Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 90 of 91
Found at i:20426954 original size:42 final size:42
Alignment explanation
Indices: 20426844--20426967 Score: 107
Period size: 42 Copynumber: 3.0 Consensus size: 42
20426834 GAAGATATAG
* * * *
20426844 AAAAAGAAAAAAAAG-GAAAAAGATAGA-AAA-AA-ATAGAA
1 AAAAATAAAAAAAAGAGAAAAAAATAAATAAAGAAGAAAGAA
** *
20426882 AAAAATAGGAAAAAGAGAAAAAAATAAAT-AAGAAAGAGAGAA
1 AAAAATAAAAAAAAGAGAAAAAAATAAATAAAG-AAGAAAGAA
* *
20426924 AAAAATAAAAAAAAGAGAATAAAGA-GAATAAAGAAGAAAGAA
1 AAAAATAAAAAAAAGAGAA-AAAAATAAATAAAGAAGAAAGAA
20426966 AA
1 AA
20426968 CCGATTAATC
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
38 12 0.18
39 12 0.18
41 2 0.03
42 35 0.51
43 7 0.10
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (42 bp):
AAAAATAAAAAAAAGAGAAAAAAATAAATAAAGAAGAAAGAA
Found at i:20426965 original size:23 final size:21
Alignment explanation
Indices: 20426878--20426965 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 21
20426868 AGAAAAAAAT
**
20426878 AGAAAAAAATAGGAA-AAAG-
1 AGAAAAAAATAAAAAGAAAGA
20426897 AGAAAAAAATAAATAAGAAAGA
1 AGAAAAAAATAAA-AAGAAAGA
*
20426919 GAGAAAAAAATAAAAAAAAGAGA
1 -AGAAAAAAATAAAAAGAA-AGA
* *
20426942 ATAAAGAGAATAAAGAAGAAAGA
1 AGAAA-AAAATAAA-AAGAAAGA
20426965 A
1 A
20426966 AACCGATTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
19 11 0.20
20 2 0.04
21 4 0.07
22 8 0.14
23 27 0.48
24 4 0.07
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (21 bp):
AGAAAAAAATAAAAAGAAAGA
Found at i:20428972 original size:55 final size:55
Alignment explanation
Indices: 20428784--20429172 Score: 220
Period size: 54 Copynumber: 7.2 Consensus size: 55
20428774 TGTGTTTTTT
** *
20428784 AGAAACTAAGTCCGATTTTTGGAAGTGTCTTGATC-ATTTT-AAATGAGTTTTTAA
1 AGAAACTAAGTCCGATTTTCAGAAGTTTCTTGA-CGATTTTCAAATGAGTTTTTAA
* * * *
20428838 AGAAACTAAGTCTGATTTTCAAAAGTTTCCTGATGA-TTTCAAATGAGTTTTTAA
1 AGAAACTAAGTCCGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAA
* * * *
20428892 AGAAACTAAGACTGGTTTTCAGAAGTTTCTTGACGATTTTCAAATGTG-TTTTAA
1 AGAAACTAAGTCCGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAA
* ** ** ** *
20428946 ATAAACTAAGTCCGATTTTTTGGAAGTTTCTTGA-TTTTTCTCAAATGAACTTTCAA
1 AGAAACTAAGTCCGA-TTTTCAGAAGTTTCTTGACGATTT-TCAAATGAGTTTTTAA
* * ** * * *
20429002 AGAAATTAAG-CCTAGTTTT-AGGGGTTTCTTGATG-TTTTCAAATGA-ATTTCAA
1 AGAAACTAAGTCCGA-TTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAA
* * * * *
20429054 AGAAATTAAG-CCTAATTTTTAG-GGATTTCTTGATG-TTTTCAAATGTA-TTTTT--
1 AGAAACTAAGTCC-GATTTTCAGAAG-TTTCTTGACGATTTTCAAATG-AGTTTTTAA
* ** * *
20429106 AGAAACTAA-CCCTGATTTTCAGGGGTTTCTTAATGATGATTTTC-AATGAG-TTTAAA
1 AGAAACTAAGTCC-GATTTTCAGAAGTTTC-T--TGACGATTTTCAAATGAGTTTTTAA
20429162 AGAAAGCTAAG
1 AGAAA-CTAAG
20429173 CCTAATTTTA
Statistics
Matches: 273, Mismatches: 40, Indels: 40
0.77 0.11 0.11
Matches are distributed among these distances:
52 46 0.17
53 37 0.14
54 114 0.42
55 49 0.18
56 23 0.08
57 4 0.01
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (55 bp):
AGAAACTAAGTCCGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAA
Found at i:20429040 original size:108 final size:108
Alignment explanation
Indices: 20428805--20429063 Score: 247
Period size: 108 Copynumber: 2.4 Consensus size: 108
20428795 CCGATTTTTG
* * *
20428805 GAAGTGTCTTGATC-ATTTT-AAATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAAAAGTTTCC
1 GAAGTTTCTTGA-CGATTTTCAAATGTG-TTTTAAAGAAACTAAGTCCGATTTTCAAAAGTTTCC
** * *
20428868 TGATGATTTCAAATGAGTTTTTAAAGAAACTAAGACTGGTTTTCA
64 TGATGATTTCAAATGAACTTTCAAAGAAACTAAGACTAGTTTTCA
* *** *
20428913 GAAGTTTCTTGACGATTTTCAAATGTGTTTTAAATAAACTAAGTCCGATTTTTTGGAAGTTTCTT
1 GAAGTTTCTTGACGATTTTCAAATGTGTTTTAAAGAAACTAAGTCCGA-TTTTCAAAAGTTTCCT
** * *
20428978 GATTTTTCTCAAATGAACTTTCAAAGAAATTAAGCCTAGTTTT-A
65 GATGATT-TCAAATGAACTTTCAAAGAAACTAAGACTAGTTTTCA
** * ** * *
20429022 GGGGTTTCTTGATG-TTTTCAAATGAATTTCAAAGAAATTAAG
1 GAAGTTTCTTGACGATTTTCAAATGTGTTTTAAAGAAACTAAG
20429064 CCTAATTTTT
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
107 1 0.01
108 58 0.47
109 35 0.28
110 29 0.24
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (108 bp):
GAAGTTTCTTGACGATTTTCAAATGTGTTTTAAAGAAACTAAGTCCGATTTTCAAAAGTTTCCTG
ATGATTTCAAATGAACTTTCAAAGAAACTAAGACTAGTTTTCA
Found at i:20429076 original size:53 final size:53
Alignment explanation
Indices: 20428862--20429194 Score: 244
Period size: 55 Copynumber: 6.2 Consensus size: 53
20428852 ATTTTCAAAA
* * * * * ** * **
20428862 GTTTCCTGATGATTTCAAATGAGTTTTTAAAGAAACTAAGACTGGTTTTCAGAA
1 GTTTCTTGATGTTTTCAAATGA-ATTTCAAAGAAACTAAGCCTAATTTTTAGGG
* ** * * * * *
20428916 GTTTCTTGACGATTTTCAAATGTGTTTTAAATAAACTAAGTCC-GATTTTTTGGAA
1 GTTTCTTGATG-TTTTCAAATGAATTTCAAAGAAACTAAG-CCTAATTTTTAGG-G
* * *
20428971 GTTTCTTGATTTTTCTCAAATGAACTTTCAAAGAAATTAAGCCT-AGTTTTAGGG
1 GTTTCTTGATGTTT-TCAAATGAA-TTTCAAAGAAACTAAGCCTAATTTTTAGGG
*
20429025 GTTTCTTGATGTTTTCAAATGAATTTCAAAGAAATTAAGCCTAATTTTTAGGG
1 GTTTCTTGATGTTTTCAAATGAATTTCAAAGAAACTAAGCCTAATTTTTAGGG
* * ** * * *
20429078 ATTTCTTGATGTTTTCAAATGTATTT-TTAGAAACTAACCCTGATTTTCAGGG
1 GTTTCTTGATGTTTTCAAATGAATTTCAAAGAAACTAAGCCTAATTTTTAGGG
* *
20429130 GTTTCTTAATGATGATTTTC-AATGAGTTTAAAAGAAAGCTAAGCCTAA-TTTTAGGG
1 GTTTC-T--TGATG-TTTTCAAATGAATTTCAAAGAAA-CTAAGCCTAATTTTTAGGG
*
20429186 GTTCCTTGA
1 GTTTCTTGA
20429195 AAACTAAGAA
Statistics
Matches: 226, Mismatches: 40, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
52 43 0.19
53 46 0.20
54 46 0.20
55 49 0.22
56 34 0.15
57 8 0.04
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (53 bp):
GTTTCTTGATGTTTTCAAATGAATTTCAAAGAAACTAAGCCTAATTTTTAGGG
Found at i:20429593 original size:277 final size:272
Alignment explanation
Indices: 20429085--20429606 Score: 764
Period size: 277 Copynumber: 1.9 Consensus size: 272
20429075 GGGATTTCTT
* *
20429085 GATGTTTTCAAATGTATTTTTAGAAACTAACCCTGATTTTCAGGGGTTTCTTAATGATGATTTTC
1 GATGTTTTCAAATGTATTTTTAGAAACTAACCCTGATTTTCAGGGGTTTCTTAATGATGATCTCC
* *
20429150 AATGAGTTTAAAAGAAAGCTAAGCCTAATTTTAGGGGTTCCTTGAAAACTAAGAAACTAAGCTTG
66 AAAGAGTTTAAAAGAAAGCTAAGCCTAATTTTAGGGGTTCCTTGAAAACTAAGAAAATAAGCTTG
* * * * *
20429215 ATTTTCAAGGGTTTCTTAACGAGTAAGTCCTTTGGGCGACTAGTAAGTCTTTCGAGCATGATGCT
131 ATTTTCAAGGGTTTCTTAACAAATAAGTCCTTTAGGCCACTAGTAAGTCTTTCGAGCATAATGCT
* * *
20429280 TAAATCTTTCGGGTCATCTATAAGTCTTTTGAGCAAGATGATAAGTCCTTCGGACCATCCATTAG
196 TAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAACTCCTTCGGACCATCCATTAG
20429345 ACCTTTAGGCAG
261 ACCTTTAGGCAG
* *
20429357 GATGTTTTCAAAT-TGTTTTTAGAAACTAAGCCC-GATTTTCAGGGGTTTCTTGATGACT-ATCT
1 GATGTTTTCAAATGTATTTTTAGAAACTAA-CCCTGATTTTCAGGGGTTTCTTAATGA-TGATCT
* * *
20429419 CCAAAGAGTTTGTAAAAGGAAGCTAAGCCTAATGTTTAGGGGTTCCTTGATTGCAATTAAGAAAA
64 CCAAAGAG-TT-TAAAAGAAAGCTAAGCCTAAT-TTTAGGGGTTCCTTGA---AAACTAAGAAAA
* *
20429484 TAAGCTTGATTTTCAAGGGTTTCTTGATAAATAAGTCCTTTAGGCCA-TCAGTAAGTCTTTCGAG
123 TAAGCTTGATTTTCAAGGGTTTCTTAACAAATAAGTCCTTTAGGCCACT-AGTAAGTCTTTCGAG
20429548 CATAATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAACTCCTT
187 CATAATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAACTCCTT
20429607 TAGGCAATCC
Statistics
Matches: 222, Mismatches: 19, Indels: 13
0.87 0.07 0.05
Matches are distributed among these distances:
271 46 0.21
272 19 0.09
273 20 0.09
274 16 0.07
276 1 0.00
277 120 0.54
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (272 bp):
GATGTTTTCAAATGTATTTTTAGAAACTAACCCTGATTTTCAGGGGTTTCTTAATGATGATCTCC
AAAGAGTTTAAAAGAAAGCTAAGCCTAATTTTAGGGGTTCCTTGAAAACTAAGAAAATAAGCTTG
ATTTTCAAGGGTTTCTTAACAAATAAGTCCTTTAGGCCACTAGTAAGTCTTTCGAGCATAATGCT
TAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAACTCCTTCGGACCATCCATTAG
ACCTTTAGGCAG
Found at i:20432810 original size:137 final size:136
Alignment explanation
Indices: 20432629--20433285 Score: 922
Period size: 137 Copynumber: 4.8 Consensus size: 136
20432619 AGATCCAACT
* * * * *
20432629 GGTGTATGACATTATTCCTTCATGATGAGGAAGTCTGACCATCTTTGAAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGACCATCTTTAAAGATATTTGAGATAACA
** * *
20432694 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAGCGACTCG-GCTCCTACGTGATGAGGAG
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGA-T-GTGCTCCTTCGTGATGAGGAA
20432758 TTCTGATC
129 TTCTGATC
* * *
20432766 GGTGGATGACATTGTTCCTTCGTGATGAGGACATCTGACCATCTTTAAAGATATTTGAAATAGCA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGACCATCTTTAAAGATATTTGAGATAACA
* *
20432831 TGGTTCCTTCGTGATGAGGACGTCTGGCTATCTAAGAATGATGTTGCTCCTTCGTGATGAGGAAT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATG-TGCTCCTTCGTGATGAGGAAT
*
20432896 TTTGATC
130 TCTGATC
*
20432903 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGACCATCTTTAAAGATATTTGAGATAACA
* * * * *
20432968 CGGTTTCTTCGTGATGATGACGTCTGGCTATCTAAGAATGATGTTGCACTTTCGTGATGAGGAAT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATG-TGCTCCTTCGTGATGAGGAAT
20433033 TCTGATC
130 TCTGATC
* * *
20433040 GGTGGATGACATTGTTCCTTCATGATGAGGACGTCTGGCTATCTTTAAAGATATTTGAGATAACA
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGACCATCTTTAAAGATATTTGAGATAACA
* * *
20433105 CAGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATATTGCTCCTTCGTGATGAGGAGT
66 CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGAT-GTGCTCCTTCGTGATGAGGAAT
*
20433170 TCTGATT
130 TCTGATC
* *
20433177 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCT-AGCCATCTTTGAAGATATTTTAGATAAC
1 GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGA-CCATCTTTAAAGATATTTGAGATAAC
* * * * * *
20433241 ATGGTTTCTTCGTGATGAGGACATTTGGATATTTAAGGATGATGT
65 ACGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGT
20433286 TGATGGACAC
Statistics
Matches: 467, Mismatches: 49, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
135 1 0.00
136 2 0.00
137 464 0.99
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (136 bp):
GGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGACCATCTTTAAAGATATTTGAGATAACA
CGGTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTGCTCCTTCGTGATGAGGAATT
CTGATC
Found at i:20433859 original size:42 final size:42
Alignment explanation
Indices: 20433799--20433880 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
20433789 AAAGACTTAT
* * *
20433799 CATCTTGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTAACAGATAAACCGAAGGATTTAAG
*
20433841 CATCATGCTGGAAAGACTAACAGATAAACCGAAGGATTTA
1 CATCATGCTCGAAAGACTAACAGATAAACCGAAGGATTTA
20433881 CAAATTTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAACAGATAAACCGAAGGATTTAAG
Found at i:20434197 original size:118 final size:116
Alignment explanation
Indices: 20433982--20434212 Score: 356
Period size: 118 Copynumber: 2.0 Consensus size: 116
20433972 CTATTTCATT
* * *
20433982 TTCATGCGAAAATCATATGTGAACATCCTACCAAGGCTTTACGGATGGCCCTAAGGACTTATCAT
1 TTCATGCGAAAATCATATGTGAACATCCTACCAAAGCTTTAAGGATGGCCCTAAAGACTTATCAT
**
20434047 CCTTCTCGAAACACTAAGTGATAACCCAAAGGATTTAAGCATCATGCTCGA
66 CCTTCTCGAAACACTAACAGATAACCCAAAGGATTTAAGCATCATGCTCGA
20434098 TTCATGCGAAAATCATATGTGAACATCCTACCCAAAAGCTTTAAGGATGGCCCTAAAGACTTATC
1 TTCATGCGAAAATCATATGTGAACATCCTA-CC-AAAGCTTTAAGGATGGCCCTAAAGACTTATC
* * *
20434163 AT-CTTGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAGCATCATGCT
64 ATCCTT-CTCGAAACACTAACAGATAACCCAAAGGATTTAAGCATCATGCT
20434213 GGAAAGACTA
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
116 30 0.29
117 5 0.05
118 69 0.66
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (116 bp):
TTCATGCGAAAATCATATGTGAACATCCTACCAAAGCTTTAAGGATGGCCCTAAAGACTTATCAT
CCTTCTCGAAACACTAACAGATAACCCAAAGGATTTAAGCATCATGCTCGA
Found at i:20434222 original size:42 final size:42
Alignment explanation
Indices: 20434162--20434243 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
20434152 AAAGACTTAT
* * *
20434162 CATCTTGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTAACAGATAAACCGAAGGATTTAAG
* *
20434204 CATCATGCTGGAAAGACTAACAGATAAACCGAAGTATTTA
1 CATCATGCTCGAAAGACTAACAGATAAACCGAAGGATTTA
20434244 CAAATTTGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAACAGATAAACCGAAGGATTTAAG
Found at i:20434462 original size:366 final size:362
Alignment explanation
Indices: 20433741--20434463 Score: 1367
Period size: 366 Copynumber: 2.0 Consensus size: 362
20433731 ATTTTCAATT
20433741 CGAAAATCATATGTGAACATCCTACCCAAAAGCTTTAAGGATGGCCCTAAAGACTTATCATCTTG
