Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 293 of 352
Found at i:96355141 original size:21 final size:21
Alignment explanation
Indices: 96355117--96355164 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
96355107 TTCACAAAGA
*
96355117 CGTGTGCCTTAGACACACGAT
1 CGTGTGCCTTAGACACACGAG
** *
96355138 CGTGTTTCTTAGCCACACGAG
1 CGTGTGCCTTAGACACACGAG
96355159 CGTGTG
1 CGTGTG
96355165 AATTAGCCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (21 bp):
CGTGTGCCTTAGACACACGAG
Found at i:96361199 original size:14 final size:14
Alignment explanation
Indices: 96361180--96361210 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
96361170 ACTCGATTAA
96361180 CTTGTTAATTCATT
1 CTTGTTAATTCATT
96361194 CTTGTTAATTCATT
1 CTTGTTAATTCATT
96361208 CTT
1 CTT
96361211 AGGCCCGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (14 bp):
CTTGTTAATTCATT
Found at i:96380206 original size:40 final size:40
Alignment explanation
Indices: 96380155--96380232 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
96380145 ACACACCATG
* *
96380155 TGGGGATAAAATTGACCCA-CACATCCCTGCACACCATATA
1 TGGGGACAAAATTGACCCATC-CATCCCTACACACCATATA
*
96380195 TGGGGACAAAATTGATCCATCCATCCCTACACACCATA
1 TGGGGACAAAATTGACCCATCCATCCCTACACACCATA
96380233 AGGTACTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.21
Consensus pattern (40 bp):
TGGGGACAAAATTGACCCATCCATCCCTACACACCATATA
Found at i:96382293 original size:36 final size:36
Alignment explanation
Indices: 96382253--96382326 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
96382243 GAGTGACTCG
96382253 GTTAGAATAGATTCGAAAGGCTGCTGAACTGAGTCA
1 GTTAGAATAGATTCGAAAGGCTGCTGAACTGAGTCA
*
96382289 GTTAGAATAGATTCGAAAGGTTGCTGAACTGAGTCA
1 GTTAGAATAGATTCGAAAGGCTGCTGAACTGAGTCA
96382325 GT
1 GT
96382327 CAGCTAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.27
Consensus pattern (36 bp):
GTTAGAATAGATTCGAAAGGCTGCTGAACTGAGTCA
Found at i:96390599 original size:79 final size:79
Alignment explanation
Indices: 96390468--96390628 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
96390458 GCTATATAAG
96390468 TTCAAGTGTTACTGGAAGCTTAGACCTATGCTTCCTTAGGGCACTAGTCCAGTAATATTGGGTTG
1 TTCAAGTGTTACTGGAAGCTTAGACCTATGCTTCCTTAGGGCACTAGTCCAGTAATATTGGGTTG
96390533 CTTATAACAAATCA
66 CTTATAACAAATCA
96390547 TTCAAGTGTTACTGGAAGCTTAGACCTATGCTTCCTTAGGGCACTAGTCCAGTAATATTGGGTTG
1 TTCAAGTGTTACTGGAAGCTTAGACCTATGCTTCCTTAGGGCACTAGTCCAGTAATATTGGGTTG
96390612 CTTATAACAAATCA
66 CTTATAACAAATCA
96390626 TTC
1 TTC
96390629 TCCTAGTCGG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (79 bp):
TTCAAGTGTTACTGGAAGCTTAGACCTATGCTTCCTTAGGGCACTAGTCCAGTAATATTGGGTTG
CTTATAACAAATCA
Found at i:96393924 original size:51 final size:51
Alignment explanation
Indices: 96393862--96393997 Score: 182
Period size: 51 Copynumber: 2.7 Consensus size: 51
96393852 TGGAAACATG
*
96393862 ATCTTAAAAGATATGATTTTATAATCTTAAAGATCTTAGATATGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAAAGATCTTAGATAAGATATGTA
* * ** * *
96393913 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATGATTTTATAATCTTAAAGATCTTAGATAAGATATGTA
* * *
96393964 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATTTTATAATCTTAAAGAT
96393998 TTGATTGTAG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.43
Consensus pattern (51 bp):
ATCTTAAAAGATATGATTTTATAATCTTAAAGATCTTAGATAAGATATGTA
Found at i:96393967 original size:19 final size:19
Alignment explanation
Indices: 96393894--96393971 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
96393884 AATCTTAAAG
*
96393894 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
96393913 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
96393928 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
96393944 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
96393964 ATCTTAGA
1 ATCTTAGA
96393972 AGATATGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.06
15 9 0.19
16 1 0.02
17 10 0.21
18 2 0.04
19 20 0.43
20 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:96413950 original size:19 final size:18
Alignment explanation
Indices: 96413899--96413960 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
96413889 ATATTTATTC
96413899 AATTAAATTAATACT--T
1 AATTAAATTAATACTCAT
* * *
96413915 AATAAAAGTATTACTCAT
1 AATTAAATTAATACTCAT
96413933 GAATTAAATTAATACTCAATT
1 -AATTAAATTAATACTC-A-T
96413954 AATTAAA
1 AATTAAA
96413961 AAACCAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 12 0.34
18 1 0.03
19 13 0.37
20 8 0.23
21 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (18 bp):
AATTAAATTAATACTCAT
Found at i:96413953 original size:16 final size:16
Alignment explanation
Indices: 96413897--96413959 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
96413887 TTATATTTAT
96413897 TCAATTAAATTAATAC
1 TCAATTAAATTAATAC
* * * *
96413913 TTAATAAAAGTATTAC
1 TCAATTAAATTAATAC
96413929 TCATGAATTAAATTAATAC
1 TC---AATTAAATTAATAC
96413948 TCAATT-AATTAA
1 TCAATTAAATTAA
96413960 AAAACCAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
15 6 0.17
16 17 0.47
19 13 0.36
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (16 bp):
TCAATTAAATTAATAC
Found at i:96418429 original size:24 final size:24
Alignment explanation
Indices: 96418401--96418452 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
96418391 TTTGTTGGTC
* *
96418401 AAATAAATTATGCTAACAAATGCT
1 AAATAAATTATACTAACAAATACT
* *
96418425 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAACAAATACT
96418449 AAAT
1 AAAT
96418453 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAACAAATACT
Found at i:96427844 original size:53 final size:52
Alignment explanation
Indices: 96427715--96427850 Score: 168
Period size: 53 Copynumber: 2.6 Consensus size: 52
96427705 AGCGATATTT
96427715 GTATAAGACCATAGCTGGGCTATGGCATCAGAAAGCAAAGGATAAGTGATTTCC
1 GTATAAGACCATAGCTGGGCTATGGCATCAG-AAGCAAAGGATAAGTGA-TTCC
* * ** *
96427769 GTATAAGACCATAGCTGGGCTATGGCTTTAG-ATTAATGTGATACAAGTGA-TCC
1 GTATAAGACCATAGCTGGGCTATGGCATCAGAAGCAAAG-GAT--AAGTGATTCC
96427822 GTATAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATAGCTGGGCTATGGCATC
96427851 GGAGAATAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
52 4 0.06
53 33 0.46
54 29 0.40
55 6 0.08
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (52 bp):
GTATAAGACCATAGCTGGGCTATGGCATCAGAAGCAAAGGATAAGTGATTCC
Found at i:96429942 original size:11 final size:11
Alignment explanation
Indices: 96429926--96429955 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
96429916 TGACGGATAA
96429926 GACCATGGTTG
1 GACCATGGTTG
96429937 GACCATGGTTG
1 GACCATGGTTG
*
96429948 GACAATGG
1 GACCATGG
96429956 CAATGTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (11 bp):
GACCATGGTTG
Found at i:96430039 original size:33 final size:31
Alignment explanation
Indices: 96429965--96430043 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 31
96429955 GCAATGTTTA
*
96429965 AATGTAAGACCATAGCTGGGCTATGGCATCCT
1 AATGTAAGACCATAACTGGGCTATGGCA-CCT
*
96429997 AATGATAAGACCATAACTGGGTTATGGCA-CT
1 AATG-TAAGACCATAACTGGGCTATGGCACCT
96430028 ATGAGTGTAAGACCAT
1 A--A-TGTAAGACCAT
96430044 GGTAGGGCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 3 0.07
32 4 0.10
33 32 0.78
34 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (31 bp):
AATGTAAGACCATAACTGGGCTATGGCACCT
Found at i:96430090 original size:33 final size:33
Alignment explanation
Indices: 96430019--96430091 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
96430009 ATAACTGGGT
* *
96430019 TATGGCACTATGAGTGTAAGACCATGGTAGGGC
1 TATGGCAATATGAGTGTAAGACCATGGTAGGAC
* *
96430052 CATGGCAATAT-ATGTGTAAGACCATAGTTA-GAC
1 TATGGCAATATGA-GTGTAAGACCAT-GGTAGGAC
96430085 TATGGCA
1 TATGGCA
96430092 TCAATAAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
32 1 0.03
33 29 0.88
34 3 0.09
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (33 bp):
TATGGCAATATGAGTGTAAGACCATGGTAGGAC
Found at i:96432799 original size:24 final size:24
Alignment explanation
Indices: 96432771--96432822 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
96432761 TTCATAGGTC
* *
96432771 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
96432795 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
96432819 AAAT
1 AAAT
96432823 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:96434847 original size:42 final size:41
Alignment explanation
Indices: 96434783--96434982 Score: 166
Period size: 42 Copynumber: 4.7 Consensus size: 41
96434773 AGCTCGCACA
* *
96434783 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAA-ATCG
* * * *
96434825 ATGCCACTGTCCCAGATATGGTCTTACACGAAATTAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAAT-CG
*** * * *
96434867 ATGTTGATGTCCCAGACATGGTCTTATATGTAATCTTTAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC--AAATCG
* * * * * *
96434910 ATGTCAGTGTCCTAGACACGGTCTTACACGATATCTCAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-TA-ATCAAATCG
**
96434953 ATGCCAATGTCCCAGATGTGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
96434983 AAATTATATC
Statistics
Matches: 121, Mismatches: 32, Indels: 9
0.75 0.20 0.06
Matches are distributed among these distances:
41 2 0.02
42 59 0.49
43 53 0.44
44 5 0.04
45 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATCG
Found at i:96451236 original size:43 final size:43
Alignment explanation
Indices: 96451188--96451279 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 43
96451178 TAACTGTTTG
96451188 TTTTAAACTTTGAATATT-TTTAACATTTTTTCATTTTAAT-TAA
1 TTTTAAACTTTGAATATTATTTAACATTTTTTCA-TTT-ATGTAA
** * *
96451231 TTTTAATTTTTTAATATTATTTAATATTTTTTCATTTATGTAA
