Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 42
Found at i:1464977 original size:6 final size:6
Alignment explanation
Indices: 1464963--1465001 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
1464953 AATGACACCT
*
1464963 TTTGTA TTTGCA TTTGGCA TTTGCA TTTGCA TTTGCA TT
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TT
1465002 ACATGTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.15, C:0.13, G:0.18, T:0.54
Consensus pattern (6 bp):
TTTGCA
Found at i:1464990 original size:19 final size:18
Alignment explanation
Indices: 1464963--1465001 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
1464953 AATGACACCT
*
1464963 TTTGTATTTGCATTTGGCA
1 TTTGCATTTGCATTT-GCA
1464982 TTTGCATTTGCATTTGCA
1 TTTGCATTTGCATTTGCA
1465000 TT
1 TT
1465002 ACATGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.15, C:0.13, G:0.18, T:0.54
Consensus pattern (18 bp):
TTTGCATTTGCATTTGCA
Found at i:1466629 original size:15 final size:15
Alignment explanation
Indices: 1466596--1466630 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1466586 GGCTTTTTAG
* *
1466596 CCCGCACCGTCTAAG
1 CCCGCACCGTCAAAA
1466611 CCCGCACCGTCAAAA
1 CCCGCACCGTCAAAA
1466626 CCCGC
1 CCCGC
1466631 TGGCTAAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.51, G:0.17, T:0.09
Consensus pattern (15 bp):
CCCGCACCGTCAAAA
Found at i:1470846 original size:42 final size:42
Alignment explanation
Indices: 1470784--1470875 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
1470774 ACTTAGTAAG
* *
1470784 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
*
1470826 TCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
1470868 TCCTTAGG
1 TCCTTAGG
1470876 CTAATTTGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
TCCTTAGGGCCATCAATAAGTCTTTCGAGCATGATGATTAAA
Found at i:1470933 original size:13 final size:13
Alignment explanation
Indices: 1470915--1470939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1470905 TGAAACAAAC
1470915 CCATCAGTAAGTG
1 CCATCAGTAAGTG
1470928 CCATCAGTAAGT
1 CCATCAGTAAGT
1470940 CTTTCGAGCA
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:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:1470967 original size:22 final size:21
Alignment explanation
Indices: 1470935--1471051 Score: 80
Period size: 22 Copynumber: 5.5 Consensus size: 21
1470925 GTGCCATCAG
*
1470935 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* *
1470956 TGAAGTCCTTCGGGCCATCA-G-
1 T-AAGTCCTTCGAG-CATGATGA
*
1470977 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* * *
1470998 TGAAGTTCTTCGGACCATCA-G-
1 T-AAGTCCTTC-GAGCATGATGA
*
1471019 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
*
1471040 TTAAATCCTTCG
1 -TAAGTCCTTCG
1471052 GGTAATTTGT
Statistics
Matches: 71, Mismatches: 16, Indels: 17
0.68 0.15 0.16
Matches are distributed among these distances:
19 10 0.14
20 19 0.27
21 4 0.06
22 28 0.39
23 10 0.14
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (21 bp):
TAAGTCCTTCGAGCATGATGA
Found at i:1470986 original size:42 final size:42
Alignment explanation
Indices: 1470927--1471178 Score: 243
Period size: 42 Copynumber: 6.1 Consensus size: 42
1470917 ATCAGTAAGT
1470927 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
*
1470969 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTTCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
* * *
1471011 ACCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
** ** * * **
1471053 GTAATTTGTAAG-CTTTC-ACCGAAGA-GTAGTGAAG-CAAAT---
1 GCCATCAGTAAGTCTTTCGAGC-ATGATG-A-TGAAGTC-CTTCGG
* *
1471092 -CCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
* ** *
1471133 GTCATTTGTAAGTCTTTCGAGCAAGATGAT-AAGTCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
1471174 GCCAT
1 GCCAT
1471179 TTTAAGCATT
Statistics
Matches: 165, Mismatches: 33, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
38 11 0.07
39 10 0.06
40 6 0.04
41 24 0.15
42 114 0.69
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
Found at i:1470987 original size:20 final size:20
Alignment explanation
Indices: 1470927--1471032 Score: 76
Period size: 20 Copynumber: 5.1 Consensus size: 20
1470917 ATCAGTAAGT
1470927 GCCATCAGTAAGTCTTTCGA
1 GCCATCAGTAAGTCTTTCGA
* * *
1470947 G-CATGATGATGAAGTCCTTCGG
1 GCCATCA-G-T-AAGTCTTTCGA
1470969 GCCATCAGTAAGTCTTTCGA
1 GCCATCAGTAAGTCTTTCGA
*
1470989 G-CATGATGATGAAGT-TCTTCG-
1 GCCATCA-G-T-AAGTCT-TTCGA
1471010 GACCATCAGTAAGTCTTTCGA
1 G-CCATCAGTAAGTCTTTCGA
1471031 GC
1 GC
1471033 ATGATGATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 24
0.67 0.08 0.24
Matches are distributed among these distances:
19 8 0.12
20 22 0.33
21 8 0.12
22 20 0.30
23 8 0.12
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (20 bp):
GCCATCAGTAAGTCTTTCGA
Found at i:1471079 original size:177 final size:177
Alignment explanation
Indices: 1470781--1471103 Score: 529
Period size: 177 Copynumber: 1.8 Consensus size: 177
1470771 TGCACTTAGT
* * *
1470781 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATCAGTAAG
1 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGACCATCAGTAAG
1470846 TCTTTCGAGCATGATGATTAAATCCTTAGGCTAATTTGTAAGCTTTCACAGAAGAGTAGTGAAAC
66 TCTTTCGAGCATGATGATTAAATCCTTAGGCTAATTTGTAAGCTTTCACAGAAGAGTAGTGAAAC
*
1470911 AAACCCATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATG
131 AAACCCATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATG
* * * *
1470958 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTTCTTCGGACCATCAGTAAG
1 AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGACCATCAGTAAG
* * * *
1471023 TCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCTTTCACCGAAGAGTAGTGAAGC
66 TCTTTCGAGCATGATGATTAAATCCTTAGGCTAATTTGTAAGCTTTCACAGAAGAGTAGTGAAAC
*
1471088 AAATCCATCAATAAGT
131 AAACCCATCAATAAGT
1471104 CTTTCGAGCA
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 133 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (177 bp):
AAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGACCATCAGTAAG
TCTTTCGAGCATGATGATTAAATCCTTAGGCTAATTTGTAAGCTTTCACAGAAGAGTAGTGAAAC
AAACCCATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGATGATG
Found at i:1471629 original size:53 final size:53
Alignment explanation
Indices: 1471543--1471773 Score: 336
Period size: 53 Copynumber: 4.4 Consensus size: 53
1471533 AGAATTACAC
* *
1471543 CAGAAAATTGTTCGCGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
1471596 CAGATGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCAGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * *
1471649 CAAAAGATTGTTCGAGTTCTACCCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * ***
1471702 CAGAAGATTATTCGAGTTCTACTCTCTGAAGCAATAGGGAGCGAACCCGTTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
*
1471755 TAGAAGATTGTTCGAGTTC
1 CAGAAGATTGTTCGAGTTC
1471774 CTTAATCCCT
Statistics
Matches: 159, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 159 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:1477239 original size:14 final size:14
Alignment explanation
Indices: 1477220--1477249 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1477210 TTTTTAAAAA
1477220 TTCTGTTTAATATT
1 TTCTGTTTAATATT
1477234 TTCTGTTTAATATT
1 TTCTGTTTAATATT
1477248 TT
1 TT
1477250 TTTACAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTCTGTTTAATATT
Found at i:1479777 original size:2 final size:2
Alignment explanation
Indices: 1479766--1479818 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
1479756 GTCCAAATAC
1479766 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1479807 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1479819 TTCACTTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1480928 original size:29 final size:30
Alignment explanation
Indices: 1480896--1480953 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1480886 CGTTTTAAGT
*
1480896 TTTATTTTTA-TATT-TTATATATTATTTTC
1 TTTATTATTATTATTATTATATA-TATTTTC
1480925 TTTATTATTATTATTATTATATATATTTT
1 TTTATTATTATTATTATTATATATATTTT
1480954 TTCTTCCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 10 0.38
31 7 0.27
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (30 bp):
TTTATTATTATTATTATTATATATATTTTC
Found at i:1480975 original size:33 final size:32
Alignment explanation
Indices: 1480895--1480975 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
1480885 GCGTTTTAAG
* *
1480895 TTTTATTTT-TATATTTTATATATTATTTTCT
1 TTTTATTTTATTTATTATATATATTATTTTCT
1480926 TTATTATTATTA-TTATTATATATATT-TTTTCT
1 TT-TTATT-TTATTTATTATATATATTATTTTCT
1480958 TCCTTTATTTTATTTATT
1 T--TTTATTTTATTTATT
1480976 TATTTTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
31 2 0.05
32 15 0.36
33 24 0.57
34 1 0.02
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (32 bp):
TTTTATTTTATTTATTATATATATTATTTTCT
Found at i:1481205 original size:21 final size:19
Alignment explanation
Indices: 1481180--1481261 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 19
1481170 CTTTTTTTCC
*
1481180 TTTGTTTTATTTAATTCTTTT
1 TTTGTTTTATTT-ATT-TTAT
1481201 TTTGTTTATATTTATTTTAT
1 TTTGTTT-TATTTATTTTAT
*
1481221 TTTGTCTTATTTTTATTTTTAT
1 TTTGT-TT-TATTTA-TTTTAT
* *
1481243 CTTTATTTTATCTATTTTA
1 -TTTGTTTTATTTATTTTA
1481262 CTACTTTTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 13 0.25
21 22 0.42
22 13 0.25
23 4 0.08
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTGTTTTATTTATTTTAT
Found at i:1481235 original size:27 final size:27
Alignment explanation
Indices: 1481205--1481260 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
1481195 TCTTTTTTTG
*
1481205 TTTATATTTAT-TTTATTTTGTCTTATT
1 TTTATATTTATCTTTATTTTATC-TATT
*
1481232 TTTATTTTTATCTTTATTTTATCTATT
1 TTTATATTTATCTTTATTTTATCTATT
1481259 TT
1 TT
1481261 ACTACTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTATATTTATCTTTATTTTATCTATT
Found at i:1481251 original size:11 final size:11
Alignment explanation
Indices: 1481205--1481255 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
1481195 TCTTTTTTTG
*
1481205 TTTATATTTAT
1 TTTATCTTTAT
*
1481216 TTTAT-TTTGT
1 TTTATCTTTAT
* *
1481226 CTTATTTTTATT
1 TTTATCTTTA-T
1481238 TTTATCTTTAT
1 TTTATCTTTAT
1481249 TTTATCT
1 TTTATCT
1481256 ATTTTACTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 8 0.24
11 16 0.48
12 9 0.27
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTATCTTTAT
Found at i:1482635 original size:19 final size:19
Alignment explanation
Indices: 1482613--1482650 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1482603 TTAGTTAACA
1482613 ATTATAATTATAAAT-TTTT
1 ATTATAATT-TAAATATTTT
1482632 ATTATAATTTAAATATTTT
1 ATTATAATTTAAATATTTT
1482651 GAATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTATAATTTAAATATTTT
Found at i:1489886 original size:60 final size:60
Alignment explanation
Indices: 1489818--1489939 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
1489808 ACAAAAACAG
* * *
1489818 ATAAGATATCGTTTTATTAAAT-TATTTAACTATTAAAAATTATAAAATAATCTATTC-ACT
1 ATAAGATATCATTTTATTAAATCT-TCTAACCATTAAAAATTATAAAATAATC-ATTCAACT
* * * *
1489878 ATAAGATATTATTTTGTTAAGTCTTCTAACCATTAAAAATTATAAAATAGTCATTCAACT
1 ATAAGATATCATTTTATTAAATCTTCTAACCATTAAAAATTATAAAATAATCATTCAACT
1489938 AT
1 AT
1489940 TCATATGTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 4 0.08
60 48 0.91
61 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (60 bp):
ATAAGATATCATTTTATTAAATCTTCTAACCATTAAAAATTATAAAATAATCATTCAACT
Found at i:1491298 original size:20 final size:20
Alignment explanation
Indices: 1491242--1491289 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1491232 TTCGCAACAC
*
1491242 GAAAATCGCAACTCGAAAAT
1 GAAATTCGCAACTCGAAAAT
1491262 GAAATTCGCAACTCGAAAAT
1 GAAATTCGCAACTCGAAAAT
1491282 GAAATTCG
1 GAAATTCG
1491290 AGTTGCGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (20 bp):
GAAATTCGCAACTCGAAAAT
Found at i:1491341 original size:20 final size:21
Alignment explanation
Indices: 1491283--1491341 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
1491273 CTCGAAAATG
1491283 AAATTCGAGTTGCGAA-TTCA
1 AAATTCGAGTTGCGAATTTCA
*
1491303 AAATTCGACTTGCGAATTTC-
1 AAATTCGAGTTGCGAATTTCA
**
1491323 ATTTTCGAGTTGCGAATTT
1 AAATTCGAGTTGCGAATTT
1491342 AAGTTTCAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 31 0.91
21 3 0.09
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (21 bp):
AAATTCGAGTTGCGAATTTCA
Found at i:1491348 original size:20 final size:20
Alignment explanation
Indices: 1491286--1491348 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
1491276 GAAAATGAAA
* *
1491286 TTCGAGTTGCGAATTCAAAA
1 TTCGAGTTGCGAATTTAAAT
* * *
1491306 TTCGACTTGCGAATTTCATT
1 TTCGAGTTGCGAATTTAAAT
*
1491326 TTCGAGTTGCGAATTTAAGT
1 TTCGAGTTGCGAATTTAAAT
1491346 TTC
1 TTC
1491349 AGAATAAACT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (20 bp):
TTCGAGTTGCGAATTTAAAT
Found at i:1492463 original size:23 final size:23
Alignment explanation
Indices: 1492437--1492481 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1492427 CACCACAGCT
* *
1492437 CGTATAATTGCACTGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
1492460 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
1492482 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:1492702 original size:149 final size:149
Alignment explanation
Indices: 1492457--1492763 Score: 544
Period size: 149 Copynumber: 2.1 Consensus size: 149
1492447 CACTGAAGTG
1492457 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
** *
1492522 AATCATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAAT
1492587 ATATATATATCCCGAAGGA
131 ATATATATATCCCGAAGGA
*
1492606 CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
*
1492671 AATCATATACATATGCTAGGGATCATA-TATGTGTCTCACCAGACTTCACACATGTTCCAAAGAA
66 AATCATATACATATGCTAGGGATCA-AGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAA
*
1492735 TATATATATATCCTGAAGGA
130 TATATATATATCCCGAAGGA
1492755 CCGCGTAGA
1 CCGCGTAGA
1492764 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
149 150 0.99
150 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCCTTAAG
AATCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCAAAGAAT
ATATATATATCCCGAAGGA
Found at i:1493677 original size:18 final size:18
Alignment explanation
Indices: 1493656--1493690 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1493646 TCCCATATAG
1493656 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
1493674 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
1493691 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:1494275 original size:64 final size:63
Alignment explanation
Indices: 1494177--1494337 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
1494167 TAATGAAGGT
* *
1494177 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
1494240 GG
62 GC
*
1494242 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
1494306 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
1494338 CCTTAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:1497489 original size:23 final size:23
Alignment explanation
Indices: 1497463--1497507 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1497453 CACCACAGCT
*
1497463 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
1497486 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
1497508 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:1497728 original size:149 final size:147
Alignment explanation
Indices: 1497475--1497787 Score: 522
Period size: 149 Copynumber: 2.1 Consensus size: 147
1497465 TATAATTGCA
1497475 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAA
**
1497539 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTT
*
1497604 CCACAGAATATATATATATC
130 CCAAAG-A-ATATATATATC
* *
1497624 CCGAAGGACCGTGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAAT
*
1497689 TCCTTAAGAATCATATACATATGCTAGGGATCATA-TATGTGTCTCACCAGACTTCACACATGTT
66 TCCTTAAGAATCATATACATATGCTAGGGATCA-AGTATGTGTCTCACAAGACTTCACACATGTT
1497753 CCAAAGAATATATATATC
130 CCAAAGAATATATATATC
1497771 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
1497788 CCCTCGACTC
Statistics
Matches: 155, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
147 27 0.17
148 2 0.01
149 125 0.81
150 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (147 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTC
CAAAGAATATATATATC
Found at i:1498704 original size:18 final size:18
Alignment explanation
Indices: 1498683--1498717 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1498673 TCCCATCTAG
1498683 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
1498701 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
1498718 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:1499305 original size:64 final size:63
Alignment explanation
Indices: 1499207--1499367 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 63
1499197 TAATGAAGGT
* *
1499207 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-CTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTCTTCTATTTAAAT--
*
1499270 GG
62 GC
* * *
1499272 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTTGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTCTTCTATTTAAATGC
* *
1499336 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
1499368 CCTTAAACAA
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
63 1 0.01
64 57 0.68
65 23 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTCTTCTATTTAAATGC
Found at i:1501152 original size:42 final size:42
Alignment explanation
Indices: 1501092--1501214 Score: 176
Period size: 42 Copynumber: 2.9 Consensus size: 42
1501082 ACTTTTTCAA
1501092 CGAGTCGATTCTCCACTTCGACACCAAGATCCATCACCTCAT
1 CGAGTCGATTCTCCACTTCGACACCAAGATCCATCACCTCAT
* ** *
1501134 TGAGTCGATTCTCCACTTCGACACTGAGATCCATCACTTCAT
1 CGAGTCGATTCTCCACTTCGACACCAAGATCCATCACCTCAT
* *
1501176 CGAGCCGATTCTACA-TCTCGACACCAAGATCCATCACCT
1 CGAGTCGATTCTCCACT-TCGACACCAAGATCCATCACCT
1501215 ATTCCATCAC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 69 0.99
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.25
Consensus pattern (42 bp):
CGAGTCGATTCTCCACTTCGACACCAAGATCCATCACCTCAT
Found at i:1501351 original size:21 final size:21
Alignment explanation
Indices: 1501327--1501483 Score: 120
Period size: 21 Copynumber: 7.5 Consensus size: 21
1501317 GAGTTATGTA
* *
1501327 CTTTACGTAATGAGGTCGGTG
1 CTTTACGTGATGAGGTCGATG
1501348 CTTTACGTGATGAGGTCGATG
1 CTTTACGTGATGAGGTCGATG
* *
1501369 CTTTACGTGATGAGGTAGACG
1 CTTTACGTGATGAGGTCGATG
* * * *
1501390 CTTTACGTGGTGAGAT-AACTA
1 CTTTACGTGATGAGGTCGA-TG
** *
1501411 CTTTACGTGATGACAAT-GGTG
1 CTTTACGTGATGA-GGTCGATG
* * *
1501432 CTTTACGTGGTGAGGTAGCTG
1 CTTTACGTGATGAGGTCGATG
* * *
1501453 CTTTACGTGACGAGGTAGGTG
1 CTTTACGTGATGAGGTCGATG
*
1501474 CTCTACGTGA