1 CGAAAATCATATGTGAACATCCTACCCAAAAGCTTTAAGGATGGCCCTAAAGACTTATCATCTTG
20433806 CTCGAAAGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTGGAAAGACTAACAGATAAACC
66 CTCGAAAGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTGGAAAGACTAACAGATAAACC
20433871 GAAGGATTTACAAATTTGTGGAAACTGTACTAGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
131 GAAGGATTTACAAATTTGTGGAAACTGTACTAGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
20433936 TTCCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATTTCATTTTCATGCGAAAATCATATG
196 TTCCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATTTCATTTTCATGCGAAAATCATATG
20434001 TGAACATCCTACCAAGGCTTTACGGATGGCCCTAAGGACTTATCATCCTTCTCGAAACACTAAGT
261 TGAACATCCTACCAAGGCTTTACGGATGGCCCTAAGGACTTATCATCCTTCTCGAAACACTAAG-
20434066 GATAACCCAAAGGATTTAAGCATCATGCTCGATTCATG
325 GATAACCCAAAGGATTTAAGCATCATGCTCGATTCATG
20434104 CGAAAATCATATGTGAACATCCTACCCAAAAGCTTTAAGGATGGCCCTAAAGACTTATCATCTTG
1 CGAAAATCATATGTGAACATCCTACCCAAAAGCTTTAAGGATGGCCCTAAAGACTTATCATCTTG
20434169 CTCGAAAGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTGGAAAGACTAACAGATAAACC
66 CTCGAAAGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTGGAAAGACTAACAGATAAACC
*
20434234 GAAGTATTTACAAATTTGTGGGAAATACTGTACTAGGTAAGAAACTTCTTACTTTTCAAGAATTT
131 GAAGGATTTACAAATTTGT-GG-AA-ACTGTACTAGGTAAGAAACTTCTTACTTTTCAAGAATTT
20434299 GATTTCCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATTTCATTTTCATGCGAAAATCAT
193 GATTTCCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATTTCATTTTCATGCGAAAATCAT
20434364 ATGTGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCCTTCTCGAAACAC
258 ATGTGAACATCCTA-CC-AAGGCTTTACGGATGGCCCTAAGGACTTATCATCCTTCTCGAAACAC
*
20434429 TAA-GATAACCCGAAGGATTTAAGCATCATGCTCGA
321 TAAGGATAACCCAAAGGATTTAAGCATCATGCTCGA
20434464 AAGACTAACA
Statistics
Matches: 353, Mismatches: 2, Indels: 7
0.98 0.01 0.02
Matches are distributed among these distances:
363 148 0.42
364 2 0.01
365 2 0.01
366 149 0.42
367 2 0.01
368 50 0.14
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (362 bp):
CGAAAATCATATGTGAACATCCTACCCAAAAGCTTTAAGGATGGCCCTAAAGACTTATCATCTTG
CTCGAAAGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTGGAAAGACTAACAGATAAACC
GAAGGATTTACAAATTTGTGGAAACTGTACTAGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
TTCCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATTTCATTTTCATGCGAAAATCATATG
TGAACATCCTACCAAGGCTTTACGGATGGCCCTAAGGACTTATCATCCTTCTCGAAACACTAAGG
ATAACCCAAAGGATTTAAGCATCATGCTCGATTCATG
Found at i:20434710 original size:42 final size:42
Alignment explanation
Indices: 20434659--20434740 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
20434649 AAGGACTTAT
* *
20434659 CATCTTGCTCGAACGACTAACAAATGACCCAAAGGATTTAAG
1 CATCATGCTCGAAAGACTAACAAATGACCCAAAGGATTTAAG
* *
20434701 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTAACAAATGACCCAAAGGATTTA
20434741 CAAATTTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAACAAATGACCCAAAGGATTTAAG
Found at i:20434780 original size:249 final size:250
Alignment explanation
Indices: 20434098--20434827 Score: 1173
Period size: 248 Copynumber: 2.9 Consensus size: 250
20434088 TCATGCTCGA
* * *
20434098 TTCATGCGAAAATCATATGTGAACATCCTACCCAAAAGCTTTAAGGATGGCCCTAAAGACTTATC
1 TTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATC
* *
20434163 ATCTTGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTGGAAAGACTAACAGA
66 ATCTTGCTCGAACGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACAGA
* * * *
20434228 TAAACCGAAGTATTTACAAATTTGTGGGAAATACTGTACTAGGTAAGAAACTTCTTACTTTTCAA
131 TGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTCAA
* *
20434293 GAATTTGATTTCCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATTTCATT
196 GAATTTGATTTTCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATCTCATT
20434348 TTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATC
1 TTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATC
*
20434413 ATCCTT-CTCGAAAC-ACT-A-AGATAACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACA
66 AT-CTTGCTCG-AACGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACA
*
20434474 GATGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTATTAGGTAAGAAACTTCTTACTTTTC
129 GATGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTC
*
20434539 AAGAATTTGATTTTCTAGAACATTAAATGAGAAACTTT-GAAAATCGCTATCTCATT
194 AAGAATTTGATTTTCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATCTCATT
*
20434595 TTCATGCAAAAATCATATGTGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATC
1 TTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATC
* *
20434660 ATCTTGCTCGAACGACTAACAAATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTAACAGA
66 ATCTTGCTCGAACGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACAGA
* *
20434725 TGACCCGAAGGATTTACAAATTTGTGGGAAATATTTTACTGGGTAAGAAACTTCTTACTTTTCAA
131 TGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTC-A
* * * *
20434790 AAAATTTCATTTTCTAAAAAAGATTAAATGAGAAACTT
195 AGAATTTGATTTTCT--AGAACATTAAATGAGAAACTT
20434828 GTTGGTTGGG
Statistics
Matches: 446, Mismatches: 25, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
246 6 0.01
247 89 0.20
248 139 0.31
249 103 0.23
250 85 0.19
251 5 0.01
252 19 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (250 bp):
TTCATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATC
ATCTTGCTCGAACGACTAACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACAGA
TGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTCAA
GAATTTGATTTTCTAGAACATTAAATGAGAAACTTTAAAAAATCGCTATCTCATT
Found at i:20437313 original size:7 final size:7
Alignment explanation
Indices: 20437293--20437343 Score: 65
Period size: 7 Copynumber: 7.9 Consensus size: 7
20437283 ATTTTCTTCT
20437293 TCTTTTC
1 TCTTTTC
20437300 -C-TTTC
1 TCTTTTC
20437305 TCTTTTC
1 TCTTTTC
20437312 TCTTTTC
1 TCTTTTC
20437319 TCTTTTC
1 TCTTTTC
*
20437326 -CTTTTT
1 TCTTTTC
20437332 TCTTTT-
1 TCTTTTC
20437338 TCTTTT
1 TCTTTT
20437344 TATTTTTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 4 0.10
6 13 0.32
7 23 0.57
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (7 bp):
TCTTTTC
Found at i:20437320 original size:14 final size:13
Alignment explanation
Indices: 20437293--20437357 Score: 69
Period size: 14 Copynumber: 4.9 Consensus size: 13
20437283 ATTTTCTTCT
20437293 TCTTTTCC-TTTC
1 TCTTTTCCTTTTC
20437305 TCTTTTCTCTTTTC
1 TCTTTTC-CTTTTC
*
20437319 TCTTTTCCTTTTT
1 TCTTTTCCTTTTC
* *
20437332 TCTTTTTCTTTTTA
1 TC-TTTTCCTTTTC
*
20437346 TTTTTTCCTTTT
1 TCTTTTCCTTTT
20437358 TTTCCTTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
12 7 0.16
13 17 0.38
14 21 0.47
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (13 bp):
TCTTTTCCTTTTC
Found at i:20437324 original size:26 final size:26
Alignment explanation
Indices: 20437293--20437377 Score: 86
Period size: 26 Copynumber: 3.2 Consensus size: 26
20437283 ATTTTCTTCT
20437293 TCTTTTCCTTTCTCTTTTCTC-TTTTC
1 TCTTTTCCTTT-TCTTTTCTCTTTTTC
*
20437319 TCTTTTCCTTTTTTCTTTT-TCTTTTTA
1 TCTTTTCC--TTTTCTTTTCTCTTTTTC
* *
20437346 TTTTTTCCTTTT-TTTCCTTCTTTTTC
1 TCTTTTCCTTTTCTTTTC-TCTTTTTC
20437372 TCTTTT
1 TCTTTT
20437378 TTTATGGATG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
24 3 0.06
25 4 0.08
26 22 0.45
27 17 0.35
28 3 0.06
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (26 bp):
TCTTTTCCTTTTCTTTTCTCTTTTTC
Found at i:20437344 original size:7 final size:7
Alignment explanation
Indices: 20437301--20437379 Score: 56
Period size: 7 Copynumber: 11.4 Consensus size: 7
20437291 CTTCTTTTCC
*
20437301 TTTCTCT
1 TTTCTTT
*
20437308 TTTCTCT
1 TTTCTTT
20437315 TTTCTCTT
1 TTTCT-TT
*
20437323 TTCCTTT
1 TTTCTTT
20437330 TTTC-TT
1 TTTCTTT
20437336 TTTC-TT
1 TTTCTTT
*
20437342 TTTATTT
1 TTTCTTT
*
20437349 TTTCCTT
1 TTTCTTT
*
20437356 TTT-TTC
1 TTTCTTT
*
20437362 CTTCTTT
1 TTTCTTT
20437369 TTCTCTTT
1 TT-TCTTT
20437377 TTT
1 TTT
20437380 TATGGATGAG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
6 14 0.25
7 31 0.54
8 12 0.21
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTCTTT
Found at i:20437344 original size:20 final size:20
Alignment explanation
Indices: 20437307--20437358 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
20437297 TTCCTTTCTC
*
20437307 TTTTCTCTTTTCTCTTTTCCTT
1 TTTTCT-TTTTCTCTTTT-ATT
20437329 TTTTCTTTTTCT-TTTTATT
1 TTTTCTTTTTCTCTTTTATT
20437348 TTTTCCTTTTT
1 TTTT-CTTTTT
20437359 TTCCTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 6 0.21
22 6 0.21
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTTTTCTCTTTTATT
Found at i:20437360 original size:9 final size:9
Alignment explanation
Indices: 20437346--20437380 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
20437336 TTTCTTTTTA
20437346 TTTTTTCCT
1 TTTTTTCCT
20437355 TTTTTTCCT
1 TTTTTTCCT
20437364 TCTTTTTCTCT
1 T-TTTTTC-CT
20437375 TTTTTT
1 TTTTTT
20437381 ATGGATGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 11 0.46
11 3 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:20451907 original size:108 final size:107
Alignment explanation
Indices: 20451747--20452122 Score: 365
Period size: 108 Copynumber: 3.5 Consensus size: 107
20451737 TTTGTTTTTC
* *
20451747 AGAAACTAAGTCCGATTTTCGGAAGTTTCTTGATC-ATTTT-AAATGAGTTTTTAAAGAAACTAA
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGA-CGATTTTCAAATGAG-TTTTAAAGAAACTAA
* *
20451810 GTCTGATTTTCAGAAGTTTCCTGATGATTTCAAATGAGTTTTTAA
64 GTCTGATTTTCAGAAGTTTCTTGATGTTTTCAAATGAG-TTTTAA
*
20451855 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGTGTTTTAAAGAAACTAAGT
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTAAAGAAACTAAGT
* * * *
20451920 CCGGTTTTC-GAAAGTTTCTTGAT-TTTTCTTAAATGAACTTTCAA
66 CTGATTTTCAG-AAGTTTCTTGATGTTTTC--AAATG-AGTTTTAA
* * * ** * * *
20451964 AGAAATTAAGTCTAATTTTTAGGGGTTTCTTGACG-TTTTCAAATGAGTTTCAAAGAAATTAAGC
1 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTAAAGAAACTAAGT
* * * *
20452028 CTAATTTTTAG-GGATTTCTTGATGTTTTCAAATGAGTTTT-G
66 CTGATTTTCAGAAG-TTTCTTGATGTTTTCAAATGAGTTTTAA
** *
20452069 AGAAACTAA-TCCTGATTTTCAGGGGTTTCTTAATGATGATTTTC-AATGAGTTTT
1 AGAAACTAAGT-CTGATTTTCAGAAGTTTC-T--TGACGATTTTCAAATGAGTTTT
20452123 TAAAAGGAAG
Statistics
Matches: 223, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
104 1 0.00
105 24 0.11
106 5 0.02
107 12 0.05
108 123 0.55
109 57 0.26
110 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (107 bp):
AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTAAAGAAACTAAGT
CTGATTTTCAGAAGTTTCTTGATGTTTTCAAATGAGTTTTAA
Found at i:20452025 original size:53 final size:53
Alignment explanation
Indices: 20451747--20452077 Score: 285
Period size: 54 Copynumber: 6.2 Consensus size: 53
20451737 TTTGTTTTTC
** ** *
20451747 AGAAACTAAGTCCGATTTTCGGAAGTTTCTTGATCATTTT-AAATGAGTTTTTAA
1 AGAAACTAAGTCTAATTTTTAGAAGTTTCTTGA-CGTTTTCAAATGAG-TTTTAA
* * * * *
20451801 AGAAACTAAGTCTGATTTTCAGAAGTTTCCTGATGATTTCAAATGAGTTTTTAA
1 AGAAACTAAGTCTAATTTTTAGAAGTTTCTTGACGTTTTCAAATGAG-TTTTAA
* * *
20451855 AGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGTGTTTTAA
1 AGAAACTAAGTCTAATTTTTAGAAGTTTCTTGACG-TTTTCAAATGAGTTTTAA
*** * * * *
20451909 AGAAACTAAGTC-CGGTTTTCGAAAGTTTCTTGA-TTTTTCTTAAATGAACTTTCAA
1 AGAAACTAAGTCTAATTTTTAG-AAGTTTCTTGACGTTTTC--AAATG-AGTTTTAA
* ** *
20451964 AGAAATTAAGTCTAATTTTTAGGGGTTTCTTGACGTTTTCAAATGAGTTTCAA
1 AGAAACTAAGTCTAATTTTTAGAAGTTTCTTGACGTTTTCAAATGAGTTTTAA
* * * * *
20452017 AGAAATTAAGCCTAATTTTTAG-GGATTTCTTGATGTTTTCAAATGAGTTTT-G
1 AGAAACTAAGTCTAATTTTTAGAAG-TTTCTTGACGTTTTCAAATGAGTTTTAA
20452069 AGAAACTAA
1 AGAAACTAA
20452078 TCCTGATTTT
Statistics
Matches: 235, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
52 15 0.06
53 59 0.25
54 116 0.49
55 35 0.15
56 10 0.04
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (53 bp):
AGAAACTAAGTCTAATTTTTAGAAGTTTCTTGACGTTTTCAAATGAGTTTTAA
Found at i:20452270 original size:42 final size:41
Alignment explanation
Indices: 20452208--20452297 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 41
20452198 AACGAGTAAG
* * *
20452208 TCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATG-ATAAA
*
20452250 TCCTTCGGGTCATCTA-TAAGTCTTTCGAGCAAGATGATAAA
1 TCCTTCGGGCCATC-AGTAAGTCTTTCGAGCAAGATGATAAA
20452291 TCCTTCG
1 TCCTTCG
20452298 AACAATCCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 11 0.26
42 31 0.72
