Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 155 of 173
Found at i:46712099 original size:11 final size:11
Alignment explanation
Indices: 46712070--46712102 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
46712060 GAATGCAGAA
46712070 TGTCATTTTTT
1 TGTCATTTTTT
*
46712081 TCTC-TTTTTT
1 TGTCATTTTTT
46712091 TGTCATTTTTT
1 TGTCATTTTTT
46712102 T
1 T
46712103 AGAATGATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (11 bp):
TGTCATTTTTT
Found at i:46717823 original size:21 final size:21
Alignment explanation
Indices: 46717797--46717840 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
46717787 AATGAAGTAA
46717797 AGCCATATATTCCTCCACTGT
1 AGCCATATATTCCTCCACTGT
46717818 AGCCATATATTCCTCCACTGT
1 AGCCATATATTCCTCCACTGT
46717839 AG
1 AG
46717841 GTACCAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (21 bp):
AGCCATATATTCCTCCACTGT
Found at i:46718246 original size:16 final size:16
Alignment explanation
Indices: 46718225--46718258 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46718215 TTTTAGGATG
* *
46718225 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
46718241 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
46718257 AA
1 AA
46718259 GCAAAACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:46727241 original size:26 final size:24
Alignment explanation
Indices: 46727178--46727248 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 24
46727168 CAATCTTTAT
*
46727178 ATTAAATAATTTTTAATTAAAAATA
1 ATTAAAT-ATTATTAATTAAAAATA
* * *
46727203 A-TAAAAATAATTAGTTATAAAATA
1 ATTAAATATTATTAATTA-AAAATA
46727227 ATTTAAATATTATTAAATTAAA
1 A-TTAAATATTATT-AATTAAA
46727249 TTATAAATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
23 8 0.23
24 11 0.31
25 1 0.03
26 11 0.31
27 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
ATTAAATATTATTAATTAAAAATA
Found at i:46731918 original size:15 final size:17
Alignment explanation
Indices: 46731882--46731918 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
46731872 CGAATTAGCT
*
46731882 TTTTTATATATATATAG
1 TTTTTATATATAAATAG
46731899 TTTTTATATATAAAT-G
1 TTTTTATATATAAATAG
46731915 TTTT
1 TTTT
46731919 GTTTCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTTATATATAAATAG
Found at i:46736348 original size:16 final size:16
Alignment explanation
Indices: 46736324--46736359 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
46736314 TAACCACTTC
* *
46736324 AAAATATAATTAAAAT
1 AAAAAATAAATAAAAT
46736340 AAAAAATAAATAAAAT
1 AAAAAATAAATAAAAT
46736356 AAAA
1 AAAA
46736360 TAAGATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAAATAAATAAAAT
Found at i:46746068 original size:16 final size:17
Alignment explanation
Indices: 46746047--46746079 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46746037 ATATTTAGTC
46746047 ATATAATAAAT-TATTA
1 ATATAATAAATATATTA
*
46746063 ATATAATTAATATATTA
1 ATATAATAAATATATTA
46746080 TATTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAATAAATATATTA
Found at i:46748756 original size:29 final size:30
Alignment explanation
Indices: 46748697--46748754 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46748687 TCCGAGCCTT
*
46748697 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
46748727 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
46748755 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:46748983 original size:13 final size:13
Alignment explanation
Indices: 46748965--46748996 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46748955 TTTCCAGCAA
46748965 TTATGAATTTATT
1 TTATGAATTTATT
46748978 TTATGAATTTATT
1 TTATGAATTTATT
*
46748991 TGATGA
1 TTATGA
46748997 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:46749204 original size:50 final size:50
Alignment explanation
Indices: 46749091--46749332 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
46749081 ATTTGGGTAA
* * *
46749091 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
46749147 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
46749197 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
46749247 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
46749297 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
46749333 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:46749280 original size:100 final size:103
Alignment explanation
Indices: 46749091--46749340 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
46749081 ATTTGGGTAA
46749091 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
46749156 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
46749197 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
46749259 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
46749297 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
46749341 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:46752897 original size:29 final size:29
Alignment explanation
Indices: 46752865--46752928 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
46752855 TAGTCCCTTT
* *
46752865 TATTTTAT-TTTTCTTTCAATTTCGCCCTA
1 TATTTTATGTTTTATTTCAATTTAGCCC-A
*
46752894 TATTTT-TGTTTTATTTCGATTTAGCCCA
1 TATTTTATGTTTTATTTCAATTTAGCCCA
46752922 TATTTTA
1 TATTTTA
46752929 GCAATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.59
Consensus pattern (29 bp):
TATTTTATGTTTTATTTCAATTTAGCCCA
Found at i:46752948 original size:3 final size:3
Alignment explanation
Indices: 46752940--46753008 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
46752930 CAATTTTATG
* * *
46752940 TTA TTA TTA TTA TT- TTAA ATA TTA TTA TTA GT- TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
46752984 TTA TGG TTA TTA TTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
46753009 CGTTACTGTT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
2 3 0.06
3 47 0.92
4 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:46757671 original size:19 final size:18
Alignment explanation
Indices: 46757643--46757680 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
46757633 TTTAAAAATA
46757643 TATAAAA-TTTGAAATTTT
1 TATAAAATTTTG-AATTTT
46757661 TATAAATATTTTGAATTTT
1 TATAAA-ATTTTGAATTTT
46757680 T
1 T
46757681 TTGTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAAATTTTGAATTTT
Found at i:46758035 original size:6 final size:6
Alignment explanation
Indices: 46758019--46758053 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
46758009 TGAAAGATAT
46758019 TTTTCCC TTTTCC TTTTCC TTTTCC TTTTCC TTTT
1 TTTT-CC TTTTCC TTTTCC TTTTCC TTTTCC TTTT
46758054 TTTTTAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCC
Found at i:46761160 original size:46 final size:46
Alignment explanation
Indices: 46761107--46761200 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
46761097 ATTCTCTGTT
46761107 TTGAGAGTGCTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
1 TTGAGAGTGCTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
46761153 TTGAGAGTGCTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
1 TTGAGAGTGCTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
46761199 TT
1 TT
46761201 AGTAGGGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.57
Consensus pattern (46 bp):
TTGAGAGTGCTTTTTTTTTAATTTATCTTTTTTCTTAAGAGGATTG
Found at i:46765745 original size:2 final size:2
Alignment explanation
Indices: 46765732--46765763 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
46765722 TGGGAGGATC
*
46765732 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
46765764 TTTCATCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:46772021 original size:41 final size:41
Alignment explanation
Indices: 46771976--46772053 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
46771966 ATTTTAAAAT
*
46771976 AATTAAAAAT-TCAAAAAAATTATAAAAATACATTTTTTTAA
1 AATTAAAAATAT-AAAAAAATTACAAAAATACATTTTTTTAA
* *
46772017 AATTAAAAATATATAAAAATTACAAAAATATATTTTT
1 AATTAAAAATATAAAAAAATTACAAAAATACATTTTT
46772054 AGTATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (41 bp):
AATTAAAAATATAAAAAAATTACAAAAATACATTTTTTTAA
Found at i:46772037 original size:17 final size:17
Alignment explanation
Indices: 46772015--46772048 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
46772005 ACATTTTTTT
46772015 AAAATTA-AAAATATATA
1 AAAATTACAAAA-ATATA
46772032 AAAATTACAAAAATATA
1 AAAATTACAAAAATATA
46772049 TTTTTAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTACAAAAATATA
Found at i:46772792 original size:20 final size:20
Alignment explanation
Indices: 46772755--46772812 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
46772745 AGTTCCCCCA
* *
46772755 AAAAACACATCATGAAATTAG
1 AAAAACATATAAT-AAATTAG
*
46772776 AAAATCATGATAA-AAATTAG
1 AAAAACAT-ATAATAAATTAG
46772796 AAAAACATATAATAAAT
1 AAAAACATATAATAAAT
46772813 ATTTCCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 4 0.13
20 18 0.58
21 6 0.19
22 3 0.10
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAACATATAATAAATTAG
Found at i:46775240 original size:43 final size:43
Alignment explanation
Indices: 46775172--46775333 Score: 218
Period size: 43 Copynumber: 3.8 Consensus size: 43
46775162 GTGAAAAACA
* *
46775172 CCGCTATAGAACATGACATTTAGCGGCGCTTTTCCCACAAATG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATG
* * *
46775215 CTGCTAAAGAACATGACCTTTAGCGGCAC-TTTCCCAAAAATG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATG
* *
46775257 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATG
** * *
46775300 CCGCTAAAGGTCATGTCCTTTAGCAGCGCTTTTC
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTC
46775334 TCAAAAACTT
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 39 0.38
43 64 0.62
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATG
Found at i:46776207 original size:25 final size:27
Alignment explanation
Indices: 46776166--46776233 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
46776156 AAAAACTTAC
* *
46776166 ACGGCGATG-AGGCAGAGGAG-T-GTTG
1 ACGGCGATGCA-GTAGAGGAGATAGTCG
*
46776191 ACGGCGATGCAGTAGAGGGGATAGTCG
1 ACGGCGATGCAGTAGAGGAGATAGTCG
*
46776218 ACGGTGATGCAGTAGA
1 ACGGCGATGCAGTAGA
46776234 CGGTCAGGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 16 0.44
26 2 0.06
27 18 0.50
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.16
Consensus pattern (27 bp):
ACGGCGATGCAGTAGAGGAGATAGTCG
Found at i:46776298 original size:14 final size:14
Alignment explanation
Indices: 46776281--46776312 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
46776271 TGGGGATTTC
46776281 GGGATTTCGATGTG
1 GGGATTTCGATGTG
*
46776295 GGGATTTCGATTTG
1 GGGATTTCGATGTG
46776309 GGGA
1 GGGA
46776313 AAAATTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.06, G:0.44, T:0.34
Consensus pattern (14 bp):
GGGATTTCGATGTG
Found at i:46778115 original size:30 final size:30
Alignment explanation
Indices: 46778079--46778135 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
46778069 GTTTGAGTTC
*
46778079 AAAGTTTAGGGTTTAAGGTTTGAAATTTTT
1 AAAGTTTAGGGTTTAAAGTTTGAAATTTTT
*
46778109 AAAGTTTAGGGTTTAAAGTTTTAAATT
1 AAAGTTTAGGGTTTAAAGTTTGAAATT
46778136 CATGGTTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (30 bp):
AAAGTTTAGGGTTTAAAGTTTGAAATTTTT
Found at i:46778125 original size:14 final size:14
Alignment explanation
Indices: 46778057--46778129 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 14