1 TTTTAAACTTTGAATATTATTTAACATTTTTTCATTTATGTAA
96451274 TTTTAA
1 TTTTAA
96451280 TTAATTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 2 0.05
43 27 0.63
44 14 0.33
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (43 bp):
TTTTAAACTTTGAATATTATTTAACATTTTTTCATTTATGTAA
Found at i:96451314 original size:52 final size:53
Alignment explanation
Indices: 96451220--96451345 Score: 227
Period size: 52 Copynumber: 2.4 Consensus size: 53
96451210 ACATTTTTTC
*
96451220 ATTTTAATTAATTTTAATTTTTTAATATTATTTAATATTTTTTCATTTATGTA
1 ATTTTAATTAATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATGTA
96451273 ATTTTAATTAATTTTAATTTTTGAATATTATTTAAT-TTTTTTCATTTATGTA
1 ATTTTAATTAATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATGTA
*
96451325 ATTTTAATTAATTTTTATTTT
1 ATTTTAATTAATTTTAATTTT
96451346 ATAATTTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 36 0.51
53 35 0.49
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (53 bp):
ATTTTAATTAATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATGTA
Found at i:96452286 original size:7 final size:7
Alignment explanation
Indices: 96452274--96452298 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96452264 AGTCGTTTCA
96452274 TATTTAG
1 TATTTAG
96452281 TATTTAG
1 TATTTAG
96452288 TATTTAG
1 TATTTAG
96452295 TATT
1 TATT
96452299 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:96456653 original size:127 final size:126
Alignment explanation
Indices: 96456421--96456921 Score: 615
Period size: 127 Copynumber: 4.0 Consensus size: 126
96456411 GGCCAAGCAT
* *
96456421 GAACTA-TGTAGAAAAAGAGCGTACACAT-TGGAGCTTTTTTTTAGAAATTTTGCTGACATTGCA
1 GAACTACTGTAGCAAAAGAGCGT-C-CATGTGGAGCTTTTTTTCAGAAATTTTGCTGACATTGCA
*
96456484 TCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
64 TCCTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* ** * *
96456547 GAACAACTGTAGCAAAAGAGCGTCCATGTAGGAGCTTTTTTTTTGTATTTTTGCTGACATTGCAT
1 GAACTACTGTAGCAAAAGAGCGTCCATGT-GGAGCTTTTTTTCAGAAATTTTGCTGACATTGCAT
96456612 CCTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAAATTATTTTTTCAG
65 CCTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTC-AAAATTATTTTTTCAG
*** * * *
96456675 GAACTACTGTAG-AAAA-AGAAACC-TG-GGAAC-TTTTTTCAGAAATTTTGCTGACTTTTCATC
1 GAACTACTGTAGCAAAAGAGCGTCCATGTGGAGCTTTTTTTCAGAAATTTTGCTGACATTGCATC
* * * * *
96456735 TTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT-AG
66 CTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * * * *
96456795 GAACTACTGTAGCAAAATAGCGTCCACGTGGAAGCTTTTTTTCTGTATTTTTGCTGACAGTGCAT
1 GAACTACTGTAGCAAAAGAGCGTCCATGTGG-AGCTTTTTTTCAGAAATTTTGCTGACATTGCAT
* * * * * *
96456860 CCTGCTTGAAATGTTTTTAACATTATTTGTTCAAAAACGTTTTCTCAAAATTA-TTTTTCAG
65 CCTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
96456921 G
1 G
96456922 GTAAAAATAG
Statistics
Matches: 322, Mismatches: 42, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
120 14 0.04
121 17 0.05
122 68 0.21
123 5 0.02
124 2 0.01
125 12 0.04
126 81 0.25
127 96 0.30
128 27 0.08
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
GAACTACTGTAGCAAAAGAGCGTCCATGTGGAGCTTTTTTTCAGAAATTTTGCTGACATTGCATC
CTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:96456907 original size:248 final size:247
Alignment explanation
Indices: 96456456--96456921 Score: 729
Period size: 248 Copynumber: 1.9 Consensus size: 247
96456446 CATTGGAGCT
* *
96456456 TTTTTTTAGAAATTTTGCTGACATTGCATCCTACTTGAAGCGTTTTTGACACTATTTGTTCAGAA
1 TTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTGAAGCATTTTTGACACTATTTGTTCAGAA
* *
96456521 ACGTCTTCTCAAAATTATTTTTTCAGGAACAACTGTAGCAAAAGAGCGTCCATGTAGGAGCTTTT
66 ACATCTTCTCAAAATTATTTTTTCAGGAACAACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTT
* * * *
96456586 TTTTTGTATTTTTGCTGACATTGCATCCTACTTGAAACGTTTTTGACACTATTTGTTCAGAAACG
131 TTTCTGTATTTTTGCTGACAGTGCATCCTACTTGAAACGTTTTTAACACTATTTGTTCAAAAACG
96456651 TCTTCTCAAAAATTATTTTTTCAGGAACTACTGTAGAAAAAGAAACCTGGGAAC
196 TCTTCTC-AAAATTA-TTTTTCAGGAACTACTGTAGAAAAAGAAACCTGGGAAC
* * * *
96456705 TTTTTTCAGAAATTTTGCTGACTTTTCATCTTGCTTGAAGCATTTTTGACACTATTTGTTCAGAA
1 TTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTGAAGCATTTTTGACACTATTTGTTCAGAA
* *
96456770 ACATCTTCTCAAAATTATTTTTT-AGGAACTACTGTAGCAAAATAGCGTCCACGT-GGAAGCTTT
66 ACATCTTCTCAAAATTATTTTTTCAGGAACAACTGTAGCAAAAGAGCGTCCACGTAGG-AGCTTT
* * *
96456833 TTTTCTGTATTTTTGCTGACAGTGCATCCTGCTTGAAATGTTTTTAACATTATTTGTTCAAAAAC
130 TTTTCTGTATTTTTGCTGACAGTGCATCCTACTTGAAACGTTTTTAACACTATTTGTTCAAAAAC
*
96456898 GTTTTCTCAAAATTATTTTTCAGG
195 GTCTTCTCAAAATTATTTTTCAGG
96456922 GTAAAAATAG
Statistics
Matches: 198, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
246 9 0.05
247 9 0.05
248 99 0.50
249 81 0.41
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (247 bp):
TTTTTTCAGAAATTTTGCTGACATTGCATCCTACTTGAAGCATTTTTGACACTATTTGTTCAGAA
ACATCTTCTCAAAATTATTTTTTCAGGAACAACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTT
TTTCTGTATTTTTGCTGACAGTGCATCCTACTTGAAACGTTTTTAACACTATTTGTTCAAAAACG
TCTTCTCAAAATTATTTTTCAGGAACTACTGTAGAAAAAGAAACCTGGGAAC
Found at i:96457113 original size:52 final size:50
Alignment explanation
Indices: 96457051--96457444 Score: 138
Period size: 52 Copynumber: 7.3 Consensus size: 50
96457041 TCTAATGTAC
*
96457051 TTAATCTATTTAAAAAACATAAGCCCTAATTTGATAAATCTAAAACCCTAAT
1 TTAATTTATTTAAAAAACATAA-CCCTAATTT-ATAAATCTAAAACCCTAAT
* * * *
96457103 TTAATTTATTT-TAAACCCTAA-CTTAATTTATTTAAAATCTTAAAACCCTAAT
1 TTAATTTATTTAAAAAACATAACCCTAATTTA--T-AAATC-TAAAACCCTAAT
* * * * * *
96457155 TTAATTAATTTTAACTAAAAAATATAAACCCTAATTTAATAAACCCAAAAACCTAAA
1 TTAATT--TATT---TAAAAAACAT-AACCCTAATTT-ATAAATCTAAAACCCTAAT
* * * * *
96457212 TTAATTTATTT--TAAACTGTAA-CTTAATTTATTTAAAACCTTGAAACCCTAAT
1 TTAATTTATTTAAAAAAC-ATAACCCTAATTTA--T-AAATC-TAAAACCCTAAT
* * * *
96457264 TTAATTAATTTTTAACCAAAAAATATAAACCCTAATTTAATAAATCTGAAACACTAAT
1 TTAATT--TATTT----AAAAAACAT-AACCCTAATTT-ATAAATCTAAAACCCTAAT
* * * * * *
96457322 TTAATTTATTT-TAAACCCTAA-CTTAATTTATTTAAAACCCTAAAACCCCAATTT
1 TTAATTTATTTAAAAAACATAACCCTAATTTA--T-AAA-TCTAAAACCCTAA--T
* *
96457376 ACTTAATCTATTTAAAAAACATAAACCCTAATTTAATAAACCCT-AAACCCTAAT
1 --TTAATTTATTTAAAAAACAT-AACCCTAATTT-ATAAA-TCTAAAACCCTAAT
96457430 TTAATTTATTATAAA
1 TTAATTTATT-TAAA
96457445 CGCTAACTTA
Statistics
Matches: 252, Mismatches: 48, Indels: 83
0.66 0.13 0.22
Matches are distributed among these distances:
48 3 0.01
49 21 0.08
50 10 0.04
51 25 0.10
52 61 0.24
53 4 0.02
54 9 0.04
55 3 0.01
56 22 0.09
57 28 0.11
58 28 0.11
59 15 0.06
60 14 0.06
61 8 0.03
62 1 0.00
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (50 bp):
TTAATTTATTTAAAAAACATAACCCTAATTTATAAATCTAAAACCCTAAT
Found at i:96457118 original size:22 final size:22
Alignment explanation
Indices: 96457093--96457135 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
96457083 GATAAATCTA
*
96457093 AAACCCTAATTTAATTTATTTT
1 AAACCCTAACTTAATTTATTTT
96457115 AAACCCTAACTTAATTTATTT
1 AAACCCTAACTTAATTTATTT
96457136 AAAATCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (22 bp):
AAACCCTAACTTAATTTATTTT
Found at i:96457154 original size:108 final size:108
Alignment explanation
Indices: 96457006--96457500 Score: 611
Period size: 108 Copynumber: 4.6 Consensus size: 108
96456996 ATTTTAACCC
* * ** *
96457006 TAAACCCTAATTTAATTTATTTAAAATCCTAACATTCTAATGTACTTAATCTATTTAAAAAACAT
1 TAAACCCTAACTTAATTTATTTAAAATCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACAT
* * *
96457071 AAGCCCTAATTTGATAAATCTAAAACCCTAATTTAATTTATTT
66 AAACCCTAATTTAATAAACCTAAAACCCTAATTTAATTTATTT
* * * ** *
96457114 TAAACCCTAACTTAATTTATTTAAAATCTTAAAACCCTAATTTAATTAATTTTAACTAAAAAATA
1 TAAACCCTAACTTAATTTATTTAAAATCCTAAAACCCTAATTTACTTAA-TCTATTTAAAAAACA
* * *
96457179 TAAACCCTAATTTAATAAACCCAAAAACCTAAATTAATTTATTT
65 TAAACCCTAATTTAATAAACCTAAAACCCTAATTTAATTTATTT
** * *
96457223 TAAACTGTAACTTAATTTATTTAAAA-CCTTGAAACCCTAATTTAATTAAT-T-TTTAACCAAAA
1 TAAACCCTAACTTAATTTATTTAAAATCC-TAAAACCCTAATTTACTTAATCTATTT----AAAA
* * * *
96457285 AATATAAACCCTAATTTAATAAATCTGAAACACTAATTTAATTTATTT
61 AACATAAACCCTAATTTAATAAACCTAAAACCCTAATTTAATTTATTT
* *
96457333 TAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCCAATTTACTTAATCTATTTAAAAAACAT
1 TAAACCCTAACTTAATTTATTTAAAATCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACAT
*
96457398 AAACCCTAATTTAATAAACCCT-AAACCCTAATTTAATTTATTA
66 AAACCCTAATTTAATAAA-CCTAAAACCCTAATTTAATTTATTT
* * * *
96457441 TAAACGCTAACTTAATTTATTTAAAATCCTAGAACCATAATTTACTTAATTTATTTAAAA
1 TAAACCCTAACTTAATTTATTTAAAATCCTAAAACCCTAATTTACTTAATCTATTTAAAA
96457501 TCCTAGAACC
Statistics
Matches: 333, Mismatches: 44, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
106 1 0.00
107 1 0.00
108 143 0.43
109 94 0.28
110 88 0.26
111 3 0.01
112 3 0.01
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (108 bp):
TAAACCCTAACTTAATTTATTTAAAATCCTAAAACCCTAATTTACTTAATCTATTTAAAAAACAT
AAACCCTAATTTAATAAACCTAAAACCCTAATTTAATTTATTT
Found at i:96457330 original size:219 final size:218
Alignment explanation
Indices: 96457062--96457492 Score: 641
Period size: 219 Copynumber: 2.0 Consensus size: 218
96457052 TAATCTATTT
* * *
96457062 AAAAAACATAAGCCCTAATTTGATAAATCTAAAACCCTAATTTAATTTATTTTAAACCCTAACTT
1 AAAAAACATAAACCCTAATTTAATAAATCTAAAACACTAATTTAATTTATTTTAAACCCTAACTT
* * * * *
96457127 AATTTATTTAAAATCTTAAAACCCTAATTTAATTAATTTTAACTAAAAAATATAAACCCTAATTT
66 AATTTATTTAAAACCCTAAAACCCCAATTTAATTAA-TCTAACTAAAAAACATAAACCCTAATTT
* *
96457192 AATAAACCCAAAAACCTAAATTAATTTATTTTAAACTG-TAACTTAATTTATTTAAAA-CCTTGA
130 AATAAACCCAAAAACCTAAATTAATTTATTATAAAC-GCTAACTTAATTTATTTAAAATCCTAG-