43 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (41 bp):
TCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATAAA
Found at i:20452310 original size:41 final size:42
Alignment explanation
Indices: 20452224--20452310 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 42
20452214 GGGCCATCAG
* * * ** *
20452224 TAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTA
1 TAAGTCTTTCGAGCAAGATGCATAAATCCTTCGGAACATCCA
20452266 TAAGTCTTTCGAGCAAGATG-ATAAATCCTTC-GAACAATCCA
1 TAAGTCTTTCGAGCAAGATGCATAAATCCTTCGGAAC-ATCCA
20452307 TAAG
1 TAAG
20452311 ACCTTTGGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 2 0.05
41 18 0.47
42 18 0.47
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (42 bp):
TAAGTCTTTCGAGCAAGATGCATAAATCCTTCGGAACATCCA
Found at i:20452544 original size:276 final size:275
Alignment explanation
Indices: 20452047--20452590 Score: 736
Period size: 276 Copynumber: 2.0 Consensus size: 275
20452037 AGGGATTTCT
* * **
20452047 TGATGTTTTCAAATGAGTTTTGAGAAACTAATCCTGATTTTCAGGGGTTTCTTAATGATGATTTT
1 TGATATTTTCAAATGAGTTTTGAGAAACTAAGCCTGATTTTCAGGGGTTTCTTAATGATGATTCC
* * * *
20452112 CAATGAGTTTTTAAAAGGAAGCTAAGCCTAATTTTTATGGGTTCCTTGACAACAAAGAAACTAAG
66 CAAAGAGTCTGTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGACAACAAAGAAACTAAG
* * * * *
20452177 CTTGATTTTCAAGGGTTTCTTAACGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATGA
131 CTTGATTTTCAAGGGTTTCTTAACGAATAAGTCATTCGGGCCATAAGTAAATCTTTCGAGCATGA
20452242 TGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAATCCTTCGAACAATCCA
196 TGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAATCCTTCGAACAATCCA
20452307 TAAGACCTTTGGGCA
261 TAAGACCTTTGGGCA
* * * * *
20452322 TGATATTTTCAAATGTGTATTT-ATAAACTAAGCCTGGTTTTTAGGGGTTTCTTGATGACT-A-T
1 TGATATTTTCAAATGAGT-TTTGAGAAACTAAGCCTGATTTTCAGGGGTTTCTTAATGA-TGATT
* **
20452384 CCCAAAGAGTCTGTAAAAGGAAGCTAAGCCTAA-TTTTAGGGGTTCCTTGATTGTAATTAAGAAA
64 CCCAAAGAGTCTGTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGA---CAACAAAGAAA
* * *
20452448 CTAAGCTTGATTTTCAAGGGTTTCTTGATGAATAAGTGATTCGGGCCATAAGTAAATCTTTCGAG
126 CTAAGCTTGATTTTCAAGGGTTTCTTAACGAATAAGTCATTCGGGCCATAAGTAAATCTTTCGAG
* * * * ** *
20452513 CATGGTGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGTAAGATGATAAGTTCTTCGGGCC
191 CATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAATCCTTCGAACA
20452578 ATCCATAAGACCT
256 ATCCATAAGACCT
20452591 CCGGGCAGAA
Statistics
Matches: 233, Mismatches: 31, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
273 16 0.07
274 29 0.12
275 48 0.21
276 140 0.60
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (275 bp):
TGATATTTTCAAATGAGTTTTGAGAAACTAAGCCTGATTTTCAGGGGTTTCTTAATGATGATTCC
CAAAGAGTCTGTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGACAACAAAGAAACTAAG
CTTGATTTTCAAGGGTTTCTTAACGAATAAGTCATTCGGGCCATAAGTAAATCTTTCGAGCATGA
TGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAATCCTTCGAACAATCCA
TAAGACCTTTGGGCA
Found at i:20472671 original size:20 final size:21
Alignment explanation
Indices: 20472643--20472687 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
20472633 ATCCTTTTAT
*
20472643 ATAATAATTCAAAA-TTAAAA
1 ATAAAAATTCAAAAGTTAAAA
*
20472663 ATAAAAATTTAAAATGTTAAAA
1 ATAAAAATTCAAAA-GTTAAAA
20472685 ATA
1 ATA
20472688 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAAAAATTCAAAAGTTAAAA
Found at i:20472694 original size:26 final size:25
Alignment explanation
Indices: 20472664--20472727 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
20472654 AAATTAAAAA
** *
20472664 TAAAAATTTAAAATGTTAAAAATATT
1 TAAAAATTTAAAACATGAAAAAT-TT
*
20472690 TAAAAAATTAAAACATGAAAAATTT
1 TAAAAATTTAAAACATGAAAAATTT
20472715 T-AAAATTATAAAA
1 TAAAAATT-TAAAA
20472728 AATATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 5 0.16
25 8 0.25
26 19 0.59
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (25 bp):
TAAAAATTTAAAACATGAAAAATTT
Found at i:20472866 original size:23 final size:23
Alignment explanation
Indices: 20472840--20472884 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20472830 ATCAATTTAC
*
20472840 TTAAAAAA-AATAAAATTCAAGAT
1 TTAAAAAATAAAAAAATT-AAGAT
20472863 TTAAAAAATAAAAAAATTAAGA
1 TTAAAAAATAAAAAAATTAAGA
20472885 ATTGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
TTAAAAAATAAAAAAATTAAGAT
Found at i:20474593 original size:20 final size:21
Alignment explanation
Indices: 20474568--20474609 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
20474558 GTTCTCTACG
20474568 TTATATCATACGAAAAA-ATA
1 TTATATCATACGAAAAAGATA
* *
20474588 TTATATGATATGAAAAAGATA
1 TTATATCATACGAAAAAGATA
20474609 T
1 T
20474610 ATTGGCGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
TTATATCATACGAAAAAGATA
Found at i:20476684 original size:43 final size:42
Alignment explanation
Indices: 20476585--20476713 Score: 158
Period size: 43 Copynumber: 3.1 Consensus size: 42
20476575 TATTTTTGTT
* * *
20476585 AAATGCCACAATTCTTCATAACATTAGCGGCATTTGT-A--T-A
1 AAATGCCGCAATT-TT-AAAACATTAGTGGCATTTGTAATTTGA
20476625 AAATGCCGCAATTTTAAGAACATTAGTGGCATTTGTAATTTGA
1 AAATGCCGCAATTTTAA-AACATTAGTGGCATTTGTAATTTGA
*
20476668 AAATGCCGCAATTTTAAATACATTAGTGGCGTTTGTAATTTGA
1 AAATGCCGCAATTTTAAA-ACATTAGTGGCATTTGTAATTTGA
20476711 AAA
1 AAA
20476714 CGCCACAACA
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
38 1 0.01
39 19 0.24
40 13 0.16
42 2 0.03
43 44 0.56
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (42 bp):
AAATGCCGCAATTTTAAAACATTAGTGGCATTTGTAATTTGA
Found at i:20477834 original size:30 final size:30
Alignment explanation
Indices: 20477798--20477858 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
20477788 TAGTAACTTT
**
20477798 AGATAATACGACATAATGTACAAACTATTA
1 AGATAATAAAACATAATGTACAAACTATTA
20477828 AGATAATAAAACATAATGTACAAACTATTA
1 AGATAATAAAACATAATGTACAAACTATTA
20477858 A
1 A
20477859 ACAATGACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.26
Consensus pattern (30 bp):
AGATAATAAAACATAATGTACAAACTATTA
Found at i:20480462 original size:75 final size:74
Alignment explanation
Indices: 20480338--20480542 Score: 211
Period size: 75 Copynumber: 2.8 Consensus size: 74
20480328 TTTAATATTT
* * * *
20480338 TTCTAGACTTAATATTATGGTTTTGAGTCTT-ATGATTTGACACTTTAATATTATGATTTGATTA
1 TTCTAAACTTAATATTGTGG-TTTGAATCTTGA-AATTTGACA-TTTAATATTATGATTTGATTA
*
20480402 TGGATTTTATTA
63 TGGATTTTACTA
* * * * * * *
20480414 TTCTAGAGTTAATTTTGTGGTTTGAATTTTGAAATTTGACATTTTAATATTGTGGTTTGTTTATG
1 TTCTAAACTTAATATTGTGGTTTGAATCTTGAAATTTGACA-TTTAATATTATGATTTGATTATG
*
20480479 GATTTTACTG
65 GATTTTACTA
* *
20480489 TTCTAAACTTAATATTGTGGTTTGAGTCTTGATATTTGAC-TTT-AT-TTATGATTT
1 TTCTAAACTTAATATTGTGGTTTGAATCTTGAAATTTGACATTTAATATTATGATTT
20480543 TTTATATATA
Statistics
Matches: 108, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
71 7 0.06
72 2 0.02
73 3 0.03
75 78 0.72
76 18 0.17
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.53
Consensus pattern (74 bp):
TTCTAAACTTAATATTGTGGTTTGAATCTTGAAATTTGACATTTAATATTATGATTTGATTATGG
ATTTTACTA
Found at i:20483846 original size:32 final size:32
Alignment explanation
Indices: 20483805--20483925 Score: 167
Period size: 32 Copynumber: 3.8 Consensus size: 32
20483795 GAGTCGAGGG
20483805 TTACCTATGTCTTTCGAGACATATGGACAGAA
1 TTACCTATGTCTTTCGAGACATATGGACAGAA
*
20483837 TTACCTATGTCTTTCGAGACATATGGACATAA
1 TTACCTATGTCTTTCGAGACATATGGACAGAA
* *
20483869 TTACCTATGTCTTTCGGGACATATGGATAG--
1 TTACCTATGTCTTTCGAGACATATGGACAGAA
**
20483899 TTACCTATGTTCTTAGGA-ACATATGGA
1 TTACCTATG-TCTTTCGAGACATATGGA
20483926 TAGGTCTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
30 18 0.22
31 5 0.06
32 58 0.72
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (32 bp):
TTACCTATGTCTTTCGAGACATATGGACAGAA
Found at i:20488242 original size:32 final size:32
Alignment explanation
Indices: 20488201--20488384 Score: 277
Period size: 32 Copynumber: 5.8 Consensus size: 32
20488191 GAGTCGAAGG
*
20488201 TTACCTATGTCTTTCGGGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGGACAGAA
*
20488233 TTACCTATGTCTTT-GGGACATATGGACAAAA
1 TTACCTATGTCTTTCGGGACATATGGACAGAA
*
20488264 TTACCTATGTCTTTCGGGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGAA
*
20488296 TTACCTATGTCTTTCGGGACATATAGACAGAA
1 TTACCTATGTCTTTCGGGACATATGGACAGAA
20488328 TTACCTATGTCTTTCGGGACATATGGACAG--
1 TTACCTATGTCTTTCGGGACATATGGACAGAA
* *
20488358 TTACCTATGT-TCTTAGGAACATATGGA
1 TTACCTATGTCT-TTCGGGACATATGGA
20488385 TAGGTCATTC
Statistics
Matches: 141, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
29 1 0.01
30 23 0.16
31 29 0.21
32 88 0.62
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAGAA
Found at i:20488279 original size:63 final size:63
Alignment explanation
Indices: 20488201--20488384 Score: 291
Period size: 63 Copynumber: 2.9 Consensus size: 63
20488191 GAGTCGAAGG
20488201 TTACCTATGTCTTTCGGGACATATGGACAGGATTACCTATGTCTTTGGGACATATGGACAAAA
1 TTACCTATGTCTTTCGGGACATATGGACAGGATTACCTATGTCTTTGGGACATATGGACAAAA
* * *
20488264 TTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTCTTTCGGGACATATAGACAGAA
1 TTACCTATGTCTTTCGGGACATATGGACAGGATTACCTATGTCTTT-GGGACATATGGACAAAA
* *
20488328 TTACCTATGTCTTTCGGGACATATGGACA-G-TTACCTATGTTCTTAGGAACATATGGA
1 TTACCTATGTCTTTCGGGACATATGGACAGGATTACCTATG-TCTTTGGGACATATGGA
20488385 TAGGTCATTC
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
62 19 0.17
63 49 0.44
64 44 0.39
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (63 bp):
TTACCTATGTCTTTCGGGACATATGGACAGGATTACCTATGTCTTTGGGACATATGGACAAAA
Found at i:20489841 original size:21 final size:21
Alignment explanation
Indices: 20489811--20489858 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
20489801 AAACTTTGAT
*
20489811 TTATTATTATGAATTTCAAGA
1 TTATTGTTATGAATTTCAAGA
* *
20489832 TTATTGTTATGGATTTCAAGT
1 TTATTGTTATGAATTTCAAGA
20489853 TTATTG
1 TTATTG
20489859 GATAACGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (21 bp):
TTATTGTTATGAATTTCAAGA
Found at i:20492313 original size:27 final size:27
Alignment explanation
Indices: 20492275--20492330 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
20492265 CCAAAGCAGT
20492275 CTTCCAGGTAGTCAGTGTATTATTCAG
1 CTTCCAGGTAGTCAGTGTATTATTCAG
20492302 CTTCCAGGTAGTCAGTGTATTATTCAG
1 CTTCCAGGTAGTCAGTGTATTATTCAG
20492329 CT
1 CT
20492331 CAGTTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (27 bp):
CTTCCAGGTAGTCAGTGTATTATTCAG
Found at i:20492906 original size:13 final size:13
Alignment explanation
Indices: 20492857--20492908 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
20492847 TTTAAGTATT
*
20492857 TAAAAATAAAATA
1 TAAAAATTAAATA
*
20492870 TAAAAATTAATTTA
1 TAAAAATTAA-ATA
20492884 TTAAAAATTAAATA
1 -TAAAAATTAAATA
*
20492898 TAAACATTAAA
1 TAAAAATTAAA
20492909 AATACTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 19 0.58
14 4 0.12
15 10 0.30
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATTAAATA
Found at i:20493486 original size:15 final size:15
Alignment explanation
Indices: 20493466--20493534 Score: 83
Period size: 15 Copynumber: 4.7 Consensus size: 15
20493456 ATTCTTAATA
20493466 TTAATATTTAATTTT
1 TTAATATTTAATTTT
20493481 TTAATAATTTAA-TTT
1 TTAAT-ATTTAATTTT
20493496 TT-ATATTTAATATTT
1 TTAATATTTAAT-TTT
20493511 TT-ATATTT-ATTTT
1 TTAATATTTAATTTT
*
20493524 TTAACATTTAA
1 TTAATATTTAA
20493535 ATAATTTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
13 11 0.23
14 9 0.19
15 22 0.46
16 6 0.12
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (15 bp):
TTAATATTTAATTTT
Found at i:20493508 original size:7 final size:7
Alignment explanation
Indices: 20493460--20493557 Score: 65
Period size: 7 Copynumber: 13.6 Consensus size: 7
20493450 TTTTAGATTC
20493460 TTAATA-
1 TTAATAT
20493466 TTAATAT
1 TTAATAT
*
20493473 TTAATTTT
1 TTAA-TAT
20493481 TTAATAAT
1 TTAAT-AT
20493489 TTAAT-T
1 TTAATAT
*
20493495 TTTATAT
1 TTAATAT
20493502 TTAATATT
1 TTAATA-T
*
20493510 TTTATAT
1 TTAATAT
* *
20493517 TTATTTT
1 TTAATAT
*
20493524 TTAACAT
1 TTAATAT
20493531 TTAAATAAT
1 TT-AAT-AT
*
20493540 TTTATAT
1 TTAATAT
*
20493547 TTAAAAT
1 TTAATAT
20493554 TTAA
1 TTAA
20493558 ATAATTTGTT
Statistics
Matches: 70, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
6 11 0.16
7 33 0.47
8 22 0.31
9 4 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (7 bp):
TTAATAT
Found at i:20493525 original size:29 final size:28