1 CTTTACGTGA
1501484 GATTCTTTCA
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
20 2 0.02
21 107 0.96
22 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.32
Consensus pattern (21 bp):
CTTTACGTGATGAGGTCGATG
Found at i:1501373 original size:42 final size:41
Alignment explanation
Indices: 1501327--1501483 Score: 145
Period size: 42 Copynumber: 3.8 Consensus size: 41
1501317 GAGTTATGTA
* *
1501327 CTTTACGTAATGAGGTCGGTGCTTTACGTGATGAGGTCGATG
1 CTTTACGTGATGAGGTAGGTGCTTTACGTGATGAGGT-GATG
** * * * *
1501369 CTTTACGTGATGAGGTAGACGCTTTACGTGGTGAGATAACTA
1 CTTTACGTGATGAGGTAGGTGCTTTACGTGATGAGGTGA-TG
** * *
1501411 CTTTACGTGATGA-CAATGGTGCTTTACGTGGTGAGGTAGCTG
1 CTTTACGTGATGAGGTA-GGTGCTTTACGTGATGAGGT-GATG
* *
1501453 CTTTACGTGACGAGGTAGGTGCTCTACGTGA
1 CTTTACGTGATGAGGTAGGTGCTTTACGTGA
1501484 GATTCTTTCA
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
41 2 0.02
42 87 0.97
43 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.32
Consensus pattern (41 bp):
CTTTACGTGATGAGGTAGGTGCTTTACGTGATGAGGTGATG
Found at i:1501481 original size:63 final size:63
Alignment explanation
Indices: 1501327--1501483 Score: 165
Period size: 63 Copynumber: 2.5 Consensus size: 63
1501317 GAGTTATGTA
* * **
1501327 CTTTACGTAATGAGGTCGGTGCTTTACGTGATGAGGTCGATGCTTTACGTGATGAGGTAGACG
1 CTTTACGTGATGAGGTAGGTGCTTTACGTGATGAAATCGATGCTTTACGTGATGAGGTAGACG
* * ** * * *
1501390 CTTTACGTGGTGAGATAACTACTTTACGTGATGACAAT-GGTGCTTTACGTGGTGAGGTAG-CTG
1 CTTTACGTGATGAGGTAGGTGCTTTACGTGATGA-AATCGATGCTTTACGTGATGAGGTAGAC-G
* *
1501453 CTTTACGTGACGAGGTAGGTGCTCTACGTGA
1 CTTTACGTGATGAGGTAGGTGCTTTACGTGA
1501484 GATTCTTTCA
Statistics
Matches: 74, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
62 1 0.01
63 72 0.97
64 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.32
Consensus pattern (63 bp):
CTTTACGTGATGAGGTAGGTGCTTTACGTGATGAAATCGATGCTTTACGTGATGAGGTAGACG
Found at i:1501810 original size:21 final size:21
Alignment explanation
Indices: 1501784--1501916 Score: 135
Period size: 21 Copynumber: 6.3 Consensus size: 21
1501774 GAAGAAGCCT
* *
1501784 GATCCACCTACCATTGTTCAG
1 GATCCACCTCCCATCGTTCAG
* *
1501805 GATCCACATCCCATTGTTCAG
1 GATCCACCTCCCATCGTTCAG
* * *
1501826 GATTCACCTCTCATCGTTCAA
1 GATCCACCTCCCATCGTTCAG
* *
1501847 GAGGCC-GCTCCCATCGTTCAG
1 GA-TCCACCTCCCATCGTTCAG
*
1501868 GATCCACTTCCCATCGTTCAG
1 GATCCACCTCCCATCGTTCAG
*
1501889 GATCCACC-CCGCATCATTCAG
1 GATCCACCTCC-CATCGTTCAG
1501910 GATCCAC
1 GATCCAC
1501917 ATTTCATACT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
20 4 0.04
21 87 0.95
22 1 0.01
ACGTcount: A:0.22, C:0.37, G:0.16, T:0.26
Consensus pattern (21 bp):
GATCCACCTCCCATCGTTCAG
Found at i:1504115 original size:21 final size:20
Alignment explanation
Indices: 1504098--1504144 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
1504088 ATCGAGTTTT
1504098 GAATTTCATTTTTCGAGTTGC
1 GAATTTCA-TTTTCGAGTTGC
*
1504119 GAATTTGATTTTCGAGTTGC
1 GAATTTCATTTTCGAGTTGC
*
1504139 AAATTT
1 GAATTT
1504145 GAGTTGCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (20 bp):
GAATTTCATTTTCGAGTTGC
Found at i:1504132 original size:20 final size:20
Alignment explanation
Indices: 1504107--1504146 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1504097 TGAATTTCAT
*
1504107 TTTTCGAGTTGCGAATTTGA
1 TTTTCGAGTTGCAAATTTGA
1504127 TTTTCGAGTTGCAAATTTGA
1 TTTTCGAGTTGCAAATTTGA
1504147 GTTGCGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.45
Consensus pattern (20 bp):
TTTTCGAGTTGCAAATTTGA
Found at i:1504552 original size:12 final size:12
Alignment explanation
Indices: 1504511--1504554 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
1504501 AAAGGTGAAG
*
1504511 GCGATTGTGATT
1 GCGATTTTGATT
*
1504523 GAGATTTTGATT
1 GCGATTTTGATT
**
1504535 TTGATTTTGATT
1 GCGATTTTGATT
1504547 GCGATTTT
1 GCGATTTT
1504555 AATTTCCCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.18, C:0.05, G:0.25, T:0.52
Consensus pattern (12 bp):
GCGATTTTGATT
Found at i:1505461 original size:20 final size:20
Alignment explanation
Indices: 1505436--1505606 Score: 71
Period size: 20 Copynumber: 8.6 Consensus size: 20
1505426 ATAAAGCTGT
1505436 GTTGCGAAATTAAAATTCGC
1 GTTGCGAAATTAAAATTCGC
* * *
1505456 GTTGCG-AATACAAAAATCGA
1 GTTGCGAAAT-TAAAATTCGC
***
1505476 GTTGCGAAAACGAAATTC-C
1 GTTGCGAAATTAAAATTCGC
* *
1505495 TGTTGCGAAATTGAAACTCGC
1 -GTTGCGAAATTAAAATTCGC
* * **
1505516 GTTACG-AATTAGAAAATCTT
1 GTTGCGAAATTA-AAATTCGC
*** * *
1505536 GTTGCGAAAAGGAAACTCGT
1 GTTGCGAAATTAAAATTCGC
* * *
1505556 GTTGTGAATTTAAAAATT-GA
1 GTTGCGAAATT-AAAATTCGC
* * *
1505576 GTTGCGAAAATGAAATTCGT
1 GTTGCGAAATTAAAATTCGC
1505596 GTTGCGAAATT
1 GTTGCGAAATT
1505607 GTCAAATTTG
Statistics
Matches: 109, Mismatches: 34, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
19 12 0.11
20 88 0.81
21 9 0.08
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (20 bp):
GTTGCGAAATTAAAATTCGC
Found at i:1505503 original size:60 final size:60
Alignment explanation
Indices: 1505435--1505583 Score: 158
Period size: 60 Copynumber: 2.5 Consensus size: 60
1505425 GATAAAGCTG
*
1505435 TGTTGCGAAATTAAAATTCGCGTTGCGAA-TACAAAAATCGAGTTGCGAAAACGAAATTCC
1 TGTTGCGAAATTAAAATTCGCGTTGCGAATTA-AAAAATCGAGTTGCGAAAACGAAACTCC
* * * * ** * *
1505495 TGTTGCGAAATTGAAACTCGCGTTACGAATTAGAAAATCTTGTTGCGAAAAGGAAACTCG
1 TGTTGCGAAATTAAAATTCGCGTTGCGAATTAAAAAATCGAGTTGCGAAAACGAAACTCC
* * *
1505555 TGTTGTGAATTTAAAAATT-GAGTTGCGAA
1 TGTTGCGAAATT-AAAATTCGCGTTGCGAA
1505584 AATGAAATTC
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
60 66 0.92
61 6 0.08
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (60 bp):
TGTTGCGAAATTAAAATTCGCGTTGCGAATTAAAAAATCGAGTTGCGAAAACGAAACTCC
Found at i:1505565 original size:40 final size:40
Alignment explanation
Indices: 1505495--1505603 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
1505485 ACGAAATTCC
* * *
1505495 TGTTGCGAAATTGAAACTCGCGTTACGAA-TTAGAAAATCT-
1 TGTTGCGAAAATGAAACTCGTGTTGCGAATTTA-AAAAT-TG
* *
1505535 TGTTGCGAAAAGGAAACTCGTGTTGTGAATTTAAAAATTG
1 TGTTGCGAAAATGAAACTCGTGTTGCGAATTTAAAAATTG
* *
1505575 AGTTGCGAAAATGAAATTCGTGTTGCGAA
1 TGTTGCGAAAATGAAACTCGTGTTGCGAA
1505604 ATTGTCAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 54 0.93
41 3 0.05
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (40 bp):
TGTTGCGAAAATGAAACTCGTGTTGCGAATTTAAAAATTG
Found at i:1505621 original size:22 final size:20
Alignment explanation
Indices: 1505572--1505625 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
1505562 AATTTAAAAA
1505572 TTGAGTTGCGAAAATGAAAT
1 TTGAGTTGCGAAAATGAAAT
* * *
1505592 TCGTGTTGCGAAATTGTCAAAT
1 TTGAGTTGCGAAAATG--AAAT
1505614 TTGAGTTGCGAA
1 TTGAGTTGCGAA
1505626 TTCAGAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 13 0.48
22 14 0.52
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.33
Consensus pattern (20 bp):
TTGAGTTGCGAAAATGAAAT
Found at i:1507452 original size:2 final size:2
Alignment explanation
Indices: 1507438--1507478 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1507428 CTATATTTAA
*
1507438 AT AT AT AC A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1507479 TCATGTTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1507709 original size:29 final size:29
Alignment explanation
Indices: 1507646--1507700 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1507636 AAAAACTCCC
1507646 TAAAT-AAT-TAAAATTTGAGGATTAAAT
1 TAAATAAATATAAAATTTGAGGATTAAAT
1507673 TAAATAAATATAAAA-TTGAGGGATTAAA
1 TAAATAAATATAAAATTTGA-GGATTAAA
1507701 ATTTATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.20
28 7 0.28
29 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.33
Consensus pattern (29 bp):
TAAATAAATATAAAATTTGAGGATTAAAT
Found at i:1507733 original size:20 final size:21
Alignment explanation
Indices: 1507708--1507747 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1507698 AAAATTTATA
*
1507708 AAAAGATAAATTTT-GTTGTC
1 AAAAGAGAAATTTTAGTTGTC
*
1507728 AAAAGAGGAATTTTAGTTGT
1 AAAAGAGAAATTTTAGTTGT
1507748 ATAGGTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.38
Consensus pattern (21 bp):
AAAAGAGAAATTTTAGTTGTC
Found at i:1509677 original size:2 final size:2
Alignment explanation
Indices: 1509670--1509696 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1509660 CCCTACTTTT
1509670 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1509697 TCATATTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1517417 original size:22 final size:21
Alignment explanation
Indices: 1517373--1517417 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1517363 TAATAATTTT
*
1517373 TATATTTTAACCATTAAAGAA
1 TATATTTTAACCATTAAAAAA
*
1517394 TATATTTTAACGATATAAAAAA
1 TATATTTTAACCAT-TAAAAAA
1517416 TA
1 TA
1517418 AAAATCTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (21 bp):
TATATTTTAACCATTAAAAAA
Found at i:1517797 original size:14 final size:14
Alignment explanation
Indices: 1517778--1517804 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1517768 TTATCATAAA
1517778 TTATGGAGTTTCCT
1 TTATGGAGTTTCCT
1517792 TTATGGAGTTTCC
1 TTATGGAGTTTCC
1517805 AAGGGGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (14 bp):
TTATGGAGTTTCCT
Found at i:1519013 original size:7 final size:7
Alignment explanation
Indices: 1519001--1519036 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
1518991 CAATAGTGCC
1519001 TGCAACA
1 TGCAACA
1519008 TGCAACA
