAAATTTTATTAAAAT
8303220 AATTGTTAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
19 5 0.17
20 10 0.33
21 15 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TTATAAAATTTTATTAAAAT
Found at i:8303196 original size:31 final size:30
Alignment explanation
Indices: 8303087--8303229 Score: 119
Period size: 31 Copynumber: 4.5 Consensus size: 30
8303077 TTAATTTTCA
*
8303087 AAAATAATTATTAAGTTTCT-TAAATTATTAGTAT
1 AAAATAATTATTAAATTT-TATAAA--ATT--TAT
*
8303121 AAAATAATTATTAAATTTTA-AAACATTATTGT
1 AAAATAATTATTAAATTTTATAAA-A-T-TTAT
*
8303153 CAAATAATTATTAAATTTTATTAAAATTTAT
1 AAAATAATTATTAAATTTTA-TAAAATTTAT
* * *
8303184 AAAATAAATATTAAATTTTATCAGATTTTAT
1 AAAATAATTATTAAATTTTAT-AAAATTTAT
*
8303215 AAAATAATTGTTAAA
1 AAAATAATTATTAAA
8303230 ATTATCAATT
Statistics
Matches: 92, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
30 1 0.01
31 41 0.45
32 23 0.25
33 6 0.07
34 21 0.23
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (30 bp):
AAAATAATTATTAAATTTTATAAAATTTAT
Found at i:8306901 original size:142 final size:142
Alignment explanation
Indices: 8306645--8306905 Score: 477
Period size: 142 Copynumber: 1.8 Consensus size: 142
8306635 CACCAAATCT
*
8306645 CTTATGTTTGTGTTTTGTACACTTTTGGCCACTGGTTTCAAAATACATAAGATATGGTCATCTTC
1 CTTATGTTTGTGTTTTGTACACTTTTGGCCACTGGTTTCAAAATACATAAGATATGGTCACCTTC
*
8306710 GTTCTTATTTAATTAAGATGTGGTCACCACGAGTTAATTAACTTTAAATATTTTAGGGTTAACTA
66 GTTCTTATTTAATTAAGATGTGGTCACCACGAGTTAATTAACATTAAATATTTTAGGGTTAACTA
8306775 CATGGATGATCA
131 CATGGATGATCA
*
8306787 CTTATGTTTGTGTTTTGTTCACTTTTGGCCACTGGTTTCAAAATACATAAGATATGGTCACCTTC
1 CTTATGTTTGTGTTTTGTACACTTTTGGCCACTGGTTTCAAAATACATAAGATATGGTCACCTTC
**
8306852 GTTCTTATTTAATTAAGATGTGGTCACCACGAGTTAATTGCCATTAAATATTTT
66 GTTCTTATTTAATTAAGATGTGGTCACCACGAGTTAATTAACATTAAATATTTT
8306906 GGTATAATCA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 114 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (142 bp):
CTTATGTTTGTGTTTTGTACACTTTTGGCCACTGGTTTCAAAATACATAAGATATGGTCACCTTC
GTTCTTATTTAATTAAGATGTGGTCACCACGAGTTAATTAACATTAAATATTTTAGGGTTAACTA
CATGGATGATCA
Found at i:8311207 original size:13 final size:13
Alignment explanation
Indices: 8311160--8311209 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
8311150 AATGACGCTC
8311160 AATGCACGTCATA
1 AATGCACGTCATA
*
8311173 AATG--TGTCATA
1 AATGCACGTCATA
**
8311184 AATGCGTGTCATA
1 AATGCACGTCATA
8311197 AATGCACGTCATA
1 AATGCACGTCATA
8311210 GATTTATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 10 0.31
13 22 0.69
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (13 bp):
AATGCACGTCATA
Found at i:8316830 original size:18 final size:18
Alignment explanation
Indices: 8316807--8316870 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
8316797 CATAAATACC
8316807 ATCATTATCAACATCAAT
1 ATCATTATCAACATCAAT
** **
8316825 ATCATTATCATGATCTCT
1 ATCATTATCAACATCAAT
*
8316843 ATCATTCTCAACATCAAT
1 ATCATTATCAACATCAAT
8316861 ATCATTATCA
1 ATCATTATCA
8316871 TGAACCCATT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.38
Consensus pattern (18 bp):
ATCATTATCAACATCAAT
Found at i:8317180 original size:12 final size:12
Alignment explanation
Indices: 8317163--8317215 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
8317153 TTTATAATCT
*
8317163 CATGTATTAGTC
1 CATGTATTAGCC
*
8317175 CATGTATTAACC
1 CATGTATTAGCC
8317187 CATGTATTAG-C
1 CATGTATTAGCC
*
8317198 TATGTATTAGCC
1 CATGTATTAGCC
8317210 CATGTA
1 CATGTA
8317216 CAATACTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (12 bp):
CATGTATTAGCC
Found at i:8317206 original size:23 final size:24
Alignment explanation
Indices: 8317163--8317215 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
8317153 TTTATAATCT
8317163 CATGTATTAGTCCATGTATTAACC
1 CATGTATTAGTCCATGTATTAACC
* *
8317187 CATGTATTAG-CTATGTATTAGCC