*
96457255 AACCCTAATTTAATTAATTTTTAACC
193 AACCATAATTTAATTAATTTTTAACC
* *
96457281 AAAAAATATAAACCCTAATTTAATAAATCTGAAACACTAATTTAATTTATTTTAAACCCTAACTT
1 AAAAAACATAAACCCTAATTTAATAAATCTAAAACACTAATTTAATTTATTTTAAACCCTAACTT
* **
96457346 AATTTATTTAAAACCCTAAAACCCCAATTTACTTAATCTATTTAAAAAACATAAACCCTAATTTA
66 AATTTATTTAAAACCCTAAAACCCCAATTTAATTAATCTAACTAAAAAACATAAACCCTAATTTA
* * *
96457411 ATAAACCCTAAACCCTAATTTAATTTATTATAAACGCTAACTTAATTTATTTAAAATCCTAGAAC
131 ATAAACCCAAAAACCTAAATTAATTTATTATAAACGCTAACTTAATTTATTTAAAATCCTAGAAC
*
96457476 CATAATTTACTTAATTT
196 CATAATTTAATTAATTT
96457493 ATTTAAAATC
Statistics
Matches: 190, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
217 1 0.01
218 93 0.49
219 96 0.51
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (218 bp):
AAAAAACATAAACCCTAATTTAATAAATCTAAAACACTAATTTAATTTATTTTAAACCCTAACTT
AATTTATTTAAAACCCTAAAACCCCAATTTAATTAATCTAACTAAAAAACATAAACCCTAATTTA
ATAAACCCAAAAACCTAAATTAATTTATTATAAACGCTAACTTAATTTATTTAAAATCCTAGAAC
CATAATTTAATTAATTTTTAACC
Found at i:96457337 original size:22 final size:22
Alignment explanation
Indices: 96457289--96457364 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
96457279 CCAAAAAATA
** *
96457289 TAAACCCTAATTTAATAAATCT
1 TAAACCCTAATTTAATTTATTT
* *
96457311 GAAACACTAATTTAATTTATTT
1 TAAACCCTAATTTAATTTATTT
*
96457333 TAAACCCTAACTTAATTTATTT
1 TAAACCCTAATTTAATTTATTT
*
96457355 AAAACCCTAA
1 TAAACCCTAA
96457365 AACCCCAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.43, C:0.17, G:0.01, T:0.38
Consensus pattern (22 bp):
TAAACCCTAATTTAATTTATTT
Found at i:96457402 original size:34 final size:34
Alignment explanation
Indices: 96457342--96457410 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
96457332 TTAAACCCTA
* * *
96457342 ACTTAATTTATTTAAAACCCTAAAACCCCAATTT
1 ACTTAATCTATTTAAAAACATAAAACCCCAATTT
*
96457376 ACTTAATCTATTTAAAAAACAT-AAACCCTAATTT
1 ACTTAATCTATTT-AAAAACATAAAACCCCAATTT
96457410 A
1 A
96457411 ATAAACCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 24 0.80
35 6 0.20
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (34 bp):
ACTTAATCTATTTAAAAACATAAAACCCCAATTT
Found at i:96457411 original size:21 final size:22
Alignment explanation
Indices: 96457385--96457434 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
96457375 TACTTAATCT
96457385 ATTTAA-AAAACATAAACCCTA
1 ATTTAATAAAACATAAACCCTA
* *
96457406 ATTTAATAAACCCTAAACCCTA
1 ATTTAATAAAACATAAACCCTA
96457428 ATTTAAT
1 ATTTAAT
96457435 TTATTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (22 bp):
ATTTAATAAAACATAAACCCTA
Found at i:96457444 original size:22 final size:22
Alignment explanation
Indices: 96457396--96457465 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
96457386 TTTAAAAAAC
** **
96457396 ATAAACCCTAATTTAATAAACC
1 ATAAACCCTAATTTAATTTATT
*
96457418 CTAAACCCTAATTTAATTTATT
1 ATAAACCCTAATTTAATTTATT
* *
96457440 ATAAACGCTAACTTAATTTATT
1 ATAAACCCTAATTTAATTTATT
96457462 -TAAA
1 ATAAA
96457466 ATCCTAGAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.37
Consensus pattern (22 bp):
ATAAACCCTAATTTAATTTATT
Found at i:96457489 original size:34 final size:34
Alignment explanation
Indices: 96457450--96457533 Score: 159
Period size: 34 Copynumber: 2.5 Consensus size: 34
96457440 ATAAACGCTA
96457450 ACTTAATTTATTTAAAATCCTAGAACCATAATTT
1 ACTTAATTTATTTAAAATCCTAGAACCATAATTT
96457484 ACTTAATTTATTTAAAATCCTAGAACCATAATTT
1 ACTTAATTTATTTAAAATCCTAGAACCATAATTT
*
96457518 ACTTAATCTATTTAAA
1 ACTTAATTTATTTAAA
96457534 TTCAAAACCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (34 bp):
ACTTAATTTATTTAAAATCCTAGAACCATAATTT
Found at i:96457728 original size:34 final size:36
Alignment explanation
Indices: 96457652--96457735 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 36
96457642 TTTTAAAAAC
*
96457652 TACTAAAACCCTAACTTGTTTTAACAAAAACATAAA
1 TACTAAAACCCTAACTTATTTTAACAAAAACATAAA
* * *
96457688 TACT-AAACCCTAACTTATTTTATCAAAACCCTAAA
1 TACTAAAACCCTAACTTATTTTAACAAAAACATAAA
96457723 T-CTAAAACCCTAA
1 TACTAAAACCCTAA
96457736 AAAACCATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 2 0.05
35 37 0.86
36 4 0.09
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (36 bp):
TACTAAAACCCTAACTTATTTTAACAAAAACATAAA
Found at i:96458261 original size:18 final size:20
Alignment explanation
Indices: 96458231--96458271 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
96458221 TATTATTAAA
96458231 TAAAATATTAAAAATATT-T
1 TAAAATATTAAAAATATTAT
*
96458250 TAAAAT-TTAAAATTATTAT
1 TAAAATATTAAAAATATTAT
96458269 TAA
1 TAA
96458272 TGTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAATATTAAAAATATTAT
Found at i:96458465 original size:79 final size:80
Alignment explanation
Indices: 96458376--96458529 Score: 197
Period size: 80 Copynumber: 1.9 Consensus size: 80
96458366 AAATGTAAAT
* *
96458376 ATGTATGTTTAATAATA-TAAGCA-TATGAGAAAATATTTGATGCACTATT-GGAGGAGGTTTTA
1 ATGTATGTTTAATAATATTAA-AATTATGAGAAAATATTTGATGCACTATTAGGA-AAGGTTTTA
96458438 GACTCCACAAGTTAATC
64 GACTCCACAAGTTAATC
* * * * * *
96458455 ATGTATGTTTAATGATATTAAAATTATGAGAAAATATTTGGTGTACTGTTAGTAAAGGTTTTATA
1 ATGTATGTTTAATAATATTAAAATTATGAGAAAATATTTGATGCACTATTAGGAAAGGTTTTAGA
96458520 CTCCACAAGT
66 CTCCACAAGT
96458530 AAACAAGTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
79 17 0.27
80 45 0.70
81 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.37
Consensus pattern (80 bp):
ATGTATGTTTAATAATATTAAAATTATGAGAAAATATTTGATGCACTATTAGGAAAGGTTTTAGA
CTCCACAAGTTAATC
Found at i:96460060 original size:12 final size:12
Alignment explanation
Indices: 96460043--96460074 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
96460033 CGGCCCGCCC
96460043 ATATTAATTTTT
1 ATATTAATTTTT
96460055 ATATT-ATTTTT
1 ATATTAATTTTT
96460066 ATA-TAATTT
1 ATATTAATTT
96460075 AATATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:96460234 original size:30 final size:30
Alignment explanation
Indices: 96460200--96460262 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
96460190 ACTTAACAAT
96460200 CAAATATCTCTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
* *
96460230 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
96460260 CAA
1 CAA
96460263 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:96460339 original size:22 final size:22
Alignment explanation
Indices: 96460291--96460339 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
96460281 ATATCCAAAC
*
96460291 AATAATAACAAAATAGTAGTAA
1 AATAATAACAAAATAGTAGCAA
* ** *
96460313 TATAATAGTAAAATGGTAGCAA
1 AATAATAACAAAATAGTAGCAA
96460335 AATAA
1 AATAA
96460340 GGAGAAAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (22 bp):
AATAATAACAAAATAGTAGCAA
Found at i:96461323 original size:25 final size:24
Alignment explanation
Indices: 96461256--96461323 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
96461246 AAATGCATTT
* *
96461256 AAAATAATAACAA-AATTAACAAT
1 AAAATAATAACAATAAATAACAAC
* ***
96461279 AAAATAAGAGTTATACAATAACAAC
1 AAAATAATAACAATA-AATAACAAC
96461304 AAAATAATAACAATATAATA
1 AAAATAATAACAATA-AATA
96461324 GTGAAACTGT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
23 9 0.28
24 1 0.03
25 22 0.69
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.22
Consensus pattern (24 bp):
AAAATAATAACAATAAATAACAAC
Found at i:96461389 original size:21 final size:21
Alignment explanation
Indices: 96461345--96461405 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
96461335 AAGTAATGAA
* * *
96461345 AAAACAACAAAAAA-AGCAAT
1 AAAACAATAAAAAAGAACAAG
* *
96461365 AAAATAATAAAAAATAACAAG
1 AAAACAATAAAAAAGAACAAG
*
96461386 AAAACAGTAAAAAAGAACAA
1 AAAACAATAAAAAAGAACAA
96461406 CAATTTCTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.75, C:0.10, G:0.07, T:0.08
Consensus pattern (21 bp):
AAAACAATAAAAAAGAACAAG
Found at i:96475581 original size:24 final size:24
Alignment explanation
Indices: 96475544--96475589 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
96475534 GTTCACGAAC
*
96475544 AAGCTCATTCATTGGCTCATTTCT
1 AAGCTCATTCATTGACTCATTTCT
* *
96475568 AAGCTCTTTTATTGACTCATTT
1 AAGCTCATTCATTGACTCATTT
96475590 ATTTATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (24 bp):
AAGCTCATTCATTGACTCATTTCT
Found at i:96484763 original size:18 final size:19
Alignment explanation
Indices: 96484736--96484774 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
96484726 AACGAGTGAG
*
96484736 TTAATATTTA-ATGCTTAT
1 TTAATATTTATATGATTAT
*
96484754 TTAATGTTTATATGATTAT
1 TTAATATTTATATGATTAT
96484773 TT
1 TT
96484775 TAAGATCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (19 bp):
TTAATATTTATATGATTAT
Found at i:96485976 original size:40 final size:39
Alignment explanation
Indices: 96485953--96486043 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 39
96485943 TTCGAATTCT
*
96485953 TGAAAAGGTTGAAAAGGATATATCTGAAACAAATATCTAA
1 TGAAAAGGTTGAAAAGGATATATCGGAAACAAATATCT-A
* ***
96485993 TGAAAAGGTTGAAAAGGATATATCCGAAATGGATATCTA
1 TGAAAAGGTTGAAAAGGATATATCGGAAACAAATATCTA
96486032 TCGAAAAGGTTG
1 T-GAAAAGGTTG
96486044 TTACCCTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.04
40 44 0.96
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (39 bp):
TGAAAAGGTTGAAAAGGATATATCGGAAACAAATATCTA
Found at i:96487211 original size:14 final size:15
Alignment explanation
Indices: 96487194--96487230 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
96487184 TATAATTAAA
96487194 ATATAATAATAAT-G
1 ATATAATAATAATAG
96487208 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
96487222 TTATAATAA
1 ATATAATAA
96487231 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:96494500 original size:14 final size:15