1 TGCAACA
1519015 TGCAACA
1 TGCAACA
1519022 TGCAACA
1 TGCAACA
1519029 TGCAACA
1 TGCAACA
1519036 T
1 T
1519037 ACATCAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.17
Consensus pattern (7 bp):
TGCAACA
Found at i:1521792 original size:2 final size:2
Alignment explanation
Indices: 1521780--1521829 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1521770 TCATTAAAAT
1521780 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1521821 TA TA TA TA T
1 TA TA TA TA T
1521830 TGGCTATTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1522103 original size:41 final size:43
Alignment explanation
Indices: 1521988--1522117 Score: 117
Period size: 41 Copynumber: 3.1 Consensus size: 43
1521978 TGTTATCATG
* * * *
1521988 TTTTTATCTTTATAATGGAGACCCTTAAATTTTTTCAATC-CAC
1 TTTTTACCTGTATAATTGAGACCCCT-AATTTTTTCAATCTCAC
* * * * * *
1522031 CTTGTACCTTTATAATT-AAACTCCTACTTTTTTCAATCTCAC
1 TTTTTACCTGTATAATTGAGACCCCTAATTTTTTCAATCTCAC
*
1522073 TTTTTA-C-GTATAATTGAGACCCCTAATTTTTTCAAT-TCAA
1 TTTTTACCTGTATAATTGAGACCCCTAATTTTTTCAATCTCAC
1522113 TTTTT
1 TTTTT
1522118 CACTCATATA
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
40 15 0.21
41 30 0.43
42 12 0.17
43 13 0.19
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (43 bp):
TTTTTACCTGTATAATTGAGACCCCTAATTTTTTCAATCTCAC
Found at i:1524650 original size:18 final size:19
Alignment explanation
Indices: 1524627--1524663 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
1524617 ATTAACCAAA
1524627 ATATTAAAT-ATATTTTAT
1 ATATTAAATCATATTTTAT
1524645 ATATTAAATCCATATTTTA
1 ATATTAAAT-CATATTTTA
1524664 AGTTCAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTAAATCATATTTTAT
Found at i:1525422 original size:21 final size:21
Alignment explanation
Indices: 1525356--1525423 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
1525346 ATAAGTCTAA
*
1525356 AATAAATAACACCATAACACT
1 AATAAATAACACAATAACACT
* * **
1525377 AATAAGT--CTCAATAAGTCT
1 AATAAATAACACAATAACACT
1525396 AAAATAAATAACACAATAACACT
1 --AATAAATAACACAATAACACT
1525419 AATAA
1 AATAA
1525424 GTCTAAATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 8 0.24
21 17 0.50
23 9 0.26
ACGTcount: A:0.57, C:0.18, G:0.03, T:0.22
Consensus pattern (21 bp):
AATAAATAACACAATAACACT
Found at i:1525425 original size:32 final size:33
Alignment explanation
Indices: 1525369--1525457 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 33
1525359 AAATAACACC
**
1525369 ATAACACTAATAAGTCTCAATAAGTCTAAA-ATAA
1 ATAACAC-AATAACACTCAATAAGTCTAAATA-AA
1525403 ATAACACAATAACACT-AATAAGTCTAAATAAA
1 ATAACACAATAACACTCAATAAGTCTAAATAAA
* *
1525435 ATCAACATCAATAATATTCAATA
1 AT-AACA-CAATAACACTCAATA
1525458 TTTTTTGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.34
33 12 0.26
34 15 0.32
35 4 0.09
ACGTcount: A:0.55, C:0.16, G:0.03, T:0.26
Consensus pattern (33 bp):
ATAACACAATAACACTCAATAAGTCTAAATAAA
Found at i:1525427 original size:42 final size:42
Alignment explanation
Indices: 1525326--1525433 Score: 171
Period size: 42 Copynumber: 2.6 Consensus size: 42
1525316 CAAGTAAATA
* * *
1525326 AATAACACCATTAAGTCGCAATAAGTCTAAAATAAATAACAC
1 AATAACACTAATAAGTCTCAATAAGTCTAAAATAAATAACAC
*
1525368 CATAACACTAATAAGTCTCAATAAGTCTAAAATAAATAACAC
1 AATAACACTAATAAGTCTCAATAAGTCTAAAATAAATAACAC
*
1525410 AATAACACTAATAAGTCTAAATAA
1 AATAACACTAATAAGTCTCAATAA
1525434 AATCAACATC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.54, C:0.18, G:0.06, T:0.23
Consensus pattern (42 bp):
AATAACACTAATAAGTCTCAATAAGTCTAAAATAAATAACAC
Found at i:1526025 original size:33 final size:35
Alignment explanation
Indices: 1525983--1526074 Score: 120
Period size: 34 Copynumber: 2.7 Consensus size: 35
1525973 TAGACTTCAT
*
1525983 TGCATATAAAACGTAAATTGTG-TTA-GGCTAAAA
1 TGCATATAAAACGTAAATTGTGACTATGGCTAAAA
*
1526016 TGCATATAAAACGTAAATT-TGACTATGGTTAAAA
1 TGCATATAAAACGTAAATTGTGACTATGGCTAAAA
* *
1526050 TGCACATAAAACGTGAATTG-GACTA
1 TGCATATAAAACGTAAATTGTGACTA
1526075 AACGTAAAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
32 2 0.04
33 21 0.40
34 29 0.56
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.29
Consensus pattern (35 bp):
TGCATATAAAACGTAAATTGTGACTATGGCTAAAA
Found at i:1526083 original size:34 final size:34
Alignment explanation
Indices: 1526011--1526083 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
1526001 TGTGTTAGGC
* * **
1526011 TAAAATGCATATAAAACGTAAATTTGACTATGGT
1 TAAAATGCACATAAAACGTAAATTGGACTAACGT
*
1526045 TAAAATGCACATAAAACGTGAATTGGACTAAACG-
1 TAAAATGCACATAAAACGTAAATTGGACT-AACGT
1526079 TAAAA
1 TAAAA
1526084 CATAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 31 0.94
35 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (34 bp):
TAAAATGCACATAAAACGTAAATTGGACTAACGT
Found at i:1530198 original size:38 final size:37
Alignment explanation
Indices: 1530156--1530274 Score: 84
Period size: 38 Copynumber: 3.1 Consensus size: 37
1530146 AGATTCATGC
1530156 ATAAGCTAATAATAATAATGGATCAATTATTGCCTTGA
1 ATAAGCTAATAATAATAATGGATCAATTATTGCC-TGA
** * * * * *
1530194 ATAAGAAGAAATGATCAAATACTTGATCAAAATAATG-C---
1 ATAAG--CTAATAAT--AATAATGGATC-AATTATTGCCTGA
1530232 ATAAGCTAATAATAATAATGGATCAATTATTGCCATGA
1 ATAAGCTAATAATAATAATGGATCAATTATTGCC-TGA
1530270 ATAAG
1 ATAAG
1530275 AAGAAATGAT
Statistics
Matches: 57, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
33 6 0.11
34 10 0.18
36 5 0.09
38 15 0.26
40 5 0.09
42 10 0.18
43 6 0.11
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.29
Consensus pattern (37 bp):
ATAAGCTAATAATAATAATGGATCAATTATTGCCTGA
Found at i:1530255 original size:76 final size:76
Alignment explanation
Indices: 1530152--1530306 Score: 292
Period size: 76 Copynumber: 2.0 Consensus size: 76
1530142 TTATAGATTC
*
1530152 ATGCATAAGCTAATAATAATAATGGATCAATTATTGCCTTGAATAAGAAGAAATGATCAAATACT
1 ATGCATAAGCTAATAATAATAATGGATCAATTATTGCCATGAATAAGAAGAAATGATCAAATACT
1530217 TGATCAAAATA
66 TGATCAAAATA
*
1530228 ATGCATAAGCTAATAATAATAATGGATCAATTATTGCCATGAATAAGAAGAAATGATCAAATATT
1 ATGCATAAGCTAATAATAATAATGGATCAATTATTGCCATGAATAAGAAGAAATGATCAAATACT
1530293 TGATCAAAATA
66 TGATCAAAATA
1530304 ATG
1 ATG
1530307 GCCAACTCTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (76 bp):
ATGCATAAGCTAATAATAATAATGGATCAATTATTGCCATGAATAAGAAGAAATGATCAAATACT
TGATCAAAATA
Found at i:1531695 original size:16 final size:16
Alignment explanation
Indices: 1531674--1531717 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
1531664 ACCAATATCC
*
1531674 AATTTAACTCGAATCG
1 AATTTAACTCGAACCG
*
1531690 AATTTAACCCGAACCG
1 AATTTAACTCGAACCG
1531706 AATTTAACTCGA
1 AATTTAACTCGA
1531718 TCCAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (16 bp):
AATTTAACTCGAACCG
Found at i:1531734 original size:32 final size:32
Alignment explanation
Indices: 1531674--1531734 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1531664 ACCAATATCC
* *
1531674 AATTTAACTCGAATCGAATTTAACCCGAACCG
1 AATTTAACTCGAATCAAAATTAACCCGAACCG
*
1531706 AATTTAACTCG-ATCCAAAATTAATCCGAA
1 AATTTAACTCGAAT-CAAAATTAACCCGAA
1531735 ATGAAAGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.08
32 23 0.92
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (32 bp):
AATTTAACTCGAATCAAAATTAACCCGAACCG
Found at i:1531959 original size:32 final size:32
Alignment explanation
Indices: 1531923--1532011 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
1531913 TGACCCAAAT
*
1531923 CGAAAATCAATCGATCTGATATTGACCCGACC
1 CGAAAATCAATCGATCTAATATTGACCCGACC
* * * *
1531955 CG-AAATCTAACCGATCTTATATTAATCCGACC
1 CGAAAATC-AATCGATCTAATATTGACCCGACC
*
1531987 CAAAAATCAATCGATCTAATATTGA
1 CGAAAATCAATCGATCTAATATTGA
1532012 TTTGAACCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
31 5 0.11
32 37 0.79
33 5 0.11
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (32 bp):
CGAAAATCAATCGATCTAATATTGACCCGACC
Found at i:1542905 original size:26 final size:29
Alignment explanation
Indices: 1542852--1542913 Score: 94
Period size: 27 Copynumber: 2.2 Consensus size: 29
1542842 TATTTAGTAG
*
1542852 AAGAAAAACTTTATTTTGAAAATAAT-AA
1 AAGAAAAACTATATTTTGAAAATAATAAA
1542880 AAGAAAAACTAT-TTTTGAAAAT-ATAAA
1 AAGAAAAACTATATTTTGAAAATAATAAA
1542907 AAGAAAA
1 AAGAAAA
1542914 CTTGAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 2 0.06
27 19 0.59
28 11 0.34
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.27
Consensus pattern (29 bp):
AAGAAAAACTATATTTTGAAAATAATAAA
Found at i:1547422 original size:17 final size:17
Alignment explanation
Indices: 1547384--1547463 Score: 72
Period size: 17 Copynumber: 4.7 Consensus size: 17
1547374 AACTGTCATG
* *
1547384 GTCAATGGGTC-GGATC
1 GTCAATGGGTCGGGTTA
1547400 GATCAATGGGTCGGGTTA
1 G-TCAATGGGTCGGGTTA
* * * *
1547418 GTCAACGAGTTGGTTTA
1 GTCAATGGGTCGGGTTA
*
1547435 GTCAATGGGTCGGGTCA
1 GTCAATGGGTCGGGTTA
*
1547452 GTCAACGGGTCG
1 GTCAATGGGTCG
1547464 TGTAACACCC
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
16 1 0.02
17 45 0.90
18 4 0.08
ACGTcount: A:0.20, C:0.16, G:0.38, T:0.26
Consensus pattern (17 bp):
GTCAATGGGTCGGGTTA
Found at i:1548924 original size:25 final size:25
Alignment explanation
Indices: 1548870--1548924 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
1548860 AGTCACATTT
1548870 CATATAACACTTATATTACATATTC
1 CATATAACACTTATATTACATATTC
*
1548895 C-TATAATTACTTATATTA-ATA-TC
1 CATATAA-CACTTATATTACATATTC
1548918 ACATATA
1 -CATATA
1548925 TCAAAAGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 2 0.08
