Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_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: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 18
Found at i:696966 original size:41 final size:42
Alignment explanation
Indices: 696884--696973 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 42
696874 TTTGGGATTA
* *
696884 ATCCCTTTACAAAAAGGATCGACCCCTCGAGGAAAAGGATCG
1 ATCCCTTTACAAAAAGGATCGACCCCTCGAGAAAAAAGATCG
** * * *
696926 ATCCCTTTACCTAAATGATTGA-CCCTCGATAAAAAAGATCG
1 ATCCCTTTACAAAAAGGATCGACCCCTCGAGAAAAAAGATCG
*
696967 ACCCCTT
1 ATCCCTT
696974 CCCTTAAAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
ATCCCTTTACAAAAAGGATCGACCCCTCGAGAAAAAAGATCG
Found at i:699077 original size:4 final size:4
Alignment explanation
Indices: 699068--699102 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
699058 CTATAAGAAA
699068 TATT TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT
699103 GTGTTGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:701773 original size:31 final size:31
Alignment explanation
Indices: 701738--701800 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
701728 GAATAAAGTG
701738 TGTTGACTTAATCAATCTATCCATAATTACC
1 TGTTGACTTAATCAATCTATCCATAATTACC
701769 TGTTGACTTAATCAATCTATCCATAATTACC
1 TGTTGACTTAATCAATCTATCCATAATTACC
701800 T
1 T
701801 AAATTGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (31 bp):
TGTTGACTTAATCAATCTATCCATAATTACC
Found at i:703878 original size:3 final size:3
Alignment explanation
Indices: 703870--703931 Score: 115
Period size: 3 Copynumber: 20.3 Consensus size: 3
703860 TTAGCGAGAC
703870 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
703918 ATA ATA ATA CATA A
1 ATA ATA ATA -ATA A
703932 CATATCATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:706318 original size:20 final size:20
Alignment explanation
Indices: 706293--706331 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
706283 TCGTTGCAGC
*
706293 CAGGGTGTATGGATACACTT
1 CAGGGTGTATCGATACACTT
706313 CAGGGTGTATCGATACACT
1 CAGGGTGTATCGATACACT
706332 AGTGTATCGG
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:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (20 bp):
CAGGGTGTATCGATACACTT
Found at i:706338 original size:16 final size:16
Alignment explanation
Indices: 706317--706347 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
706307 ACACTTCAGG
706317 GTGTATCGATACACTA
1 GTGTATCGATACACTA
*
706333 GTGTATCGGTACACT
1 GTGTATCGATACACT
706348 CATAGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (16 bp):
GTGTATCGATACACTA
Found at i:706346 original size:36 final size:36
Alignment explanation
Indices: 706297--706368 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
706287 TGCAGCCAGG
*
706297 GTGTATGGATACACTTCA-GGGTGTATC-GATACACTA
1 GTGTATGGATACAC-TCATAGGTGTATCAG-TACACTA
706333 GTGTATCGG-TACACTCATAGGTGTATCAGTACACTA
1 GTGTAT-GGATACACTCATAGGTGTATCAGTACACTA
706369 TTTGCATTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 26 0.81
37 3 0.09
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (36 bp):
GTGTATGGATACACTCATAGGTGTATCAGTACACTA
Found at i:706424 original size:21 final size:21
Alignment explanation
Indices: 706400--706485 Score: 76
Period size: 21 Copynumber: 4.4 Consensus size: 21
706390 GTCATAGGTG
*
706400 TATGGATATACTTGTAGGGTA
1 TATGGATATACCTGTAGGGTA
*
706421 TATGGATATACCTGTAGGGTG
1 TATGGATATACCTGTAGGGTA
* *
706442 TATCGATACACC---A--GTA
1 TATGGATATACCTGTAGGGTA
* *
706458 TATGGATACA-CTGTAGGGTG
1 TATGGATATACCTGTAGGGTA
706478 TATGGATA
1 TATGGATA
706486 CCCTTTGACA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.02
16 11 0.21
18 2 0.04
20 10 0.19
21 29 0.55
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.33
Consensus pattern (21 bp):
TATGGATATACCTGTAGGGTA
Found at i:706786 original size:20 final size:20
Alignment explanation
Indices: 706761--706800 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
706751 AACTTCTCCC
706761 CCTTTTTGTTATATAAAAAA
1 CCTTTTTGTTATATAAAAAA
706781 CCTTTTTGTTATATAAAAAA
1 CCTTTTTGTTATATAAAAAA
706801 TAGTTCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
CCTTTTTGTTATATAAAAAA
Found at i:709955 original size:16 final size:16
Alignment explanation
Indices: 709934--709999 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