46778047 ACAGTTTAGG
46778057 GTTT-GGGTTT-AA
1 GTTTAGGGTTTAAA
* *
46778069 GTTT-GAGTTCAAA
1 GTTTAGGGTTTAAA
*
46778082 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAA
***
46778096 GTTTGAAATTTTTAAA
1 GTTT--AGGGTTTAAA
46778112 GTTTAGGGTTTAAA
1 GTTTAGGGTTTAAA
46778126 GTTT
1 GTTT
46778130 TAAATTCATG
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
12 8 0.18
13 6 0.13
14 21 0.47
16 10 0.22
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTAAA
Found at i:46778133 original size:22 final size:23
Alignment explanation
Indices: 46778089--46778133 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
46778079 AAAGTTTAGG
*
46778089 GTTTAAGGTTTGAAATTTTTAAA
1 GTTTAAGGTTTGAAAGTTTTAAA
*
46778112 GTTTAGGGTTT-AAAGTTTTAAA
1 GTTTAAGGTTTGAAAGTTTTAAA
46778134 TTCATGGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (23 bp):
GTTTAAGGTTTGAAAGTTTTAAA
Found at i:46785309 original size:9 final size:9
Alignment explanation
Indices: 46785290--46785343 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
46785280 ATATAATAAC
46785290 AATAGTAAT
1 AATAGTAAT
46785299 AATCA-TAAT
1 AAT-AGTAAT
46785308 AATAGTAAT
1 AATAGTAAT
* *
46785317 AATATTAAC
1 AATAGTAAT
*
46785326 AATAGTACT
1 AATAGTAAT
*
46785335 AGTAGTAAT
1 AATAGTAAT
46785344 GAAGATTAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
8 1 0.03
9 34 0.94
10 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (9 bp):
AATAGTAAT
Found at i:46785311 original size:18 final size:17
Alignment explanation
Indices: 46785285--46785332 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
46785275 TAAAAATATA
46785285 ATAACAATAGTAATAAT
1 ATAACAATAGTAATAAT
*
46785302 CATAATAATAGTAATAAT
1 -ATAACAATAGTAATAAT
46785320 ATTAACAATAGTA
1 A-TAACAATAGTA
46785333 CTAGTAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
ATAACAATAGTAATAAT
Found at i:46785425 original size:4 final size:4
Alignment explanation
Indices: 46785418--46785444 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46785408 GGAGTAAGTA
46785418 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
46785445 ACATTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:46786908 original size:45 final size:44
Alignment explanation
Indices: 46786852--46786956 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
46786842 CCCACTATAG
* *
46786852 CTTCGGGGAGATAAGGCTCACTTTCTTCAACCTA-CTACACTGCAA
1 CTTCAGGGAGATAAGGCTCA-TATCTTCAACC-AGCTACACTGCAA
* ** * * *
46786897 CTTTAGGGAGATAAGATTGATATCTTCAACCAGCTCCACTGTAA
1 CTTCAGGGAGATAAGGCTCATATCTTCAACCAGCTACACTGCAA
46786941 CTTCAGGGAGATAAGG
1 CTTCAGGGAGATAAGG
46786957 TTGGTTATCT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 33 0.67
45 15 0.31
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTCAGGGAGATAAGGCTCATATCTTCAACCAGCTACACTGCAA
Found at i:46786937 original size:44 final size:45
Alignment explanation
Indices: 46786875--46786969 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
46786865 AGGCTCACTT
*
46786875 TCTTCAACCTACTACACTGCAACTTTAGGGAGATAAGATT-GATA
1 TCTTCAACCTACTACACTGCAACTTCAGGGAGATAAGATTGGATA
* * * *
46786919 TCTTCAACC-AGCTCCACTGTAACTTCAGGGAGATAAGGTTGGTTA
1 TCTTCAACCTA-CTACACTGCAACTTCAGGGAGATAAGATTGGATA
46786964 TCTTCA
1 TCTTCA
46786970 GTCTTGATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 34 0.77
45 9 0.20
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
TCTTCAACCTACTACACTGCAACTTCAGGGAGATAAGATTGGATA
Found at i:46787128 original size:132 final size:132
Alignment explanation
Indices: 46786986--46787983 Score: 1446
Period size: 132 Copynumber: 7.6 Consensus size: 132
46786976 ATATGCTCCG
* * * * * * *
46786986 CTTGGAAAGATAAGATTTACCATCTTTGATCTGCTTCACTATTGCCTAAGGAGACA-AGATCTAC
1 CTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATCTGC
* * *
46787050 AATATTCAACCCACTCCACTGCTGCTCAGGGAGATAGGATTAATGGCTTAAATCTGCTTCTCCAC
65 AATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
46787115 TAT
130 TAT
* * *
46787118 CTTAGGAAGATAAGATTTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACA
1 CTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
*
46787183 ATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTAATGG-TTCAAATCTGCTTCTCCAC
66 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTT-AAATCTGCTTCTCCAC
46787247 TAT
130 TAT
* ** *
46787250 ATTGGGAAGATAAGACCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
1 CTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
* *
46787315 ATCTTCAACCTACTCTACTGCTGCTCAGGGAGATAGGACTAATGGCCTAAATCTGCTTCTCCACT
66 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
46787380 AT
131 AT
* *
46787382 CTTGGGAAGATAAGATTCACCAT-TTTCGATCTGCTCTACTACTGCTTAGGGAGATAGAATCTGC
1 CTTGGGAAGATAAGATTCACCATCTTT-GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGC
* *
46787446 AATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTAATGACTTAAATCTGCTTCTCCAC
65 AATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
46787511 TAT
130 TAT
* * * *
46787514 CTTGGGAAGATAAGATTCGCCGTCTTTCATCTGCTCCACTACTGCTTAGGGACACAGAATCTGCA
1 CTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
* * * * * *
46787579 ATCTTCAACCTACTTCACTGGTGTTCAAGGAGATAGGACTAATGGCCTAAATATGCTTCTCCACT
66 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
46787644 AT
131 AT
* * *
46787646 CTTGGGAAGATAAGATTCACCATTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGCA
1 CTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
*
46787711 ATCTTCAACCTACCCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
66 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
46787776 AT
131 AT
* ** * *
46787778 CTTGGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTACTTAGGGAGACAGAATCTGCA
1 CTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
* ** * *
46787843 ATCTTCAACCTACTCCACTACTATTCAGGGAGATAGGATTAATGGCTTAAATCTACTTC-CCGAC
66 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCC-AC
*
46787907 GAT
130 TAT
* * * * *
46787910 CTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTCAGGGAGACAGAATTTGCA
1 CTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
46787975 ATCTTCAAC
66 ATCTTCAAC
46787984 GGTTTATTCT
Statistics
Matches: 783, Mismatches: 77, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
131 6 0.01
132 772 0.99
133 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
CTTGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCA
ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
AT
Found at i:46787471 original size:44 final size:44
Alignment explanation
Indices: 46787151--46787482 Score: 161
Period size: 44 Copynumber: 7.5 Consensus size: 44
46787141 CTTTGATCTG
*
46787151 CTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGAATCTACAATCTTCAACCTA
* * * *
46787195 CTCCACTGCTGCTTAGGGAGATAGGA-CT--AATGGTTCAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGATAGAATCTACAAT-CTTC-AA-C--CTA
* * * * * * *
46787241 CTCCACTA-T-ATT-GGGAAGATA-AGACCCACCATCTTCGATCTG
1 CTCCACTACTGCTTAGGG-AGATAGA-ATCTACAATCTTCAACCTA
* *
46787283 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGAATCTACAATCTTCAACCTA
* * * * * * *
46787327 CTCTACTGCTGCTCAGGGAGATAGGA-CT--AATGGCCTAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGATAGAATCTACAAT--CTTCAA-C--CTA
* * * * * *
46787373 CTCCACTA-T-CTT-GGGAAGATAAGATTC-ACCATTTTCGATCTG
1 CTCCACTACTGCTTAGGG-AGAT-AGAATCTACAATCTTCAACCTA
* *
46787415 CTCTACTACTGCTTAGGGAGATAGAATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGAATCTACAATCTTCAACCTA
* *
46787459 CTCCACTGCTGCTCAGGGAGATAG
1 CTCCACTACTGCTTAGGGAGATAG
46787483 GATTAATGAC
Statistics
Matches: 206, Mismatches: 54, Indels: 56
0.65 0.17 0.18
Matches are distributed among these distances:
41 6 0.03
42 22 0.11
43 23 0.11
44 115 0.56
45 15 0.07
46 21 0.10
47 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAGAATCTACAATCTTCAACCTA
Found at i:46788502 original size:12 final size:12
Alignment explanation
Indices: 46788485--46788509 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46788475 TGACTACAAA
46788485 ATCTGAAGGGAT
1 ATCTGAAGGGAT
46788497 ATCTGAAGGGAT
1 ATCTGAAGGGAT
46788509 A
1 A
46788510 GTCTCAACTT
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:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ATCTGAAGGGAT
Found at i:46790959 original size:9 final size:9
Alignment explanation
Indices: 46790932--46790991 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
46790922 ATATAAAAAT
*
46790932 ATAATAACA
1 ATAATAATA
*
46790941 ATAGTAATA
1 ATAATAATA
*
46790950 ATCATAATA
1 ATAATAATA
46790959 ATAATAATA
1 ATAATAATA
*
46790968 GTAATAATA
1 ATAATAATA
* *
46790977 TTAACAATA
1 ATAATAATA
*
46790986 GTAATA
1 ATAATA
46790992 GTAGTAATGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (9 bp):
ATAATAATA
Found at i:46790974 original size:18 final size:18
Alignment explanation
Indices: 46790924--46790991 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
46790914 ATAAATTGAT
* *
46790924 ATAAAAATA-TAATAACA
1 ATAATAATAGTAATAATA
* * *
46790941 ATAGTAATAATCATAATA
1 ATAATAATAGTAATAATA
46790959 ATAATAATAGTAATAATA
1 ATAATAATAGTAATAATA
* *
46790977 TTAACAATAGTAATA
1 ATAATAATAGTAATA
46790992 GTAGTAATGA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 7 0.17
18 34 0.83
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (18 bp):
ATAATAATAGTAATAATA
Found at i:46790985 original size:24 final size:24
Alignment explanation
Indices: 46790934--46790999 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
46790924 ATAAAAATAT
* *
46790934 AATAACAATAGTAATAATCATAAT
1 AATAATAATAGTAATAATCATAAC
46790958 AATAATAATAGTAATAAT-ATTAAC
1 AATAATAATAGTAATAATCA-TAAC
* *
46790982 AATAGTAATAGTAGTAAT
1 AATAATAATAGTAATAAT
46791000 GAAGATTAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.32
Consensus pattern (24 bp):
AATAATAATAGTAATAATCATAAC
Found at i:46790994 original size:6 final size:6
Alignment explanation
Indices: 46790932--46790991 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
46790922 ATATAAAAAT
* * * * *
46790932 ATAATA ACAATA GTAATA ATCATA ATAATA ATAATA GTAATA ATATTA
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* *
46790980 ACAATA GTAATA
1 ATAATA ATAATA
46790992 GTAGTAATGA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (6 bp):
ATAATA
Found at i:46790996 original size:9 final size:9
Alignment explanation
Indices: 46790953--46790999 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
46790943 AGTAATAATC
*
46790953 ATAATAATA
1 ATAATAGTA
46790962 ATAATAGTA
1 ATAATAGTA
*
46790971 ATAATATTA
1 ATAATAGTA
*
46790980 ACAATAGTA
1 ATAATAGTA
*
46790989 ATAGTAGTA
1 ATAATAGTA
46790998 AT
1 AT
46791000 GAAGATTAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (9 bp):
ATAATAGTA
Found at i:46795094 original size:34 final size:34
Alignment explanation
Indices: 46795055--46795129 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
46795045 AACACATATC
* *
46795055 AAGCATGACT-TATGCTAATAAATTGATCTGTTAT
1 AAGCAT-ACTATATGCTAATAAATCGAACTGTTAT
* * *
46795089 AAGCATACTATTTGCTATTATATCGAACTGTTAT
1 AAGCATACTATATGCTAATAAATCGAACTGTTAT
46795123 AAGCATA
1 AAGCATA
46795130 TTGATTGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 3 0.09
34 32 0.91
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (34 bp):
AAGCATACTATATGCTAATAAATCGAACTGTTAT