1 CATGTATTAGTCCATGTATTAACC
8317210 CATGTA
1 CATGTA
8317216 CAATACTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (24 bp):
CATGTATTAGTCCATGTATTAACC
Found at i:8317240 original size:130 final size:130
Alignment explanation
Indices: 8317077--8317342 Score: 487
Period size: 130 Copynumber: 2.0 Consensus size: 130
8317067 TCTTGTGTAG
*
8317077 GCCCATGTACAATACTGATTCAGTGTAAACAATAATAACATGATATCATATAATAATACAAACAC
1 GCCCATGTACAATACTGATTCAATGTAAACAATAATAACATGATATCATATAATAATACAAACAC
*
8317142 TTTTGATATCTTTTATAATCTCATGTATTAGTCCATGTATTAACCCATGTATTAGCTATGTATTA
66 TTTTGATATCCTTTATAATCTCATGTATTAGTCCATGTATTAACCCATGTATTAGCTATGTATTA
* *
8317207 GCCCATGTACAATACTGATTTAATGTAAGCAATAATAACATGATATCATATAATAATACAAACAC
1 GCCCATGTACAATACTGATTCAATGTAAACAATAATAACATGATATCATATAATAATACAAACAC
*
8317272 TTTTGATATCCTTTATAATCTCATGTATTAGTCCATGTATTAACCTATGTATTAGCTATGTATTA
66 TTTTGATATCCTTTATAATCTCATGTATTAGTCCATGTATTAACCCATGTATTAGCTATGTATTA
8317337 GCCCAT
1 GCCCAT
8317343 TATAGTATTG
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (130 bp):
GCCCATGTACAATACTGATTCAATGTAAACAATAATAACATGATATCATATAATAATACAAACAC
TTTTGATATCCTTTATAATCTCATGTATTAGTCCATGTATTAACCCATGTATTAGCTATGTATTA
Found at i:8317310 original size:12 final size:11
Alignment explanation
Indices: 8317293--8317339 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
8317283 TTTATAATCT
8317293 CATGTATTAGTC
1 CATGTATTAG-C
*
8317305 CATGTATTAAC
1 CATGTATTAGC
8317316 CTATGTATTAGC
1 C-ATGTATTAGC
*
8317328 TATGTATTAGC
1 CATGTATTAGC
8317339 C
1 C
8317340 CATTATAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 12 0.40
12 18 0.60
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (11 bp):
CATGTATTAGC
Found at i:8317501 original size:38 final size:38
Alignment explanation
Indices: 8317449--8317538 Score: 153
Period size: 38 Copynumber: 2.4 Consensus size: 38
8317439 TCGTATAAAT
* *
8317449 TGTGTCCCGAAGGACCTATCATCCCGGAGGATGTCATC
1 TGTGTCCCGAAGGACCTATCATCCCGAAGGATGTAATC
*
8317487 TGTGTCCCGTAGGACCTATCATCCCGAAGGATGTAATC
1 TGTGTCCCGAAGGACCTATCATCCCGAAGGATGTAATC
8317525 TGTGTCCCGAAGGA
1 TGTGTCCCGAAGGA
8317539 TGTAATCTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (38 bp):
TGTGTCCCGAAGGACCTATCATCCCGAAGGATGTAATC
Found at i:8317534 original size:21 final size:21
Alignment explanation
Indices: 8317508--8317559 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
8317498 GGACCTATCA
8317508 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTAATCTGTG
8317529 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTAATCTGTG
*
8317550 TCCCGGAGGA
1 TCCCGAAGGA
8317560 CCTGTCATCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGATGTAATCTGTG
Found at i:8317541 original size:59 final size:59
Alignment explanation
Indices: 8317470--8317581 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 59
8317460 GGACCTATCA
* * *
8317470 TCCCGGAGGATGTCATCTGTGTCCCGTAGGACCTATCATCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTAATCTGTGTCCCGGAGGACCTATCATCCCGAAGGATGTAATCTGTG
*
8317529 TCCCGAAGGATGTAATCTGTGTCCCGGAGGACCTGTCATCCCGAAGGATGTAA
1 TCCCGAAGGATGTAATCTGTGTCCCGGAGGACCTATCATCCCGAAGGATGTAA
8317582 CCCTCGACTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (59 bp):
TCCCGAAGGATGTAATCTGTGTCCCGGAGGACCTATCATCCCGAAGGATGTAATCTGTG
Found at i:8318553 original size:18 final size:17
Alignment explanation
Indices: 8318524--8318569 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
8318514 TCTTAAATTT
8318524 TAAATACCAGAAATTTCAA
1 TAAAT-CCAGAAA-TTCAA
*
8318543 TAAATCCAGAAATTCCA
1 TAAATCCAGAAATTCAA
8318560 TAAATTCCAG
1 TAAA-TCCAG
8318570 TAATGGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 12 0.48
19 5 0.20
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.26
Consensus pattern (17 bp):
TAAATCCAGAAATTCAA
Found at i:8326280 original size:3 final size:3