Alignment explanation
Indices: 20493460--20493550 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
20493450 TTTTAGATTC
*
20493460 TTAATATTAATATTTAAT-TTTTTAATAAT
1 TTAATTTTAATATTTAATATTTTT-AT-AT
*
20493489 TTAATTTTTATATTTAATATTTTTATAT
1 TTAATTTTAATATTTAATATTTTTATAT
* * *
20493517 TTATTTTTTAACATTTAAATAATTTTATAT
1 TTA-ATTTTAATATTT-AATATTTTTATAT
20493547 TTAA
1 TTAA
20493551 AATTTAAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 5 0.10
29 27 0.52
30 20 0.38
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
TTAATTTTAATATTTAATATTTTTATAT
Found at i:20493545 original size:30 final size:28
Alignment explanation
Indices: 20493487--20493550 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
20493477 TTTTTTAATA
* *
20493487 ATTTAATTTTTATATTTAATATTTTTAT
1 ATTTAATTTTTACATTTAATAATTTTAT
*
20493515 ATTTATTTTTTAACATTTAAATAATTTTAT
1 ATTTAATTTTT-ACATTT-AATAATTTTAT
20493545 ATTTAA
1 ATTTAA
20493551 AATTTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 10 0.33
29 5 0.17
30 15 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTAATTTTTACATTTAATAATTTTAT
Found at i:20493557 original size:30 final size:29
Alignment explanation
Indices: 20493500--20493557 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
20493490 TAATTTTTAT
* ***
20493500 ATTTAATATTTTTATATTTATTTTTTAAC
1 ATTTAATAATTTTATATTTAAAATTTAAC
20493529 ATTTAAATAATTTTATATTTAAAATTTAA
1 ATTT-AATAATTTTATATTTAAAATTTAA
20493558 ATAATTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (29 bp):
ATTTAATAATTTTATATTTAAAATTTAAC
Found at i:20493844 original size:2 final size:2
Alignment explanation
Indices: 20493837--20493866 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20493827 ATTATTTTGA
20493837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20493867 TATTGAGCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20495647 original size:3 final size:3
Alignment explanation
Indices: 20495639--20495708 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
20495629 ATAATGTACA
20495639 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20495687 ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
20495709 GGTTGGGGAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:20496290 original size:15 final size:16
Alignment explanation
Indices: 20496264--20496298 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
20496254 TATGGGATGA
20496264 AAAAATAGTATTATGT
1 AAAAATAGTATTATGT
*
20496280 AAAAATA-TATTATTT
1 AAAAATAGTATTATGT
20496295 AAAA
1 AAAA
20496299 TAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (16 bp):
AAAAATAGTATTATGT
Found at i:20498228 original size:43 final size:43
Alignment explanation
Indices: 20498180--20498268 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 43
20498170 TTTTTTATGA
* *
20498180 TTAGTTATAATATATTAGTTTGGTGTATTTGTAAATTGTTATT
1 TTAGTTATAATATATTAGTTTAGTGTATTTGTAAATTATTATT
* * * * *
20498223 TTAGTTGTGATATGTTAGTTTAGTGTGTTTGTATATTATTATT
1 TTAGTTATAATATATTAGTTTAGTGTATTTGTAAATTATTATT
20498266 TTA
1 TTA
20498269 AAGGTTAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (43 bp):
TTAGTTATAATATATTAGTTTAGTGTATTTGTAAATTATTATT
Found at i:20498268 original size:24 final size:24
Alignment explanation
Indices: 20498192--20498268 Score: 56
Period size: 24 Copynumber: 3.4 Consensus size: 24
20498182 AGTTATAATA
* * *
20498192 TATTAGTTTGGTGTATTTGTAAAT
1 TATTAGTTTAGTGTGTTTGTATAT
* *
20498216 TGTTATTTTAGT-TG--TG-ATA-
1 TATTAGTTTAGTGTGTTTGTATAT
*
20498235 TGTTAGTTTAGTGTGTTTGTATAT
1 TATTAGTTTAGTGTGTTTGTATAT
*
20498259 TATTATTTTA
1 TATTAGTTTA
20498269 AAGGTTAGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 2 0.05
22 2 0.05
23 4 0.10
24 17 0.43
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.58
Consensus pattern (24 bp):
TATTAGTTTAGTGTGTTTGTATAT
Found at i:20498370 original size:2 final size:2
Alignment explanation
Indices: 20498363--20498406 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
20498353 ATCACTAGAT
20498363 TA TA TA TA TA TA 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
20498405 TA
1 TA
20498407 AGTAAGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20498525 original size:2 final size:2
Alignment explanation
Indices: 20498514--20498561 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
20498504 ACTTAATTAA
*
20498514 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20498554 AT A- AT AT A
1 AT AT AT AT A
20498562 ATACTAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:20501373 original size:105 final size:105
Alignment explanation
Indices: 20501232--20501438 Score: 238
Period size: 105 Copynumber: 2.0 Consensus size: 105
20501222 TATGGTCAAT
* * * * *
20501232 TGAACCTTGGTTTGATGTTAGAGCTTATTGAAGATTCTGATTGACAA-AATTAACTTGGCTCAAG
1 TGAACCTTGATTCGATATTAGAGCTTATTGAAGATTCTGACTGA-AAGAACTAACTTGGCTCAAG
*
20501296 GGTACAG-TAAAAGTGGACATCCATCTAACAATATGGCCAGC
65 GATAC-GCTAAAAGTGGACATCCATCTAACAATATGGCCAGC
* * * * *
20501337 TGAACCTTGATTCGATATTGGAGTTTGTTGATGATTCTGACTGAAAGAACTAGCTTGGCTCAAGG
1 TGAACCTTGATTCGATATTAGAGCTTATTGAAGATTCTGACTGAAAGAACTAACTTGGCTCAAGG
*** * *
20501402 ATACGCTAGGTGTGGGCATCCATTTAACAATATGGCC
66 ATACGCTAAAAGTGGACATCCATCTAACAATATGGCC
20501439 TTGAGAAGGC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
104 3 0.04
105 81 0.96
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (105 bp):
TGAACCTTGATTCGATATTAGAGCTTATTGAAGATTCTGACTGAAAGAACTAACTTGGCTCAAGG
ATACGCTAAAAGTGGACATCCATCTAACAATATGGCCAGC
Found at i:20515592 original size:21 final size:21
Alignment explanation
Indices: 20515567--20515606 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20515557 AAACACGATG
20515567 AGTAGTATCAATACTGATGAA
1 AGTAGTATCAATACTGATGAA
**
20515588 AGTAGTATTGATACTGATG
1 AGTAGTATCAATACTGATG
20515607 TGGAGGTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.33
Consensus pattern (21 bp):
AGTAGTATCAATACTGATGAA
Found at i:20516456 original size:52 final size:52
Alignment explanation
Indices: 20516338--20516448 Score: 168
Period size: 53 Copynumber: 2.1 Consensus size: 52
20516328 ATGTACTTTC
* *
20516338 GACACTATGTGTGCACCCATGGTATTCAAATGAGTTTGTGAATTACAATTTT
1 GACACTATGTGTGCACCCATGGAATTCAAATGAGTTTGTGAATTACAATTAT
* * *
20516390 GGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACCATTAT
1 GACACTATGTGTGCACCCATGGAATTCA-AATGAGTTTGTGAATTACAATTAT
20516443 GACACT
1 GACACT
20516449 TAGGTGCAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 25 0.48
53 27 0.52
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (52 bp):
GACACTATGTGTGCACCCATGGAATTCAAATGAGTTTGTGAATTACAATTAT
Found at i:20522680 original size:21 final size:21
Alignment explanation
Indices: 20522654--20522707 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
20522644 CCATCAACAA
20522654 TATCGATACTGACAAAAGTAG
1 TATCGATACTGACAAAAGTAG
20522675 TATCGATACTGACAAAAGTAG
1 TATCGATACTGACAAAAGTAG
20522696 TATCGATACTGA
1 TATCGATACTGA
20522708 TGTGGAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (21 bp):
TATCGATACTGACAAAAGTAG
Found at i:20527812 original size:25 final size:25
Alignment explanation
Indices: 20527778--20527830 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
20527768 CAACATTAAA
20527778 GAGAACATTAAGTCATGAATTGAAT
1 GAGAACATTAAGTCATGAATTGAAT
20527803 GAGAACATTAAGTCATGAATTGAAT
1 GAGAACATTAAGTCATGAATTGAAT
20527828 GAG
1 GAG
20527831 TTAGGAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.23, T:0.26
Consensus pattern (25 bp):
GAGAACATTAAGTCATGAATTGAAT
Found at i:20538567 original size:32 final size:32
Alignment explanation
Indices: 20538531--20538615 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 32
20538521 CACAACAAAA
* * *
20538531 TCAGTATTGCATTCAGATAATTCAC-TAGAGTG
1 TCAGTATCGCATTTAGATAATGCACAT-GAGTG
*
20538563 TCAGTATCACATTTAGATAATGCACATGAGTG
1 TCAGTATCGCATTTAGATAATGCACATGAGTG
* * *
20538595 TAATTATGGCATTTAGATAAT
1 TCAGTATCGCATTTAGATAAT
20538616 ATATAGCAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 43 0.98
33 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TCAGTATCGCATTTAGATAATGCACATGAGTG
Found at i:20547843 original size:36 final size:36
Alignment explanation
Indices: 20547761--20547879 Score: 136
Period size: 36 Copynumber: 3.4 Consensus size: 36
20547751 AGATGAACAA
*
20547761 TTGAATCGAAAGTGCGGATGCTT-CTTCCGTTC-AC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTAC
* * * *
20547795 TTGAATCAAAAGTGCCAATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTAC
* * *
20547831 TTGAATCGAAAGTGTCGATGCTTTCTTCCGTT-AAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTAC
*
20547866 TTGAATTGAAAGTG
1 TTGAATCGAAAGTG
20547880 TTGATCATTC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
34 20 0.29
35 22 0.31
36 28 0.40
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTAC
Found at i:20547878 original size:71 final size:70
Alignment explanation
Indices: 20547761--20547903 Score: 191
Period size: 71 Copynumber: 2.0 Consensus size: 70
20547751 AGATGAACAA
*
20547761 TTGAATCGAAAGTGCGGATGCTTCTTCCGTTCACTTGAATCAAAAGTGCCAATGC-TTCCTTTCG
1 TTGAATCGAAAGTGCGGATGCTTCTTCCGTTAACTTGAATCAAAAGTGCCAAT-CATTCCTTTCG
20547825 TTCTTC
65 TTCTTC
** ***
20547831 TTGAATCGAAAGTGTC-GATGCTTTCTTCCGTTAACTTGAATTGAAAGTGTTGATCATTCCTTTC
1 TTGAATCGAAAGTG-CGGATGC-TTCTTCCGTTAACTTGAATCAAAAGTGCCAATCATTCCTTTC
20547895 GTTCTTC
64 GTTCTTC
20547902 TT
1 TT
20547904 ATTCACCTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
70 20 0.31
71 44 0.69
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (70 bp):
TTGAATCGAAAGTGCGGATGCTTCTTCCGTTAACTTGAATCAAAAGTGCCAATCATTCCTTTCGT
TCTTC
Found at i:20548801 original size:2 final size:2
Alignment explanation
Indices: 20548794--20548825 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20548784 TCTATTAATT
20548794 TA 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
20548826 AATGATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20550449 original size:3 final size:3
Alignment explanation
Indices: 20550443--20550486 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
20550433 AATAATATTT
20550443 TAA TAA TAA TAA TAA TAA TAA T-A TAA T-A TAAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
20550486 T
1 T
20550487 CAAATGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.16
3 29 0.78
4 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:20551008 original size:113 final size:113
Alignment explanation
Indices: 20550811--20551601 Score: 964
Period size: 113 Copynumber: 6.9 Consensus size: 113
20550801 AAAATCAAAC
* *
20550811 AAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * *
20550875 AAGAACTTTCTCTGGAAAAGTTGATCCATTGAGTAATGAATTCAAACA
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
* * *
20550923 AAAGGTTAAACAAGTTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** *
20550988 ATGAACTTTCTCTGGAAAAGTTGATGCTAATCTATCTCCTTCTGTGAT-AGAGTC-ATGCA
66 ATGAACTTTCTCTGGAAAAGTTGAT-C----C-A--T-C--AAGTGATGA-ATTCGA-GCA
** *
20551047 AAAGGTTGAACAAGCTCTTCCCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
20551112 ATGAACTTTTTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
* * *
20551160 AAAGGTTGAACAAATTCTTTTCATTATGAACTTCTTATCCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
20551225 ATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGGATTCGAGCG
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
* * * *
20551273 AGAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCATATGAGTTCTTCAT-AT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC-TCAT
* * * ** * **
20551337 TATGAACTCTCTCTGGCAATGTTGATATATCAAGTGATGGATTCGAGTG
65 TATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
*
20551386 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
20551451 ATGAACTCTCTCTGGCAATGCTGATCCATCAAGTGATGGATTCGAGCG
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
* *
20551499 AAAGGTTGAACAAATTCTTCTCATTATTAACTTCTTCTTCCTTATTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
20551564 ATGAA--TTCTACCTGGCAATGCTGATCCATCAAGTGATG
66 ATGAACTTTCT--CTGGAAAAGTTGATCCATCAAGTGATG
20551602 GATTTGAATC
Statistics
Matches: 606, Mismatches: 53, Indels: 39
0.87 0.08 0.06
Matches are distributed among these distances:
111 3 0.00
112 38 0.06
113 457 0.75
114 4 0.01
115 1 0.00
116 1 0.00
118 2 0.00
119 2 0.00
121 1 0.00
123 3 0.00
124 94 0.16