Found at i:46795317 original size:45 final size:45
Alignment explanation
Indices: 46795262--46795370 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 45
46795252 TATCTGTAAA
* * ** * **
46795262 ATTTGTTGTGTATCCACAGTCAAAGGCAGGTTCCATTTACGGGTT
1 ATTTGCTGTGTATCCACAGGCAAAGGCAAATTCCATCTACAAGTT
* *
46795307 ATTTGCTGTGTATCCACAGGCAGAGGCAAATTCCATCTGCAAGTT
1 ATTTGCTGTGTATCCACAGGCAAAGGCAAATTCCATCTACAAGTT
*
46795352 ATTTGCTATGTAATCCACA
1 ATTTGCTGTGT-ATCCACA
46795371 ACCAGAGGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
45 46 0.87
46 7 0.13
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (45 bp):
ATTTGCTGTGTATCCACAGGCAAAGGCAAATTCCATCTACAAGTT
Found at i:46795394 original size:46 final size:45
Alignment explanation
Indices: 46795304--46795436 Score: 119
Period size: 46 Copynumber: 3.0 Consensus size: 45
46795294 CCATTTACGG
* **
46795304 GTTATTTGCTGTGTATCCACAGGCAGAGGCAAATTCCATCTGCAA
1 GTTATTTGCTATGTATCCACAACCAGAGGCAAATTCCATCTGCAA
* * * *
46795349 GTTATTTGCTATGTAATCCACAACCAGAGGTAGATTTCATTTGCAA
1 GTTATTTGCTATGT-ATCCACAACCAGAGGCAAATTCCATCTGCAA
* * * *
46795395 G--ACTTTGCTGTGTA-CCAACAGCCAGAGACAGATTCCATCTGC
1 GTTA-TTTGCTATGTATCC-ACAACCAGAGGCAAATTCCATCTGC
46795437 GATATTTTGT
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
43 2 0.03
44 22 0.31
45 22 0.31
46 26 0.36
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
GTTATTTGCTATGTATCCACAACCAGAGGCAAATTCCATCTGCAA
Found at i:46796459 original size:19 final size:18
Alignment explanation
Indices: 46796422--46796464 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
46796412 ACCAAAAAAT
** *
46796422 ATTTTAAATTTATTTTTG
1 ATTTTAAATAAATTATTG
46796440 AGTTTTAAATAAATTATTG
1 A-TTTTAAATAAATTATTG
46796459 ATTTTA
1 ATTTTA
46796465 GTTTAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTAAATAAATTATTG
Found at i:46800170 original size:3 final size:3
Alignment explanation
Indices: 46800164--46800190 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46800154 AAAATTATTA
46800164 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
46800191 ATTTCACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:46802436 original size:45 final size:44
Alignment explanation
Indices: 46802357--46802488 Score: 108
Period size: 45 Copynumber: 3.0 Consensus size: 44
46802347 GCAGATTCTT
* ** *
46802357 ATATGAGGACTCGTACATGCGAATTTGTATAAGAAGA-TTCATAG
1 ATATGAGGACTCATACATGCGAATTCATAGAAGAA-ACTTCATAG
*
46802401 ATATGGAGGACTCATACATGC-AGATTCATAGAAGAAACTTCATGG
1 ATAT-GAGGACTCATACATGCGA-ATTCATAGAAGAAACTTCATAG
* * * * *
46802446 ATAT-AGCAGATTCAAACATACGAATACATAAAAGAAACTTCAT
1 ATATGAG--GACTCATACATGCGAATTCATAGAAGAAACTTCAT
46802489 GAACATAGCG
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
43 2 0.03
44 6 0.08
45 63 0.88
46 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (44 bp):
ATATGAGGACTCATACATGCGAATTCATAGAAGAAACTTCATAG
Found at i:46804804 original size:13 final size:13
Alignment explanation
Indices: 46804788--46804813 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46804778 AGTTGGGTAA
46804788 GGTAAAAAGGGAG
1 GGTAAAAAGGGAG
46804801 GGTAAAAAGGGAG
1 GGTAAAAAGGGAG
46804814 ATAGTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.46, T:0.08
Consensus pattern (13 bp):
GGTAAAAAGGGAG
Found at i:46808220 original size:9 final size:9
Alignment explanation
Indices: 46808203--46808239 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
46808193 CATTCATCAA
46808203 AATTTCTTC
1 AATTTCTTC
*
46808212 AAGTTCTTC
1 AATTTCTTC
46808221 AATTTCTTC
1 AATTTCTTC
46808230 AATTTCTTC
1 AATTTCTTC
46808239 A
1 A
46808240 TAGATTCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTTCTTC
Found at i:46810644 original size:21 final size:21
Alignment explanation
Indices: 46810620--46810660 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46810610 ATGTGCTGCG
46810620 GAAAAAAAAGAGAAAAAGAAA
1 GAAAAAAAAGAGAAAAAGAAA
* *
46810641 GAAAGAGAAGAGAAAAAGAA
1 GAAAAAAAAGAGAAAAAGAA
46810661 TGTATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAGAGAAAAAGAAA
Found at i:46810660 original size:11 final size:11
Alignment explanation
Indices: 46810620--46810660 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
46810610 ATGTGCTGCG
*
46810620 GAAAAAAAAGA
1 GAAAAAGAAGA
46810631 GAAAAAGAA-A
1 GAAAAAGAAGA
*
46810641 GAAAGAGAAGA
1 GAAAAAGAAGA
46810652 GAAAAAGAA
1 GAAAAAGAA
46810661 TGTATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAGA
Found at i:46810787 original size:3 final size:3
Alignment explanation
Indices: 46810779--46810813 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
46810769 TTTTAGTTAG
* *
46810779 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAG TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
46810814 AGATGTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:46813760 original size:21 final size:19
Alignment explanation
Indices: 46813736--46813827 Score: 80
Period size: 18 Copynumber: 4.6 Consensus size: 19
46813726 TTCTTCTTCT
*
46813736 TTCTTTTTTTTTTCTCTTCGC
1 TTCTTTTTCTTTTCT-TTC-C
*
46813757 TTCTCATTTCCTTTTCTTTCC
1 TTCT--TTTTCTTTTCTTTCC
46813778 TTCTTTTTC-TTTCTTTCC
1 TTCTTTTTCTTTTCTTTCC
*
46813796 TT-TTCTTTCCTTTTCTTTCT
1 TTCTT-TTT-CTTTTCTTTCC
*
46813816 TTCTTCTTCTTT
1 TTCTTTTTCTTT
46813828 CCCTCTCCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.03
18 14 0.23
19 9 0.15
20 12 0.20
21 11 0.18
22 3 0.05
23 9 0.15
ACGTcount: A:0.01, C:0.27, G:0.01, T:0.71
Consensus pattern (19 bp):
TTCTTTTTCTTTTCTTTCC
Found at i:46813787 original size:14 final size:14
Alignment explanation
Indices: 46813768--46813828 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
46813758 TCTCATTTCC
46813768 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
* *
46813782 TTTTCTTTCTTTCC
1 TTTTCTTTCCTTCT
46813796 TTTTCTTTCCTT-T
1 TTTTCTTTCCTTCT
46813809 TCTTTCTTT-CTTCT
1 T-TTTCTTTCCTTCT
46813823 TCTTTC
1 T-TTTC
46813829 CCTCTCCTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.10
14 37 0.90
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:46813820 original size:38 final size:41
Alignment explanation
Indices: 46813732--46813828 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 41
46813722 CCTCTTCTTC
*
46813732 TTCTTTCTTTTTTTTTTCTCTTCGCTTCTCATTTCCTTTTCT
1 TTCTTTC-TTTTTCTTTCTCTTCGCTTCTCATTTCCTTTTCT
* *
46813774 TTCCTTCTTTTTCTTTCT-TTC-CTTTTC-TTTCCTTTTCT
1 TTCTTTCTTTTTCTTTCTCTTCGCTTCTCATTTCCTTTTCT
*
46813812 TTCTTTCTTCTTCTTTC
1 TTCTTTCTTTTTCTTTC
46813829 CCTCTCCTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 26 0.52
39 5 0.10
40 3 0.06
41 10 0.20
42 6 0.12
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (41 bp):
TTCTTTCTTTTTCTTTCTCTTCGCTTCTCATTTCCTTTTCT
Found at i:46813828 original size:28 final size:28
Alignment explanation
Indices: 46813763--46813820 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
46813753 TCGCTTCTCA
46813763 TTTCCTTTTCTTTCCTTCTTTTTCTTTC
1 TTTCCTTTTCTTTCCTTCTTTTTCTTTC
46813791 TTTCCTTTTCTTTCCTT-TTCTTTCTTTC
1 TTTCCTTTTCTTTCCTTCTT-TTTCTTTC
46813819 TT
1 TT
46813821 CTTCTTTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (28 bp):
TTTCCTTTTCTTTCCTTCTTTTTCTTTC
Found at i:46813839 original size:24 final size:24
Alignment explanation
Indices: 46813788--46813844 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
46813778 TTCTTTTTCT
* * *
46813788 TTCTTTCCTTTTCTTTCCTTTTCT
1 TTCTTTCCTTTTCTTTCCCTCTCC
46813812 TTCTTT-CTTCTTCTTTCCCTCTCC
1 TTCTTTCCTT-TTCTTTCCCTCTCC
46813836 TTCTCTTCC
1 TTCT-TTCC
46813845 CCCCCCACCG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 21 0.78
25 2 0.07
26 1 0.04
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (24 bp):
TTCTTTCCTTTTCTTTCCCTCTCC
Found at i:46815234 original size:11 final size:10
Alignment explanation
Indices: 46815220--46815283 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
46815210 TTCTTAAATT
46815220 ATTATTAAAA
1 ATTATTAAAA
46815230 A--ATTAAAA
1 ATTATTAAAA
* *
46815238 AATATAAAAA
1 ATTATTAAAA
46815248 ATTAATTAAAA
1 ATT-ATTAAAA
* *
46815259 ATTATTTAGA
1 ATTATTAAAA
46815269 ATTA-TAAGAA
1 ATTATTAA-AA
46815279 ATTAT
1 ATTAT
46815284 AAATAATGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
8 8 0.19
9 2 0.05
10 23 0.55
11 9 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:46815245 original size:9 final size:8
Alignment explanation
Indices: 46815223--46815252 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
46815213 TTAAATTATT
46815223 ATTAAAAA
1 ATTAAAAA
46815231 ATTAAAAA
1 ATTAAAAA
46815239 ATATAAAAA
1 AT-TAAAAA
46815248 ATTAA
1 ATTAA
46815253 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
ATTAAAAA
Found at i:46815344 original size:165 final size:161
Alignment explanation
Indices: 46815160--46815487 Score: 611
Period size: 165 Copynumber: 2.0 Consensus size: 161
46815150 ACAGTTGTCC
*
46815160 AAGCTCAAATAACTTGGGTAACCATTTGTCTAGGTTCATTTTAGAGCAGTTTCTTAAATTATTAT
1 AAGCTCAAATAACTTGGGTAACCATTTGTCTAGGTTCATTTTAGAGCAATTTCTTAAATTATTAT
46815225 TAAAAAATTAAAAAATATAAAAAATTAATTAAAAATTATTTAGAATTATAAGAAATTATAAATAA
66 TAAAAAATTAAAAAATATAAAAAATTAATTAAAAATTATTTAGAATTATAAGAAATTATAAATAA
46815290 TGATTGATTTTTTTTTTTTAATTTTAAAAATTGTA
131 TGATTGA----TTTTTTTTAATTTTAAAAATTGTA
46815325 AAGCTCAAATAACTTGGGTAACCATTTGTCTAGGTTCATTTTAGAGCAATTTCTTAAATTATTAT
1 AAGCTCAAATAACTTGGGTAACCATTTGTCTAGGTTCATTTTAGAGCAATTTCTTAAATTATTAT
46815390 TAAAAAATTAAAAAATATAAAAAATTAATTAAAAATTATTTAGAATTATAAGAAATTATAAATAA
66 TAAAAAATTAAAAAATATAAAAAATTAATTAAAAATTATTTAGAATTATAAGAAATTATAAATAA
46815455 TGATTGATTTTTTTTAATTTTAAAAATTGTA
131 TGATTGATTTTTTTTAATTTTAAAAATTGTA
46815486 AA
1 AA
46815488 AACTATATAT
Statistics
Matches: 162, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
161 26 0.16
165 136 0.84
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (161 bp):
AAGCTCAAATAACTTGGGTAACCATTTGTCTAGGTTCATTTTAGAGCAATTTCTTAAATTATTAT
TAAAAAATTAAAAAATATAAAAAATTAATTAAAAATTATTTAGAATTATAAGAAATTATAAATAA
TGATTGATTTTTTTTAATTTTAAAAATTGTA
Found at i:46815399 original size:11 final size:10
Alignment explanation
Indices: 46815385--46815448 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
46815375 TTCTTAAATT
46815385 ATTATTAAAA
1 ATTATTAAAA
46815395 A--ATTAAAA
1 ATTATTAAAA
* *
46815403 AATATAAAAA
1 ATTATTAAAA
46815413 ATTAATTAAAA
1 ATT-ATTAAAA
* *
46815424 ATTATTTAGA
1 ATTATTAAAA
46815434 ATTA-TAAGAA
1 ATTATTAA-AA
46815444 ATTAT
1 ATTAT
46815449 AAATAATGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
8 8 0.19
9 2 0.05
10 23 0.55
11 9 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:46815401 original size:8 final size:8
Alignment explanation
Indices: 46815388--46815417 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
46815378 TTAAATTATT
46815388 ATTAAAAA
1 ATTAAAAA
46815396 ATTAAAAA
1 ATTAAAAA
46815404 ATATAAAAA
1 AT-TAAAAA
46815413 ATTAA
1 ATTAA
46815418 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
ATTAAAAA
Found at i:46815783 original size:20 final size:20
Alignment explanation
Indices: 46815758--46815796 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
46815748 TTTTTAATAA
46815758 TTAAAAAATATT-ATAATTTC
1 TTAAAAAA-ATTAATAATTTC
46815778 TTAAAAAAATTAATAATTT
1 TTAAAAAAATTAATAATTT
46815797 TTATATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAAAAATTAATAATTTC
Found at i:46817462 original size:7 final size:7
Alignment explanation
Indices: 46817452--46817478 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
46817442 AGTTTGGTAT
46817452 TTGGGAA
1 TTGGGAA
46817459 TTGGGAA
1 TTGGGAA
46817466 TTGGGAA
1 TTGGGAA
46817473 TTGGGA
1 TTGGGA
46817479 GGGTGCAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.30
Consensus pattern (7 bp):
TTGGGAA
Found at i:46818644 original size:23 final size:23
Alignment explanation
Indices: 46818618--46818669 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
46818608 ATTAATAATG
* *
46818618 ATATTATTAATGAAATTTAGATA
1 ATATTATTAATAAAATTTAGAAA
* *
46818641 ATATTTTTAATAAAATTTATAAA
1 ATATTATTAATAAAATTTAGAAA
46818664 ATATTA
1 ATATTA
46818670 CCAATAGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
ATATTATTAATAAAATTTAGAAA
Found at i:46823874 original size:131 final size:130
Alignment explanation
Indices: 46823657--46824302 Score: 783
Period size: 131 Copynumber: 4.9 Consensus size: 130
46823647 GTTTAACATG
* * *
46823657 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGTTGATTTACAATCATAGTCT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGTTGATTTACGATCACA-ACT
* *
46823722 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTGAGTTAGATGATTTTCTATCGTTGCTCC
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTAAGTTAGCTGATTTTCTATCGTTGCTCC
46823787 A
130 A
* * * *
46823788 GACAACTCGCTGATTTAAGATCACAACTAATATTATTAAGGCTCGCTGATTAACGATCACAACAT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGTTGATTTACGATCACAAC-T
* * * * * *
46823853 AAGTTCATTTGATTTATTATCATGAACGATTTCATCTGAGTTAGCTAATTTTTTATCAG-TGCTC
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTAAGTTAGCTGATTTTCTATC-GTTGCTC
46823917 CA
129 CA
** * * * * * *
46823919 AACAACTCATTGATTTAAGACCACAACTAATATTATTAGGGCTCGTTGATTTACGGTTACAGTCT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGTTGATTTACGATCACA-ACT
* * * *
46823984 AAGTTCATTTGATTTACTATCATGAACAATTTTATTTAAGTTAGTTGATTTTCTATCATTGCTCT
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTAAGTTAGCTGATTTTCTATCGTTGCTCC
46824049 A
130 A
* * * * * * * *
46824050 AATAGCTCGTTGATTTAAGATCACAATTGATATTATTCAGGCTCGCTAATTTACGATCAAAACCT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGTTGATTTACGATCACAA-CT
* * * * *
46824115 AAGTTCA-TTGATTTACTATCATGAACAATTTAATCTAAGTTAGCTTATTTTCTATCGCTACTCA
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTAAGTTAGCTGATTTTCTATCGTTGCTCC
46824179 A
130 A
** * * * * *
46824180 AACAGTTTGCTGATTTAAGATCACAACTGACATTATTAAGGTTTGTTGATTTATGATCACAACTT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGTTGATTTACGATCACAAC-T
* *
46824245 AAGTTTATTTGATTTACTATCATGAACAATTTTCTCTAAGTTAGCTGATTTTCTATCG
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTAAGTTAGCTGATTTTCTATCG
46824303 CTATCCTTAA
Statistics
Matches: 436, Mismatches: 72, Indels: 14
0.84 0.14 0.03
Matches are distributed among these distances:
129 1 0.00
130 107 0.25
131 326 0.75
132 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (130 bp):
AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGTTGATTTACGATCACAACTA
AGTTCATTTGATTTACTATCATGAACAATTTTATCTAAGTTAGCTGATTTTCTATCGTTGCTCCA
Found at i:46826594 original size:25 final size:25
Alignment explanation
Indices: 46826520--46826597 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
46826510 CTCTTAAGCC
** *
46826520 ATATAACGGGAAGCTCATGTGAGCC
1 ATATAACGGGAAGCTCATAAGAGCT
* * * * *
46826545 ATGTATCAGGAAGCTTATCCA-AGCT
1 ATATAACGGGAAGCTCAT-AAGAGCT
46826570 ATATAACGGGAAGCTCATAAGAGCT
1 ATATAACGGGAAGCTCATAAGAGCT
46826595 ATA
1 ATA
46826598 GTCAGGAAGC
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATAAGAGCT
Found at i:46826641 original size:24 final size:24
Alignment explanation
Indices: 46826614--46826718 Score: 72
Period size: 24 Copynumber: 4.3 Consensus size: 24
46826604 AAGCTCATGC
*
46826614 GAGCCAATATCGGGTAGCTCCGAA
1 GAGCCAATATCGGGAAGCTCCGAA
* * * *
46826638 GAGCCATTAACAGGAAGCTCTGAA
1 GAGCCAATATCGGGAAGCTCCGAA
* *
46826662 TAGCCATATATCGGGAAG-TTC-AA
1 GAGCCA-ATATCGGGAAGCTCCGAA
* *
46826685 GTGAGCC-ATATTGGGAAGCTCACAAA
1 --GAGCCAATATCGGGAAGCTC-CGAA
46826711 GAGCCAAT
1 GAGCCAAT
46826719 TAAAAGGAAG
Statistics
Matches: 60, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
23 12 0.20
24 31 0.52
25 15 0.25
26 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCCGAA
Found at i:46830633 original size:74 final size:75
Alignment explanation
Indices: 46830502--46830654 Score: 238
Period size: 74 Copynumber: 2.1 Consensus size: 75
46830492 CGTTTTGTTA
* *
46830502 TTTTTTGAAGAATTACTAATATTTTTACACATATAATTAAACCAATAACAACGTAATTTAAAGAA
1 TTTTTTGAAGAATGACTAATATTTTTACACATATAATCAAACCAATAACAACGTAATTTAAAGAA
46830567 TTAATAATACT
66 TTAATAATA-T
* *
46830578 TTTTTTGAAGAATGACTAATATTTTTACTCA-ATAA-CAAATCAATAACAACGTAATTTAAAGAA
1 TTTTTTGAAGAATGACTAATATTTTTACACATATAATCAAACCAATAACAACGTAATTTAAAGAA
*
46830641 TTACTAATAT
66 TTAATAATAT
46830651 TTTT
1 TTTT
46830655 AAATATGTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
73 5 0.07
74 34 0.47
75 4 0.06
76 29 0.40
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.39
Consensus pattern (75 bp):
TTTTTTGAAGAATGACTAATATTTTTACACATATAATCAAACCAATAACAACGTAATTTAAAGAA
TTAATAATAT
Found at i:46833954 original size:34 final size:34
Alignment explanation
Indices: 46833911--46833981 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
46833901 ACCCCTCATA
46833911 TAACATGAAGGCAACCCTAGTAGAAATACAAGGG
1 TAACATGAAGGCAACCCTAGTAGAAATACAAGGG
46833945 TAACATGAAGGCAACCCTAGTAGAAATACAAGGG
1 TAACATGAAGGCAACCCTAGTAGAAATACAAGGG
46833979 TAA
1 TAA
46833982 GTCGTTCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (34 bp):
TAACATGAAGGCAACCCTAGTAGAAATACAAGGG
Found at i:46836265 original size:23 final size:23
Alignment explanation
Indices: 46836238--46836281 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46836228 AGTACTATTA
* * *
46836238 ATGATTACTTAATTTAATTAAAC
1 ATGATTAATTAAGTAAATTAAAC
46836261 ATGATTAATTAAGTAAATTAA
1 ATGATTAATTAAGTAAATTAA
46836282 GGATTAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (23 bp):
ATGATTAATTAAGTAAATTAAAC
Found at i:46841918 original size:44 final size:44
Alignment explanation
Indices: 46841852--46842480 Score: 528
Period size: 44 Copynumber: 14.3 Consensus size: 44
46841842 TCCACTTCCT
* *
46841852 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCGC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * * *
46841896 GCCAATACATGAAGACAAGATCTGC-GTCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
46841938 TACCCATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * *
46841983 GCCAATACATGAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCT-TCGATCTACTTCG-C
* * * * *
46842028 ACCATTATGGGAAGACAAAATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
** * * * *
46842070 TACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * * *
46842115 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTATTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG-C
* * *
46842160 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCAC-TC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * *
46842201 TACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
46842246 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG-C
* * *
46842291 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * *
46842333 TACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
46842378 GCCAATACATGAAGACAAGATCTACTTTCTGT-GATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCT-TCGATCTACTTCG-C
* *
46842423 ACCAATATGGGAAGACAAGATCTGC-ATCTTTGATCTACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
46842465 TACCAATATAGGAAGA
1 -ACCAATATAGGAAGA
46842481 TAGGATATGT
Statistics
Matches: 454, Mismatches: 109, Indels: 45
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.00
42 26 0.06
43 99 0.22
44 237 0.52
45 91 0.20
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
Found at i:46842081 original size:132 final size:132
Alignment explanation
Indices: 46841870--46842485 Score: 984
Period size: 132 Copynumber: 4.7 Consensus size: 132
46841860 AGGAAGGCAG
* * * *** *
46841870 GATCTGCTATCTTCGATCTACTTCG-CGCCAATACATGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* * * *
46841934 TTCCTACCCATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
46841999 AA
131 AA
* * *
46842001 GATCTGCTTTCTGTGATCTACTTCGCCACCATTATGGGAAGACAAAATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* **
46842066 TTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
46842131 AA
131 AA
*
46842133 GATCTGCTTTCTGCGATCTATTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
*
46842198 -TCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
46842262 AA
131 AA
46842264 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
*
46842329 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
46842394 AA
131 AA
* * * * *
46842396 GATCTACTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCTAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
*
46842461 TTCCTACCAATATAGGAAGATAGGA
66 TTCCTACCAATATAGGAAGACAGGA
46842486 TATGTTCCTT
Statistics
Matches: 452, Mismatches: 31, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
131 148 0.33
132 304 0.67
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:46842220 original size:219 final size:219
Alignment explanation
Indices: 46841841--46842243 Score: 526
Period size: 219 Copynumber: 1.8 Consensus size: 219
46841831 TGTTTTTTCA
* * *
46841841 ATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCGCGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
46841906 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCCATATAGGAAGATAGGACCTGCTATCTTC
66 GAAGACAAGATCTGCGTCGTCGATCCACTTCCCACCAATATAGGAAGACAAGACCTGCTATCGTC
* * * * * *
46841971 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCATTAT
131 GATCCACTTCACACCAATACAGGAAGACAAGACCTACTATCTGTGATCTACTTCGCCACCATTAT
46842036 GGGAAGACAAAATCTGCATCGTCG
196 GGGAAGACAAAATCTGCATCGTCG
* * *
46842060 ATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * * * *
46842125 GAAGACAAGATCTGCTTTC-TGCGATCTATTTCGCCACCAATATGGGAAGACAAGATCTGC-ATC
66 GAAGACAAGATCTGC-GTCGT-CGATCCACTTC-CCACCAATATAGGAAGACAAGACCTGCTATC
* *
46842188 GTCGATCCAC-TC-CTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTC
128 GTCGATCCACTTCAC-ACCAATACAGGAAGACAAGACCTACTATCTGTGATCTACTTC
46842244 ACGCCAATAC
Statistics
Matches: 156, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
218 1 0.01
219 112 0.72
220 22 0.14
221 21 0.13
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (219 bp):
ATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCGTCGTCGATCCACTTCCCACCAATATAGGAAGACAAGACCTGCTATCGTC
GATCCACTTCACACCAATACAGGAAGACAAGACCTACTATCTGTGATCTACTTCGCCACCATTAT
GGGAAGACAAAATCTGCATCGTCG
Found at i:46842240 original size:263 final size:264
Alignment explanation
Indices: 46841870--46842480 Score: 983
Period size: 263 Copynumber: 2.3 Consensus size: 264
46841860 AGGAAGGCAG
* * * *** *
46841870 GATCTGCTATCTTCGATCTACTTCG-CGCCAATACATGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* * * *
46841934 TTCCTACCCATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* *
46841999 AAGATCTGCTTTCTGTGATCTACTTCGCCACCATTATGGGAAGACAAAATCTGCATCGTCGATCC