Alignment explanation
Indices: 8326272--8326303 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8326262 TCAAAGTATG
8326272 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
8326304 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:8338606 original size:21 final size:20
Alignment explanation
Indices: 8338581--8338628 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
8338571 TGCTGCTCAA
*
8338581 CTCGACTCATTGCTCGTTAAG
1 CTCGACT-ATTGCTCATTAAG
*
8338602 CTCGACTGTTGCTCATTAAG
1 CTCGACTATTGCTCATTAAG
8338622 CTC-ACTA
1 CTCGACTA
8338629 AAAAATTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 14 0.58
21 7 0.29
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (20 bp):
CTCGACTATTGCTCATTAAG
Found at i:8346356 original size:18 final size:18
Alignment explanation
Indices: 8346333--8346369 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8346323 ATTTACTCTC
8346333 TGAATTTTATAGATTAAA
1 TGAATTTTATAGATTAAA
* *
8346351 TGAATTTTGTATATTAAA
1 TGAATTTTATAGATTAAA
8346369 T
1 T
8346370 CATTTTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TGAATTTTATAGATTAAA
Found at i:8353778 original size:34 final size:35
Alignment explanation
Indices: 8353706--8353778 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
8353696 AAAGGAAGTG
* *
8353706 AGAAAGTGAGAAACAAATCAAAACAACGAATTTCA
1 AGAAAGAGAGAAACAAATCAAAACAACGAAATTCA
* * *
8353741 AGAAAGAGAGAAACAGATCCAAAC-ACGAAATTGA
1 AGAAAGAGAGAAACAAATCAAAACAACGAAATTCA
8353775 AGAA
1 AGAA
8353779 CAGTGCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 12 0.36
35 21 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.11
Consensus pattern (35 bp):
AGAAAGAGAGAAACAAATCAAAACAACGAAATTCA
Found at i:8357055 original size:31 final size:31
Alignment explanation
Indices: 8357014--8357072 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
8357004 AGAGTCGAGG
8357014 GTTACCTATGTCCTTCGGGACATATGGACAT
1 GTTACCTATGTCCTTCGGGACATATGGACAT
* *
8357045 GTTACTTATGTCCTTCGGGATATATGGA
1 GTTACCTATGTCCTTCGGGACATATGGA
8357073 TAGGTCCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (31 bp):
GTTACCTATGTCCTTCGGGACATATGGACAT
Found at i:8357082 original size:22 final size:21
Alignment explanation
Indices: 8357054--8357114 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
8357044 TGTTACTTAT
* *
8357054 GTCCTTCGGGATATATGGAT-AG
1 GTCCTTCGGGACATA--GATGAC
8357076 GTCCTTCGGGACATAGATGAC
1 GTCCTTCGGGACATAGATGAC
8357097 GTCCTTCGGGACATAGAT
1 GTCCTTCGGGACATAGAT
8357115 TTCATATGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 3 0.08
21 19 0.53
22 14 0.39
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (21 bp):
GTCCTTCGGGACATAGATGAC
Found at i:8357460 original size:37 final size:37
Alignment explanation
Indices: 8357393--8357563 Score: 181
Period size: 37 Copynumber: 4.6 Consensus size: 37
8357383 ATATATGCAC
* * * *
8357393 ATATATATTATACAG-TTTGCAAATTGTTTTTGAAAAT
1 ATATATAATATATAGTTTTG-AAAATATTTTTGAAAAT
8357430 ACATATATAATATATAG-TTT-AAAATATTTTTGAAAAT
1 --ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
* * *
8357467 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAAT
1 ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
**
8357504 -TATATAATATATAGTTTTTGAAAACGTTTTT-AAAAT
1 ATATATAATATATAG-TTTTGAAAATATTTTTGAAAAT
*
8357540 ATATATAATATATACTTTTGAAAA
1 ATATATAATATATAGTTTTGAAAA
8357564 CGTTATGAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
35 13 0.11
36 29 0.25
37 58 0.50
39 16 0.14
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (37 bp):
ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
Found at i:8357564 original size:36 final size:36
Alignment explanation
Indices: 8357419--8357616 Score: 174
Period size: 37 Copynumber: 5.4 Consensus size: 36
8357409 TTGCAAATTG
* *