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
Found at i:20557356 original size:13 final size:13
Alignment explanation
Indices: 20557338--20557366 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20557328 AATCAACAGC
20557338 AAAATATAAATAA
1 AAAATATAAATAA
20557351 AAAATATAAATAA
1 AAAATATAAATAA
20557364 AAA
1 AAA
20557367 TCAAAGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATATAAATAA
Found at i:20557442 original size:16 final size:17
Alignment explanation
Indices: 20557406--20557443 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
20557396 TAATAAAGGT
* *
20557406 AAAAAATGAAATAGGAC
1 AAAAAATGAAATAGAAA
20557423 AAAAAAT-AAATAGAAA
1 AAAAAATGAAATAGAAA
20557439 AAAAA
1 AAAAA
20557444 GAAAACAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAATAGAAA
Found at i:20557550 original size:19 final size:20
Alignment explanation
Indices: 20557503--20557550 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
20557493 GTGGCAAAAT
20557503 GAAAAAATAACAGTAATAATA
1 GAAAAAA-AACAGTAATAATA
*
20557524 -AATTAAAAACA-TAATAATA
1 GAA-AAAAAACAGTAATAATA
20557543 GAAAAAAA
1 GAAAAAAA
20557551 TGAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
19 12 0.52
20 8 0.35
21 3 0.13
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (20 bp):
GAAAAAAAACAGTAATAATA
Found at i:20559680 original size:106 final size:107
Alignment explanation
Indices: 20559372--20560111 Score: 972
Period size: 106 Copynumber: 7.0 Consensus size: 107
20559362 GCATTGTTCC
* * ** *
20559372 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCG-GGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGAGG-AGTTGTTTGTTGAC
** ** * *
20559435 AACCAGTTGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTC-TC
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * *
20559478 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-TGA--A-AT-TTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAGTTGTTTGTTGACAA
* * * * *
20559537 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * *
20559579 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGAGGAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAGTTGTTTGTTGACAA
* *
20559643 CCAGCAGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTT-
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * *
20559684 GAGTCCAATATCCTTCGCTGTGAAGATGAAATTGGCTCTGAAATTGGGGAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAGTTGTTTGTTGACAA
*
20559749 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATC-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* * * *
20559790 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAGTTGTTTGTTGACAA
* * *
20559855 TCAGTGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTC-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
20559896 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGG-AGTTGTTTGTTGACA
*
20559960 ACCAGCGGTCCCTTCGTCGCGAAGTTGAACTTGCGTTGTC-TG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
* *
20560002 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGATAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAGTTGTTTGTTGACAA
*
20560067 CCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
20560108 GAGT
1 GAGT
20560112 GGCACGATAT
Statistics
Matches: 564, Mismatches: 57, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
100 76 0.13
101 5 0.01
102 4 0.01
104 2 0.00
105 6 0.01
106 469 0.83
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (107 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
Found at i:20564572 original size:12 final size:12
Alignment explanation
Indices: 20564555--20564579 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20564545 TTAATTGCCA
20564555 AAATTGAAATTT
1 AAATTGAAATTT
20564567 AAATTGAAATTT
1 AAATTGAAATTT
20564579 A
1 A
20564580 GAATGTTCGA
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:20564673 original size:22 final size:23
Alignment explanation
Indices: 20564648--20564701 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
20564638 AAAATGTTAG
* *
20564648 AAAAAATAAAT-AAATCAACGGC
1 AAAAAATAAATAAAATCAAAGGA
*
20564670 AAAATATAAATAAAAATCAAAGGA
1 AAAAAATAAAT-AAAATCAAAGGA
20564694 AAAAAATA
1 AAAAAATA
20564702 TTAAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 10 0.38
24 16 0.62
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAAAATAAATAAAATCAAAGGA
Found at i:20564865 original size:19 final size:20
Alignment explanation
Indices: 20564819--20564866 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
20564809 GTGGCAAAAT
*
20564819 GAAAAATAACAGTAATAATA
1 GAAAAAAAACAGTAATAATA
*
20564839 -AATTAAAAACA-TAATAATA
1 GAA-AAAAAACAGTAATAATA
20564858 GAAAAAAAA
1 GAAAAAAAA
20564867 TGAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (20 bp):
GAAAAAAAACAGTAATAATA
Found at i:20565949 original size:14 final size:14
Alignment explanation
Indices: 20565930--20565978 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
20565920 GCAATAATGT
20565930 ATATTATAAAAATA
1 ATATTATAAAAATA
*
20565944 ATATTATTCAAAAGTA
1 ATATTA-T-AAAAATA
20565960 A-ATTATAAAAATA
1 ATATTATAAAAATA
20565973 ATATTA
1 ATATTA
20565979 ATCAAAAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 7 0.23
14 11 0.37
15 5 0.17
16 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (14 bp):
ATATTATAAAAATA
Found at i:20565964 original size:15 final size:15
Alignment explanation
Indices: 20565930--20565986 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
20565920 GCAATAATGT
*
20565930 ATATTAT-AAAAATA
1 ATATTATCAAAAGTA
20565944 ATATTATTCAAAAGTA
1 ATATTA-TCAAAAGTA
*
20565960 A-ATTAT-AAAAATA
1 ATATTATCAAAAGTA
20565973 ATATTAATCAAAAG
1 ATATT-ATCAAAAG
20565987 GGACGAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.20
14 10 0.29
15 7 0.20
16 11 0.31
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (15 bp):
ATATTATCAAAAGTA
Found at i:20569515 original size:62 final size:64
Alignment explanation
Indices: 20569448--20569570 Score: 169
Period size: 64 Copynumber: 2.0 Consensus size: 64
20569438 TACTAATATC
* *
20569448 TTTTAATTTTAAATATTT-AAAAGATATAAACA-CTTTTACTATTTAAACTTAAATAAATATTA
1 TTTTAATTTAAAATATTTAAAAAGATATAAACATCTTTTAATATTTAAACTTAAATAAATATTA
* ** * *
20569510 TTTTAATTTAAAATATTTAAAAAGATTTAATTATCTTTTAATATTTAAAGTTAATTAAATA
1 TTTTAATTTAAAATATTTAAAAAGATATAAACATCTTTTAATATTTAAACTTAAATAAATA
20569571 GATAATAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
62 17 0.33
63 11 0.21
64 24 0.46
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.47
Consensus pattern (64 bp):
TTTTAATTTAAAATATTTAAAAAGATATAAACATCTTTTAATATTTAAACTTAAATAAATATTA
Found at i:20576032 original size:68 final size:68
Alignment explanation
Indices: 20575946--20576757 Score: 1210
Period size: 68 Copynumber: 11.9 Consensus size: 68
20575936 AATATTAATA
* * * * *
20575946 GCCTAACTATGCATTTGACAAAAAGGTGTCAATTATGACAGTTAGATAAAAGTCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576011 GAG
66 GAG
* * *
20576014 GCCTAACTATGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576079 GAG
66 GAG
* *
20576082 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTTCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
20576147 GAA
66 GAG
* * *
20576150 GCCTAACTGTGCATTTGACAGAAAAGTGTCAATTATGTCAGTTAGATGAAATGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576215 GAG
66 GAG
* * *
20576218 GCCTAACTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576283 GAG
66 GAG
* * * * *
20576286 GCCTAACTATACATTTGAAAGAAAGGTGTCAATTATTCCAGTAAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576351 GAG
66 GAG
* * ** *
20576354 GCCTAATTGTGCATTTGACAAAAAAATGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
20576419 AAG
66 GAG
* * * *
20576422 GCCTAATTGTGCATTTGAAAGAAAGATGTCAATTATGCCAGTTAGATAAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576487 GAG
66 GAG
* * *
20576490 GCCTAACTGTGTATTTGACAGAAAGGTGTTAATTATGCCAGCTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576555 GAG
66 GAG
*
20576558 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTGGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576623 GAG
66 GAG
* * *
20576626 GCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCACTTAGATGAAAGACTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
20576691 GAG
66 GAG
** * * * * *
20576694 GCCTAGTTATGCATTTGACAGAAAGGTGTCAACTATACCAGTTAGATGAAAGGTTAAATGCCTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
20576758 CGAGTAAAAG
Statistics
Matches: 672, Mismatches: 72, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 672 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:20577182 original size:21 final size:21
Alignment explanation
Indices: 20577157--20577227 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
20577147 ATAATAGTAT
20577157 ATAAAAGGCATGAAAAGATGC
1 ATAAAAGGCATGAAAAGATGC
* ** *
20577178 ATAAATGAAATGTACAATAG-TGT
1 ATAAAAGGCATG-A-AA-AGATGC
*
20577201 ATAAAAGGCATGAAATGATGCC
1 ATAAAAGGCATGAAAAGATG-C
20577223 ATAAA
1 ATAAA
20577228 TGAAATGTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 9
0.67 0.17 0.17
Matches are distributed among these distances:
20 1 0.03
21 13 0.36
22 7 0.19
23 13 0.36
24 2 0.06
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.21
Consensus pattern (21 bp):
ATAAAAGGCATGAAAAGATGC
Found at i:20577430 original size:45 final size:45
Alignment explanation
Indices: 20576782--20577413 Score: 863
Period size: 45 Copynumber: 14.1 Consensus size: 45
20576772 GATGTATAAC
* * *
20576782 AATGTATAATAATGTATAAAAGGCATGAAAAGATTCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* * * * *
20576827 ACTGTATAATGGTGTATAAAAGGCATTAAATGATGCCATAAATGT
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* *
20576872 AATGTATAATAGTGTATAAAAAGCATGAAAGGATGCCACAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* *
20576917 AATGTATAATAGTGTATAAAAAGCATGAAATGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* *
20576962 AATGTATAATAGTGTATAAAAGGCGTGAAAGGATGCCTTAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* * * **
20577007 AATATATAATAATGTATAAAATGCATGAATTGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
*
20577052 AATGTATAATAGTATATAAAAGGCATGAAAGGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* * *
20577097 AATTTACAATAGTGTATAAAAGGCATGAAATGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* *
20577142 AATGTATAATAGTATATAAAAGGCATGAAAAGATG-CATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* *
20577186 AATGTACAATAGTGTATAAAAGGCATGAAATGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
*
20577231 AATGTATAATAGTATATAAAAGGCATGAAAGGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* ** *
20577276 AATGTACAATAGTGTATAAAATACATTAAAGGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* * * *
20577321 AATGTATATTAGTGTATAAAAGGCATAAAAGGATTCCATAATTGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* * * ** *
20577366 AATGCAT-ATGGGTGTATTATCGGCATGAAAGGATGACATAAATGA
1 AATGTATAAT-AGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
20577411 AAT
1 AAT
20577414 ACATAATGGT
Statistics
Matches: 516, Mismatches: 69, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
44 42 0.08
45 474 0.92
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (45 bp):
AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
Found at i:20580957 original size:12 final size:12
Alignment explanation
Indices: 20580940--20580969 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20580930 CCTGAGTCAA
*
20580940 GCAAAGTAAAAG
1 GCAAAGCAAAAG
20580952 GCAAAGCAAAAG
1 GCAAAGCAAAAG
20580964 GCAAAG
1 GCAAAG
20580970 GCCAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.13, G:0.27, T:0.03
Consensus pattern (12 bp):
GCAAAGCAAAAG
Found at i:20581497 original size:68 final size:68
Alignment explanation
Indices: 20581388--20582264 Score: 1210
Period size: 68 Copynumber: 13.0 Consensus size: 68
20581378 GATTAATAGA
*
20581388 CTAACTGTGCATTTGACAG-AATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20581452 GGC
66 GGC
* * * * * * * *
20581455 TTAACTATGCATTTGACGGTAAGATATCAATTATGCCAGTTAGATAAAAGGCTAAGTTCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20581520 GGC
66 GGC
* * *
20581523 CTAACTGTGCATTTGACAGAAAGATATCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20581588 GGC
66 GGC
* * *