Alignment explanation
Indices: 96494483--96494519 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
96494473 TATAATTAAA
96494483 ATATAATAATAAT-G
1 ATATAATAATAATAG
96494497 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
96494511 TTATAATAA
1 ATATAATAA
96494520 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:96498475 original size:25 final size:25
Alignment explanation
Indices: 96498446--96498497 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
96498436 AAGGTTAATT
**
96498446 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
96498471 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
96498496 TG
1 TG
96498498 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:96502163 original size:99 final size:99
Alignment explanation
Indices: 96501959--96502161 Score: 399
Period size: 99 Copynumber: 2.1 Consensus size: 99
96501949 TTTAAAGGTT
96501959 GATTTTATCCATTAATTATCTTCAGTATTTATCTCATAATAGCCTTCATAAACAAGTTCCCCAAC
1 GATTTTATCCATTAATTATCTTCAGTATTTATCTCATAATAGCCTTCATAAACAAGTTCCCCAAC
96502024 AACTTGAAATACCCCTTAAATAAATCTAACATAG
66 AACTTGAAATACCCCTTAAATAAATCTAACATAG
96502058 GATTTTATCCATTAATTATCTTCAGTATTTATCTCATAATAGCCTTCATAAACAAGTTCCCCAAC
1 GATTTTATCCATTAATTATCTTCAGTATTTATCTCATAATAGCCTTCATAAACAAGTTCCCCAAC
96502123 AACTTGAAATACCCCTTAAATAAATCTAACATA-
66 AACTTGAAATACCCCTTAAATAAATCTAACATAG
96502156 GATTTT
1 GATTTT
96502162 TAAAAAATAG
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 6 0.06
99 98 0.94
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (99 bp):
GATTTTATCCATTAATTATCTTCAGTATTTATCTCATAATAGCCTTCATAAACAAGTTCCCCAAC
AACTTGAAATACCCCTTAAATAAATCTAACATAG
Found at i:96502196 original size:49 final size:49
Alignment explanation
Indices: 96502124--96502225 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
96502114 TTCCCCAACA
96502124 ACTTGAAATACCCCTTAAATAAATCTAACATAGATTTTTAAAAAATAGC
1 ACTTGAAATACCCCTTAAATAAATCTAACATAGATTTTTAAAAAATAGC
96502173 ACTTGAAATACCCCTTAAATAAATCTAACATAGATTTTTAAAAAATAGC
1 ACTTGAAATACCCCTTAAATAAATCTAACATAGATTTTTAAAAAATAGC
96502222 ACTT
1 ACTT
96502226 CAATCATAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (49 bp):
ACTTGAAATACCCCTTAAATAAATCTAACATAGATTTTTAAAAAATAGC
Found at i:96502234 original size:29 final size:29
Alignment explanation
Indices: 96502201--96502260 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
96502191 ATAAATCTAA
96502201 CATAGATTTTTAAAAAATAGCACTTCAAT
1 CATAGATTTTTAAAAAATAGCACTTCAAT
96502230 CATAGATTTTTAAAAAATAGCACTTCAAT
1 CATAGATTTTTAAAAAATAGCACTTCAAT
96502259 CA
1 CA
96502261 CTAAGAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (29 bp):
CATAGATTTTTAAAAAATAGCACTTCAAT
Found at i:96502515 original size:21 final size:20
Alignment explanation
Indices: 96502491--96502534 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
96502481 ATTTGTAAAA
96502491 ATAAAAAT-AAAATTTTAATAT
1 ATAAAAATCAAAA--TTAATAT
96502512 AT-AAAATCAAAATTAATAT
1 ATAAAAATCAAAATTAATAT
96502531 ATAA
1 ATAA
96502535 TATTACAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.43
20 6 0.29
21 6 0.29
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAAAAATCAAAATTAATAT
Found at i:96506401 original size:53 final size:53
Alignment explanation
Indices: 96506321--96506429 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
96506311 AAGGATGATA
96506321 TAAAAAAATCACCACCAATCAGATTTCCCTTCTAGAAATATACATTTCTACTT
1 TAAAAAAATCACCACCAATCAGATTTCCCTTCTAGAAATATACATTTCTACTT
96506374 TAAAAAAATCACCACCAATCAGATTTCCCTTCTAGAAATATACATTTCTACTT
1 TAAAAAAATCACCACCAATCAGATTTCCCTTCTAGAAATATACATTTCTACTT
96506427 TAA
1 TAA
96506430 TTTATACTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (53 bp):
TAAAAAAATCACCACCAATCAGATTTCCCTTCTAGAAATATACATTTCTACTT
Found at i:96507806 original size:17 final size:18
Alignment explanation
Indices: 96507784--96507856 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 18
96507774 TTTCTTTTAC
96507784 TACTATTTATTA-TATTT
1 TACTATTTATTATTATTT
*
96507801 TACTATTATAGTTATTTTTT
1 TACTATT-TA-TTATTATTT
* *
96507821 CTACTACTTTGTTATTATTG
1 -TACTA-TTTATTATTATTT
96507841 TACTA-TTATTATTATT
1 TACTATTTATTATTATT
96507857 GCCATTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
17 17 0.37
18 2 0.04
19 8 0.17
20 11 0.24
21 6 0.13
22 2 0.04
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (18 bp):
TACTATTTATTATTATTT
Found at i:96507855 original size:20 final size:20
Alignment explanation
Indices: 96507767--96507856 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
96507757 TTAGATAATT
*
96507767 TTATTATT-TTCTTTTACTA
1 TTATTATTATTATTTTACTA
*
96507786 CTATTTATTA-TATTTTACTA
1 TTA-TTATTATTATTTTACTA
*
96507806 TTA-TAGTTATTTTTTCTACTA
1 TTATTA-TTATTATTT-TACTA
* * *
96507827 CT-TTGTTATTATTGTACTA
1 TTATTATTATTATTTTACTA
96507846 TTATTATTATT
1 TTATTATTATT
96507857 GCCATTAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
18 2 0.04
19 11 0.20
20 34 0.63
21 7 0.13
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.63
Consensus pattern (20 bp):
TTATTATTATTATTTTACTA
Found at i:96507856 original size:40 final size:40
Alignment explanation
Indices: 96507767--96507856 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
96507757 TTAGATAATT
*
96507767 TTATTATT-TTCTTTTACTACTATTTATTATATTTTACTA
1 TTATTATTATTCTTTTACTACTATTTATTATATTGTACTA
*
96507806 TTA-TAGTTATT-TTTT-CTACTACTTTGTTATTATTGTACTA
1 TTATTA-TTATTCTTTTACTACTA-TTTATTA-TATTGTACTA
96507846 TTATTATTATT
1 TTATTATTATT
96507857 GCCATTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
38 8 0.18
39 15 0.34
40 19 0.43
41 2 0.05
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.63
Consensus pattern (40 bp):
TTATTATTATTCTTTTACTACTATTTATTATATTGTACTA
Found at i:96507918 original size:3 final size:3
Alignment explanation
Indices: 96507912--96507971 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
96507902 ATTATTTTCG
* * * *
96507912 TAT TAT TAT CAT TAT TAC TAT TAT TA- TATT TAC TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
96507957 TAT TAT TAT ATAT TA
1 TAT TAT TAT -TAT TA
96507972 GTGTATATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:96508107 original size:23 final size:23
Alignment explanation
Indices: 96508081--96508145 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
96508071 TTATTATTAT
*
96508081 TATTATTATTATATAGTAGTGTG
1 TATTATTATTATATAGTAGTGTA
* *
96508104 TATTTTTATTACATACGTA-TGTA
1 TATTATTATTATATA-GTAGTGTA
96508127 TA-TATT-TATATATAGTAGT
1 TATTATTAT-TATATAGTAGT
96508146 ATTATTTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 4 0.12
22 9 0.26
23 18 0.53
24 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.52
Consensus pattern (23 bp):
TATTATTATTATATAGTAGTGTA
Found at i:96508259 original size:16 final size:16
Alignment explanation
Indices: 96508240--96508301 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
96508230 TTCATCTTCT
96508240 TATTACTCATCTATTA
1 TATTACTCATCTATTA
* *
96508256 TATTTCTTATCTATTTA
1 TATTACTCATCTA-TTA
*
96508273 TATT-TTCAT-TATTA
1 TATTACTCATCTATTA
*
96508287 TACTA--CATCTATTA
1 TATTACTCATCTATTA
96508301 T
1 T
96508302 TTATTGGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
13 3 0.08
14 12 0.32
15 2 0.05
16 14 0.37
17 7 0.18
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTACTCATCTATTA
Found at i:96508465 original size:13 final size:12
Alignment explanation
Indices: 96508442--96508518 Score: 64
Period size: 13 Copynumber: 6.0 Consensus size: 12
96508432 AATAACTACA
*
96508442 TTATGTATATAT
1 TTATATATATAT
96508454 TTCATATATATAAT
1 TT-ATATATAT-AT
96508468 TTATATATATAT
1 TTATATATATAT
*
96508480 TTTTAATATTATAT
1 TTAT-ATA-TATAT
* *
96508494 TTTTATGTATAT
1 TTATATATATAT
*
96508506 ATTATGTATATAT
1 -TTATATATATAT
96508519 CTTTAATATT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 12 0.22
13 29 0.54
14 13 0.24
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (12 bp):
TTATATATATAT
Found at i:96508516 original size:28 final size:27
Alignment explanation
Indices: 96508442--96508508 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
96508432 AATAACTACA
*
96508442 TTATGTATATATTTCATA-TATATAAT
1 TTATGTATATATTTTATATTATATAAT
* *
96508468 TTATATATATATTTTTAATATTATAT-TT
1 TTATGTATATA-TTTT-ATATTATATAAT
96508496 TTATGTATATATT
1 TTATGTATATATT
96508509 ATGTATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 10 0.29
27 5 0.15
28 14 0.41
29 5 0.15
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (27 bp):
TTATGTATATATTTTATATTATATAAT
Found at i:96508531 original size:23 final size:22
Alignment explanation
Indices: 96508505--96508548 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
96508495 TTTATGTATA
*
96508505 TATTATGTATATATCTTTAATAT
1 TATTACGTATATAT-TTTAATAT
96508528 TATTACGTATATATTTTAATA
1 TATTACGTATATATTTTAATA
96508549 CCATACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTACGTATATATTTTAATAT
Found at i:96513357 original size:39 final size:38
Alignment explanation
Indices: 96513299--96513378 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 38
96513289 TGGCAGACAT
96513299 AGCCACAGATAGAATCACTTTACAGAATATTGAGAAAA
1 AGCCACAGATAGAATCACTTTACAGAATATTGAGAAAA
96513337 AGCCTACAGATAGAATCACTTTACAGAATATTGAGAAAA
1 AGCC-ACAGATAGAATCACTTTACAGAATATTGAGAAAA
96513376 AGC
1 AGC
96513379 ATAATGAGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 4 0.10
39 37 0.90
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.21
Consensus pattern (38 bp):
AGCCACAGATAGAATCACTTTACAGAATATTGAGAAAA
Found at i:96520875 original size:43 final size:42
Alignment explanation