8357419 TTTTTGAAAATACATATATAATATATAGTTT-AAAATA
1 TTTTTGAAAAT--ATATATAATATATATTTTGAAAACA
* * * *
8357456 TTTTTGAAAATATGTATATTATATAGTTTTTAAAATA
1 TTTTTGAAAATATATATAATATATA-TTTTGAAAACA
*
8357493 TTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATATAATATATA--TTTTGAAAACA
8357530 TTTTT-AAAATATATATAATATATACTTTTGAAAAC-
1 TTTTTGAAAATATATATAATATATA-TTTTGAAAACA
* * * *
8357565 GTTATGAAAACATTTATATAATATAT-TTTTAAAAACCA
1 TTTTTG-AAA-ATATATATAATATATATTTTGAAAA-CA
8357603 -TTTTGAAAATATAT
1 TTTTTGAAAATATAT
8357617 TTTTTGAAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
35 20 0.15
36 40 0.29
37 62 0.46
38 14 0.10
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TTTTTGAAAATATATATAATATATATTTTGAAAACA
Found at i:8357605 original size:26 final size:25
Alignment explanation
Indices: 8357571--8357644 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 25
8357561 AAACGTTATG
8357571 AAAACATTTATATAATATATTTTTA
1 AAAACATTTATATAATATATTTTTA
* *
8357596 AAAACCATTT-TGAAAATATATTTTTT
1 AAAA-CATTTAT-ATAATATATTTTTA
*
8357622 GAAA-A-TTATATAATATATATTTT
1 AAAACATTTATATAATATAT-TTTT
8357645 TGAAAACGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
23 10 0.24
24 6 0.15
25 5 0.12
26 20 0.49
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (25 bp):
AAAACATTTATATAATATATTTTTA
Found at i:8357623 original size:15 final size:16
Alignment explanation
Indices: 8357603--8357632 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8357593 TTAAAAACCA
8357603 TTTTGAAAA-TATATT
1 TTTTGAAAATTATATT
8357618 TTTTGAAAATTATAT
1 TTTTGAAAATTATAT
8357633 AATATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTGAAAATTATATT
Found at i:8357656 original size:30 final size:30
Alignment explanation
Indices: 8357622--8357682 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8357612 TATATTTTTT
8357622 GAAAATTATATAATATATATTTTTGAAAAC
1 GAAAATTATATAATATATATTTTTGAAAAC
8357652 GAAAATTATATAATATATATTTTTGAAAAC
1 GAAAATTATATAATATATATTTTTGAAAAC
8357682 G
1 G
8357683 TTATGAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (30 bp):
GAAAATTATATAATATATATTTTTGAAAAC
Found at i:8357863 original size:15 final size:15
Alignment explanation
Indices: 8357828--8357863 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8357818 ATATATATTA
8357828 TTATTTATTTTTAAT
1 TTATTTATTTTTAAT
* *
8357843 TAATTTATTTTTCAT
1 TTATTTATTTTTAAT
8357858 TTATTT
1 TTATTT
8357864 TTGTGCAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTATTTTTAAT
Found at i:8364627 original size:249 final size:249
Alignment explanation
Indices: 8364185--8365207 Score: 1496
Period size: 249 Copynumber: 4.1 Consensus size: 249
8364175 TGCAGCTTAG
* * * * * **
8364185 CTCAAGGCCAGAAGGGCTATCTGTCCACC-AAGACCTTCGAGTTCGACTACGTTCAGCTTTGAAG
1 CTCAAGGCTAGAAGGGTTATCTGT-AACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAG
* * * * * * * * *
8364249 GCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCG
64 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCG
8364314 ACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCA
126 ACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCA
8364379 ACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
191 ACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
8364438 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
8364503 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
66 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
*
8364568 GTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAA
131 GTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAA
8364633 AGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
196 AGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
*
8364687 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
8364752 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