24 9 0.35
25 15 0.58
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (25 bp):
CATATAACACTTATATTACATATTC
Found at i:1556742 original size:21 final size:21
Alignment explanation
Indices: 1556703--1556745 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1556693 TTGGTTATGT
* *
1556703 TGTTGTAACCGTTGCCCATTA
1 TGTTGTAACCATAGCCCATTA
*
1556724 TGTTGTAACCATAGTCCATTA
1 TGTTGTAACCATAGCCCATTA
1556745 T
1 T
1556746 TGTTAAACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (21 bp):
TGTTGTAACCATAGCCCATTA
Found at i:1562485 original size:7 final size:7
Alignment explanation
Indices: 1562469--1562503 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
1562459 AGGTAAGTCT
1562469 TCTC-TC
1 TCTCTTC
1562475 TCTCTTC
1 TCTCTTC
1562482 TCTCTTC
1 TCTCTTC
1562489 TCTCTTC
1 TCTCTTC
1562496 TCTCTTC
1 TCTCTTC
1562503 T
1 T
1562504 GTGTTTCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (7 bp):
TCTCTTC
Found at i:1562899 original size:41 final size:41
Alignment explanation
Indices: 1562854--1563004 Score: 250
Period size: 41 Copynumber: 3.7 Consensus size: 41
1562844 ATTCACGTTG
* *
1562854 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGGAAATCGCGTTGCGTTTTTC
*
1562895 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGGAAATCGCGTTGCGTTTTTC
* *
1562936 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGGAAATCGCGTTGCGTTTTTC
1562977 CATTTCGCGTTGCGATAGTT-GAAATCGC
1 CATTTCGCGTTGCGATAGTTGGAAATCGC
1563005 AACGCGATCT
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
40 7 0.07
41 98 0.93
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGGAAATCGCGTTGCGTTTTTC
Found at i:1562925 original size:21 final size:21
Alignment explanation
Indices: 1562899--1562972 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
1562889 TTTTTCCATT
1562899 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTGGAGA
** ** **
1562920 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTGGAGA
1562940 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTGGAGA
1562961 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1562973 TTTCCATTTC
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.14, C:0.19, G:0.32, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGGAGA
Found at i:1562991 original size:20 final size:20
Alignment explanation
Indices: 1562879--1562992 Score: 102
Period size: 20 Copynumber: 5.6 Consensus size: 20
1562869 TAGTTGAAAA
*
1562879 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1562899 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
*
1562920 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1562940 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
1562961 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1562981 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1562993 AGTTGAAATC
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 40 0.58
21 29 0.42
ACGTcount: A:0.11, C:0.21, G:0.28, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1563004 original size:20 final size:21
Alignment explanation
Indices: 1562858--1563004 Score: 88
Period size: 20 Copynumber: 7.2 Consensus size: 21
1562848 ACGTTGCATT
* *
1562858 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-ATA
** * *
1562879 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGATA
* *
1562899 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGATA
** * *
1562920 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGATA
* *
1562940 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGATA
* * *
1562961 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGATA
*
1562981 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGATA
1563001 TCGC
1 TCGC
1563005 AACGCGATCT
Statistics
Matches: 89, Mismatches: 33, Indels: 9
0.68 0.25 0.07
Matches are distributed among these distances:
20 48 0.54
21 41 0.46
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGATA
Found at i:1563151 original size:6 final size:6
Alignment explanation
Indices: 1563130--1563192 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
1563120 GACACGTATT
**
1563130 ACCACG ACCATT ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1563178 ACCACG ACCACG ACC
1 ACCACG ACCACG ACC
1563193 CGAGACGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.33, C:0.49, G:0.14, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:1563695 original size:5 final size:5
Alignment explanation
Indices: 1563681--1563712 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1563671 GCGCCGCCGC
1563681 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1563713 GGTCGTGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:1563856 original size:20 final size:20
Alignment explanation
Indices: 1563831--1563984 Score: 164
Period size: 20 Copynumber: 7.6 Consensus size: 20
1563821 ACTGTAGACT
*
1563831 ATCGCAATGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
1563851 ATCGCAACGGGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
1563871 ACCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
1563892 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1563912 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
1563933 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
1563953 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
1563973 ATCGCAACGCGA
1 ATCGCAACGCGA
1563985 TTTTTAACTA
Statistics
Matches: 106, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
20 77 0.73
21 29 0.27
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1563906 original size:41 final size:41
Alignment explanation
Indices: 1563851--1563964 Score: 210
Period size: 41 Copynumber: 2.8 Consensus size: 41
1563841 GAAATGGAAA
* *
1563851 ATCGCAACGGGAAATGGAAAACCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1563892 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1563933 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
1563965 AATGAAAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:1563957 original size:61 final size:61
Alignment explanation
Indices: 1563892--1564009 Score: 218
Period size: 61 Copynumber: 1.9 Consensus size: 61
1563882 ATTTTCAACT
*
1563892 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
*
1563953 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTTAACTATCGCAACGCGAAATG
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1564010 CAACGCGAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (61 bp):
ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:1579320 original size:12 final size:12
Alignment explanation
Indices: 1579300--1579331 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1579290 AATAGTACAA
1579300 GCATACATGCAT
1 GCATACATGCAT
*
1579312 GCATGCATGCAT
1 GCATACATGCAT
1579324 GCATACAT
1 GCATACAT
1579332 TGACGTACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (12 bp):
GCATACATGCAT
Found at i:1579605 original size:207 final size:209
Alignment explanation
Indices: 1579242--1579665 Score: 753
Period size: 207 Copynumber: 2.0 Consensus size: 209
1579232 CATGTGTGTA
1579242 TGGAGTTATGCTTTCGTGCATGTATGTACGTAACGTATGTATGTATGTAATAGTACAAGCATACA
1 TGGAGTTATGCTTTCGTGCATGTATGTACGTAACGTATGTATGTATGTAATAGT---A--ATA-A
* *
1579307 TGCATGCATGCATGCATGCATACATTGACGTACGGTTGTATATTGCAGAATGTTATATTGTTGGA
60 GGCATACATGCATGCATGCATACATTGACGTACGGTTGTATATTGCAGAATGTTATATTGTTGGA
1579372 GGACATATCAACCGAAGTTGTGATGATAAAGAAAATGTTTTCACTACGTCAAACAAGTATGCTGA
125 GGACATATCAACCGAAGTTGTGATGATAAAGAAAATGTTTTCACTACGTCAAACAAGTATGCTGA
1579437 ATTCAATATGTTTCTCGATC
190 ATTCAATATGTTTCTCGATC
1579457 TGGAGTTATGCTTTCGTGCATGTATGTACGTAACGTATGTATGTATGTAATAGT-AT-AGGCATA
1 TGGAGTTATGCTTTCGTGCATGTATGTACGTAACGTATGTATGTATGTAATAGTAATAAGGCATA
*
1579520 CATGCATGCATGCATACATTGACGTATGGTTGTATATTGCAGAATGTTATATTGTTGGAGGACAT
66 CATGCATGCATGCATACATTGACGTACGGTTGTATATTGCAGAATGTTATATTGTTGGAGGACAT
1579585 ATCAACCGAAGTTGTGATGATAAAGAAAATGTTTTCACTACGTCAAACAAGTATGCTGAATTCAA
131 ATCAACCGAAGTTGTGATGATAAAGAAAATGTTTTCACTACGTCAAACAAGTATGCTGAATTCAA
1579650 TATGTTTCTCGATC
196 TATGTTTCTCGATC
1579664 TG
1 TG
1579666 TTTGTGACAA
Statistics
Matches: 206, Mismatches: 3, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
207 150 0.73
209 2 0.01
215 54 0.26
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (209 bp):
TGGAGTTATGCTTTCGTGCATGTATGTACGTAACGTATGTATGTATGTAATAGTAATAAGGCATA
CATGCATGCATGCATACATTGACGTACGGTTGTATATTGCAGAATGTTATATTGTTGGAGGACAT
ATCAACCGAAGTTGTGATGATAAAGAAAATGTTTTCACTACGTCAAACAAGTATGCTGAATTCAA
TATGTTTCTCGATC
Found at i:1589311 original size:16 final size:17
Alignment explanation
Indices: 1589284--1589316 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1589274 GTATCGCCAG
1589284 CAAAATTTTACTATTCA
1 CAAAATTTTACTATTCA
1589301 CAAAA-TTTACTATTCA
1 CAAAATTTTACTATTCA
1589317 TGTGAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (17 bp):
CAAAATTTTACTATTCA
Found at i:1604817 original size:5 final size:5
Alignment explanation
Indices: 1604801--1604851 Score: 84
Period size: 5 Copynumber: 10.2 Consensus size: 5
1604791 TAAGGAGGAT
* *
1604801 GTGAC GTAAC GTGAC GTGAC GTGAC GTGAC GTGAC GTGAC GTGAC GGGAC
1 GTGAC GTGAC GTGAC GTGAC GTGAC GTGAC GTGAC GTGAC GTGAC GTGAC
1604851 G
1 G
1604852 AAACGACACG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.22, C:0.20, G:0.41, T:0.18
Consensus pattern (5 bp):