20581591 CTAACTGTACATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATAAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20581656 GGC
66 GGC
* * *
20581659 CTAACTGTGCATTTGATAGAAAGGTGTCAA-TATGCCAATTAGATGAAAGGATAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20581723 GGC
66 GGC
* * * * *
20581726 CTAACTGTGCTTTTGACAGAAAGATGTTAATTATACGA-TTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20581790 GGC
66 GGC
* * *
20581793 CTAACTGTGCATTTGAGAGAAAGGT-TCCAATTATGCCAGTTAGATGAAAGACTAAGTGACTTTG
1 CTAACTGTGCATTTGACAGAAAGGTGT-CAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
20581857 AGGC
65 AGGC
*
20581861 CTAACTGTGCATTTGACAGAAA--TGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGC
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20581924 GGC
66 GGC
* * *
20581927 CTAATTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTATATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
20581992 GGT
66 GGC
* ** * * * * *
20581995 CTAACTATTTATTTGACATAAAGGTTTTAGTTATGCCAGTTAGATGAAAGGCTATGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20582060 GGC
66 GGC
* * * *
20582063 CTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGACAA-GCTAAGTTCATTTG
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA-AAGGCTAAGTGCCTTTG
20582127 AGGC
65 AGGC
* * *
20582131 CTAAATGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCATTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20582196 GGC
66 GGC
* * * * * * *
20582199 CTAGCTATGCATTTGATAGAAAGGTGCCAACTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
20582264 G
66 G
20582265 TAAAAGACTA
Statistics
Matches: 711, Mismatches: 90, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
66 60 0.08
67 137 0.19
68 512 0.72
69 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:20582349 original size:45 final size:45
Alignment explanation
Indices: 20582285--20582692 Score: 593
Period size: 45 Copynumber: 9.1 Consensus size: 45
20582275 GATGTATAAC
* * *
20582285 AATGTATAATAATGTATAAAAGGCATGAAAGGACGTCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* *
20582330 AATGTATAATAGTGTATAAAAGGCATTAAAGGATGCCAGAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
*
20582375 AATGTATAATAGTGTATAAAAGGCGTGAAAGGATGCCATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* * *
20582420 AATGTATAATAGCGTATAAAAGGCATGAAATGATGCCATAATTGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
*
20582465 AATGTATAATAGTGTATAAAAAGGC-TGAAAAGATGCCATAAATGA
1 AATGTATAATAGTGTAT-AAAAGGCATGAAAGGATGCCATAAATGA
* * *
20582510 AATGTATAATAGTGTATAAAAGTCATGAAAGTATGACATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
*
20582555 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGACATAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* * * *
20582600 AATGTATAATAGTGTGTAAAAGGCATTAAATGATGCCCTAAATGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
* * * * *
20582645 AATGTATATTAGTGTATAAAAAGAATAAAAGGATGCCATAATTGA
1 AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
20582690 AAT
1 AAT
20582693 TCATATGGGT
Statistics
Matches: 327, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
44 6 0.02
45 314 0.96
46 7 0.02
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.26
Consensus pattern (45 bp):
AATGTATAATAGTGTATAAAAGGCATGAAAGGATGCCATAAATGA
Found at i:20582763 original size:46 final size:45
Alignment explanation
Indices: 20582672--20582764 Score: 109
Period size: 46 Copynumber: 2.0 Consensus size: 45
20582662 AAAAAGAATA
* * * *
20582672 AAAGGATGCCATAATTGAAATTCATATGGGTGCATTATCGACATG
1 AAAGGATGCAATAAGTGAAATACATATGGGTGCATTATAGACATG
20582717 AAAGGATGCAATAAGTGAAAATACATAAT-GGTGCATTATA-AGCATG
1 AAAGGATGCAATAAGTG-AAATACAT-ATGGGTGCATTATAGA-CATG
20582763 AA
1 AA
20582765 TAGATGCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 16 0.39
46 23 0.56
47 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.26
Consensus pattern (45 bp):
AAAGGATGCAATAAGTGAAATACATATGGGTGCATTATAGACATG
Found at i:20589816 original size:24 final size:24
Alignment explanation
Indices: 20589762--20589816 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
20589752 CCATAGCTTG
* * *
20589762 TATAAATTCCACTGAAGTGTCACG
1 TATAAATTCCACTGAAGCGCCACA
* **
20589786 TAGAAATTGGACTGAAGCGCCACA
1 TATAAATTCCACTGAAGCGCCACA
20589810 TATAAAT
1 TATAAAT
20589817 GTCCCGAAAG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
TATAAATTCCACTGAAGCGCCACA
Found at i:20590435 original size:19 final size:19
Alignment explanation
Indices: 20590411--20590448 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20590401 CTTGACTATG
20590411 GTATCGATAATATACTTCA
1 GTATCGATAATATACTTCA
*
20590430 GTATCGATAATATTCTTCA
1 GTATCGATAATATACTTCA
20590449 ATATTGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
GTATCGATAATATACTTCA
Found at i:20592366 original size:44 final size:44
Alignment explanation
Indices: 20592240--20592551 Score: 194
Period size: 42 Copynumber: 7.2 Consensus size: 44
20592230 TTTGTCCCAA
* * * * **
20592240 AAACGCCACAAAAAGTGTA-GATATTTAACGACATTTTTTTAATAC
1 AAACGCCGC-AAAAG-GTATGATATATAGCGATATTTTTTGGATAC
* * * * *
20592285 AAACGCCGCAAAATGTATACATCTATAGATG-TGTTTTTTGGATAC
1 AAACGCCGCAAAAGGTAT-GATATATAG-CGATATTTTTTGGATAC
* *
20592330 AAATGCCGCTAAAA-GTATGTTATATAGCGATATTTTTTGGATAC
1 AAACGCCGC-AAAAGGTATGATATATAGCGATATTTTTTGGATAC
* ** *
20592374 AAACGCCGCAAAAGGTTTGATATATAGCGGCA-TTTTT-CATAC
1 AAACGCCGCAAAAGGTATGATATATAGCGATATTTTTTGGATAC
** * * * **
20592416 AAACGCTACAACAGGTCTGGTATATAGCGGCATTTTTTGGATAC
1 AAACGCCGCAAAAGGTATGATATATAGCGATATTTTTTGGATAC
* * * * *
20592460 AAACGCCGGAAAAGGTGTGATATATAGTGACA-TTTTT-CATAC
1 AAACGCCGCAAAAGGTATGATATATAGCGATATTTTTTGGATAC
* * * * *
20592502 AAACGCAGCAAAAGGTCTTG-TATATAACGACA-TTTTT-GTTAC
1 AAACGCCGCAAAAGGT-ATGATATATAGCGATATTTTTTGGATAC
20592544 AAACGCCG
1 AAACGCCG
20592552 GTATTGTTTT
Statistics
Matches: 212, Mismatches: 46, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
42 74 0.35
43 25 0.12
44 73 0.34
45 35 0.17
46 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.30
Consensus pattern (44 bp):
AAACGCCGCAAAAGGTATGATATATAGCGATATTTTTTGGATAC
Found at i:20592417 original size:42 final size:42
Alignment explanation
Indices: 20592319--20592551 Score: 218
Period size: 42 Copynumber: 5.4 Consensus size: 42
20592309 ATAGATGTGT
* * * *
20592319 TTTTTGGATACAAATGCCGCTAAAA-GTATGTTATATAGCGATA
1 TTTTT-GATACAAACGCCGC-AAAAGGTTTGATATATAGCGACA
*
20592362 TTTTTTGGATACAAACGCCGCAAAAGGTTTGATATATAGCGGCA
1 -TTTTT-GATACAAACGCCGCAAAAGGTTTGATATATAGCGACA
* ** * * * *
20592406 TTTTTCATACAAACGCTACAACAGGTCTGGTATATAGCGGCA
1 TTTTTGATACAAACGCCGCAAAAGGTTTGATATATAGCGACA
* * *
20592448 TTTTTTGGATACAAACGCCGGAAAAGGTGTGATATATAGTGACA
1 -TTTTT-GATACAAACGCCGCAAAAGGTTTGATATATAGCGACA
* * *
20592492 TTTTTCATACAAACGCAGCAAAAGGTCTTG-TATATAACGACA
1 TTTTTGATACAAACGCCGCAAAAGGT-TTGATATATAGCGACA
*
20592534 TTTTTGTTACAAACGCCG
1 TTTTTGATACAAACGCCG
20592552 GTATTGTTTT
Statistics
Matches: 156, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
42 74 0.47
43 21 0.13
44 61 0.39
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (42 bp):
TTTTTGATACAAACGCCGCAAAAGGTTTGATATATAGCGACA
Found at i:20592454 original size:86 final size:86
Alignment explanation
Indices: 20592350--20592551 Score: 284
Period size: 86 Copynumber: 2.4 Consensus size: 86
20592340 AAAAGTATGT
* * *
20592350 TATATAGCGATATTTTTTGGATACAAACGCCGCAAAAGGTTTGATATATAGCGGCATTTTTCATA
1 TATATAGCGACATTTTTTGGATACAAACGCCGCAAAAGGTGTGATATATAGCGACATTTTTCATA
*
20592415 CAAACGCTA-CAACAGGTCTGG
66 CAAACGC-AGCAAAAGGTCTGG
* * *
20592436 TATATAGCGGCATTTTTTGGATACAAACGCCGGAAAAGGTGTGATATATAGTGACATTTTTCATA
1 TATATAGCGACATTTTTTGGATACAAACGCCGCAAAAGGTGTGATATATAGCGACATTTTTCATA
*
20592501 CAAACGCAGCAAAAGGTCTTG
66 CAAACGCAGCAAAAGGTCTGG
* *
20592522 TATATAACGACA-TTTTT-GTTACAAACGCCG
1 TATATAGCGACATTTTTTGGATACAAACGCCG
20592552 GTATTGTTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
84 12 0.12
85 6 0.06
86 86 0.83
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (86 bp):
TATATAGCGACATTTTTTGGATACAAACGCCGCAAAAGGTGTGATATATAGCGACATTTTTCATA
CAAACGCAGCAAAAGGTCTGG
Found at i:20592936 original size:21 final size:21
Alignment explanation
Indices: 20592912--20592972 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
20592902 TCTGTTGATA
20592912 TGTTGCTTCTCTCTGTGCTGC
1 TGTTGCTTCTCTCTGTGCTGC
* *
20592933 TGTTACTTCTCTCTGTGCTTC
1 TGTTGCTTCTCTCTGTGCTGC
* *
20592954 TGCTGCTTCTCTCTCTGCT
1 TGTTGCTTCTCTCTGTGCT
20592973 TTCCTCGCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.02, C:0.31, G:0.18, T:0.49
Consensus pattern (21 bp):
TGTTGCTTCTCTCTGTGCTGC
Found at i:20592982 original size:21 final size:21
Alignment explanation
Indices: 20592915--20592983 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
20592905 GTTGATATGT
* * **
20592915 TGCTTCTCTCTGTGCTGCTGT
1 TGCTTCTCTCTCTGCTTCTCC
* * *
20592936 TACTTCTCTCTGTGCTTCTGC
1 TGCTTCTCTCTCTGCTTCTCC
20592957 TGCTTCTCTCTCTGCTT-TCC
1 TGCTTCTCTCTCTGCTTCTCC
20592977 TCGCTTC
1 T-GCTTC
20592984 ATTTTTTACT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 3 0.07
21 38 0.93
ACGTcount: A:0.01, C:0.35, G:0.16, T:0.48
Consensus pattern (21 bp):
TGCTTCTCTCTCTGCTTCTCC
Found at i:20601066 original size:156 final size:158
Alignment explanation
Indices: 20600776--20601094 Score: 615
Period size: 156 Copynumber: 2.0 Consensus size: 158
20600766 GTAAAATTAG
20600776 AGAAATGGTTCAAATTGATAAAAAGGAACCTGGAGACGAGCAGTCGAGCGTTGATGGCAGACAGT
1 AGAAATGGTTCAAATTGATAAAAAGGAACCTGGAGACGAGCAGTCGAGCGTTGATGGCAGACAGT
20600841 CGAGCGTTGATGGTGTGATGTTGGAGGCCTTGACGGCGACGAGCAGCAACAACTTCTTGGGTATT
66 CGAGCGTTGATGGTGTGATGTTGGAGGCCTTGACGGCGACGAGCAGCAACAACTTCTTGGGTATT
20600906 TGCGTATGTCTGGCGGAGATAGGAAAT-
131 TGCGTATGTCTGGCGGAGATAGGAAATA
20600933 AGAAA-GGTTCAAATTGATAAAAAGGAACCTGGAGACGAGCAGTCGAGCGTTGATGGCAGACAGT
1 AGAAATGGTTCAAATTGATAAAAAGGAACCTGGAGACGAGCAGTCGAGCGTTGATGGCAGACAGT
*
20600997 CGAGTGTTGATGGTGTGATGTTGGAGGCCTTGACGGCGACGAGCAGCAACAACTTCTTGGGTATT
66 CGAGCGTTGATGGTGTGATGTTGGAGGCCTTGACGGCGACGAGCAGCAACAACTTCTTGGGTATT
20601062 TGCGTATGTCTGGCGGAGATAGGAAATA
131 TGCGTATGTCTGGCGGAGATAGGAAATA
20601090 AGAAA
1 AGAAA
20601095 AGGGGAAATC
Statistics
Matches: 160, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
156 150 0.94
157 10 0.06
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.23
Consensus pattern (158 bp):
AGAAATGGTTCAAATTGATAAAAAGGAACCTGGAGACGAGCAGTCGAGCGTTGATGGCAGACAGT
CGAGCGTTGATGGTGTGATGTTGGAGGCCTTGACGGCGACGAGCAGCAACAACTTCTTGGGTATT
TGCGTATGTCTGGCGGAGATAGGAAATA
Found at i:20601315 original size:40 final size:39
Alignment explanation
Indices: 20601229--20601357 Score: 120
Period size: 41 Copynumber: 3.3 Consensus size: 39
20601219 ATATGCCCTA
* * *
20601229 TTGCAGCGTTTGTTAAAC-GCCGCTAAAGAACTA-T-TT
1 TTGCGGCGTTTTTTAAACAGCCGCTAAAGTACTACTCTT
*
20601265 TGTGGTGGCGTTTTTTAAACATGCCGCTAAAGTACTACTCTT
1 T-T-GCGGCGTTTTTTAAACA-GCCGCTAAAGTACTACTCTT
* * * *
20601307 TTGCGGCGTTTGTATAAAAACGCAGCTAAATTACTACTCTT
1 TTGCGGCGTTT-TTTAAACA-GCCGCTAAAGTACTACTCTT
20601348 TTGCGGCGTT
1 TTGCGGCGTT
20601358 ATGGCGTTTG
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 13 0.17
40 22 0.29
41 36 0.47
42 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (39 bp):
TTGCGGCGTTTTTTAAACAGCCGCTAAAGTACTACTCTT
Found at i:20601368 original size:49 final size:49
Alignment explanation
Indices: 20601311--20601407 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 49
20601301 ACTCTTTTGC
*
20601311 GGCGTTTG-TATAAAAACG-CAGCTAAATTACTACTCTTTTGCGGCGTTAT
1 GGCGTTTGTTA-AAAAACGCCA-CTAAATTAATACTCTTTTGCGGCGTTAT
*
20601360 GGCGTTTGTTGAAAAAACGCCATTAAATTAATACTCTTTTGCGGCGTT
1 GGCGTTTGTT-AAAAAACGCCACTAAATTAATACTCTTTTGCGGCGTT
20601408 TATTGAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
49 8 0.19
50 32 0.74
51 3 0.07
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (49 bp):
GGCGTTTGTTAAAAAACGCCACTAAATTAATACTCTTTTGCGGCGTTAT
Found at i:20602442 original size:22 final size:22
Alignment explanation
Indices: 20602414--20602466 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
20602404 TGTGTACGTT
20602414 TTCAAAAGTTATTATTTTCCTA
1 TTCAAAAGTTATTATTTTCCTA
* *
20602436 TTCAAAAGCTATTATTTTTCTA
1 TTCAAAAGTTATTATTTTCCTA
*
20602458 TTCGAAAGT
1 TTCAAAAGT
20602467 AGAAAAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (22 bp):