66 ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
8364817 GTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAA
131 GTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAA
*
8364882 AGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAA
196 AGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
* *
8364936 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAAACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTAACC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
* ** *
8365001 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTA
65 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTA
** * * * * * * * ** * *
8365066 CACTCAGCTTC-AAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
130 CGTTCAGCTTCGAA-GGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACT
* * * * * * * *
8365130 AAAGA-CCTTCGAGTTCGACTCCGCTCAGCTCCAA-GGCACATCATTTGCAGCATAG
194 AAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
* * * *
8365185 CTTAAGTCGAGAAGGGCTATCTG
1 CTCAAGGCTAGAAGGGTTATCTG
8365208 CTAAAGACCT
Statistics
Matches: 713, Mismatches: 53, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
249 455 0.64
250 167 0.23
252 43 0.06
253 48 0.07
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
CTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTAC
GTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAA
AGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
Found at i:8365230 original size:165 final size:164
Alignment explanation
Indices: 8364172--8365216 Score: 1150
Period size: 165 Copynumber: 6.3 Consensus size: 164
8364162 TAAACAAACT
* * * * * * *
8364172 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGTCCACCAAGA-CCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCA--AAGACCCTT-GAGTTCGATTACA
* * *
8364236 TTCAGCTTTGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
63 CTCAGC-TTCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAG
* *
8364301 ACCTTTGAGTTCGACTACGTTCAGCTTCGAAGGCACATC
127 ACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * *
8364340 ATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCCTTGAGTTCGATTACA
* *
8364405 CTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAG
63 CTCAGCTTCAA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAG
8364470 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
127 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * **
8364508 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTCGAGTTCGACTACGTTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTTGAGTTCGATTACACTC
* * * * * * ** *
8364572 AGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAAGGTTATCTGCCAACTAAAGAC
66 AGCTTC-AAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGAC
* * * * * *
8364637 CCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATC
129 CTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * * * * * * * * *
8364674 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTTGACTACGC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG--ACCAAAGACCCTTGAGTTCGATTACAC
* * * * * * * *
8364739 TCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGAC
64 TCAGCTTCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGAC
* * * *
8364801 CCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATC
129 CTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * *
8364838 ATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCCTTGAGTTCGATTACA
* *
8364903 CTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
63 CTCAGCTTCAA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACC-AAA
*
8364968 AACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
126 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
8365007 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCTTAAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTTGAGTTCGATTACACTC
* *
8365071 AGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGAC
66 AGCTTCAA-GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACC-AAAGAC
* *
8365136 CTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATC
129 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
8365172 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CTAAAGACC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACC
8365217 TCCGAGGTCG
Statistics
Matches: 752, Mismatches: 107, Indels: 39
0.84 0.12 0.04
Matches are distributed among these distances:
164 128 0.17
165 237 0.32
166 69 0.09
168 118 0.16
169 169 0.22
170 29 0.04
171 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGACCAAAGACCCTTGAGTTCGATTACACTC
AGCTTCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCT
TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:8365888 original size:37 final size:37
Alignment explanation
Indices: 8365821--8365991 Score: 181
Period size: 37 Copynumber: 4.6 Consensus size: 37
8365811 ATATATGCAC
* * * *
8365821 ATATATATTATACAG-TTTGCAAATTGTTTTTGAAAAT
1 ATATATAATATATAGTTTTG-AAAATATTTTTGAAAAT
8365858 ACATATATAATATATAG-TTT-AAAATATTTTTGAAAAT
1 --ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
* * *
8365895 ATGTATATTATATAGTTTTTAAAATATTTTTGAAAAT
1 ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
**
8365932 -TATATAATATATAGTTTTTGAAAACGTTTTT-AAAAT
1 ATATATAATATATAG-TTTTGAAAATATTTTTGAAAAT
*
8365968 ATATATAATATATACTTTTGAAAA
1 ATATATAATATATAGTTTTGAAAA
8365992 CGTTATGAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
35 13 0.11
36 29 0.25
37 58 0.50
39 16 0.14
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (37 bp):
ATATATAATATATAGTTTTGAAAATATTTTTGAAAAT
Found at i:8365950 original size:36 final size:37
Alignment explanation
Indices: 8365847--8366047 Score: 189
Period size: 37 Copynumber: 5.4 Consensus size: 37
8365837 TTGCAAATTG
8365847 TTTTTGAAAATACATATATAATATATAG--TTTAAAATA
1 TTTTTGAAAAT--ATATATAATATATAGTTTTTAAAATA
* *
8365884 TTTTTGAAAATATGTATATTATATAGTTTTTAAAATA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAATA
**
8365921 TTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATATAATATATAGTTTTT-AAAATA
* * *
8365958 TTTTT-AAAATATATATAATATATACTTTTGAAAA-C
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAATA
* * * *
8365993 GTTATGAAAACATTTATATAATATATAATTTTTAAAA-A
1 TTTTTG-AAA-ATATATATAATATATAGTTTTTAAAATA
*
8366031 CCATTTTGAAAATATAT
1 --TTTTTGAAAATATAT
8366048 TTTTTGAAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
35 16 0.12
36 26 0.19
37 60 0.44
38 28 0.20
39 3 0.02
40 4 0.03
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAATA
Found at i:8366029 original size:27 final size:27
Alignment explanation
Indices: 8365999--8366098 Score: 82
Period size: 26 Copynumber: 3.7 Consensus size: 27
8365989 AAACGTTATG
8365999 AAAACATTTATATAATATATAATTTTTA
1 AAAACATTT-TATAATATATAATTTTTA
*
8366027 AAAACCATTTTGA-AA-ATAT-ATTTTTT
1 AAAA-CATTTT-ATAATATATAATTTTTA
* * * *
8366053 GAAA-ATTATATAATATATAGTTTTTG
1 AAAACATTTTATAATATATAATTTTTA
* *
8366079 AAAACGTTTTAAAATATATA
1 AAAACATTTTATAATATATA
8366099 TAATATATAC
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
23 1 0.02
24 6 0.11
25 4 0.07
26 17 0.30
27 16 0.28
28 7 0.12
29 6 0.11
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (27 bp):
AAAACATTTTATAATATATAATTTTTA
Found at i:8366049 original size:126 final size:126
Alignment explanation
Indices: 8365918--8366175 Score: 482
Period size: 126 Copynumber: 2.0 Consensus size: 126
8365908 AGTTTTTAAA
8365918 ATATTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTTAAAATATATATAATATATAC
1 ATATTTTTGAAAATTATATAATATATAGTTTTTGAAAACG-TTTTAAAATATATATAATATATAC