GTGAC
Found at i:1605538 original size:28 final size:29
Alignment explanation
Indices: 1605489--1605564 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
1605479 CTTTTGGTAT
*
1605489 TCGGGTCGGA-TTTTAAAAAAAATCGGGA
1 TCGGGTCGGATTTTTAAAAAAATTCGGGA
** * *
1605517 TCGGGTCGGATTTTTTTTAAAATTTCGGGT
1 TCGGGTCGGA-TTTTTAAAAAAATTCGGGA
*
1605547 TCGGATCGGTATTTTTAA
1 TCGGGTCGG-ATTTTTAA
1605565 GTTTGATATT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 10 0.27
30 26 0.70
31 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (29 bp):
TCGGGTCGGATTTTTAAAAAAATTCGGGA
Found at i:1606885 original size:4 final size:4
Alignment explanation
Indices: 1606876--1607024 Score: 289
Period size: 4 Copynumber: 37.2 Consensus size: 4
1606866 ATCTTCGAAA
1606876 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1606924 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1606972 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1607020 ATAC A
1 ATAC A
1607025 GGCAGGATCC
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 143 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:1610653 original size:179 final size:178
Alignment explanation
Indices: 1610353--1610712 Score: 540
Period size: 179 Copynumber: 2.0 Consensus size: 178
1610343 TATACATCAG
* * *
1610353 ATTCTAATCTTGTCAAATAGAACTAAAACCCTAAATCATGAGTACTAAGTAGAAATATAAAATTT
1 ATTCTAATCTTGTCAAATAGAACTAAAACCCTAAATCATGAGAACTAAGCAGAAACATAAAATTT
* * *
1610418 AAATCATACATTGTGTAATACATGACAATGAATATCAACGAATAATCTAAAGTCTCGAAGCAAAT
66 AAATCATACATTGTGTAACACATGAAAATGAATATCAACGAATAATCTAAAGTCTCGAAAC-AAT
* * * * *
1610483 CTGAACAATGCCTGATAATCGCAACCAATCAGTTAGAGGTAAATCGGTC
130 CTGAACAATGCATGATAATCACAACCAATCAGTTACAGGTAAACCGATC
* * * * * *
1610532 ATTCTAATCTTTTTAGATAGAACTAAAACCCTAAATCATGTGAACTAAGCATAAGCATAAAATTT
1 ATTCTAATCTTGTCAAATAGAACTAAAACCCTAAATCATGAGAACTAAGCAGAAACATAAAATTT
*
1610597 AAATCATACATTGTGTAACACATGAAAATGAATATCAACGAATAATCTAAAGTCTCGAAACAATT
66 AAATCATACATTGTGTAACACATGAAAATGAATATCAACGAATAATCTAAAGTCTCGAAACAATC
*
1610662 TGAACAATGCATGATAATCATAACCAATCAGTTACAGGTAAACCGATC
131 TGAACAATGCATGATAATCACAACCAATCAGTTACAGGTAAACCGATC
1610710 ATT
1 ATT
1610713 TGCATAACCA
Statistics
Matches: 162, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
178 48 0.30
179 114 0.70
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.28
Consensus pattern (178 bp):
ATTCTAATCTTGTCAAATAGAACTAAAACCCTAAATCATGAGAACTAAGCAGAAACATAAAATTT
AAATCATACATTGTGTAACACATGAAAATGAATATCAACGAATAATCTAAAGTCTCGAAACAATC
TGAACAATGCATGATAATCACAACCAATCAGTTACAGGTAAACCGATC
Found at i:1615158 original size:2 final size:2
Alignment explanation
Indices: 1615147--1615271 Score: 222
Period size: 2 Copynumber: 64.5 Consensus size: 2
1615137 GCAAGAAAGG
1615147 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1615188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1615228 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1615269 TA T
1 TA T
1615272 TAGCCTGTCG
Statistics
Matches: 119, Mismatches: 0, Indels: 8
0.94 0.00 0.06
Matches are distributed among these distances:
1 4 0.03
2 115 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1618813 original size:31 final size:30
Alignment explanation
Indices: 1618778--1618845 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 30
1618768 TTTTTTTATT
*
1618778 TCGGGTCGGATCTGGTGAAACCTTAATTTTG
1 TCGGGTCGGATCTGGTGAAA-CTTAATTTCG
*
1618809 TCGGGTCGGGTCTGGTGAAACTTAATTTCG
1 TCGGGTCGGATCTGGTGAAACTTAATTTCG
1618839 TCGGGTC
1 TCGGGTC
1618846 AGGTCGGGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.16, C:0.18, G:0.32, T:0.34
Consensus pattern (30 bp):
TCGGGTCGGATCTGGTGAAACTTAATTTCG
Found at i:1618835 original size:30 final size:31
Alignment explanation
Indices: 1618778--1618856 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 31
1618768 TTTTTTTATT
* *
1618778 TCGGGTCGGATCTGGTGAAACCTTAATTTTG
1 TCGGGTCGGGTCTGGTGAAACCTTAATTTCG
1618809 TCGGGTCGGGTCTGGTGAAA-CTTAATTTCG
1 TCGGGTCGGGTCTGGTGAAACCTTAATTTCG
* *
1618839 TCGGGTCAGGTCGGGTGA
1 TCGGGTCGGGTCTGGTGA
1618857 CCCAAAAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 25 0.57
31 19 0.43
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.32
Consensus pattern (31 bp):
TCGGGTCGGGTCTGGTGAAACCTTAATTTCG
Found at i:1619459 original size:15 final size:14
Alignment explanation
Indices: 1619433--1619488 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
1619423 TTCTAAGAAC
1619433 ATATA-ACATACATA
1 ATATATACATACA-A
*
1619447 ATATATGCATAC-A
1 ATATATACATACAA
1619460 ATATATACATACAA
1 ATATATACATACAA
*
1619474 CATATAGACA-ACAA
1 -ATATATACATACAA
1619488 A
1 A
1619489 ATAAACTAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
13 13 0.36
14 10 0.28
15 13 0.36
ACGTcount: A:0.55, C:0.16, G:0.04, T:0.25
Consensus pattern (14 bp):
ATATATACATACAA
Found at i:1619978 original size:6 final size:6
Alignment explanation
Indices: 1619967--1619996 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1619957 CATTTTTATG
*
1619967 CATTTA CATTTA CATTTA AATTTA CATTTA
1 CATTTA CATTTA CATTTA CATTTA CATTTA
1619997 TACGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (6 bp):
CATTTA
Found at i:1620632 original size:30 final size:31
Alignment explanation
Indices: 1620542--1620650 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
1620532 CATAGATTCT
* *
1620542 GAAGAACCTAGGTAAACAGTCCATATGTCTC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
1620573 GAAGAACATAGGTAAACAATCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
1620604 GAAGAACATAGGTAAACAGTCC-TATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
1620634 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
1620651 CCTCGACCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 25 0.34
31 49 0.66
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:1620828 original size:59 final size:59
Alignment explanation
Indices: 1620758--1620871 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
1620748 ATCATTTCTT
* * *
1620758 TTATAAACACATA-TATCTTCTT-TTCTGTCACGTATCACATGTACGTGTAATCATTGATC
1 TTATAAACACATATTA-CTT-TTCTTCTGTCACATACCACATGTACGTGTAAACATTGATC
* * *
1620817 TTATAATCACATATTACTTTTCTTCTGTCACATACCATATGTATGTGTAAACATT
1 TTATAAACACATATTACTTTTCTTCTGTCACATACCACATGTACGTGTAAACATT
1620872 TGTTTCATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 2 0.04
59 43 0.91
60 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (59 bp):
TTATAAACACATATTACTTTTCTTCTGTCACATACCACATGTACGTGTAAACATTGATC
Found at i:1625309 original size:19 final size:18
Alignment explanation
Indices: 1625281--1625336 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
1625271 GAACATAATG
1625281 TTTA-AAAGTATCGATAC
1 TTTACAAAGTATCGATAC
* *
1625298 TTATATAAAGTATCGAAAC
1 TT-TACAAAGTATCGATAC
*
1625317 TTTGCAAGAGTATCGATAC
1 TTTACAA-AGTATCGATAC
1625336 T
1 T
1625337 CTATGGCTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 5 0.16
19 25 0.78
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (18 bp):
TTTACAAAGTATCGATAC
Found at i:1635042 original size:2 final size:2
Alignment explanation
Indices: 1635035--1635085 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
1635025 AAAAAGTATG
1635035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1635077 T- TA T- TA TA T
1 TA TA TA TA TA T
1635086 TTAAATTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1635692 original size:162 final size:163
Alignment explanation
Indices: 1635425--1635747 Score: 614
Period size: 162 Copynumber: 2.0 Consensus size: 163
1635415 CTTTTCATCC
1635425 ATATTTTCTCTCACATTTTGTAATTTTTCTCATCAACCAAACAAAACCCTTCTTCTCTCCCAAAG
1 ATATTTTCTCTCACATTTTGTAATTTTTCTCATCAACCAAACAAAACCCTTCTTCTCTCCCAAAG
1635490 AAAATAATGAAAAAATGGTGGGACTGAGTGTTGTTCTTGAGAATCAAAAGAGTTGTAATATTATC
66 AAAATAATGAAAAAATGGTGGGACTGAGTGTTGTTCTTGAGAATCAAAAGAGTTGTAATATTATC
1635555 AGTAAGAAAT-CCCACAAGTCATTAGCAAACAA
131 AGTAAGAAATCCCCACAAGTCATTAGCAAACAA
1635587 ATATTTTCTCTCACATTTTGTAA-TTTTCTCATCAACCAAACAAAACCCTTCTTCTCTCCCAAAG
1 ATATTTTCTCTCACATTTTGTAATTTTTCTCATCAACCAAACAAAACCCTTCTTCTCTCCCAAAG
1635651 AAAATAATGAAAAAATGGTGGGGACTGAGTGTTGTTCTTGAGAATCAAAAGAGTTGTAATATTAT
66 AAAATAATGAAAAAATGGT-GGGACTGAGTGTTGTTCTTGAGAATCAAAAGAGTTGTAATATTAT
1635716 CAGTAAGAAATCCCCCACAAGTCATTAGCAAA
130 CAGTAAGAAAT-CCCCACAAGTCATTAGCAAA
1635748 ACAACCATGT
Statistics
Matches: 158, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
161 60 0.38
162 79 0.50
164 19 0.12
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (163 bp):
ATATTTTCTCTCACATTTTGTAATTTTTCTCATCAACCAAACAAAACCCTTCTTCTCTCCCAAAG
AAAATAATGAAAAAATGGTGGGACTGAGTGTTGTTCTTGAGAATCAAAAGAGTTGTAATATTATC
AGTAAGAAATCCCCACAAGTCATTAGCAAACAA
Found at i:1636067 original size:9 final size:9
Alignment explanation
Indices: 1636053--1636077 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1636043 AAACGTTCAA
1636053 CTCCTTCCT
1 CTCCTTCCT
1636062 CTCCTTCCT
1 CTCCTTCCT
1636071 CTCCTTC
1 CTCCTTC
1636078 AGGTTCTCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (9 bp):
CTCCTTCCT
Found at i:1637576 original size:24 final size:24
Alignment explanation
Indices: 1637549--1637626 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
1637539 ACTAAAGCGA
1637549 ATTAATGAGTTTAACTTTAAGAAT
1 ATTAATGAGTTTAACTTTAAGAAT
** * * * *
1637573 ATTAA-GTAAATAAACAATAAAGCGA-
1 ATTAATG-AGTTTAAC-TTTAAG-AAT
1637598 ATTAATGAGTTTAACTTTAAGAAT