131 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCATCGTCGATCC
** **
46842064 ACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAG
196 ACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAG
46842129 ACAA
261 ACAA
*
46842133 GATCTGCTTTCTGCGATCTATTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
*
46842198 -TCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGAC
*
46842262 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCC
131 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCATCGTCGATCC
46842327 ACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAG
196 ACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAG
46842392 ACAA
261 ACAA
* * * * *
46842396 GATCTACTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCTAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
46842461 TTCCTACCAATATAGGAAGA
66 TTCCTACCAATATAGGAAGA
46842481 TAGGATATGT
Statistics
Matches: 320, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
263 267 0.83
264 53 0.17
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (264 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
TTCCTACCAATATAGGAAGACAAGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCATCGTCGATCC
ACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAG
ACAA
Found at i:46856269 original size:23 final size:22
Alignment explanation
Indices: 46856217--46856269 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
46856207 TCCACGTCTT
*
46856217 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
46856239 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
46856262 TTTCTTTT
1 TTTCTTTT
46856270 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:46859785 original size:615 final size:623
Alignment explanation
Indices: 46858760--46859902 Score: 1689
Period size: 615 Copynumber: 1.8 Consensus size: 623
46858750 TCACAAAGGC
* * * * *
46858760 AAGGGGATTGGAGAACTTCCCATTTGTTGATTTTGTCGAGACTACAAAATCCATGATTGAAGCAA
1 AAGGCGATTGAAGAACTTCCCATTTCTCGATTCTGTCGAGACTACAAAATCCATGATTGAAGCAA
* *
46858825 CGATCGACAAAAAATAGCTTTGATACCATACTAGAAATATAGAAGAAGAAGAAGAGTAATTCGTT
66 CGATCGACAAAAAATAACTTTGATACCATACTAGAAATATAGAAG-AGAAGAAGAGTAATTCATT
* * *
46858890 AATAATACTATTAGAATACAGGGGCCTTGTGTATTTATACACTGGAGGCTTAATAGAAGTGATAA
130 AATAATACTATTAAAATACAAGGGCCTTGTGTATTTATACACTGGAGGCTTAACAGAAGTGATAA
*
46858955 CAAAAATGATAACAGAAATGGAAACTACTCATAACTAGATTTAGTTGAGCCTAACTTATAGAAGT
195 CAAAAATGATAACAGAAATGGAAACTACTCATAACTAGATTTAGTTAAGCCTAACTTATAGAAGT
* * * * *
46859020 TATCTAGTTACTTCCTTACTATTCCATAGGTATAAGAACGAGAACCAAGTAGTTAATGTCATGGT
260 TATCTA-TTACCTCCTTACTATTCCATAGGTACAAGAACGAGAACCAAGTAGCTAATGGCATGGC
* * *
46859085 TGTCTTTGATGGAAATCTCCCTTTACGCCTTCATGTTTATTCATCTCTCTATGACTTTATTTTAA
324 TGCCTGTGATGGAAATCTCCCTTTACGCCTTCATGTTTATGCATCTCTCTATGACTTTATTTTAA
* * * **
46859150 AAGGCTCTATATGATGATTGTAGCATGGCTTTGCCTAGATTAGTTACTGTGTAATTGTTTTATTT
389 AAGGCTCTATATGATGATTGTAGCATGGCTTTGCCTAGATTAGTTACTATGTAATCGTTCTATCC
* * *
46859215 CC-CCTCTTTTTAAAAAAAAATAAATTCAACAATTGAAATGC-ATTCAATCATGCAAAAAAATTG
454 CCTCCCCTTTTTAAAAAAAAATAAATTCAACAATTGAAATGCAATGCAATCATACAAAAAAATTG
46859278 ATACATTTTCTTTGGGTGTAAATTCAAGATGTTTGGAAGTTACATTCCACTTGAGACGCAAGTTA
519 ATA-ATTTTCTTTGGGTGTAAATTCAAGATGTTTGGAAGTTACATTCCACTTGAGACGCAAGTTA
46859343 CTATCATTTACAAGAATTGCCACTTTTTGAGAAGCAAATGT
583 CTATCATTTACAAGAATTGCCACTTTTTGAGAAGCAAATGT
* * ** *
46859384 AAGGCGATTGAAGAACTTTCCATTTCTCGATTCTGTCGAGATTGTAGAATCCATGATTGAAGCAA
1 AAGGCGATTGAAGAACTTCCCATTTCTCGATTCTGTCGAGACTACAAAATCCATGATTGAAGCAA
*
46859449 CGATC-AGCAAAAAAATAACTTTGATACCATACTAGAAATATAG-AG-TAAGAAGAGTAATTCAT
66 CGATCGA-C-AAAAAATAACTTTGATACCATACTAGAAATATAGAAGAGAAGAAGAGTAATTCAT
* *
46859511 TAATCATACTCTTAAAATACAAGGGCCTTGTGTATTTATACACTGGAGGCTTAACAGAAGTGATA
129 TAATAATACTATTAAAATACAAGGGCCTTGTGTATTTATACACTGGAGGCTTAACAGAAGTGATA
* *
46859576 ACAAAAATGGATAATAGAAATGGAAACTACTCATAACTAGATTTAGTTAAGCCTAACTTATAGCA
194 ACAAAAAT-GATAACAGAAATGGAAACTACTCATAACTAGATTTAGTTAAGCCTAACTTATAGAA
* * *
46859641 G-T-T-T-TT-CCT-C-TACTATTCCATAGGTACAAGGAGGGGAACCAAGTAGCTAATGGCATGG
258 GTTATCTATTACCTCCTTACTATTCCATAGGTACAAGAACGAGAACCAAGTAGCTAATGGCATGG
* * *
46859699 CTGCCTGTGTTGGAAATCTCCTTTTATGCCTTCATGTTTATGCATCTCTCTATGACTTTATTTTA
323 CTGCCTGTGATGGAAATCTCCCTTTACGCCTTCATGTTTATGCATCTCTCTATGACTTTATTTTA
* * *
46859764 AAAGGCTGTATATGATGATTGTAGTATGGTTTTGCCTAGATTAGTTACTATGTAATCGTTCTATC
388 AAAGGCTCTATATGATGATTGTAGCATGGCTTTGCCTAGATTAGTTACTATGTAATCGTTCTATC
* * * * *
46859829 CCCTCCCCTTTTTAAAAAAAATTAAATTCAACGATTGCAATGCAATGCTATCATACAAAAGAATT
453 CCCTCCCCTTTTTAAAAAAAAATAAATTCAACAATTGAAATGCAATGCAATCATACAAAAAAATT
46859894 GATAATTTT
518 GATAATTTT
46859903 TTTCCTCTTC
Statistics
Matches: 463, Mismatches: 51, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
615 160 0.35
616 41 0.09
617 23 0.05
618 2 0.00
620 1 0.00
621 1 0.00
622 84 0.18
623 55 0.12
624 63 0.14
625 33 0.07
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (623 bp):
AAGGCGATTGAAGAACTTCCCATTTCTCGATTCTGTCGAGACTACAAAATCCATGATTGAAGCAA
CGATCGACAAAAAATAACTTTGATACCATACTAGAAATATAGAAGAGAAGAAGAGTAATTCATTA
ATAATACTATTAAAATACAAGGGCCTTGTGTATTTATACACTGGAGGCTTAACAGAAGTGATAAC
AAAAATGATAACAGAAATGGAAACTACTCATAACTAGATTTAGTTAAGCCTAACTTATAGAAGTT
ATCTATTACCTCCTTACTATTCCATAGGTACAAGAACGAGAACCAAGTAGCTAATGGCATGGCTG
CCTGTGATGGAAATCTCCCTTTACGCCTTCATGTTTATGCATCTCTCTATGACTTTATTTTAAAA
GGCTCTATATGATGATTGTAGCATGGCTTTGCCTAGATTAGTTACTATGTAATCGTTCTATCCCC
TCCCCTTTTTAAAAAAAAATAAATTCAACAATTGAAATGCAATGCAATCATACAAAAAAATTGAT
AATTTTCTTTGGGTGTAAATTCAAGATGTTTGGAAGTTACATTCCACTTGAGACGCAAGTTACTA
TCATTTACAAGAATTGCCACTTTTTGAGAAGCAAATGT
Found at i:46860722 original size:20 final size:20
Alignment explanation
Indices: 46860695--46860742 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
46860685 TATATTAAAA
* *
46860695 ATAT-AAAAAATATTTTTTT
1 ATATCAAAAAATAGTTTTTC
*
46860714 ATATCAAAAATTAGTTTTTC
1 ATATCAAAAAATAGTTTTTC
*
46860734 ATGTCAAAA
1 ATATCAAAA
46860743 TTTAATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (20 bp):
ATATCAAAAAATAGTTTTTC
Found at i:46864383 original size:4 final size:4
Alignment explanation
Indices: 46864374--46864420 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
46864364 TTATATGATG
*
46864374 AAAT AAAT -AAT AAATT ATAT AATATT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAA-T AAAT AA-A-T AAAT AAAT AAAT AAAT AAAT A
46864421 TTATATTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
4 26 0.70
5 5 0.14
6 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (4 bp):
AAAT
Found at i:46867849 original size:14 final size:15
Alignment explanation
Indices: 46867820--46867875 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
46867810 CAAACACACC
*
46867820 CTTAGTTTTTCAATA
1 CTTAATTTTTCAATA
46867835 CTTAATTTTTC-ATA
1 CTTAATTTTTCAATA
* *
46867849 CTTAAATTTTCAACA
1 CTTAATTTTTCAATA
*
46867864 CTTAATTCTTCA
1 CTTAATTTTTCA
46867876 TTTTATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 13 0.37
15 22 0.63
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (15 bp):
CTTAATTTTTCAATA
Found at i:46868868 original size:8 final size:8
Alignment explanation
Indices: 46868855--46868879 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46868845 AATTATTATT
46868855 TTTTAAAA
1 TTTTAAAA
46868863 TTTTAAAA
1 TTTTAAAA
46868871 TTTTAAAA
1 TTTTAAAA
46868879 T
1 T
46868880 ATTGATGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:46875094 original size:22 final size:23
Alignment explanation
Indices: 46875066--46875221 Score: 95
Period size: 24 Copynumber: 6.8 Consensus size: 23
46875056 AAAATTTAAT
*
46875066 AGCATATATACAACAAA-TGGGC
1 AGCATATATACAACAAATTGAGC
* * *
46875088 AGCATATACATACCAAATTGAGC
1 AGCATATATACAACAAATTGAGC
* * ** * *
46875111 AGCATTTTTACGCCAAAATTTAAC
1 AGCATATATACAAC-AAATTGAGC
*
46875135 AGCATATATACAACAAA-TGGGC
1 AGCATATATACAACAAATTGAGC
*
46875157 AGCATATACGTAC--CAAATTGAGT
1 AGCATATA--TACAACAAATTGAGC
* * * * *
46875180 AGCATTTTTACACCAAAATTTAAC
1 AGCATATATACAAC-AAATTGAGC
46875204 AGCATATATACAACAAAT
1 AGCATATATACAACAAAT
46875222 GGGCGGCATA
Statistics
Matches: 98, Mismatches: 28, Indels: 15
0.70 0.20 0.11
Matches are distributed among these distances:
21 3 0.03
22 28 0.29
23 30 0.31
24 37 0.38
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (23 bp):
AGCATATATACAACAAATTGAGC
Found at i:46875126 original size:23 final size:23
Alignment explanation
Indices: 46875030--46875221 Score: 79
Period size: 24 Copynumber: 8.3 Consensus size: 23
46875020 GTATATACAT
* *
46875030 ACCAAATTTAACAGCACTTT-TAC
1 ACCAAATTGAGCAGCA-TTTATAC
* ** *
46875053 ACCAAAATTTAATAGCATATATAC
1 ACC-AAATTGAGCAGCATTTATAC
* * * * *
46875077 AACAAA-TGGGCAGCATATACAT
1 ACCAAATTGAGCAGCATTTATAC
*
46875099 ACCAAATTGAGCAGCATTTTTAC
1 ACCAAATTGAGCAGCATTTATAC
* * * *
46875122 GCCAAAATTTAACAGCATATATAC
1 ACC-AAATTGAGCAGCATTTATAC
* *
46875146 AACAAA-TGGGCAGCA--TATAC
1 ACCAAATTGAGCAGCATTTATAC
* *
46875166 GTACCAAATTGAGTAGCATTTTTAC
1 --ACCAAATTGAGCAGCATTTATAC
* * *
46875191 ACCAAAATTTAACAGCATATATAC
1 ACC-AAATTGAGCAGCATTTATAC
*
46875215 AACAAAT
1 ACCAAAT
46875222 GGGCGGCATA
Statistics
Matches: 124, Mismatches: 35, Indels: 20
0.69 0.20 0.11
Matches are distributed among these distances:
20 5 0.04
22 26 0.21
23 38 0.31
24 51 0.41
25 4 0.03
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (23 bp):
ACCAAATTGAGCAGCATTTATAC
Found at i:46875261 original size:69 final size:69
Alignment explanation
Indices: 46874976--46875237 Score: 371
Period size: 69 Copynumber: 3.8 Consensus size: 69
46874966 TTAAACAACA
* * * * * * *
46874976 TTTACACACTAAAATTTGGACAGCTTATATACAACAACTGGGTAGTATATACATACCAAATTTAA
1 TTTACAC-C-AAAATTT-AACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAG
* *
46875041 CAGCACT
63 TAGCATT
* *
46875048 TTTACACCAAAATTTAATAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAGCAG
1 TTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAGTAG
46875113 CATT
66 CATT
* *
46875117 TTTACGCCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATACGTACCAAATTGAGTAG
1 TTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAGTAG
46875182 CATT
66 CATT
*
46875186 TTTACACCAAAATTTAACAGCATATATACAACAAATGGGCGGCATATACATA
1 TTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATACATA
46875238 ATACATCATA
Statistics
Matches: 174, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
69 159 0.91
70 7 0.04
71 1 0.01
72 7 0.04
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (69 bp):
TTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGAGTAG
CATT
Found at i:46875911 original size:41 final size:41
Alignment explanation
Indices: 46875838--46876024 Score: 259
Period size: 41 Copynumber: 4.6 Consensus size: 41
46875828 ACCGGCATAA
* * * * * *
46875838 AGCCTGCTAGGTACAAAGCCCGATACATTTCACCTGCACAA
1 AGCCTGCTAGGCATAAAGCCTGATATAATTCACCTGCACAG
* * *
46875879 AGCCTGCTAGACATAAAGTCTGATATAATTCACCTGCATAG
1 AGCCTGCTAGGCATAAAGCCTGATATAATTCACCTGCACAG
46875920 AGCCTGCTAGGCATAAAGCCTGATATAATTCA-CTGGCACAG
1 AGCCTGCTAGGCATAAAGCCTGATATAATTCACCT-GCACAG
* *
46875961 AGCCTGCTAGGCATAAAGCCTGATATAAATCACCGGCACAG
1 AGCCTGCTAGGCATAAAGCCTGATATAATTCACCTGCACAG
46876002 AGCCTGCTAGGCATAAAGCCTGA
1 AGCCTGCTAGGCATAAAGCCTGA
46876025 ACTTACAAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.02
41 127 0.98