Indices: 96520825--96520924 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 42
96520815 AGCTTTAACC
*
96520825 CCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACCTTAAAT
1 CCCTAAGCAGTAGGGTAACAAGCCAAATGTACAGACC-TAAAT
* *** *
96520868 CCCTAAGCAGTAGGGTAACAGGTTGAATGTACAGATCTAAAT
1 CCCTAAGCAGTAGGGTAACAAGCCAAATGTACAGACCTAAAT
96520910 CGCCTAAGCAGTAGG
1 C-CCTAAGCAGTAGG
96520925 AAAACAGATC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 6 0.12
43 44 0.88
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAAGCCAAATGTACAGACCTAAAT
Found at i:96522647 original size:17 final size:18
Alignment explanation
Indices: 96522625--96522697 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 18
96522615 TTTCTTTTAC
96522625 TACTATTTATTA-TATTT
1 TACTATTTATTATTATTT
*
96522642 TACTATTATAGTTATTTTTT
1 TACTATT-TA-TTATTATTT
* *
96522662 CTACTACTTTGTTATTATTG
1 -TACTA-TTTATTATTATTT
96522682 TACTA-TTATTATTATT
1 TACTATTTATTATTATT
96522698 GCCAGTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
17 17 0.37
18 2 0.04
19 8 0.17
20 11 0.24
21 6 0.13
22 2 0.04
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (18 bp):
TACTATTTATTATTATTT
Found at i:96522696 original size:20 final size:20
Alignment explanation
Indices: 96522608--96522697 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
96522598 TTAGATAATT
*
96522608 TTATTATT-TTCTTTTACTA
1 TTATTATTATTATTTTACTA
*
96522627 CTATTTATTA-TATTTTACTA
1 TTA-TTATTATTATTTTACTA
*
96522647 TTA-TAGTTATTTTTTCTACTA
1 TTATTA-TTATTATTT-TACTA
* * *
96522668 CT-TTGTTATTATTGTACTA
1 TTATTATTATTATTTTACTA
96522687 TTATTATTATT
1 TTATTATTATT
96522698 GCCAGTAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
18 2 0.04
19 11 0.20
20 34 0.63
21 7 0.13
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.63
Consensus pattern (20 bp):
TTATTATTATTATTTTACTA
Found at i:96522697 original size:40 final size:40
Alignment explanation
Indices: 96522608--96522697 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
96522598 TTAGATAATT
*
96522608 TTATTATT-TTCTTTTACTACTATTTATTATATTTTACTA
1 TTATTATTATTCTTTTACTACTATTTATTATATTGTACTA
*
96522647 TTA-TAGTTATT-TTTT-CTACTACTTTGTTATTATTGTACTA
1 TTATTA-TTATTCTTTTACTACTA-TTTATTA-TATTGTACTA
96522687 TTATTATTATT
1 TTATTATTATT
96522698 GCCAGTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
38 8 0.18
39 15 0.34
40 19 0.43
41 2 0.05
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.63
Consensus pattern (40 bp):
TTATTATTATTCTTTTACTACTATTTATTATATTGTACTA
Found at i:96522792 original size:15 final size:15
Alignment explanation
Indices: 96522765--96522798 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
96522755 TTATTATCAT
96522765 TATTTCTATTATTA-
1 TATTTCTATTATTAC
96522779 TATTTACTATTATTAC
1 TATTT-CTATTATTAC
96522795 TATT
1 TATT
96522799 ATTATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 9 0.50
16 4 0.22
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTCTATTATTAC
Found at i:96522913 original size:3 final size:3
Alignment explanation
Indices: 96522899--96522932 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
96522889 TACCTTTTGC
96522899 ATT ATAT ATT ATT ATT ATT ATAT ATT ATT ATT AT
1 ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT AT
96522933 ATAGTAGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:96522920 original size:16 final size:16
Alignment explanation
Indices: 96522899--96522932 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
96522889 TACCTTTTGC
96522899 ATTATATATTATTATT
1 ATTATATATTATTATT
96522915 ATTATATATTATTATT
1 ATTATATATTATTATT
96522931 AT
1 AT
96522933 ATAGTAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATATATTATTATT
Found at i:96522924 original size:13 final size:13
Alignment explanation
Indices: 96522899--96522935 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
96522889 TACCTTTTGC
96522899 ATTA-TATATTATT
1 ATTATTATA-TATT
96522912 ATTATTATATATT
1 ATTATTATATATT
96522925 ATTATTATATA
1 ATTATTATATA
96522936 GTAGTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTATTATATATT
Found at i:96522951 original size:22 final size:21
Alignment explanation
Indices: 96522919--96522991 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 21
96522909 ATTATTATTA
96522919 TATATTATTATTATATAGTAGTG
1 TATATT-TTATTATATAGTA-TG
*
96522942 TATATTTTATTACATACGTATG
1 TATATTTTATTATATA-GTATG
*
96522964 TATATATTTA-GATATAGTAT-
1 TATAT-TTTATTATATAGTATG
96522984 TATTATTT
1 TA-TATTT
96522992 ACTTCACTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.09
21 7 0.16
22 20 0.45
23 13 0.30
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (21 bp):
TATATTTTATTATATAGTATG
Found at i:96523293 original size:31 final size:31
Alignment explanation
Indices: 96523235--96523295 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
96523225 ACGTGTTGTG
* *
96523235 TATATTCTTAATACTATATTGTATATATATA
1 TATATTCTTAATACTACATTATATATATATA
*
96523266 TATATT-TTAATAACTACATTATGTATATAT
1 TATATTCTTAAT-ACTACATTATATATATAT
96523296 TTCATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (31 bp):
TATATTCTTAATACTACATTATATATATATA
Found at i:96523321 original size:13 final size:13
Alignment explanation
Indices: 96523284--96523321 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
96523274 AATAACTACA
*
96523284 TTATGTATAT-AT
1 TTATATATATAAT
96523296 TTCATATATATAAT
1 TT-ATATATATAAT
96523310 TTATATATATAA
1 TTATATATATAA
96523322 ATATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 2 0.09
13 17 0.74
14 4 0.17
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (13 bp):
TTATATATATAAT
Found at i:96523369 original size:15 final size:14
Alignment explanation
Indices: 96523322--96523357 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
96523312 ATATATATAA
*
96523322 ATATATTTAATATT
1 ATATTTTTAATATT
96523336 ATATTTTTAATATT
1 ATATTTTTAATATT
96523350 ATATTTTT
1 ATATTTTT
96523358 TATGTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATATTTTTAATATT
Found at i:96523388 original size:20 final size:19
Alignment explanation
Indices: 96523365--96523406 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
96523355 TTTTATGTAT
*
96523365 ATATTATGTATATATCTTTA
1 ATATTACGTATATAT-TTTA
96523385 ATATTACGTATATATTTTA
1 ATATTACGTATATATTTTA
96523404 ATA
1 ATA
96523407 CCATACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (19 bp):
ATATTACGTATATATTTTA
Found at i:96523496 original size:14 final size:15
Alignment explanation
Indices: 96523477--96523506 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
96523467 TTCGTTATCA
96523477 TTTGCCAT-TTTTAT
1 TTTGCCATGTTTTAT
96523491 TTTGCCATGTTTTAT
1 TTTGCCATGTTTTAT
96523506 T
1 T
96523507 CACTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.63
Consensus pattern (15 bp):
TTTGCCATGTTTTAT
Found at i:96525277 original size:14 final size:14
Alignment explanation
Indices: 96525258--96525324 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
96525248 AGCTACTTAG
96525258 TTTATTAACACTTT
1 TTTATTAACACTTT
* *
96525272 TTTATTGACAATTTT
1 TTTATTAAC-ACTTT
96525287 ATATTATTAACACTTT
1 -T-TTATTAACACTTT
* *
96525303 TTTATTGACAATTT
1 TTTATTAACACTTT
*
96525317 TATATTAA
1 TTTATTAA
96525325 ATAAAGAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 25 0.60
15 5 0.12
16 5 0.12
17 7 0.17
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTATTAACACTTT
Found at i:96525294 original size:31 final size:31
Alignment explanation
Indices: 96525259--96525323 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
96525249 GCTACTTAGT
96525259 TTATTAACACTTTTTTATTGACAATTTTATA
1 TTATTAACACTTTTTTATTGACAATTTTATA
96525290 TTATTAACACTTTTTTATTGACAATTTTATA
1 TTATTAACACTTTTTTATTGACAATTTTATA
96525321 TTA
1 TTA
96525324 AATAAAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.55
Consensus pattern (31 bp):
TTATTAACACTTTTTTATTGACAATTTTATA
Found at i:96525308 original size:17 final size:17
Alignment explanation
Indices: 96525259--96525308 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
96525249 GCTACTTAGT
96525259 TTATTAACAC--TTTT-
1 TTATTAACACTTTTTTA
* * *
96525273 TTATTGACAATTTTATA
1 TTATTAACACTTTTTTA
96525290 TTATTAACACTTTTTTA
1 TTATTAACACTTTTTTA
96525307 TT
1 TT
96525309 GACAATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 8 0.30
16 3 0.11
17 16 0.59
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.58
Consensus pattern (17 bp):
TTATTAACACTTTTTTA
Found at i:96530729 original size:44 final size:41
Alignment explanation
Indices: 96530623--96530743 Score: 125
Period size: 44 Copynumber: 2.9 Consensus size: 41
96530613 GTAATTCAGT
* * * *
96530623 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATTAG
1 ATCGATGCCTATGTCCCAGACACGGTTTTACACGAAATTAA
* * * *
96530664 ATACGATGCCGATGTCTCAGACATGGTTTTACACGTAATTCTCAA
1 AT-CGATGCCTATGTCCCAGACACGGTTTTACACG-AAAT-T-AA
*
96530709 ATCGAGGCCTATGTCCCAGACACGGTTTTACACGA
1 ATCGATGCCTATGTCCCAGACACGGTTTTACACGA
96530744 TATCTCAGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 4 0.06
44 29 0.45
45 3 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
ATCGATGCCTATGTCCCAGACACGGTTTTACACGAAATTAA
Found at i:96534282 original size:21 final size:21
Alignment explanation
Indices: 96534250--96534290 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
96534240 AGGCTCGAGG
96534250 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
96534271 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
96534291 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:96546820 original size:16 final size:16
Alignment explanation