TTCAAAAGTTATTATTTTCCTA
Found at i:20603241 original size:42 final size:42
Alignment explanation
Indices: 20603181--20603262 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
20603171 GTCACTATAA
* * *
20603181 ACAACCCTGTTACAGCATTTGTTTGATAAACGCCGCTAAATT
1 ACAACCCTATTACAGCATTTGTTCGAAAAACGCCGCTAAATT
* * *
20603223 ACAACTCTATTACGGCATTTGTTCGAAAAACGTCGCTAAA
1 ACAACCCTATTACAGCATTTGTTCGAAAAACGCCGCTAAA
20603263 GTATCATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
ACAACCCTATTACAGCATTTGTTCGAAAAACGCCGCTAAATT
Found at i:20604141 original size:18 final size:18
Alignment explanation
Indices: 20604100--20604142 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
20604090 AAAATATATT
* *
20604100 TAATAAATATGTATAGTA
1 TAATATATATGTATAATA
20604118 TAATATATATGTATAA-A
1 TAATATATATGTATAATA
20604135 T-ATATATA
1 TAATATATA
20604143 AAGGTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
TAATATATATGTATAATA
Found at i:20605193 original size:132 final size:130
Alignment explanation
Indices: 20604859--20605193 Score: 418
Period size: 132 Copynumber: 2.5 Consensus size: 130
20604849 AAATATGAAA
* * * * *
20604859 AGGGATCTTCTACGTTGCTTTTCAGGGTAGATCAGATCTGGAAATGTTGATTCACTTCACTTCTC
1 AGGGATCTGCTACGATGCTCTTCAGGGTAGATCAGATCTGGAAATATTGATTCACTT-ACTCCTC
* * *
20604924 TTCTGGGAAGATTGAATCAAGGTAGATTTATTCCACTGCTCCTCATGGAAGATCAAATCTAAAAA
65 TTC-AGGAAGATTAAATCAAGGTAGATTTATTCCACTGCTCCTCAGGGAAGATCAAATCTAAAAA
20604989 AG
129 AG
* * * * * * * * * *
20604991 AGGGATTTGCTTCAATGCTCTTCAGGGTATATCATATATGGAAACATTGACTCACTCCATTCCTC
1 AGGGATCTGCTACGATGCTCTTCAGGGTAGATCAGATCTGGAAATATTGATTCACT-TACTCCTC
*
20605056 TTTCAGGAAGATTAAATCAAGGTAGATTTGTTCCACTGCTCCTCAGGGAAGATCAAATCTAAAAA
65 -TTCAGGAAGATTAAATCAAGGTAGATTTATTCCACTGCTCCTCAGGGAAGATCAAATCT-AAAA
20605121 AAG
128 AAG
* * *
20605124 AGGGATCTGCTACGCTGCTCTTCAAGGTAGATCAGATCTGGAAATATTGATTCACTATACTGCTC
1 AGGGATCTGCTACGATGCTCTTCAGGGTAGATCAGATCTGGAAATATTGATTCACT-TACTCCTC
20605189 TTCAG
65 TTCAG
20605194 TGAAAATTGA
Statistics
Matches: 167, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
132 106 0.63
133 61 0.37
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (130 bp):
AGGGATCTGCTACGATGCTCTTCAGGGTAGATCAGATCTGGAAATATTGATTCACTTACTCCTCT
TCAGGAAGATTAAATCAAGGTAGATTTATTCCACTGCTCCTCAGGGAAGATCAAATCTAAAAAAG
Found at i:20606517 original size:1 final size:1
Alignment explanation
Indices: 20606513--20606595 Score: 67
Period size: 1 Copynumber: 83.0 Consensus size: 1
20606503 TATTTTTTCC
* ** ** * * * *
20606513 TTTTTTCTTTTTTGCTTTTTTACTTTTTTTCTTTTTTCTTTTTTTTTTTTCTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
20606578 TTCTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTT
20606596 CTTTCTTCAG
Statistics
Matches: 62, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.01, C:0.11, G:0.01, T:0.87
Consensus pattern (1 bp):
T
Found at i:20606518 original size:8 final size:8
Alignment explanation
Indices: 20606505--20606599 Score: 126
Period size: 8 Copynumber: 12.2 Consensus size: 8
20606495 TTTAATTTTA
*
20606505 TTTTTTCC
1 TTTTTTCT
20606513 TTTTTTCT
1 TTTTTTCT
*
20606521 TTTTTGCT
1 TTTTTTCT
*
20606529 TTTTTACT
1 TTTTTTCT
20606537 TTTTTTC-
1 TTTTTTCT
20606544 TTTTTTC-
1 TTTTTTCT
20606551 -TTTTT-T
1 TTTTTTCT
20606557 TTTTTTCT
1 TTTTTTCT
20606565 TTTTTTCTT
1 TTTTTTC-T
20606574 TTTTTTCT
1 TTTTTTCT
20606582 TTTTTTCT
1 TTTTTTCT
20606590 TTTTTTCT
1 TTTTTTCT
20606598 TT
1 TT
20606600 CTTCAGGTGA
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
6 5 0.06
7 12 0.15
8 54 0.68
9 8 0.10
ACGTcount: A:0.01, C:0.13, G:0.01, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:20606533 original size:17 final size:16
Alignment explanation
Indices: 20606500--20606599 Score: 95
Period size: 15 Copynumber: 6.5 Consensus size: 16
20606490 CCTATTTTAA
* *
20606500 TTTTATTTTTTC-CTT
1 TTTTCTTTTTTCTTTT
20606515 TTTTCTTTTTTGC-TTT
1 TTTTCTTTTTT-CTTTT
* *
20606531 TTTACTTTTTT-TCTT
1 TTTTCTTTTTTCTTTT
20606546 TTTTCTTTTTT-TTTT
1 TTTTCTTTTTTCTTTT
*
20606561 TTCT-TTTTTTCTTTT
1 TTTTCTTTTTTCTTTT
20606576 TTTTCTTTTTT-TCTTT
1 TTTTCTTTTTTCT-TTT
20606592 TTTTCTTT
1 TTTTCTTT
20606600 CTTCAGGTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
14 6 0.08
15 36 0.50
16 30 0.42
ACGTcount: A:0.02, C:0.12, G:0.01, T:0.85
Consensus pattern (16 bp):
TTTTCTTTTTTCTTTT
Found at i:20606602 original size:37 final size:37
Alignment explanation
Indices: 20606505--20606599 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 37
20606495 TTTAATTTTA
* *
20606505 TTTTTTCCTTTTTTCTTTTTTGCTTTTTTACTTTTTTTC-
1 TTTTTTCTTTTTTTCTTTTTT--TTTTTT-CTTTTTTACT
*
20606544 TTTTTTCTTTTTTT-TTTTTCTTTTTTTCTTTTTTTTCT
1 TTTTTTCTTTTTTTCTTTTT-TTTTTTTC-TTTTTTACT
20606582 TTTTTTCTTTTTTTCTTT
1 TTTTTTCTTTTTTTCTTT
20606600 CTTCAGGTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
36 1 0.02
37 14 0.27
38 19 0.37
39 17 0.33
ACGTcount: A:0.01, C:0.13, G:0.01, T:0.85
Consensus pattern (37 bp):
TTTTTTCTTTTTTTCTTTTTTTTTTTTCTTTTTTACT
Found at i:20617558 original size:17 final size:19
Alignment explanation
Indices: 20617536--20617575 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20617526 CTTATTTGTT
*
20617536 ATTTTAA-TAAAA-TATTA
1 ATTTTAATTAAAACTATAA
20617553 ATTTTAATTAAAACTATAA
1 ATTTTAATTAAAACTATAA
20617572 ATTT
1 ATTT
20617576 ATGGTATGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTAATTAAAACTATAA
Found at i:20619006 original size:17 final size:17
Alignment explanation
Indices: 20618983--20619034 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
20618973 ATAATAAAAG
20618983 GAAAATATAATAAATATA
1 GAAAATA-AATAAATATA
20619001 -AAAATAAAT-AATATA
1 GAAAATAAATAAATATA
*
20619016 GTTAAATAAATAAATATA
1 G-AAAATAAATAAATATA
20619034 G
1 G
20619035 TAATAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.20
16 3 0.10
17 14 0.47
18 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
GAAAATAAATAAATATA
Found at i:20622375 original size:14 final size:14
Alignment explanation
Indices: 20622356--20622384 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20622346 TCGATTATAT
20622356 GTTCATTTATGTTC
1 GTTCATTTATGTTC
20622370 GTTCATTTATGTTC
1 GTTCATTTATGTTC
20622384 G
1 G
20622385 AACAAAGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.55
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:20622663 original size:10 final size:10
Alignment explanation
Indices: 20622648--20622723 Score: 71
Period size: 10 Copynumber: 6.9 Consensus size: 10
20622638 GTTTGTGTTA
20622648 TTCGTTTATG
1 TTCGTTTATG
20622658 TTCGTTTATTGTG
1 TTCGTTTA---TG
20622671 TTCGTTTATG
1 TTCGTTTATG
*
20622681 TTCGTTCATG
1 TTCGTTTATG
*
20622691 TTCGTTCATTCGTG
1 TTCG-T--TT-ATG
20622705 TTCGTTTATG
1 TTCGTTTATG
20622715 TTCGTTTAT
1 TTCGTTTAT
20622724 TTATTAAATG
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
10 34 0.62
11 3 0.05
13 12 0.22
14 6 0.11
ACGTcount: A:0.09, C:0.13, G:0.20, T:0.58
Consensus pattern (10 bp):
TTCGTTTATG
Found at i:20629341 original size:20 final size:21
Alignment explanation
Indices: 20629303--20629341 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20629293 CATCAAGGTC
*
20629303 TTTGTGGAGGCCATGAAATCT
1 TTTGTCGAGGCCATGAAATCT
20629324 TTTGTCGAGGCCAT-AAAT
1 TTTGTCGAGGCCATGAAAT
20629342 TCATGTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (21 bp):
TTTGTCGAGGCCATGAAATCT
Found at i:20637853 original size:118 final size:117
Alignment explanation
Indices: 20637513--20637866 Score: 324
Period size: 118 Copynumber: 3.0 Consensus size: 117
20637503 AGTATTTCTA
* *
20637513 ATAAGGGTTCATAATGAGAAGAACTCGTCTTATA-AGGGAGAAGAAGTTCATAATGAAAAAAACT
1 ATAAGGGTTCATAATGAGAAGAACTCGTC-TAAAGAGGGAGAAAAAGTTCATAATGAAAAAAACT
* * * *
20637577 TGTTCAACATTTCCTCAAATCCATCACAGAATAAGGTGGATCAATATTTTTAAT
65 TGTTCAACATTTACTCAAATCCATCA-ATAATAAGGTGGATCAACATTTTCAAT
** * * * * * * * * *
20637631 AGGAGGATTCATGATAAGAAGAAATCGT-TCGACGAGGAAGAAAAATTTCATAATGATAAAAACT
1 ATAAGGGTTCATAATGAGAAGAACTCGTCT-AAAGAGGGAGAAAAAGTTCATAATGAAAAAAACT
* * *
20637695 TGTTCAATC-TTTGA-TCAAA-CTCATC-ATAGATGGAGATGGATCAACATTTCCAAT
65 TGTTCAA-CATTT-ACTCAAATC-CATCAATA-AT-AAGGTGGATCAACATTTTCAAT
* * * * * * *
20637749 ATAAGGGTTCATAATGATAATAACTCGTCTAAAGAGGGCGAATAAGTTCATAATGAGAATAACAT
1 ATAAGGGTTCATAATGAGAAGAACTCGTCTAAAGAGGGAGAAAAAGTTCATAATGAAAAAAACTT
* *
20637814 GTTCAACACTTACTCAAATCCATCAAATAATAAGGTGGATCAGCATTTTCAAT
66 GTTCAACATTTACTCAAATCCATC-AATAATAAGGTGGATCAACATTTTCAAT
20637867 GGACAATTCA
Statistics
Matches: 181, Mismatches: 42, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
116 3 0.02
117 5 0.03
118 165 0.91
119 5 0.03
120 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (117 bp):
ATAAGGGTTCATAATGAGAAGAACTCGTCTAAAGAGGGAGAAAAAGTTCATAATGAAAAAAACTT
GTTCAACATTTACTCAAATCCATCAATAATAAGGTGGATCAACATTTTCAAT
Found at i:20638071 original size:10 final size:10
Alignment explanation
Indices: 20638056--20638090 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
20638046 TCTAAATAGC
20638056 ATATATATGT
1 ATATATATGT
20638066 ATATATATGT
1 ATATATATGT
* *
20638076 ATGTATATAT
1 ATATATATGT
20638086 ATATA
1 ATATA
20638091 CACACATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (10 bp):
ATATATATGT
Found at i:20638078 original size:14 final size:14
Alignment explanation
Indices: 20638056--20638090 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
20638046 TCTAAATAGC
20638056 ATATATATGTATAT
1 ATATATATGTATAT
*
20638070 ATATGTATGTATAT
1 ATATATATGTATAT
20638084 ATATATA
1 ATATATA
20638091 CACACATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:20639862 original size:14 final size:13
Alignment explanation
Indices: 20639824--20639888 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
20639814 CCCTTTAAAT
20639824 TTTTTGTATTTTAA
1 TTTTTGTA-TTTAA
*
20639838 TTTATGTTATTTAA
1 TTTTTG-TATTTAA
20639852 TTTCTTGTATTTACA
1 TTT-TTGTATTTA-A
* *
20639867 TTTTAGTCATTCAA
1 TTTTTGT-ATTTAA
20639881 -TTTTGTAT
1 TTTTTGTAT
20639889 ATTTTTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
12 2 0.05
13 5 0.12
14 23 0.55
15 12 0.29
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.63
Consensus pattern (13 bp):
TTTTTGTATTTAA
Found at i:20643222 original size:21 final size:24
Alignment explanation
Indices: 20643196--20643248 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 24
20643186 GAATCTTCAT
20643196 CTTTATTTTCTTTA-A-AAA-TTA
1 CTTTATTTTCTTTAGATAAATTTA
20643217 CTTTATTTTCTTTAGATTAAATTTA
1 CTTTATTTTCTTTAGA-TAAATTTA
20643242 CTTTATT
1 CTTTATT
20643249 GGTAAATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 14 0.50
22 1 0.04
24 3 0.11
25 10 0.36
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (24 bp):
CTTTATTTTCTTTAGATAAATTTA
Found at i:20646325 original size:17 final size:17
Alignment explanation
Indices: 20646303--20646338 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
20646293 TATTAATTAT
*
20646303 GATGCTTTAGTGTGATA
1 GATGCTTTAGTATGATA
20646320 GATGCTTTAGTATGATA
1 GATGCTTTAGTATGATA
20646337 GA
1 GA
20646339 GGCGTTAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (17 bp):
GATGCTTTAGTATGATA
Found at i:20647228 original size:23 final size:23
Alignment explanation
Indices: 20647192--20647248 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
20647182 TGACGTGGCA
*
20647192 TCCAGTCAGCACCTTCTAAAAGGT
1 TCCAGTCAGTACCTTCTAAAA-GT
20647216 T-CAGTCAGTACCTTCTAAAAGT
1 TCCAGTCAGTACCTTCTAAAAGT
20647238 TCCAGTCAGTA
1 TCCAGTCAGTA
20647249 ATTTCGTGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 3 0.10
23 27 0.87
24 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (23 bp):
TCCAGTCAGTACCTTCTAAAAGT
Found at i:20647321 original size:19 final size:19
Alignment explanation
Indices: 20647299--20647339 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
20647289 AAATTAGGAT
20647299 TTATCTTTGATATTAAGAA
1 TTATCTTTGATATTAAGAA
* * *
20647318 TTATCTTTTATTTTTAGAA
1 TTATCTTTGATATTAAGAA
20647337 TTA
1 TTA
20647340 AGTTTGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (19 bp):
TTATCTTTGATATTAAGAA
Found at i:20652359 original size:3 final size:3
Alignment explanation
Indices: 20652351--20652386 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
20652341 TAAAATTATT
20652351 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20652387 AACAAATGGG
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):