42 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (41 bp):
AGCCTGCTAGGCATAAAGCCTGATATAATTCACCTGCACAG
Found at i:46877298 original size:13 final size:13
Alignment explanation
Indices: 46877280--46877304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46877270 TGTAATACCC
46877280 TAATTACAAACTT
1 TAATTACAAACTT
46877293 TAATTACAAACT
1 TAATTACAAACT
46877305 CAGTAGACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATTACAAACTT
Found at i:46879312 original size:24 final size:23
Alignment explanation
Indices: 46879283--46879543 Score: 125
Period size: 24 Copynumber: 11.3 Consensus size: 23
46879273 CATTTATATG
* *
46879283 CCAAATTAAACAGCATTTATACA
1 CCAAATTGAACAGCATATATACA
* *
46879306 CCAAAATTTGGACAGCTTATATACA
1 CC-AAA-TTGAACAGCATATATACA
* ** * *
46879331 ACAAA-TGGGCAGCATATACATA
1 CCAAATTGAACAGCATATATACA
* *
46879353 CCAAATTTAACAGCACT-TTTACA
1 CCAAATTGAACAGCA-TATATACA
*
46879376 CCAAAATTTAACAGCATATATACA
1 CC-AAATTGAACAGCATATATACA
* *** * *
46879400 ACAAA-TGGGTAGCATATACATA
1 CCAAATTGAACAGCATATATACA
* * *
46879422 CCAAATTGAGCAGCATTTTTACA
1 CCAAATTGAACAGCATATATACA
*
46879445 CCAAAATTTAACAGCATATATACA
1 CC-AAATTGAACAGCATATATACA
* ** * ***
46879469 ACAAA-TGGGCATCATATACGTA
1 CCAAATTGAACAGCATATATACA
** * *
46879491 CCAAATTGAGTAGCATTTTTACA
1 CCAAATTGAACAGCATATATACA
*
46879514 CCAAAATTTAACAGCATATATACA
1 CC-AAATTGAACAGCATATATACA
*
46879538 ACAAAT
1 CCAAAT
46879544 AGGCAACATA
Statistics
Matches: 170, Mismatches: 58, Indels: 20
0.69 0.23 0.08
Matches are distributed among these distances:
22 46 0.27
23 48 0.28
24 61 0.36
25 15 0.09
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (23 bp):
CCAAATTGAACAGCATATATACA
Found at i:46879414 original size:69 final size:69
Alignment explanation
Indices: 46879283--46879559 Score: 419
Period size: 69 Copynumber: 4.0 Consensus size: 69
46879273 CATTTATATG
* * * *
46879283 CCAAATTAAACAGCATTTATACACCAAAATTTGGACAGCTTATATACAACAAATGGGCAGCATAT
1 CCAAATTGAACAGCATTTTTACACCAAAATTT-AACAGCATATATACAACAAATGGGCAGCATAT
46879348 ACATA
65 ACATA
* * *
46879353 CCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGTAGCATATA
1 CCAAATTGAACAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATA
46879418 CATA
66 CATA
* *
46879422 CCAAATTGAGCAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCATCATATA
1 CCAAATTGAACAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATA
*
46879487 CGTA
66 CATA
** * *
46879491 CCAAATTGAGTAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGCAACATATA
1 CCAAATTGAACAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATA
46879556 CATA
66 CATA
46879560 ATACATCATA
Statistics
Matches: 191, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
69 162 0.85
70 29 0.15
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (69 bp):
CCAAATTGAACAGCATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGGCAGCATATA
CATA
Found at i:46880452 original size:41 final size:41
Alignment explanation
Indices: 46880368--46880606 Score: 343
Period size: 41 Copynumber: 5.8 Consensus size: 41
46880358 TTGTATAAAA
* * * * * *
46880368 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATATAATT
* * * *
46880409 CACTGGCACAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
46880450 CACCGGCATAGAGCCTGCTAGGCATAAAGCCTGTTATAATT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATATAATT
*
46880491 CACCGGCACAGAGCCTTCTAGGCATAAAGCCTGATATAATT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATATAATT
*
46880532 CACCGGCACAGAGCCTTCTAGGCATAAAGCCTGATATAATT
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATATAATT
*
46880573 CACCGGCACAGAGCCTTCTAGGCATAAAGCCTGA
1 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGA
46880607 ACTTACAAAA
Statistics
Matches: 181, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 181 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (41 bp):
CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:46882514 original size:38 final size:38
Alignment explanation
Indices: 46882463--46882541 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
46882453 AGAAAGAAAG
*
46882463 AAAGTTTTGCCTTCTTTACATTTTGGTTCTCTCACCAA
1 AAAGTTTTGCCTTCTTTACAATTTGGTTCTCTCACCAA
46882501 AAAGTTTTGCCTTCTTTACAATTTGGTTCTCTCACCAA
1 AAAGTTTTGCCTTCTTTACAATTTGGTTCTCTCACCAA
46882539 AAA
1 AAA
46882542 TTTACCATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (38 bp):
AAAGTTTTGCCTTCTTTACAATTTGGTTCTCTCACCAA
Found at i:46890367 original size:88 final size:88
Alignment explanation
Indices: 46890230--46890971 Score: 1130
Period size: 88 Copynumber: 8.4 Consensus size: 88
46890220 TGGAACCGCA
* *
46890230 AGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAAATAGCAAATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
46890295 CAGCGAAGTAGATCGAAGATACC
66 CAGCGAAGTAGATCGAAGACACC
* *
46890318 AGCCTTATTTCCCTGAGCAGCAGTGGATTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
**
46890383 CAGCGAAGTAGATCGAAGACAGT
66 CAGCGAAGTAGATCGAAGACACC
* *
46890406 AGCCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
46890471 CAGCGACGTAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
* *
46890494 AGCCTTATCTCCCTGAGCAGCAGTGGAGTTGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGA
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
46890559 CAGCGAAGTAGATCGAAGATACC
66 CAGCGAAGTAGATCGAAGACACC
* ** * * * *
46890582 AACCTTATCTCCCTGAGCAGTTGTGGAGTAGGTTAAAAATAGCAGATCTTGTTTTCTTGTATTAG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
46890647 CAGTGAAGTAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
* * *
46890670 AGCCTTATCTCCTTAAGCAGCAGTGGGGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
46890735 CAGCGAAGTAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
* *
46890758 AGCCTTATCTCCCTGAGCAGCAGTGGAGTTGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
46890823 CAGCGAAGTAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
*
46890846 AGCCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-GACAGATCTTGTCTTCCTGTATTG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAG-CAGATCTTGTCTTCCTGTATTG
* * *
46890910 GCAGCGAAGTAGGTTGAAG-CAACA
65 GCAGCGAAGTAGATCGAAGAC-ACC
* **
46890934 AGTCTTATCTCCCTGAAGTTGCAAG-GGAGTAGGTTGAA
1 AGCCTTATCTCCCTG-AGCAGC-AGTGGAGTAGGTTGAA
46890972 GCAACAAGTC
Statistics
Matches: 593, Mismatches: 57, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
87 1 0.00
88 573 0.97
89 17 0.03
90 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
CAGCGAAGTAGATCGAAGACACC
Found at i:46890693 original size:43 final size:43
Alignment explanation
Indices: 46890645--46890876 Score: 112
Period size: 43 Copynumber: 5.3 Consensus size: 43
46890635 TTCTTGTATT
46890645 AGCAGTGAAGTAGATCGAAGACACCAGCCTTATCTCCTTAAGC
1 AGCAGTGAAGTAGATCGAAGACACCAGCCTTATCTCCTTAAGC
** * * * * * * * *
46890688 AGCAGTGGGGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTG-
1 AGCAGTGAAGTAGATCGAAGACACCAG-CCTTATC-TCCT-TA-AGC
* * *
46890734 -GCAGCGAAGTAGATCGAAGACACCAGCCTTATCTCCCTGAGC
1 AGCAGTGAAGTAGATCGAAGACACCAGCCTTATCTCCTTAAGC
* * * * * * * * * *
46890776 AGCAGTGGAGTTGGTTGAAAATAACAGATCTTGTCTTCCTGTATTG-
1 AGCAGTGAAGTAGATCGAAGACACCAG-CCTTATC-TCCT-TA-AGC
* * * *
46890822 -GCAGCGAAGTAGATCGAAGACACCAGCCCTATCTCCCTGAGC
1 AGCAGTGAAGTAGATCGAAGACACCAGCCTTATCTCCTTAAGC
*
46890864 AGCAGTGGAGTAG
1 AGCAGTGAAGTAG
46890877 GTTGAAAATG
Statistics
Matches: 125, Mismatches: 52, Indels: 24
0.62 0.26 0.12
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 54 0.43
44 19 0.15
45 43 0.34
46 3 0.02
47 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (43 bp):
AGCAGTGAAGTAGATCGAAGACACCAGCCTTATCTCCTTAAGC
Found at i:46893405 original size:26 final size:26
Alignment explanation
Indices: 46893370--46893419 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
46893360 ATGTGAAAAG
*
46893370 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
46893396 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
46893420 AGTTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:46893426 original size:104 final size:105
Alignment explanation
Indices: 46893291--46893660 Score: 581
Period size: 104 Copynumber: 3.6 Consensus size: 105
46893281 TTGTATATAA
** *
46893291 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
46893355 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
46893395 AGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
46893459 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * ***
46893499 AGGGGTTGCTAAGTGCTGATTCCACGGTTCATTGGTGGTGCTAAGTGCGATATCCATTGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
46893564 TGAAA--TGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
46893602 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
46893661 ATAACGGTTA
Statistics
Matches: 245, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
102 2 0.01
103 106 0.43
104 136 0.56
105 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:46898001 original size:19 final size:22
Alignment explanation
Indices: 46897968--46898011 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
46897958 ATTTTAATAA
46897968 TAAAATTTATCAATAATATT-T
1 TAAAATTTATCAATAATATTAT
46897989 TAAAATTT-T-AATAATATTAT
1 TAAAATTTATCAATAATATTAT
46898009 TAA
1 TAA
46898012 TATATTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 5 0.23
21 8 0.36
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATTTATCAATAATATTAT
Found at i:46898018 original size:11 final size:12
Alignment explanation
Indices: 46897996--46898051 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
46897986 TTTTAAAATT
46897996 TTAATAATATTA
1 TTAATAATATTA
46898008 TTAAT-ATATTA
1 TTAATAATATTA
*
46898019 TTGAAAAATATT-
1 TT-AATAATATTA
*
46898031 TATATTAATATT-
1 T-TAATAATATTA
46898043 TTAATAATA
1 TTAATAATA
46898052 AATATATGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
11 15 0.41
12 16 0.43
13 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
TTAATAATATTA
Found at i:46898054 original size:27 final size:27
Alignment explanation
Indices: 46897957--46898056 Score: 82
Period size: 27 Copynumber: 3.7 Consensus size: 27
46897947 ATTAAAATTT
*
46897957 TATTTTAATAATAAA-ATTTATCAATAA
1 TATTTTAATAATAAATATTTAT-ATTAA
* *
46897984 TATTTTAA-AATTTTAATA-ATATTATTAA
1 TATTTTAATAA--TAAATATTTA-TATTAA
* *
46898012 TATATTATTGAA-AAATATTTATATTAA
1 TATTTTAAT-AATAAATATTTATATTAA
46898039 TATTTTAATAATAAATAT
1 TATTTTAATAATAAATAT
46898057 ATGTTAAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
26 4 0.07
27 31 0.55
28 17 0.30
29 2 0.04
30 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
TATTTTAATAATAAATATTTATATTAA
Found at i:46898352 original size:25 final size:25
Alignment explanation
Indices: 46898318--46898366 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
46898308 GATTCAGCCC
46898318 AGCTGAAGGAGAAGAAGAAGAAGAG
1 AGCTGAAGGAGAAGAAGAAGAAGAG
46898343 AGCTGAAGGAGAAGAAGAAGAAGA
1 AGCTGAAGGAGAAGAAGAAGAAGA
46898367 AGGTGGTGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.39, T:0.04
Consensus pattern (25 bp):
AGCTGAAGGAGAAGAAGAAGAAGAG
Found at i:46898492 original size:13 final size:13
Alignment explanation
Indices: 46898476--46898519 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
46898466 TGTATAATTT
*
46898476 TTATTATTTTTTG
1 TTATTATTTTTAG