1 ATTAATGAGTTTAACTTTAAGAAT
1637622 ATTAA
1 ATTAA
1637627 CTAAATAACA
Statistics
Matches: 37, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
23 2 0.05
24 19 0.51
25 14 0.38
26 2 0.05
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (24 bp):
ATTAATGAGTTTAACTTTAAGAAT
Found at i:1637597 original size:49 final size:48
Alignment explanation
Indices: 1637541--1637640 Score: 182
Period size: 49 Copynumber: 2.1 Consensus size: 48
1637531 TTTTTACTAC
*
1637541 TAAAGCGAATTAATGAGTTTAACTTTAAGAATATTAAGTAAATAAACAA
1 TAAAGCGAATTAATGAGTTTAACTTTAAGAATATTAACTAAAT-AACAA
1637590 TAAAGCGAATTAATGAGTTTAACTTTAAGAATATTAACTAAATAACAA
1 TAAAGCGAATTAATGAGTTTAACTTTAAGAATATTAACTAAATAACAA
1637638 TAA
1 TAA
1637641 TGGAGATTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 8 0.16
49 42 0.84
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (48 bp):
TAAAGCGAATTAATGAGTTTAACTTTAAGAATATTAACTAAATAACAA
Found at i:1639887 original size:30 final size:30
Alignment explanation
Indices: 1639846--1639906 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
1639836 TAATACAGCC
1639846 GCTCCAAGAATTCGGACACCCAAAACCGGA
1 GCTCCAAGAATTCGGACACCCAAAACCGGA
* *
1639876 GCTCTAAGAATTTGGACACCCAAAACCGGA
1 GCTCCAAGAATTCGGACACCCAAAACCGGA
1639906 G
1 G
1639907 TAGACTGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.30, G:0.21, T:0.13
Consensus pattern (30 bp):
GCTCCAAGAATTCGGACACCCAAAACCGGA
Found at i:1644719 original size:2 final size:2
Alignment explanation
Indices: 1644712--1644742 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1644702 TATTTATTTA
1644712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1644743 AAAGAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1652125 original size:20 final size:20
Alignment explanation
Indices: 1652100--1652138 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1652090 GCATTAAATT
*
1652100 TGTGCCCTAAAAGTATGAAA
1 TGTGCCCTAAAAGCATGAAA
1652120 TGTGCCCTAAAAGCATGAA
1 TGTGCCCTAAAAGCATGAA
1652139 TGGTCCCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (20 bp):
TGTGCCCTAAAAGCATGAAA
Found at i:1653209 original size:13 final size:13
Alignment explanation
Indices: 1653185--1653219 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1653175 TATTTATTAT
1653185 ATATTT-ATAAAA
1 ATATTTAATAAAA
1653197 ATATTTAAT-AAA
1 ATATTTAATAAAA
1653209 ATATTTAATAA
1 ATATTTAATAA
1653220 TAAAAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTTAATAAAA
Found at i:1654642 original size:3 final size:3
Alignment explanation
Indices: 1654636--1654742 Score: 169
Period size: 3 Copynumber: 35.7 Consensus size: 3
1654626 TTAATATATT
*
1654636 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
1654684 TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA GGA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1654732 TAA TAA TAA TA
1 TAA TAA TAA TA
1654743 TGGATAAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1655192 original size:113 final size:113
Alignment explanation
Indices: 1654994--1656107 Score: 1775
Period size: 113 Copynumber: 9.8 Consensus size: 113
1654984 TCTTGATGAG
*
1654994 TTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-C
1 TTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CTC
* *
1655057 TGGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
64 TGGAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
1655107 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
1655172 GAAAAGCTGTTCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
1655220 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * *** * *
1655285 GAAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
66 GAAAA-GTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
*
1655334 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * * *
1655399 GCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
66 GAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
* *
1655447 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CT
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CTCT
* *
1655511 GGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
65 GGAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
1655560 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
1655625 GAAAAGCTGTTCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
1655673 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * *** * *
1655738 GAAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
66 GAAAA-GTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
*
1655787 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * * *
1655852 GCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
66 GAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
* *
1655900 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
1655965 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
1656013 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
1656078 GAAAAGCTGTTCCATCAAATGATGGATTCA
66 GAAAAGTTGATCCATCAAATGATGGATTCA
1656108 AATTTTTGCT
Statistics
Matches: 933, Mismatches: 62, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
112 5 0.01
113 725 0.78
114 203 0.22
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GAAAAGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
Found at i:1655612 original size:340 final size:339
Alignment explanation
Indices: 1654994--1656108 Score: 1802
Period size: 340 Copynumber: 3.3 Consensus size: 339
1654984 TCTTGATGAG
* *
1654994 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CTCT
* * * * *
1655058 GGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
65 GGAAAAGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
* * *
1655123 TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATC
130 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATC
1655188 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
195 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
* * * **
1655253 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAATGTTGATCCATCAAATGATGAATTTAAA
260 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAA-GATGATCCATCAAATGATGGATTCAGG
* * *
1655318 CAAAAAGTTGAACAAG
324 TAAAAGGTTGAACAAA
1655334 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* *
1655399 GCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
1655464 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CTGGAAAAGATGATCCACC
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CTCTGGAAAAGATGATCCATC
1655528 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
195 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
* *
1655593 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATCAAATGATGGATTCAGGT
260 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
1655658 AAAAGGTTGAACAAA
325 AAAAGGTTGAACAAA
*
1655673 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * * *
1655738 GAAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAA
66 GAAAA-GTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
* * *
1655803 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGCAATGTTGATCCATC
130 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATC
* * * *
1655868 AAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
195 AAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC
* *
1655933 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
260 AGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGT
1655998 AAAAGGTTGAACAAA
325 AAAAGGTTGAACAAA
*
1656013 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
* * *
1656078 GAAAAGCTGTTCCATCAAATGATGGATTCAA
66 GAAAAGTTGATCCATCAAATGATGAATTCAA
1656109 ATTTTTGCTA
Statistics
Matches: 724, Mismatches: 47, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
339 125 0.17
340 598 0.83
341 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (339 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GAAAAGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCA
AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCATCAAATGATGGATTCAGGTA
AAAGGTTGAACAAA
Found at i:1655840 original size:453 final size:453
Alignment explanation
Indices: 1654994--1656107 Score: 2203
Period size: 453 Copynumber: 2.5 Consensus size: 453
1654984 TCTTGATGAG
*
1654994 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTG
1655059 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAT
1655124 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATCA
1655189 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
196 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1655254 GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAATGTTGATCCATCAAATGATGAATTTAAAC
261 GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAATGTTGATCCATCAAATGATGAATTTAAAC
1655319 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
326 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1655384 TATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
391 TATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
1655447 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTG
1655512 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAT
1655577 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATCA
1655642 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
196 AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1655707 GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAATGTTGATCCATCAAATGATGAATTTAAAC