Indices: 96546799--96546832 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
96546789 ATGGTCTGAA
96546799 AAGGATAGGATTAAAC
1 AAGGATAGGATTAAAC
96546815 AAGGATAGGATTAAAC
1 AAGGATAGGATTAAAC
96546831 AA
1 AA
96546833 AAATACCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (16 bp):
AAGGATAGGATTAAAC
Found at i:96547167 original size:16 final size:16
Alignment explanation
Indices: 96547145--96547200 Score: 87
Period size: 16 Copynumber: 3.5 Consensus size: 16
96547135 CGTTTGGTTG
96547145 GCTGTAATGGAATAG-
1 GCTGTAATGGAATAGA
*
96547160 GACTGTAATTGAATAGA
1 G-CTGTAATGGAATAGA
96547177 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
96547193 GCTGTAAT
1 GCTGTAAT
96547201 AAGTAATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 1 0.03
16 35 0.95
17 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:96547235 original size:46 final size:44
Alignment explanation
Indices: 96547182--96547275 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
96547172 ATAGAGCTGT
*
96547182 AATGGAATAGAGCTGTAATAAGTAATTCAAT-TGTTTGGTTGAATAG
1 AATGGAATAGAACTGTAAT-AGT-ATTC-ATGTGTTTGGTTGAATAG
* *
96547228 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATAG
96547272 AATG
1 AATG
96547276 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 3 0.07
46 18 0.41
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATAG
Found at i:96547469 original size:17 final size:17
Alignment explanation
Indices: 96547447--96547479 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96547437 AATTATTATT
96547447 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
96547464 AAATATAATTTAATAA
1 AAATATAATTTAATAA
96547480 CATTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:96547490 original size:22 final size:21
Alignment explanation
Indices: 96547441--96547494 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 21
96547431 TAACATAATT
96547441 ATTATTAAATATAATTTAATAA
1 ATTATT-AATATAATTTAATAA
96547463 A--A--AATATAATTTAATAA
1 ATTATTAATATAATTTAATAA
96547480 CATTATTAATATAAT
1 -ATTATTAATATAAT
96547495 AATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
17 15 0.56
18 1 0.04
20 2 0.07
22 9 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTATTAATATAATTTAATAA
Found at i:96552323 original size:16 final size:17
Alignment explanation
Indices: 96552297--96552330 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
96552287 CAAATCTGCA
96552297 GAAACCCCATTTTTTTT
1 GAAACCCCATTTTTTTT
96552314 GAAA-CCCATTTTTTTT
1 GAAACCCCATTTTTTTT
96552330 G
1 G
96552331 TCGATTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.47
Consensus pattern (17 bp):
GAAACCCCATTTTTTTT
Found at i:96557585 original size:120 final size:120
Alignment explanation
Indices: 96557459--96558082 Score: 1160
Period size: 120 Copynumber: 5.2 Consensus size: 120
96557449 TTTTCAAGTT
96557459 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
96557524 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
96557579 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
96557644 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
96557699 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
96557764 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
96557819 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
96557884 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
96557940 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
96558005 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
96558060 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
96558083 TAAATATGAT
Statistics
Matches: 494, Mismatches: 7, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
119 2 0.00
120 375 0.76
121 115 0.23
122 2 0.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:96557818 original size:18 final size:17
Alignment explanation
Indices: 96557790--96557824 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96557780 ATTATTAAGA
*
96557790 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
96557807 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
96557825 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:96558059 original size:18 final size:17
Alignment explanation
Indices: 96558031--96558065 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96558021 ATTATTAAGA
*
96558031 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
96558048 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
96558066 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:96558279 original size:44 final size:45
Alignment explanation
Indices: 96558230--96558320 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
96558220 ACATCTATTC
* * *
96558230 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
96558274 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
96558319 CA
1 CA
96558321 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:96558322 original size:16 final size:16
Alignment explanation
Indices: 96558301--96558369 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
96558291 GATTAGCTAT
96558301 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
96558317 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
96558334 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
96558350 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
96558366 TACA
1 TACA
96558370 GTGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:96558343 original size:33 final size:32
Alignment explanation
Indices: 96558301--96558369 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
96558291 GATTAGCTAT
96558301 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
96558334 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
96558366 TACA
1 TACA
96558370 GTGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:96562673 original size:41 final size:41
Alignment explanation
Indices: 96562622--96562901 Score: 390
Period size: 41 Copynumber: 6.8 Consensus size: 41
96562612 GAATGTAATA
*
96562622 CAGACGTTAAGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
96562663 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
96562704 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
96562745 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
96562786 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
96562827 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
96562868 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
96562902 ATCTGTTTAA
Statistics
Matches: 223, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 3 0.01
40 8 0.04
41 210 0.94
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:96570337 original size:41 final size:41
Alignment explanation
Indices: 96570286--96570565 Score: 390
Period size: 41 Copynumber: 6.8 Consensus size: 41
96570276 GAATGTAATA
*
96570286 CAGACGTTAAGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
96570327 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
96570368 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
96570409 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
96570450 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
96570491 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
96570532 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
96570566 ATCTGTTTAA
Statistics
Matches: 223, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 3 0.01
40 8 0.04
41 210 0.94
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:96578440 original size:17 final size:18
Alignment explanation
Indices: 96578407--96578440 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
96578397 TATGATTTGA
*
96578407 TAAATGATAATATAATTT
1 TAAATGATAATAAAATTT
96578425 TAAATGA-AATAAAATT
1 TAAATGATAATAAAATT
96578441 AAATAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAATGATAATAAAATTT
Found at i:96579187 original size:19 final size:20
Alignment explanation
Indices: 96579150--96579190 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
96579140 GATTAGTGTA
**
96579150 AATTATAATAAAATCTAATT
1 AATTATAATAAAAAATAATT
96579170 AATTATAA-AAAAAATAATT
1 AATTATAATAAAAAATAATT
96579189 AA
1 AA
96579191 GAGAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTATAATAAAAAATAATT
Found at i:96600938 original size:80 final size:79
Alignment explanation
Indices: 96600805--96600956 Score: 250
Period size: 80 Copynumber: 1.9 Consensus size: 79
96600795 TGGCATGAAT
* * *
96600805 ATTGTTGTTAATATAGGAGAACGTGAATTCGAGTGCGTTGAAGCACATTATCCTTCTAATTATGG
1 ATTGTTGTCAATACAGGAGAACGTGAATTCGAGTGCATTGAAGCACATTATCCTTCTAATTATGG
96600870 GTTAGGGAGGAGAAC
66 GTT-GGGAGGAGAAC
* *
96600885 ATTGTTGTCAATACAGGAGAATGTGGATTCGAGTGCATTGAAGCACATTATCCTTCTAATTATGG
1 ATTGTTGTCAATACAGGAGAACGTGAATTCGAGTGCATTGAAGCACATTATCCTTCTAATTATGG
96600950 GTTGGGA
66 GTTGGGA
96600957 AAGAGCTATA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 4 0.06
80 63 0.94
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (79 bp):
ATTGTTGTCAATACAGGAGAACGTGAATTCGAGTGCATTGAAGCACATTATCCTTCTAATTATGG
GTTGGGAGGAGAAC
Found at i:96603084 original size:18 final size:17
Alignment explanation
Indices: 96603055--96603100 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
96603045 TTCGAACTTA
96603055 TAAAAAAT-TAAGAAGTT
1 TAAAAAATATAAGAA-TT
96603072 TAAAAAATATAAGAATT
1 TAAAAAATATAAGAATT
96603089 TCAAAAAA-ATAA
1 T-AAAAAATATAA
96603101 AAAATAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (17 bp):
TAAAAAATATAAGAATT
Found at i:96604428 original size:29 final size:26
Alignment explanation
Indices: 96604387--96604463 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 26