*
46898489 TTATTA-GTTTAG
1 TTATTATTTTTAG
*
46898501 TTATTATTGTTAG
1 TTATTATTTTTAG
46898514 TTATTA
1 TTATTA
46898520 AGATTAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (13 bp):
TTATTATTTTTAG
Found at i:46898650 original size:41 final size:40
Alignment explanation
Indices: 46898589--46898796 Score: 134
Period size: 40 Copynumber: 5.3 Consensus size: 40
46898579 GTTTAGTTAT
* *
46898589 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAA-AC
1 TAATTATTATT-TTAGTTAGTATTATTGTTAGTAAAAACAC
* * *
46898629 TAA-TATTTTTATTATGGTTAGTTATTA-GGATTAGTAAAAACCC
1 TAATTATTATT-TTA--GTTAG-TATTATTG-TTAGTAAAAACAC
* ****
46898672 TAATTATTATTTTAGTTAGTATGATTGTTAGTTTTTACA-
1 TAATTATTATTTTAGTTAGTATTATTGTTAGTAAAAACAC
* * *
46898711 TTA-TATTA--TT-GTTAGTTATTATTTTTAGT-AAAACCC
1 TAATTATTATTTTAGTTAG-TATTATTGTTAGTAAAAACAC
46898747 TAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAA-AC
1 TAATTATTATT-TTAGTTAGTATTATTGTT-AGTAAAAACAC
46898787 T-ATTATTATT
1 TAATTATTATT
46898797 GTTATTGTGT
Statistics
Matches: 129, Mismatches: 23, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
35 7 0.05
36 15 0.12
37 5 0.04
38 5 0.04
39 21 0.16
40 28 0.22
41 20 0.16
42 15 0.12
43 7 0.05
44 6 0.05
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (40 bp):
TAATTATTATTTTAGTTAGTATTATTGTTAGTAAAAACAC
Found at i:46898794 original size:76 final size:77
Alignment explanation
Indices: 46898589--46898800 Score: 216
Period size: 76 Copynumber: 2.7 Consensus size: 77
46898579 GTTTAGTTAT
* * *
46898589 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTTTTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAC---TA---TTATTATTGTTAGTTAT
46898654 TAGGATTAGTAAAAACCC
60 TAGGATTAGTAAAAACCC
* *** * * ***
46898672 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTAGGA
46898735 TTAGT-AAAACCC
65 TTAGTAAAAACCC
46898747 TAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTTA
1 TAATTATTATTGTTAGTTAGTATTATTGTT-AGTAAAAAACTATTATTATTGTTA
46898801 TTGTGTTAGT
Statistics
Matches: 107, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
75 25 0.23
76 49 0.46
80 2 0.02
82 18 0.17
83 13 0.12
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTAGGAT
TAGTAAAAACCC
Found at i:46898915 original size:14 final size:15
Alignment explanation
Indices: 46898896--46898924 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46898886 TTGCATATTG
46898896 AAACATTAA-TTTTT
1 AAACATTAACTTTTT
46898910 AAACATTAACTTTTT
1 AAACATTAACTTTTT
46898925 TATTTAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
AAACATTAACTTTTT
Found at i:46902737 original size:26 final size:26
Alignment explanation
Indices: 46902657--46902737 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
46902647 GATGGTCACG
*
46902657 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTACAGGCTACTA
* *
46902683 CGTGTA-T-CAAATGGTA-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTACA-GGCT-ACTA
46902708 TGTGTAGTACTATGTACAGGCTACTA
1 TGTGTAGTACTATGTACAGGCTACTA
46902734 TGTG
1 TGTG
46902738 AACCGAACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.44
26 21 0.51
27 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTACAGGCTACTA
Found at i:46902795 original size:45 final size:45
Alignment explanation
Indices: 46902739--46902833 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
46902729 TACTATGTGA
* *
46902739 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCT
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGATTCT
* * *
46902784 ACCGGACATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGATTCT
46902829 ACCGA
1 ACCGA
46902834 GTATTTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATATGCTGATTCT
Found at i:46902900 original size:23 final size:22
Alignment explanation
Indices: 46902874--46902920 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
46902864 GGAATTTGAC
46902874 TAGGTGT-AATTGAATAATGAATA
1 TAGGTGTGAATTGAAT--TGAATA
46902897 TAGGTGTGGAATTGAATTGAATA
1 TAGGTGT-GAATTGAATTGAATA
46902920 T
1 T
46902921 CGACTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (22 bp):
TAGGTGTGAATTGAATTGAATA
Found at i:46907766 original size:156 final size:157
Alignment explanation
Indices: 46907187--46908551 Score: 2152
Period size: 155 Copynumber: 8.8 Consensus size: 157
46907177 GTAAAAAACT
* *
46907187 CTTATTTCGGCCATTTGTTCGTA-TTTTTTCCCTG-ATTTTATTAC-TT-AA-AAAAATATACTA
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTTCCC-GAATTTTATTACTTTCAATAAAAATATATTA
46907247 TTTTCTAATTTTATTATTTTACATTATTTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGT
65 TTTTCTAATTTTATTATTTTACATTA-TTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGT
*
46907312 GTTTTTTAAATAAA-TT-ACAAA--AACC
129 GTTTTTTAAATAAATTTCAAAAATTAACC
* *
46907337 CTTATTTCGGCCCTTTGTTTGTATTTTTTTCCTGAATTTTATTACTTTCAATAAAAATATATTAT
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTAT
*
46907402 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCATTAATTTAGTGTGT
66 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
* *
46907467 TTTTTAAATAAATTTTAATAATTAACC
131 TTTTTAAATAAATTTCAAAAATTAACC
46907494 CTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCG-ATTTTATTACTTTCAATAAAAATATATTAT
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTAT
* **
46907557 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTATTGCAT
66 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
46907622 TTTTTAAATAAATTTCAAAAATTAACC
131 TTTTTAAATAAATTTCAAAAATTAACC
*
46907649 CTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTTATTACTTTCAATAAAAATATATTAT
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTAT
46907714 TTT-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
66 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
*
46907778 TTTTTAAATAAATTTCAAAAGTTAACC
131 TTTTTAAATAAATTTCAAAAATTAACC
*
46907805 CTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCAG-ATTTTATTACTTTCAATAAAAATATATTAT
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTAT
46907868 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
66 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
*
46907933 TTTTTAAATAAATTTCAATAATTAACC
131 TTTTTAAATAAATTTCAAAAATTAACC
* *
46907960 CTTATTTCAGCCATTTGTTCGTATTTTTCTTCCCGAATTTTATTACTTTCAATAAAAATATATTA
1 CTTATTTCGGCCCTTTGTTCGTATTTTT-TTCCCGAATTTTATTACTTTCAATAAAAATATATTA
* * *
46908025 TTTTTTAATTTTATTATTTTACATTTTTTTAGTAAATTATGTTTGAAATGTATT-ATTTAGTGTG
65 TTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
46908089 TTTTTTAAATAAATTTCAAAAATTAACC
130 TTTTTTAAATAAATTTCAAAAATTAACC
* * *
46908117 CTTATTTCGGCCCTCTATTCGTATTTTTTTTCCCGAATTTTATTACTTTCAATAAAACTATATTA
1 CTTATTTCGGCCCTTTGTTCGTA-TTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTA
* *
46908182 TTTTCTAATTTTATTATTTTATATTATTTTAGTAAATTATGTTTGAAATGTATTAATTTAGTGTG
65 TTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
46908247 TTTTTTAAATAAATTTCAAAAATTAACC
130 TTTTTTAAATAAATTTCAAAAATTAACC
* *
46908275 CTTATTTTGGCCCTTTGTTCGTA-TTTTTTCTCGAATTTTATTACTTTCAATAAAAATATATTAT
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTAT
46908339 TTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTG-AATGTATTAATTTAGTGTG
66 TTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
46908402 TTTTTTAAATAAATTT-AGTAAAA--AA-C
130 TTTTTTAAATAAATTTCA--AAAATTAACC
* ** * *
46908428 CTTATTTCGGCCCTTTGTTCGTATTTTTTTACCGAAGCCTCATT-GTTTC-A-AAAAATATATTA
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAA-TTTTATTACTTTCAATAAAAATATATTA
* * *
46908490 TTTTCGT-ATTTTATTATTTTACGTTATTTTAGTGCATTATGTTTGAAATGCATTAATTTAGT
65 TTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT
46908552 AAAAAACCCT
Statistics
Matches: 1136, Mismatches: 56, Indels: 43
0.92 0.05 0.03
Matches are distributed among these distances:
150 22 0.02
151 18 0.02
152 57 0.05
153 92 0.08
154 89 0.08
155 296 0.26
156 212 0.19
157 207 0.18
158 143 0.13
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (157 bp):
CTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTAT
TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
TTTTTAAATAAATTTCAAAAATTAACC
Found at i:46907786 original size:311 final size:312
Alignment explanation
Indices: 46907187--46908551 Score: 2158
Period size: 311 Copynumber: 4.4 Consensus size: 312
46907177 GTAAAAAACT
* *
46907187 CTTATTTCGGCCATTTGTTCGTATTTTTTCCCTGATTTTATTAC-TT-AA-AAAAATATACTATT
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTCCC-GATTTTATTACTTTCAATAAAAATATATTATT
46907249 TTCTAATTTTATTATTTTACATTATTTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
65 TTCTAATTTTATTATTTTACATTA-TTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGT
* *
46907314 TTTTTAAATAAA-TT-ACAAA--AACCCTTATTTCGGCCCTTTGTTTGTATTTTTTTC-CTGAAT
129 TTTTTAAATAAATTTCAAAAATTAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTC-GAAT
46907374 TTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATT
193 TTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATT
* *
46907439 ATGTTTGAAATGCATTAATTTAGTGTGTTTTTTAAATAAATTTTAATAATTAACC
258 ATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAATAATTAACC
46907494 CTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGATTTTATTACTTTCAATAAAAATATATTATTT
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGATTTTATTACTTTCAATAAAAATATATTATTT
* **
46907559 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTATTGCATTT
66 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
46907624 TTTAAATAAATTTCAAAAATTAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTT
131 TTTAAATAAATTTCAAAAATTAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTT
46907689 ATTACTTTCAATAAAAATATATTATTTT-TAATTTTATTATTTTACATTATTTTAGTACATTATG
196 ATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATG
46907753 TTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAA-AAGTTAACC
261 TTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAATAA-TTAACC
*
46907805 CTTATTTCGGCCCTTTGTTCGTATTTTTTCCAGATTTTATTACTTTCAATAAAAATATATTATTT
1 CTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGATTTTATTACTTTCAATAAAAATATATTATTT
46907870 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
66 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
* * * *
46907935 TTTAAATAAATTTCAATAATTAACCCTTATTTCAGCCATTTGTTCGTATTTTTCTTCCCGAATTT
131 TTTAAATAAATTTCAAAAATTAACCCTTATTTCGGCCCTTTGTTCGTATTTTT-TTCTCGAATTT
* * *
46908000 TATTACTTTCAATAAAAATATATTATTTTTTAATTTTATTATTTTACATTTTTTTAGTAAATTAT
195 TATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTAT
*
46908065 GTTTGAAATGTATT-ATTTAGTGTGTTTTTTAAATAAATTTCAAAAATTAACC
260 GTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAATAATTAACC
* * *
46908117 CTTATTTCGGCCCTCTATTCGTATTTTTTTTCCCGAATTTTATTACTTTCAATAAAACTATATTA
1 CTTATTTCGGCCCTTTGTTCGTA--TTTTTTCCCG-ATTTTATTACTTTCAATAAAAATATATTA
* *
46908182 TTTTCTAATTTTATTATTTTATATTATTTTAGTAAATTATGTTTGAAATGTATTAATTTAGTGTG
63 TTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
*
46908247 TTTTTTAAATAAATTTCAAAAATTAACCCTTATTTTGGCCCTTTGTTCGTA-TTTTTTCTCGAAT
128 TTTTTTAAATAAATTTCAAAAATTAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAAT
46908311 TTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACAT
193 TTTATTACTTTCAATAAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACAT
* * *