261 GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAATGTTGATCCATCAAATGATGAATTTAAAC
1655772 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
326 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1655837 TATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
391 TATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
1655900 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CT
1655964 GGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
65 GGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
1656029 TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATC
130 TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATC
1656094 AAATGATGGATTCA
195 AAATGATGGATTCA
1656108 AATTTTTGCT
Statistics
Matches: 659, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
452 1 0.00
453 658 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (453 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTG
GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAT
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATCA
AATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAATGTTGATCCATCAAATGATGAATTTAAAC
AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:1656969 original size:82 final size:81
Alignment explanation
Indices: 1656722--1656984 Score: 418
Period size: 82 Copynumber: 3.2 Consensus size: 81
1656712 TTTACTATGA
*
1656722 GCAAATTCATCTTCCAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGATTGTTCTGT-AAACCAGATCAGATAACTCAAAGAACACT
1656787 TCCAGAAGATGCGATTG
65 TCCAGAAGATGCGATTG
* * * *
1656804 GCAAATTCATCTTCCAAATTCAATGCTTGGTTCTATATAATCAGATCAAATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATT-GTTCTGTA-AACCAGATCAGATAACTCAAAGAACAC
*
1656869 TTCCAGAAGATGCTATTG
64 TTCCAGAAGATGCGATTG
* *
1656887 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCCAAATTCAATGATTGTTCTG-TAAACCAGATCAGATAACTCAAAGAACACT
1656952 TCCAGAAGATGCGATTG
65 TCCAGAAGATGCGATTG
1656969 GCAAATTCATCTTCCA
1 GCAAATTCATCTTCCA
1656985 TTTAATGTTT
Statistics
Matches: 164, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
82 88 0.54
83 76 0.46
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (81 bp):
GCAAATTCATCTTCCAAATTCAATGATTGTTCTGTAAACCAGATCAGATAACTCAAAGAACACTT
CCAGAAGATGCGATTG
Found at i:1658125 original size:11 final size:10
Alignment explanation
Indices: 1658106--1658177 Score: 67
Period size: 11 Copynumber: 7.0 Consensus size: 10
1658096 CCTTGACCCC
1658106 CTTTCTTTTT
1 CTTTCTTTTT
1658116 CTTCTCTTTTT
1 CTT-TCTTTTT
*
1658127 -TTTCATTTT
1 CTTTCTTTTT
*
1658136 CTATTTTTTTT
1 CT-TTCTTTTT
*
1658147 CTTT-TCTTT
1 CTTTCTTTTT
1658156 CTTTTCTTTTT
1 C-TTTCTTTTT
1658167 CTTTTCTTTTT
1 C-TTTCTTTTT
1658178 TCTTCAAGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
9 11 0.21
10 11 0.21
11 30 0.58
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:1658146 original size:31 final size:32
Alignment explanation
Indices: 1658111--1658182 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 32
1658101 ACCCCCTTTC
*
1658111 TTTTTCTTCTCTTTTTTTTCATTTTCTATT-T
1 TTTTTCTTCTCTTTCTTTTCATTTTCTATTCT
* * *
1658142 TTTTTCTTTTCTTTCTTTTCTTTTTCTTTTCT
1 TTTTTCTTCTCTTTCTTTTCATTTTCTATTCT
1658174 TTTTTCTTC
1 TTTTTCTTC
1658183 AAGCATAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (32 bp):
TTTTTCTTCTCTTTCTTTTCATTTTCTATTCT
Found at i:1658153 original size:5 final size:5
Alignment explanation
Indices: 1658107--1658176 Score: 72
Period size: 5 Copynumber: 13.6 Consensus size: 5
1658097 CTTGACCCCC
* *
1658107 TTTCTT TTTCT TCTCT TTT-T TTTCAT TTTCT ATTTTT TTTCT TTTC-
1 TTTC-T TTTCT TTTCT TTTCT TTTC-T TTTCT -TTTCT TTTCT TTTCT
1658153 TTTCT TTTCTT TTTCT TTTCT TTT
1 TTTCT TTTC-T TTTCT TTTCT TTT
1658177 TTCTTCAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
4 8 0.15
5 29 0.53
6 18 0.33
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:1668843 original size:17 final size:17
Alignment explanation
Indices: 1668803--1668844 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
1668793 ATACTTGCAA
*
1668803 ATAAAACATATAAATATT
1 ATAAAA-ATATAAATATC
1668821 ATAAAAATAATAAATA-C
1 ATAAAAAT-ATAAATATC
1668838 ATAAAAA
1 ATAAAAA
1668845 ATTTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATATAAATATC
Found at i:1669568 original size:13 final size:13
Alignment explanation
Indices: 1669544--1669578 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1669534 TATTTATTAT
1669544 ATATTT-ATAAAA
1 ATATTTAATAAAA
1669556 ATATTTAAT-AAA
1 ATATTTAATAAAA
1669568 ATATTTAATAA
1 ATATTTAATAA
1669579 TAAAAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTTAATAAAA
Found at i:1670998 original size:3 final size:3
Alignment explanation
Indices: 1670992--1671095 Score: 154
Period size: 3 Copynumber: 34.7 Consensus size: 3
1670982 TTAATATATT
*
1670992 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** *
1671040 TAA TAA TAA TAT TAT TAA TAA TAA TAA GGA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1671088 TAA TAA TA
1 TAA TAA TA
1671096 TGGATAAAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1671659 original size:11 final size:11
Alignment explanation
Indices: 1671635--1671667 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
1671625 TCGATAAAAA
1671635 TAATAATATTTT
1 TAATAAT-TTTT
1671647 TAATAATTTTT
1 TAATAATTTTT
1671658 TAATAATTTT
1 TAATAATTTT
1671668 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TAATAATTTTT
Found at i:1677650 original size:28 final size:24
Alignment explanation
Indices: 1677614--1677680 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 24
1677604 AATTGTATAG
*
1677614 TTTAAATATTTATTTTAACTTAAAACA
1 TTTAGATATTTATTTTAA-TT-AAA-A
* *
1677641 TTTTAGATATCTATTTTGATTAAAA
1 -TTTAGATATTTATTTTAATTAAAA
1677666 TTTAGATATTTATTT
1 TTTAGATATTTATTT
1677681 AGATAAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 14 0.40
25 1 0.03
26 3 0.09
27 2 0.06
28 15 0.43
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTAGATATTTATTTTAATTAAAA
Found at i:1677720 original size:23 final size:24
Alignment explanation
Indices: 1677676--1677724 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
1677666 TTTAGATATT
* *
1677676 TATTTAGATAAACAATATTTTAAA
1 TATTTAAATAAACAATACTTTAAA
1677700 TATTTAAATAAA-AATACTTTAAA
1 TATTTAAATAAACAATACTTTAAA
1677723 TA
1 TA
1677725 CTTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
TATTTAAATAAACAATACTTTAAA
Found at i:1677878 original size:32 final size:32
Alignment explanation
Indices: 1677837--1677997 Score: 315
Period size: 32 Copynumber: 5.1 Consensus size: 32
1677827 TGTTACCATC
1677837 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1677869 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1677901 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1677933 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1677965 CTTAATTAATGA-AGAAAAGAAGGAAACTACA
1 CTTAATTAATGATAGAAAAGAAGGAAACTACA
1677996 CT
1 CT
1677998 ATTCTCAGCT
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
31 21 0.16
32 108 0.84
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.22
Consensus pattern (32 bp):
CTTAATTAATGATAGAAAAGAAGGAAACTACA
Found at i:1680621 original size:130 final size:130
Alignment explanation
Indices: 1680480--1680727 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
1680470 TATTTATATA
*
1680480 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
1680545 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
1680610 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
1680675 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
1680728 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1680758 original size:130 final size:129
Alignment explanation
Indices: 1680494--1680758 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
1680484 ATTTGGTCCT
* *
1680494 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
1680559 TGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
1680624 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
1680689 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
1680753 -A
128 CA
1680754 AAATT
1 AAATT
1680759 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:1681083 original size:28 final size:27
Alignment explanation
Indices: 1681052--1681114 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
1681042 AGTTGATACA
*
1681052 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
1681080 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
1681108 ATATTTT
1 ATATTTT
1681115 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:1681215 original size:16 final size:18
Alignment explanation
Indices: 1681194--1681227 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1681184 ATTTCTTATT
1681194 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1681210 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1681228 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1681374 original size:21 final size:21
Alignment explanation
Indices: 1681350--1681392 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1681340 TATTACCTTA
1681350 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1681371 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1681392 A
1 A
1681393 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Done.