96604377 TTTGTAAGTT
*
96604387 TTTATAATATTTTGAATTTTTATTATAA
1 TTTATAAAATTTTGAA-TTTT-TTATAA
**
96604415 TTTAGTAAAATTTTTTATTTTTTATAA
1 TTTA-TAAAATTTTGAATTTTTTATAA
* * *
96604442 TTT-TTAAATTTTTAATATTTTA
1 TTTATAAAATTTTGAATTTTTTA
96604464 AAAGTTTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
25 16 0.38
27 9 0.21
28 8 0.19
29 9 0.21
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (26 bp):
TTTATAAAATTTTGAATTTTTTATAA
Found at i:96604452 original size:18 final size:18
Alignment explanation
Indices: 96604431--96604482 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
96604421 AAAATTTTTT
*
96604431 ATTTTTTATAATTTTTAA
1 ATTTTTAATAATTTTTAA
*
96604449 ATTTTTAAT-ATTTTAAA
1 ATTTTTAATAATTTTTAA
* *
96604466 AGTTTTTCATAGTTTTT
1 A-TTTTTAATAATTTTT
96604483 TAAAACTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 15 0.56
19 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
ATTTTTAATAATTTTTAA
Found at i:96605169 original size:6 final size:6
Alignment explanation
Indices: 96605158--96605191 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
96605148 AGCTGTGATG
* *
96605158 GTTTTA GTTTTA GTTTTA GTTTTA ATTTAA GTTT
1 GTTTTA GTTTTA GTTTTA GTTTTA GTTTTA GTTT
96605192 ACTAAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (6 bp):
GTTTTA
Found at i:96606820 original size:11 final size:12
Alignment explanation
Indices: 96606798--96606830 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
96606788 TTAGCAACAA
96606798 AAATTACAAAAT
1 AAATTACAAAAT
96606810 AAATT-CAAAAT
1 AAATTACAAAAT
96606821 AAATTTACAA
1 AAA-TTACAA
96606831 GATTCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 7 0.37
13 3 0.16
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATTACAAAAT
Found at i:96606910 original size:10 final size:10
Alignment explanation
Indices: 96606895--96606933 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
96606885 TTTTTAATTT
96606895 TTTAAAAAAA
1 TTTAAAAAAA
96606905 TTTAAAAAAA
1 TTTAAAAAAA
*
96606915 TTCAAAAAAA
1 TTTAAAAAAA
*
96606925 TATAAAAAA
1 TTTAAAAAA
96606934 GTTAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:96627182 original size:38 final size:38
Alignment explanation
Indices: 96627131--96627208 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
96627121 TAATTCCACC
96627131 ACAGAACCTTAACTAACATAATGGACTTCCTCCTCAGA
1 ACAGAACCTTAACTAACATAATGGACTTCCTCCTCAGA
96627169 ACAGAACCTTAACTAACATAATGGACTTCCTCCTCAGA
1 ACAGAACCTTAACTAACATAATGGACTTCCTCCTCAGA
96627207 AC
1 AC
96627209 CTTAATATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (38 bp):
ACAGAACCTTAACTAACATAATGGACTTCCTCCTCAGA
Found at i:96633526 original size:47 final size:47
Alignment explanation
Indices: 96633473--96633855 Score: 550
Period size: 47 Copynumber: 8.1 Consensus size: 47
96633463 TTAGGATTTT
** * * *
96633473 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
96633520 ATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATA--TGTGATAAGGCCGAATGGCCA
* *
96633571 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAACGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
96633618 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
96633665 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
96633712 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
96633759 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
96633806 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
96633853 ATG
1 ATG
96633856 CGAAATGTGT
Statistics
Matches: 311, Mismatches: 21, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
47 262 0.84
49 11 0.04
51 38 0.12
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:96633648 original size:25 final size:25
Alignment explanation
Indices: 96633619--96633743 Score: 72
Period size: 25 Copynumber: 5.2 Consensus size: 25
96633609 GAACGGCCAA
96633619 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
96633644 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
96633666 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
96633691 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
96633713 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
96633738 TGTGAT
1 TGTGAT
96633744 AAGGCCGAAT
Statistics
Matches: 70, Mismatches: 16, Indels: 28
0.61 0.14 0.25
Matches are distributed among these distances:
22 16 0.23
23 16 0.23
24 16 0.23
25 22 0.31
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:96633965 original size:46 final size:46
Alignment explanation
Indices: 96633829--96633965 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
96633819 GAACATGTAT
* * *
96633829 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
96633875 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * *
96633921 ATATGTGGTAAAGCCAAATGGCTAATGTGAGACATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
96633966 TGTATATAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:96634180 original size:37 final size:37
Alignment explanation
Indices: 96634139--96634220 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
96634129 GATGACCATA
* *
96634139 TGTGGTGACTATGTCCGGGTAAGACCCGATGACTACG
1 TGTGGAGACTATGTCCGGGTAAGACCCGATAACTACG
* * * *
96634176 TGTGGAGATTTTGTTCGGGTAAGACCCGATAACTTCG
1 TGTGGAGACTATGTCCGGGTAAGACCCGATAACTACG
96634213 TGTGGAGA
1 TGTGGAGA
96634221 TTTCATCTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (37 bp):
TGTGGAGACTATGTCCGGGTAAGACCCGATAACTACG
Found at i:96644477 original size:18 final size:19
Alignment explanation
Indices: 96644439--96644477 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
96644429 TGGTTCAAGC
*
96644439 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
96644458 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
96644476 TT
1 TT
96644478 CTTAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:96644813 original size:23 final size:24
Alignment explanation
Indices: 96644767--96644813 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
96644757 ATACACGGAT
*
96644767 TCCAACCCAAACACACCAGTAATA
1 TCCAACCAAAACACACCAGTAATA
96644791 TCCAACCAAAACACACCAG-AATA
1 TCCAACCAAAACACACCAGTAATA
96644814 ATCATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.49, C:0.36, G:0.04, T:0.11
Consensus pattern (24 bp):
TCCAACCAAAACACACCAGTAATA
Found at i:96645359 original size:46 final size:46
Alignment explanation
Indices: 96645299--96645555 Score: 327
Period size: 46 Copynumber: 5.6 Consensus size: 46
96645289 TGCCATAGCG
* * * * *
96645299 TCTTTCAACTATGGTTTTACTCATTTTCTGTAAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTGTCATGTTGCCATGGTA
** * *
96645345 TCTTTCAACCATGGTCTTATTCATTTCCCAGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTT-TCTGTCATGTTGCCATGGTA
* ** *
96645392 TCTTTCAACCATAGTCTTATTCA-TTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTC-TGTCATGTTGCCATGGTA
* * *
96645438 TCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGATA
1 TCTTTCAACCATGGTCTTACACATTTTCTGTCATGTTGCCATGGTA
* *
96645484 TCTTTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTGTCATGTTGCCATGGTA
96645530 TCTTTCAACCATGGTCTTACACATTT
1 TCTTTCAACCATGGTCTTACACATTT
96645556 GAATCGCGAT
Statistics
Matches: 189, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 147 0.78
47 41 0.22
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTTCTGTCATGTTGCCATGGTA
Found at i:96645589 original size:45 final size:46
Alignment explanation
Indices: 96645287--96645600 Score: 209
Period size: 46 Copynumber: 6.8 Consensus size: 46
96645277 TCTTCGACAT
* * * * ** * * *
96645287 GATGCCATAGCGTCTTTCAACTATGGTTTTACTCATTTTCTGTAAG
1 GATGCCATAGCATCTTTCAACCATGGTCTTACACATTTGATATCAC
* * * ** *** *
96645333 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCAGTCAT
1 GATGCCATAGCATCTTTCAACCATGGTCTTACACATTTGATA-TCAC
* * * * ** * *
96645380 GTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCATGTCAC
1 GATGCCATAGCATCTTTCAACCATGGTCTTACACATTTGATATCAC
* * * * *
96645426 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAT
1 GATGCCATAGCATCTTTCAACCATGGTCTTACACATTTGATATCAC
* * * *
96645472 GTTGCCAT-GATATCTTTCAACCATGGTCTTACACATTTTATATCAT
1 GATGCCATAG-CATCTTTCAACCATGGTCTTACACATTTGATATCAC
* * * *
96645518 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTGA-ATCGC
1 GATGCCATAGCATCTTTCAACCATGGTCTTACACATTTGATATCAC
* * * *
96645563 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
1 GATGCCATAGCATCTTTCAACCATGGTCTTACACATTT
96645601 ATGGTATGAT
Statistics
Matches: 232, Mismatches: 33, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
45 35 0.15
46 156 0.67
47 41 0.18
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GATGCCATAGCATCTTTCAACCATGGTCTTACACATTTGATATCAC
Found at i:96645662 original size:33 final size:33
Alignment explanation
Indices: 96645625--96645765 Score: 119
Period size: 33 Copynumber: 4.3 Consensus size: 33
96645615 TAGTCCAACT
*
96645625 ATGGTCTTACACGTGTATTGCCATGGCCTAGCC
1 ATGGTCTTACACGTGTATTGCCATAGCCTAGCC
** * **
96645658 ATGGTCTTACAC-TCGTGGTGCCATATCCTAGAT
1 ATGGTCTTACACGT-GTATTGCCATAGCCTAGCC
*
96645691 ATGGTCTTATCATCAG-G-A-TGCCATAGCCTAGCT
1 ATGGTCTTA-CA-C-GTGTATTGCCATAGCCTAGCC
* * * *
96645724 ATGGTCTTACACATATATTGCCATGGCCCAGCC
1 ATGGTCTTACACGTGTATTGCCATAGCCTAGCC
96645757 ATGGTCTTA
1 ATGGTCTTA
96645766 TCTGTCAATT
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
31 1 0.01
32 4 0.05
33 77 0.90
34 2 0.02
35 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (33 bp):
ATGGTCTTACACGTGTATTGCCATAGCCTAGCC
Found at i:96648786 original size:30 final size:30
Alignment explanation
Indices: 96648749--96648817 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