46908375 TATGTTTG-AATGTATTAATTTAGTGTGTTTTTTAAATAAATTT-AGTAA-AAAAC
257 TATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAATAATTAACC
* ** * *
46908428 CTTATTTCGGCCCTTTGTTCGTATTTTTTTACCGAAGCCTCATT-GTTTC-A-AAAAATATATTA
1 CTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCG-A-TTTTATTACTTTCAATAAAAATATATTA
* * *
46908490 TTTTCGT-ATTTTATTATTTTACGTTATTTTAGTGCATTATGTTTGAAATGCATTAATTTAGT
63 TTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT
46908552 AAAAAACCCT
Statistics
Matches: 989, Mismatches: 50, Indels: 37
0.92 0.05 0.03
Matches are distributed among these distances:
306 11 0.01
307 33 0.03
308 117 0.12
309 41 0.04
310 22 0.02
311 287 0.29
312 175 0.18
313 151 0.15
314 14 0.01
315 138 0.14
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (312 bp):
CTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGATTTTATTACTTTCAATAAAAATATATTATTT
TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
TTTAAATAAATTTCAAAAATTAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCTCGAATTTT
ATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATG
TTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAATAATTAACC
Found at i:46908506 original size:16 final size:18
Alignment explanation
Indices: 46908485--46908520 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
46908475 TCAAAAAATA
46908485 TATTATTTT-CG-TATTT
1 TATTATTTTACGTTATTT
46908501 TATTATTTTACGTTATTT
1 TATTATTTTACGTTATTT
46908519 TA
1 TA
46908521 GTGCATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (18 bp):
TATTATTTTACGTTATTT
Found at i:46908780 original size:26 final size:27
Alignment explanation
Indices: 46908726--46908780 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
46908716 TCATTACAAC
* * * *
46908726 ATGCTAAATAAATTTCATAAAATATAT
1 ATGCTAAATAAATATAATAAAACACAT
46908753 ATGCTAAATAAA-ATAATAAAACACAT
1 ATGCTAAATAAATATAATAAAACACAT
46908779 AT
1 AT
46908781 AATGTACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (27 bp):
ATGCTAAATAAATATAATAAAACACAT
Found at i:46908897 original size:5 final size:5
Alignment explanation
Indices: 46908887--46909018 Score: 58
Period size: 5 Copynumber: 26.4 Consensus size: 5
46908877 TTTCTTCTTC
* * * *
46908887 TCCTT TCCTT TTCTT TCTTT TTCTT T-CTT TCTTTT TCCTCCT TCC-T
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TC-CTT TCCT--T TCCTT
* * * * * *
46908933 TCCCT CCCTT TTC-T T-CTT CTCCTT TCCTT TTCTT TCTTT TTCTT T-CTT
1 TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
* * * *
46908981 CTCTTT TCCTT TCCTT TCCTT TTCTT TCTTT TTCTT TC
1 -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TC
46909019 TTCTCCTTCT
Statistics
Matches: 93, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
3 1 0.01
4 14 0.15
5 65 0.70
6 9 0.10
7 4 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:46908973 original size:10 final size:10
Alignment explanation
Indices: 46908941--46909020 Score: 74
Period size: 10 Copynumber: 8.1 Consensus size: 10
46908931 CTTCCCTCCC
46908941 TTTTC-TTCT
1 TTTTCTTTCT
* * *
46908950 TCTCCTTTCC
1 TTTTCTTTCT
46908960 TTTTCTTTCT
1 TTTTCTTTCT
46908970 TTTTCTTTC-
1 TTTTCTTTCT
* *
46908979 TTCTCTTTTCC
1 TTTTC-TTTCT
* *
46908990 TTTCCTTTCC
1 TTTTCTTTCT
46909000 TTTTCTTTCT
1 TTTTCTTTCT
46909010 TTTTCTTTCT
1 TTTTCTTTCT
46909020 T
1 T
46909021 CTCCTTCTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
9 7 0.12
10 47 0.82
11 3 0.05
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:46909026 original size:30 final size:29
Alignment explanation
Indices: 46908848--46909026 Score: 105
Period size: 30 Copynumber: 5.9 Consensus size: 29
46908838 TTTTTTTTTC
* *
46908848 TTTCTTTCTTTTTCCTTCC-TTCCCTCCCT
1 TTTCTTTCTTTTT-CTTCCTTTCCTTTCCT
* * * *
46908877 TTTC-TTCTTCTCCTTTCCTTTTCTTTCTT
1 TTTCTTTCTTTTTC-TTCCTTTCCTTTCCT
*
46908906 TTTCTTTCTTTCTTTTTCCTCCTTCCTTCCCTCCCT
1 TTTCTTTCTTT-TTCTTCCT--TTCCTT---T-CCT
* * * *
46908942 TTTC-TTCTTCTCCTTTCCTTTTCTTTCTT
1 TTTCTTTCTTTTTC-TTCCTTTCCTTTCCT
46908971 TTTCTTTCTTCTCTT-TTCCTTTCCTTTCCT
1 TTTCTTTCTT-T-TTCTTCCTTTCCTTTCCT
*
46909001 TTTCTTTCTTTTTCTTTCTTCTCCTT
1 TTTCTTTCTTTTTCTTCCTT-TCCTT
46909027 CTTTCTTCTC
Statistics
Matches: 113, Mismatches: 21, Indels: 31
0.68 0.13 0.19
Matches are distributed among these distances:
27 1 0.01
28 12 0.11
29 26 0.23
30 44 0.39
31 1 0.01
32 6 0.05
33 5 0.04
34 1 0.01
35 11 0.10
36 6 0.05
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTCTTTCTTTTTCTTCCTTTCCTTTCCT
Found at i:46909026 original size:65 final size:63
Alignment explanation
Indices: 46908842--46908996 Score: 269
Period size: 65 Copynumber: 2.4 Consensus size: 63
46908832 TACTTATTTT
46908842 TTTTTCTTTCTTTCTTTTTCC-TTCCTTCCCTCCCTTTTCTTCTTCTCCTTTCCTTTTCTTTC
1 TTTTTCTTTCTTTCTTTTTCCTTTCCTTCCCTCCCTTTTCTTCTTCTCCTTTCCTTTTCTTTC
46908904 TTTTTCTTTCTTTCTTTTTCCTCCTTCCTTCCCTCCCTTTTCTTCTTCTCCTTTCCTTTTCTTTC
1 TTTTTCTTTCTTTCTTTTTCCT--TTCCTTCCCTCCCTTTTCTTCTTCTCCTTTCCTTTTCTTTC
46908969 TTTTTCTTTC-TTCTCTTTTCCTTTCCTT
1 TTTTTCTTTCTTTCT-TTTTCCTTTCCTT
46908997 TCCTTTTCTT
Statistics
Matches: 89, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
62 21 0.24
63 6 0.07
64 4 0.04
65 58 0.65
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (63 bp):
TTTTTCTTTCTTTCTTTTTCCTTTCCTTCCCTCCCTTTTCTTCTTCTCCTTTCCTTTTCTTTC
Found at i:46909952 original size:32 final size:33
Alignment explanation
Indices: 46909915--46909978 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
46909905 GAACAATTTT
* *
46909915 TAGAAAATGATTTTAGA-AAAATTA-CCAAACAA
1 TAGAAAAT-ATTTTACATAAAATCATCCAAACAA
46909947 TAGAAAATATTTTACATAAAATCATCCAAACA
1 TAGAAAATATTTTACATAAAATCATCCAAACA
46909979 CCAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 7 0.25
32 14 0.50
33 7 0.25
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (33 bp):
TAGAAAATATTTTACATAAAATCATCCAAACAA
Found at i:46917781 original size:38 final size:38
Alignment explanation
Indices: 46917721--46917811 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
46917711 TGGTCTCACT
* * * *
46917721 CGTGTGGCTCACATGGCTTGGCCCATTGCCCACACGCC
1 CGTGTGGCCCACACGGCCTGGCCCATTACCCACACGCC
* * *
46917759 TGTGTGGCCCACACGGCCTGGCCCATTATCCATACGCC
1 CGTGTGGCCCACACGGCCTGGCCCATTACCCACACGCC
*
46917797 CATGTGGCCCACACG
1 CGTGTGGCCCACACG
46917812 CTCAAACTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (38 bp):
CGTGTGGCCCACACGGCCTGGCCCATTACCCACACGCC
Found at i:46923552 original size:25 final size:25
Alignment explanation
Indices: 46923524--46923577 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
46923514 TAGCTCACAT
*
46923524 GAGCATCCCGATATTTAGTTCTTAC
1 GAGCATCCCGATATATAGTTCTTAC
* * * *
46923549 GAGCTTCCCGTTATATGGTTCTTGC
1 GAGCATCCCGATATATAGTTCTTAC
46923574 GAGC
1 GAGC
46923578 TTATTATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
GAGCATCCCGATATATAGTTCTTAC
Found at i:46924284 original size:16 final size:16
Alignment explanation
Indices: 46924263--46924301 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
46924253 ATAGTACTTC
46924263 GGAAGCTCATTGGGTT
1 GGAAGCTCATTGGGTT
*
46924279 GGAAGCTCGTTGGGTT
1 GGAAGCTCATTGGGTT
46924295 GGAAGCT
1 GGAAGCT
46924302 TGGCGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.13, G:0.41, T:0.28
Consensus pattern (16 bp):
GGAAGCTCATTGGGTT
Found at i:46928251 original size:37 final size:37
Alignment explanation
Indices: 46928199--46928283 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
46928189 TATGTGACAC
**
46928199 AAGTTTAGCTCGGACGAGTAACTTAATGTTGTTTTAT
1 AAGTTTAGCTCGGACGAGTAACTTAATGTCATTTTAT
* *
46928236 AAGTTTAGCTTGGACGAGTAACTTGATGTCATTTTAT
1 AAGTTTAGCTCGGACGAGTAACTTAATGTCATTTTAT
46928273 AAGTTTAGCTC
1 AAGTTTAGCTC
46928284 AGATGGCTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (37 bp):
AAGTTTAGCTCGGACGAGTAACTTAATGTCATTTTAT
Found at i:46930370 original size:13 final size:13
Alignment explanation
Indices: 46930348--46930386 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
46930338 TACGGAGGGA
46930348 TTTTA-TTTTTCT
1 TTTTATTTTTTCT
46930360 TTTTGATTTTTTCT
1 TTTT-ATTTTTTCT
*
46930374 TTTCATTTTTTCT
1 TTTTATTTTTTCT
46930387 GTAAAAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 10 0.42
14 10 0.42
ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTTCT
Found at i:46931197 original size:18 final size:17
Alignment explanation
Indices: 46931165--46931199 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46931155 TCTTTTATTT
46931165 TATTTTTTGTATATATG
1 TATTTTTTGTATATATG
*
46931182 TATTTGTTTTTATATATG
1 TATTT-TTTGTATATATG
46931200 ATTAACTTTA
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:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (17 bp):
TATTTTTTGTATATATG
Found at i:46943840 original size:87 final size:87
Alignment explanation
Indices: 46943717--46944131 Score: 555
Period size: 87 Copynumber: 4.8 Consensus size: 87
46943707 TCATGTGTCT
*
46943717 ATAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTCAAGCC
1 ATAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCC
*
46943782 ATTAATTCTATCTCCCTAAGCC
66 ATTAATTCTATCTCCCTAAGCA
* * *
46943804 ATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAAGAGTAGGGAAAC-GAATTTAAGC
1 ATAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAG-ATTTAAGC
* ** *
46943868 CACTGGTTCTATCTCTCTAAGCA
65 CATTAATTCTATCTCCCTAAGCA
* *
46943891 ATAGTAGAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCC
1 ATAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCC
*
46943956 ATTAATTCTATCTCCCTAATCA
66 ATTAATTCTATCTCCCTAAGCA
* * * ** * *
46943978 ATAGTTGAGCGGAACGAAGACGGCGAATCCCATTTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
1 ATAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCC
* ** *
46944043 ACTGGTTTTATCTCCCTAAGCA
66 ATTAATTCTATCTCCCTAAGCA
* * * *
46944065 ATAGTGGAGCAGATTC-AAGACGGCGAACCTTATCTTCCCCATGAATAGGGAAACAGATTTAAGC
1 ATAGTAGAGCAGA-TCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGC
46944129 CAT
65 CAT
46944132 AAATACTACC
Statistics
Matches: 282, Mismatches: 43, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
86 1 0.00
87 279 0.99
88 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (87 bp):
ATAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCC
ATTAATTCTATCTCCCTAAGCA
Found at i:46943948 original size:44 final size:44
Alignment explanation
Indices: 46943726--46943949 Score: 119
Period size: 44 Copynumber: 5.1 Consensus size: 44
46943716 TATAGTAGAG
*
46943726 CAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAA
1 CAGATCGAAGACAGCGAATCTTATCTTCCCCAAGAGTAGGGAAA
* ** * *
46943770 CAGATTC-AAGCCA-TTAAT-TCTATC-TCCCTAAGCCA-TAGTGG-AG
1 CAGA-TCGAAGACAGCGAATCT-TATCTTCCCCAAG--AGTAG-GGAAA
* * *
46943813 CGGATCGAAGACGGCGAATCTCATCTTCCCCAAGAGTAGGGAAA
1 CAGATCGAAGACAGCGAATCTTATCTTCCCCAAGAGTAGGGAAA
** * ** * * * * *
46943857 C-GAATTTAAGCCA-CTGGTTC-TATC-TCTCTAAGCAATA-GTAGAG
1 CAG-ATCGAAGACAGC-GAATCTTATCTTCCCCAAG-AGTAGGGA-AA
46943900 CAGATCGAAGACAGCGAATCTTATCTTCCCCAAGAGTAGGGAAA
1 CAGATCGAAGACAGCGAATCTTATCTTCCCCAAGAGTAGGGAAA
46943944 CAGATC
1 CAGATC
46943950 TAAGCCATTA
Statistics
Matches: 124, Mismatches: 36, Indels: 40
0.62 0.18 0.20
Matches are distributed among these distances:
42 18 0.15
43 41 0.33
44 47 0.38
45 18 0.15
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (44 bp):
CAGATCGAAGACAGCGAATCTTATCTTCCCCAAGAGTAGGGAAA
Done.