TAA
Found at i:20652741 original size:41 final size:39
Alignment explanation
Indices: 20652623--20653102 Score: 506
Period size: 39 Copynumber: 12.6 Consensus size: 39
20652613 AGGTTGAATA
* * * * *
20652623 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTTAGATG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* *
20652662 AGTTCTTCATACTATGAACTCCTTTTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * **
20652701 AGTTCTACAGATTATGAACTCATTTTTTTTTTCTTCAGACG
1 AGTTCTTCAGATTATGAACTC--CTTTTTCCTCTTCAGACG
*
20652742 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAAACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
*
20652781 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTC--A-G
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * * *
20652817 A-TT-AT--GA--ACT---C-CTTTTTTTCTTTTCAGACG
1 AGTTCTTCAGATTA-TGAACTCCTTTTTCCTCTTCAGACG
* * * *
20652847 AATTCTTCAGAATATGAACT-CTTTTTTCTATTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * *
20652885 AGTTCTTCAAATTATGAACTCCTTTTTTCTCTTCAGACA
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* *
20652924 AGTTCTTCAGATTATGAACTCTTTTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* * *
20652963 AGTTCTTCAAATTATGAAGT-CTTTTATCCTCTTCAAACG
1 AGTTCTTCAGATTATGAACTCCTTTT-TCCTCTTCAGACG
* **
20653002 AGTTCTTCAGGTTATGAACT-CTTTTTTTTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
* *
20653040 ATTTCTTCAGATTATGAACTCCTTTTTCCTATTCAGACG
1 AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
20653079 AGTTCTTCAGATTATGAACTCCTT
1 AGTTCTTCAGATTATGAACTCCTT
20653103 CTGGAAATGT
Statistics
Matches: 372, Mismatches: 50, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
27 10 0.03
28 1 0.00
29 1 0.00
30 3 0.01
31 3 0.01
32 3 0.01
34 3 0.01
35 3 0.01
36 3 0.01
37 1 0.00
38 66 0.18
39 240 0.65
41 35 0.09
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (39 bp):
AGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAGACG
Found at i:20652758 original size:80 final size:80
Alignment explanation
Indices: 20652652--20652801 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 80
20652642 TTCTTCTTCC
* * * *
20652652 TCTTTAGATGAGTTCTTCATACTATGAACTCCTTTTTCCTCTTCAGACGAGTTCTACAGATTATG
1 TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTTTTCCTCTTCAAACGAGTTCTACAGATTATG
20652717 AACTCATTTTTTTTT
66 AACTCATTTTTTTTT
* *
20652732 TCTTCAGACGAGTTCTTCAGATTATGAACTCCTTTTTCCTCTTCAAACGAGTTCTTCAGATTATG
1 TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTTTTCCTCTTCAAACGAGTTCTACAGATTATG
20652797 AACTC
66 AACTC
20652802 CTTCTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (80 bp):
TCTTCAGACGAGTTCTTCAGACTATGAACTCCTTTTTCCTCTTCAAACGAGTTCTACAGATTATG
AACTCATTTTTTTTT
Found at i:20652881 original size:65 final size:65
Alignment explanation
Indices: 20652747--20652882 Score: 184
Period size: 66 Copynumber: 2.1 Consensus size: 65
20652737 AGACGAGTTC
* * *
20652747 TTCAGATTATGAACTCCTTTTTCCTCTTCAAACGAGTTCTTCAGATTATGAACTCCTTCTTCCTC
1 TTCAGATTATGAACTCCTTTTTCCTCTTCAAACGAATTCTTCAGAATATGAACTCCTTCTTCCTA
* * * * *
20652812 TTCAGATTATGAACTCCTTTTTTTCTTTTCAGACGAATTCTTCAGAATATGAACT-CTTTTTTCT
1 TTCAGATTATGAACTCC-TTTTTCCTCTTCAAACGAATTCTTCAGAATATGAACTCCTTCTTCCT
20652876 A
65 A
20652877 TTCAGA
1 TTCAGA
20652883 CGAGTTCTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 30 0.48
66 32 0.52
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (65 bp):
TTCAGATTATGAACTCCTTTTTCCTCTTCAAACGAATTCTTCAGAATATGAACTCCTTCTTCCTA
Found at i:20652940 original size:77 final size:77
Alignment explanation
Indices: 20652810--20653099 Score: 395
Period size: 77 Copynumber: 3.7 Consensus size: 77
20652800 TCCTTCTTCC
* * * *
20652810 TCTTCAGATTATGAACTCCTTTTTTTCTTTTCAGACGAA-TTCTTCAGAATATGAACTCTTTTTT
1 TCTTCAAATTATGAACTCC-TTTTTCCTCTTCAGAC-AAGTTCTTCAGATTATGAACTCTTTTTT
*
20652874 CTATTCAGACGAGT
64 CTCTTCAGACGAGT
*
20652888 TCTTCAAATTATGAACTCCTTTTTTCTCTTCAGACAAGTTCTTCAGATTATGAACTCTTTTTTTC
1 TCTTCAAATTATGAACTCCTTTTTCCTCTTCAGACAAGTTCTTCAGATTATGAACTC-TTTTTTC
20652953 TCTTCAGACGAGT
65 TCTTCAGACGAGT
* * * * *
20652966 TCTTCAAATTATGAAGT-CTTTTATCCTCTTCAAACGAGTTCTTCAGGTTATGAACTCTTTTTTT
1 TCTTCAAATTATGAACTCCTTTT-TCCTCTTCAGACAAGTTCTTCAGATTATGAACTCTTTTTTC
*
20653030 TCTTCAGACGATT
65 TCTTCAGACGAGT
* * *
20653043 TCTTCAGATTATGAACTCCTTTTTCCTATTCAGACGAGTTCTTCAGATTATGAACTC
1 TCTTCAAATTATGAACTCCTTTTTCCTCTTCAGACAAGTTCTTCAGATTATGAACTC
20653100 CTTCTGGAAA
Statistics
Matches: 192, Mismatches: 16, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
76 2 0.01
77 102 0.53
78 88 0.46
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (77 bp):
TCTTCAAATTATGAACTCCTTTTTCCTCTTCAGACAAGTTCTTCAGATTATGAACTCTTTTTTCT
CTTCAGACGAGT
Found at i:20652980 original size:116 final size:116
Alignment explanation
Indices: 20652810--20653099 Score: 404
Period size: 116 Copynumber: 2.5 Consensus size: 116
20652800 TCCTTCTTCC
* *
20652810 TCTTCAGATTATGAACTCCTTTTTTTCTTTTCAGACGAATTCTTCAGAA-TATGAACTCTTTT-T
1 TCTTCAGATTATGAACT-CTTTTTTTCTATTCAGACGAGTTCTTCA-AATTATGAACTCTTTTAT
* *
20652873 TCTATTCAGACGAGTTCTTCAAATTATGAACTCCTTTTTTCTCTTCAGACAAGT
64 CCTATTCAAACGAGTTCTTCAAATTATGAACT-CTTTTTTCTCTTCAGACAAGT
* *
20652927 TCTTCAGATTATGAACTCTTTTTTTCTCTTCAGACGAGTTCTTCAAATTATGAAGTCTTTTATCC
1 TCTTCAGATTATGAACTCTTTTTTTCTATTCAGACGAGTTCTTCAAATTATGAACTCTTTTATCC
* ** * * *
20652992 TCTTCAAACGAGTTCTTCAGGTTATGAACTCTTTTTTTTCTTCAGACGATT
66 TATTCAAACGAGTTCTTCAAATTATGAACTCTTTTTTCTCTTCAGACAAGT
* * *
20653043 TCTTCAGATTATGAACTCCTTTTTCCTATTCAGACGAGTTCTTCAGATTATGAACTC
1 TCTTCAGATTATGAACTCTTTTTTTCTATTCAGACGAGTTCTTCAAATTATGAACTC
20653100 CTTCTGGAAA
Statistics
Matches: 155, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
115 2 0.01
116 108 0.70
117 45 0.29
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (116 bp):
TCTTCAGATTATGAACTCTTTTTTTCTATTCAGACGAGTTCTTCAAATTATGAACTCTTTTATCC
TATTCAAACGAGTTCTTCAAATTATGAACTCTTTTTTCTCTTCAGACAAGT
Found at i:20653264 original size:45 final size:46
Alignment explanation
Indices: 20653153--20653500 Score: 363
Period size: 45 Copynumber: 7.7 Consensus size: 46
20653143 TTGCTATTTC
* * * *
20653153 AAAACATCCGGCAATGAAGGTCTTATGGATGACCCGAAGGCTTTTTG
1 AAAACATTCTGCACTGAAGGTCTTATAGATGACCCGAAGGC-TTTTG
* * * *
20653200 AAAACA-TCATGTATTGTAGGTCTTAAAGATGACCCGAAGGCTTTT-
1 AAAACATTC-TGCACTGAAGGTCTTATAGATGACCCGAAGGCTTTTG
* *
20653245 AAAACATTCTGCACTGTAGGTCTTATGGATGACCCGAAGG-TTTTG
1 AAAACATTCTGCACTGAAGGTCTTATAGATGACCCGAAGGCTTTTG
* * *
20653290 AAATCATCCTACACTGAAGGTCTTATAGATGACCCGAAGG-TTTTG
1 AAAACATTCTGCACTGAAGGTCTTATAGATGACCCGAAGGCTTTTG
* * *
20653335 AAAACGTCCTGCACTGAAGGTCTTATGGATGACCCGAAGG-TTTTG
1 AAAACATTCTGCACTGAAGGTCTTATAGATGACCCGAAGGCTTTTG
* * * *
20653380 AAAACATCCTACACTGAAGGTCTTACATATGACCCGAAGGC-TTTG
1 AAAACATTCTGCACTGAAGGTCTTATAGATGACCCGAAGGCTTTTG
* * * * *
20653425 AAAACA-TCATGCACTGTAGATCTTACAGATGAACCAAAGGC-TTTG
1 AAAACATTC-TGCACTGAAGGTCTTATAGATGACCCGAAGGCTTTTG
*
20653470 AAAACA-TCATGCACTGAAGGTCTTACAGATG
1 AAAACATTC-TGCACTGAAGGTCTTATAGATG
20653501 TGGGAAATAG
Statistics
Matches: 262, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
44 5 0.02
45 218 0.83
46 7 0.03
47 32 0.12
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAACATTCTGCACTGAAGGTCTTATAGATGACCCGAAGGCTTTTG
Found at i:20653329 original size:90 final size:90
Alignment explanation
Indices: 20653170--20653500 Score: 423
Period size: 90 Copynumber: 3.7 Consensus size: 90
20653160 CCGGCAATGA
** * * *
20653170 AGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCATGTATTGTAGGTCTTAAAGATGACCC
1 AGGTCTTATGGATGACCCGAAGG--TTTTGAAAACATCATACACTGAAGGTCTTACAGATGACCC
20653235 GAAGGCTTTTAAAACATTCTGCACTGT
64 GAAGGCTTTTAAAACATTCTGCACTGT
* * *
20653262 AGGTCTTATGGATGACCCGAAGGTTTTGAAATCATCCTACACTGAAGGTCTTATAGATGACCCGA
1 AGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATACACTGAAGGTCTTACAGATGACCCGA
* * *
20653327 AGG-TTTTGAAAACGTCCTGCACTGA
66 AGGCTTTT-AAAACATTCTGCACTGT
* *
20653352 AGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCCTACACTGAAGGTCTTACATATGACCCGA
1 AGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATACACTGAAGGTCTTACAGATGACCCGA
*
20653417 AGGCTTTGAAAACA-TCATGCACTGT
66 AGGCTTTTAAAACATTC-TGCACTGT
* ** * * * *
20653442 AGATCTTACAGATGAACCAAAGGCTTTGAAAACATCATGCACTGAAGGTCTTACAGATG
1 AGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATACACTGAAGGTCTTACAGATG
20653501 TGGGAAATAG
Statistics
Matches: 210, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
89 5 0.02
90 179 0.85
91 3 0.01
92 23 0.11
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (90 bp):
AGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATACACTGAAGGTCTTACAGATGACCCGA
AGGCTTTTAAAACATTCTGCACTGT
Found at i:20653401 original size:135 final size:135
Alignment explanation
Indices: 20653167--20653500 Score: 409
Period size: 135 Copynumber: 2.5 Consensus size: 135
20653157 CATCCGGCAA
* * * *
20653167 TGAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCATGTATTGTAGGTCTTAAAGATGA
1 TGAAGGTCTTATAGATGACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGTCTTAAAGATGA
* * * ** * *
20653232 CCCGAAGGCTTTTAAAACATTCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAATCAT
64 CCCGAAGGCTTTTAAAACATCCTACACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACAT
*
20653297 CCTACAC
129 CATACAC
* * **
20653304 TGAAGGTCTTATAGATGACCCGAAGGTTTTGAAAACGTCCTGCACTGAAGGTCTTATGGATGACC
1 TGAAGGTCTTATAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTAAAGATGACC
*
20653369 CGAAGG-TTTTGAAAACATCCTACACTGAAGGTCTTACATATGACCCGAAGGCTTTGAAAACATC
66 CGAAGGCTTTT-AAAACATCCTACACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATC
*
20653433 ATGCAC
130 ATACAC
* * * * * * *
20653439 TGTAGATCTTACAGATGAACCAAAGGCTTTGAAAACATCATGCACTGAAGGTCTTACAGATG
1 TGAAGGTCTTATAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTAAAGATG
20653501 TGGGAAATAG
Statistics
Matches: 168, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
134 4 0.02
135 139 0.83
137 25 0.15
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (135 bp):
TGAAGGTCTTATAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTAAAGATGACC
CGAAGGCTTTTAAAACATCCTACACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAAACATCA
TACAC
Found at i:20654202 original size:24 final size:23
Alignment explanation
Indices: 20654153--20654223 Score: 96
Period size: 24 Copynumber: 3.2 Consensus size: 23
20654143 AATAAAGTTT
20654153 TCATCTTTGAAAA-G-AGAATCTA
1 TCATCTTTGAAAATGTAG-ATCTA
20654175 TCATCTTTGAAGAATGTAGATCTA
1 TCATCTTTGAA-AATGTAGATCTA
20654199 TCATCTTTGAAAATGT--ATCTA
1 TCATCTTTGAAAATGTAGATCTA
20654220 TCAT
1 TCAT
20654224 GTAGATGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.20
22 11 0.24
23 7 0.15
24 17 0.37
25 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (23 bp):
TCATCTTTGAAAATGTAGATCTA
Found at i:20654681 original size:54 final size:54
Alignment explanation
Indices: 20654587--20654752 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
20654577 ATAATCACTG
* * *
20654587 GTTCATAAAACATTTGACATCACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
1 GTTCATAAAGCATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCCCAGAT
*
20654641 GTTCGTAAAGCATTTGACAACACAATT-ATCCTTTCTTGTGGCTTCTGCCCAGAT
1 GTTCATAAAGCATTTGACAACAC-ATTCATCCTTTCTTGTGGCTTCTGCCCAGAT
* *
20654695 GTTCATAAAGCATTTGGCAACACATTCATCCTTTCTTGTGGCTTCTGCCCAAAT
1 GTTCATAAAGCATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCCCAGAT
20654749 GTTC
1 GTTC
20654753 TCAATCATTG
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
53 3 0.03
54 97 0.94
55 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (54 bp):
GTTCATAAAGCATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCCCAGAT
Found at i:20655880 original size:42 final size:42
Alignment explanation
Indices: 20655792--20655889 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
20655782 GCTGTGAGCC
* *
20655792 TTCAAAATGTCCCACATAGACCATTTCTATCTAAAACGGGCC
1 TTCAAAATGTCCCACATAGACCATTTCTATCTAAAACAGGCA
* * * * **
20655834 TTCAAAATGTCCCACATGGACCATTTCTGTTTGAATTAGGCA
1 TTCAAAATGTCCCACATAGACCATTTCTATCTAAAACAGGCA
*
20655876 TTCAAAATGCCCCA
1 TTCAAAATGTCCCA
20655890 ACATTCTAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.29
Consensus pattern (42 bp):
TTCAAAATGTCCCACATAGACCATTTCTATCTAAAACAGGCA
Done.