96648739 CCACCCTTAA
* * *
96648749 AATATTTACACTATTAGTCCTTCAAATTTT
1 AATATTTACAATATTAATCCCTCAAATTTT
* *
96648779 CATATTTA-AATTTTAATCCCTCAAATTTT
1 AATATTTACAATATTAATCCCTCAAATTTT
96648808 AAGTATTTAC
1 AA-TATTTAC
96648818 TCTTGGGCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (30 bp):
AATATTTACAATATTAATCCCTCAAATTTT
Found at i:96649281 original size:36 final size:37
Alignment explanation
Indices: 96649115--96649724 Score: 576
Period size: 37 Copynumber: 16.8 Consensus size: 37
96649105 GGAATATTGG
* *
96649115 TTCTACT-AAAGTGCTC-AACGAGCAATATCTATTGG
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
*
96649150 TTCTACTGAAAGTGCTCAAATGAGCAATATCTACTGA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* * * ** * *
96649187 TTCTTCTAAAAATTTTCAAACAATCAATATCTACT-A
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* * *
96649223 ATCATACT-AAATGTGCTCAAACGAGCATTGTCTACT-A
1 TTC-TACTGAAA-GTGCTCAAACGAGCAATATCTACTGA
* *
96649260 TTCTACTGGAAGTTCTCAAACGAGCAATATCTACTGA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* * *
96649297 TTTTTCTGAAAGTGCTCAAATGAGCAATATCTACTGA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* *
96649334 TACTACTGAAAGTGCTC-AACGAGCAATATCTAGTGA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* * * * * * *
96649370 TCCTACTGAATGTACTCAAATGAGTAATGTCTACTAA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* *
96649407 TTCTACTGAAAGTGCTAAAACGAGCAATATCTACTAA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
*
96649444 TTCTACTGAAAGTGCT-TAACGAGCAATATCTA--G-
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* * *
96649477 ------TGAATGTGCTCAAACGAGCAATGTCTACTAA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
96649508 TTCTA-TAGAAA-TGCTCAAACGAGCAATATCTACTGA
1 TTCTACT-GAAAGTGCTCAAACGAGCAATATCTACTGA
* * *
96649544 TTCTACTGAAAGTGTTC-AACGAACAATATCTACCGA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* * * * *
96649580 TCCTACTTAATGTGCTCAAACAAGCAATGTCTACTGA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
*
96649617 TTCTACTG-CAGTGCTCAAACGAGCAATATCTACTGA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
* * * *
96649653 TTCTATTGAATAGTTGCTCAAATGAGCAATATCCATTGA
1 TTCTACTGAA-AG-TGCTCAAACGAGCAATATCTACTGA
* * *
96649692 TTATACTGAATGCTTGCTCAAACGAGCATTATC
1 TTCTACTGAAAG--TGCTCAAACGAGCAATATC
96649725 CACTAATTTT
Statistics
Matches: 465, Mismatches: 86, Indels: 44
0.78 0.14 0.07
Matches are distributed among these distances:
27 9 0.02
28 14 0.03
35 7 0.02
36 180 0.39
37 204 0.44
38 3 0.01
39 48 0.10
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (37 bp):
TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA
Found at i:96649293 original size:73 final size:72
Alignment explanation
Indices: 96649115--96649724 Score: 498
Period size: 73 Copynumber: 8.4 Consensus size: 72
96649105 GGAATATTGG
* * *
96649115 TTCTACT-AAAGTGCTC-AACGAGCAATATCTATTGGTTCTACTGAAAGTGCTCAAATGAGCAAT
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACT-GATCTACT-AAAGTGCTCAAACGAGCAAT
96649178 ATCTACTGA
64 ATCTACTGA
* * * ** * * * *
96649187 TTCTTCTAAAAATTTTCAAACAATCAATATCTACTAATCATACTAAATGTGCTCAAACGAGCATT
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATC-TACTAAA-GTGCTCAAACGAGCAAT
*
96649252 GTCTACT-A
64 ATCTACTGA
* * * * *
96649260 TTCTACTGGAAGTTCTCAAACGAGCAATATCTACTGATTTTTCTGAAAGTGCTCAAATGAGCAAT
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA-TCTACT-AAAGTGCTCAAACGAGCAAT
96649325 ATCTACTGA
64 ATCTACTGA
* * * * * *
96649334 TACTACTGAAAGTGCTC-AACGAGCAATATCTAGTGATCCTACTGAATGTACTCAAATGAGTAAT
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGAT-CTACT-AAAGTGCTCAAACGAGCAAT
* *
96649398 GTCTACTAA
64 ATCTACTGA
* * *
96649407 TTCTACTGAAAGTGCTAAAACGAGCAATATCTACTAATTCTACTGAAAGTGCT-TAACGAGCAAT
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA-TCTACT-AAAGTGCTCAAACGAGCAAT
96649471 ATCTA--G-
64 ATCTACTGA
* * * *
96649477 ------TGAATGTGCTCAAACGAGCAATGTCTACTAATTCTA-TAGAAATGCTCAAACGAGCAAT
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA-TCTACTA-AAGTGCTCAAACGAGCAAT
96649535 ATCTACTGA
64 ATCTACTGA
* * * * *
96649544 TTCTACTGAAAGTGTTC-AACGAACAATATCTACCGATCCTACTTAATGTGCTCAAACAAGCAAT
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGAT-CTAC-TAAAGTGCTCAAACGAGCAAT
*
96649608 GTCTACTGA
64 ATCTACTGA
* * *
96649617 TTCTACTG-CAGTGCTCAAACGAGCAATATCTACTGATTCTATTGAATAGTTGCTCAAATGAGCA
1 TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGA-TCTACT-AA-AG-TGCTCAAACGAGCA
* *
96649681 ATATCCATTGA
62 ATATCTACTGA
* * *
96649692 TTATACTGAATGCTTGCTCAAACGAGCATTATC
1 TTCTACTGAAAG--TGCTCAAACGAGCAATATC
96649725 CACTAATTTT
Statistics
Matches: 429, Mismatches: 77, Indels: 58
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.00
63 7 0.02
64 48 0.11
66 1 0.00
71 1 0.00
72 32 0.07
73 201 0.47
74 91 0.21
75 28 0.07
76 1 0.00
78 18 0.04
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (72 bp):
TTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATCTACTAAAGTGCTCAAACGAGCAATAT
CTACTGA
Found at i:96649325 original size:110 final size:108
Alignment explanation
Indices: 96649116--96649719 Score: 543
Period size: 110 Copynumber: 5.6 Consensus size: 108
96649106 GAATATTGGT
* * * * *
96649116 TCTACT-AAAGTGCTCAACGAGCAATATCTATTGGTTCTACTGAAAGTGCTCAAATGAGCAATAT
1 TCTACTGAAAGTGCTCAACGAGCAATATCTACT-ATTCTACTGAATGTGCTCAAACGAGCAATGT
* * ** * *
96649180 CTACTGATTCTTCTAAAAATTTTCAAACAATCAATATCTACTAA
65 CTACTGATTCTTCTGAAAGTGCTCAAACGAGCAATATCTACTAA
* * *
96649224 TCATACT-AAATGTGCTCAAACGAGCATTGTCTACTATTCTACTGGAA-GTTCTCAAACGAGCAA
1 TC-TACTGAAA-GTGCTC-AACGAGCAATATCTACTATTCTACT-GAATGTGCTCAAACGAGCAA
* * * *
96649287 TATCTACTGATTTTTCTGAAAGTGCTCAAATGAGCAATATCTACTGA
62 TGTCTACTGATTCTTCTGAAAGTGCTCAAACGAGCAATATCTACTAA
* * * * *
96649334 TACTACTGAAAGTGCTCAACGAGCAATATCTAGTGATCCTACTGAATGTACTCAAATGAGTAATG
1 T-CTACTGAAAGTGCTCAACGAGCAATATCTACT-ATTCTACTGAATGTGCTCAAACGAGCAATG
* * *
96649399 TCTACTAATTCTACTGAAAGTGCTAAAACGAGCAATATCTACTAA
64 TCTACTGATTCTTCTGAAAGTGCTCAAACGAGCAATATCTACTAA
* *
96649444 TTCTACTGAAAGTGCTTAACGAGC---A---A-TA-TCTAGTGAATGTGCTCAAACGAGCAATGT
1 -TCTACTGAAAGTGCTCAACGAGCAATATCTACTATTCTACTGAATGTGCTCAAACGAGCAATGT
* * *
96649501 CTACTAATTCTAT-AGAAA-TGCTCAAACGAGCAATATCTACTGAT
65 CTACTGATTCT-TCTGAAAGTGCTCAAACGAGCAATATCTACT-AA
* * * * * *
96649545 TCTACTGAAAGTGTTCAACGAACAATATCTACCGATCCTACTTAATGTGCTCAAACAAGCAATGT
1 TCTACTGAAAGTGCTCAACGAGCAATATCTA-CTATTCTACTGAATGTGCTCAAACGAGCAATGT
* * *
96649610 CTACTGATTCTACTG-CAGTGCTCAAACGAGCAATATCTACTGAT
65 CTACTGATTCTTCTGAAAGTGCTCAAACGAGCAATATCTACT-AA
* * * * *
96649654 TCTATTGAATAGTTGCTCAAATGAGCAATATCCATTGATTATACTGAATGCTTGCTCAAACGAGC
1 TCTACTGAA-AG-TGCTC-AACGAGCAATATCTACT-ATTCTACTGAATG--TGCTCAAACGAGC
96649719 A
60 A
96649720 TTATCCACTA
Statistics
Matches: 406, Mismatches: 62, Indels: 50
0.78 0.12 0.10
Matches are distributed among these distances:
100 42 0.10
101 40 0.10
102 1 0.00
103 2 0.00
104 1 0.00
106 1 0.00
107 1 0.00
108 4 0.01
109 94 0.23
110 159 0.39
111 26 0.06
112 22 0.05
114 13 0.03
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (108 bp):
TCTACTGAAAGTGCTCAACGAGCAATATCTACTATTCTACTGAATGTGCTCAAACGAGCAATGTC
TACTGATTCTTCTGAAAGTGCTCAAACGAGCAATATCTACTAA
Found at i:96649485 original size:27 final size:28
Alignment explanation
Indices: 96649445--96649505 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
96649435 ATCTACTAAT
*
96649445 TCTACTGAAAGTGCT-TAACGAGCAATA
1 TCTACTGAAAGTGCTCAAACGAGCAATA
* * *
96649472 TCTAGTGAATGTGCTCAAACGAGCAATG
1 TCTACTGAAAGTGCTCAAACGAGCAATA
96649500 TCTACT
1 TCTACT
96649506 AATTCTATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (28 bp):
TCTACTGAAAGTGCTCAAACGAGCAATA
Found at i:96649498 original size:64 final size:64
Alignment explanation
Indices: 96649408--96649543 Score: 195
Period size: 64 Copynumber: 2.1 Consensus size: 64
96649398 GTCTACTAAT
*
96649408 TCTACTGAAAGTGCTAAAACGAGCAATATCTACTAATTCTACT-GAAAGTGCT-TAACGAGCAAT
1 TCTACTGAAAGTGCTAAAACGAGCAATATCTACTAATTCTA-TAGAAA-TGCTCAAACGAGCAAT
96649471 A
64 A
* * * *
96649472 TCTAGTGAATGTGCTCAAACGAGCAATGTCTACTAATTCTATAGAAATGCTCAAACGAGCAATA
1 TCTACTGAAAGTGCTAAAACGAGCAATATCTACTAATTCTATAGAAATGCTCAAACGAGCAATA
96649536 TCTACTGA
1 TCTACTGA
96649544 TTCTACTGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
63 5 0.08
64 59 0.92
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (64 bp):
TCTACTGAAAGTGCTAAAACGAGCAATATCTACTAATTCTATAGAAATGCTCAAACGAGCAATA
Found at i:96650330 original size:11 final size:12
Alignment explanation
Indices: 96650300--96650333 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
96650290 CGGCCCGTTC
96650300 ATATTAATTTTT
1 ATATTAATTTTT
96650312 ATATTAATTTTT
1 ATATTAATTTTT
96650324 ATA-TAATTTT
1 ATATTAATTTT
96650334 AAAAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:96650374 original size:19 final size:18
Alignment explanation
Indices: 96650333--96650368 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
96650323 TATATAATTT
*
96650333 TAAAAAATATATAAACAA
1 TAAAAAATATAAAAACAA
96650351 TAAAAAATACTAAAAACA
1 TAAAAAATA-TAAAAACA
96650369 TCAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAAAATATAAAAACAA
Found at i:96650573 original size:22 final size:22
Alignment explanation
Indices: 96650548--96650590 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
96650538 TATCCAAACA
96650548 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* *
96650570 ATAATAATAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
96650591 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Done.