8365983 TTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTT-AAAAACCATTTTGAAAAT
65 TTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAAACCATTTTGAAAAT
8366044 ATATTTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATAC
1 ATA-TTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATAC
8366109 TTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAAAACCATTTTGAAAAT
65 TTTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTT-AAAAAACCATTTTGAAAAT
8366172 ATAT
1 ATAT
8366176 ATAATATATA
Statistics
Matches: 129, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
126 70 0.54
127 38 0.29
128 21 0.16
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (126 bp):
ATATTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTAAAATATATATAATATATACT
TTTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTAAAAAACCATTTTGAAAAT
Found at i:8366054 original size:15 final size:16
Alignment explanation
Indices: 8366034--8366063 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8366024 TTAAAAACCA
8366034 TTTTGAAAA-TATATT
1 TTTTGAAAATTATATT
8366049 TTTTGAAAATTATAT
1 TTTTGAAAATTATAT
8366064 AATATATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTGAAAATTATATT
Found at i:8366070 original size:25 final size:25
Alignment explanation
Indices: 8366006--8366082 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
8365996 ATGAAAACAT
*
8366006 TTATATAATATATAATTTTTAAAAA
1 TTATATAATATATAATTTTTGAAAA
** * * *
8366031 CCATTTTGAAAATATATTTTTTGAAAA
1 TTA-TAT-AATATATAATTTTTGAAAA
*
8366058 TTATATAATATATAGTTTTTGAAAA
1 TTATATAATATATAATTTTTGAAAA
8366083 CGTTTTAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
25 18 0.46
26 4 0.10
27 17 0.44
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (25 bp):
TTATATAATATATAATTTTTGAAAA
Found at i:8366103 original size:36 final size:37
Alignment explanation
Indices: 8366049--8366191 Score: 166
Period size: 40 Copynumber: 3.8 Consensus size: 37
8366039 AAAATATATT
8366049 TTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACG
*
8366085 TTTT-AAAATATATATAATATATA-CTTTTGAAAACG
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACG
* * * * *
8366120 TTATGAAAACATTTATATAATATATAATTTTTAAAAAAACCA
1 TTTTG-AAA-ATATATATAATATATAGTTTTT--GAAAA-CG
8366162 TTTTGAAAATATATATAATATATAGTTTTT
1 TTTTGAAAATATATATAATATATAGTTTTT
8366192 TTTTTTAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
35 19 0.21
36 17 0.19
37 3 0.03
38 15 0.17
39 4 0.04
40 20 0.22
41 7 0.08
42 5 0.06
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACG
Found at i:8366137 original size:38 final size:35
Alignment explanation
Indices: 8366054--8366155 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 35
8366044 ATATTTTTTG
* *
8366054 AAAA-TTATATAATATATAGTTTTTGAAAACGTTTT
1 AAAATTTATATAATATATA-ATTTTGAAAACGTTTA
* *
8366089 AAAATATATATAATATATACTTTTGAAAACGTTATGA
1 AAAATTTATATAATATATAATTTTGAAAACGTT-T-A
*
8366126 AAACATTTATATAATATATAATTTTTAAAA
1 AAA-ATTTATATAATATATAATTTTGAAAA
8366156 AAACCATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
35 17 0.30
36 14 0.25
37 3 0.05
38 23 0.40
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (35 bp):
AAAATTTATATAATATATAATTTTGAAAACGTTTA
Found at i:8366184 original size:47 final size:47
Alignment explanation
Indices: 8366133--8366231 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
8366123 TGAAAACATT
* *
8366133 TATATAATATATAATTTTT-AAAAAAACCATTTTGAAAATATATATAA
1 TATATAAT-TATAATTTTTAAAAAAAAACATTTTAAAAATATATATAA
* * ** * *
8366180 TATATAGTTTTTTTTTTTAAAAAAAAACATTTTAAAAATTTATATAT
1 TATATAATTATAATTTTTAAAAAAAAACATTTTAAAAATATATATAA
8366227 TATAT
1 TATAT
8366232 GTTTTTGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 7 0.16
47 36 0.84
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (47 bp):
TATATAATTATAATTTTTAAAAAAAAACATTTTAAAAATATATATAA
Done.