709924 CAGATGCAAG
*
709934 GTGTATCAATACACCA
1 GTGTATCGATACACCA
*
709950 GTGTATGGATACACTACA
1 GTGTATCGATACAC--CA
709968 GGGTGTATCGATACACCA
1 --GTGTATCGATACACCA
*
709986 GTGTATGGATACAC
1 GTGTATCGATACAC
710000 TGCAGGGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 25 0.60
18 4 0.10
20 13 0.31
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (16 bp):
GTGTATCGATACACCA
Found at i:709975 original size:20 final size:19
Alignment explanation
Indices: 709950--710017 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
709940 CAATACACCA
709950 GTGTATGGATACACTACAGG
1 GTGTATGGATACACT-CAGG
*
709970 GTGTATCGATACAC-CA--
1 GTGTATGGATACACTCAGG
709986 GTGTATGGATACACTGCAGG
1 GTGTATGGATACACT-CAGG
*
710006 GTGTTTGGATAC
1 GTGTATGGATAC
710018 CCTTTGACAC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 13 0.32
18 4 0.10
20 24 0.59
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (19 bp):
GTGTATGGATACACTCAGG
Found at i:710017 original size:36 final size:36
Alignment explanation
Indices: 709933--710009 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
709923 ACAGATGCAA
*
709933 GGTGTATCAATACACCAGTGTATGGATACACTACAG
1 GGTGTATCGATACACCAGTGTATGGATACACTACAG
*
709969 GGTGTATCGATACACCAGTGTATGGATACACTGCAG
1 GGTGTATCGATACACCAGTGTATGGATACACTACAG
710005 GGTGT
1 GGTGT
710010 TTGGATACCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (36 bp):
GGTGTATCGATACACCAGTGTATGGATACACTACAG
Found at i:712277 original size:29 final size:30
Alignment explanation
Indices: 712225--712297 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
712215 TAAAATTTTG
* **
712225 TTAGTGACTAAAATATAAGTTTTG-AAAGT
1 TTAGTGGCTAAAATATAAACTTTGAAAAGT
*
712254 TTAGTGGCTAAAGTATAAACTTTGTAAAAGT
1 TTAGTGGCTAAAATATAAACTTTG-AAAAGT
* *
712285 TCAGGGGCTAAAA
1 TTAGTGGCTAAAA
712298 AATACAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 20 0.57
31 15 0.43
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (30 bp):
TTAGTGGCTAAAATATAAACTTTGAAAAGT
Found at i:714588 original size:21 final size:20
Alignment explanation
Indices: 714564--714603 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
714554 TATGCATTGG
*
714564 GTTCTGAAATGAAATATGAAA
1 GTTCTAAAATG-AATATGAAA
*
714585 GTTCTAAAATGTATATGAA
1 GTTCTAAAATGAATATGAA
714604 CGAAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (20 bp):
GTTCTAAAATGAATATGAAA
Found at i:739977 original size:16 final size:16
Alignment explanation
Indices: 739958--739991 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
739948 TTAATATATA
739958 ATTTATTTTAACTTCC
1 ATTTATTTTAACTTCC
* *
739974 ATTTTTTTTAATTTCC
1 ATTTATTTTAACTTCC
739990 AT
1 AT
739992 CACGATACTA
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:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTATTTTAACTTCC
Found at i:740885 original size:24 final size:24
Alignment explanation
Indices: 740851--740912 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
740841 AACTATAAGG
*
740851 AACGTGCCACAAGAGTAGAGAAAA
1 AACGTGTCACAAGAGTAGAGAAAA
740875 AACGTGTCACAAGAGTAGAGAAAA
1 AACGTGTCACAAGAGTAGAGAAAA
*
740899 AATGTGTCACAAGA
1 AACGTGTCACAAGA
740913 ACAGATGTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (24 bp):
AACGTGTCACAAGAGTAGAGAAAA
Found at i:740963 original size:20 final size:20
Alignment explanation
Indices: 740935--740984 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
740925 ATTTAAAAAT
740935 AAAAA-AATAAGAAAAA-AA
1 AAAAATAATAAGAAAAAGAA
*
740953 AAAACATAATATGAAAAAGAA
1 AAAA-ATAATAAGAAAAAGAA
*
740974 CAAAATAATAA
1 AAAAATAATAA
740985 TAATCATCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.15
19 1 0.04
20 16 0.62
21 5 0.19
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (20 bp):
AAAAATAATAAGAAAAAGAA
Found at i:742984 original size:21 final size:21
Alignment explanation
Indices: 742945--742984 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
742935 AATAAATCTC
**
742945 AAAATTTCAAGGTGTGCATGA
1 AAAATTTCAAGGTAAGCATGA
742966 AAAATTTCAAGGTAAGCAT
1 AAAATTTCAAGGTAAGCAT
742985 CATCAGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (21 bp):
AAAATTTCAAGGTAAGCATGA
Found at i:746085 original size:20 final size:20
Alignment explanation
Indices: 746060--746098 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
746050 CTTCTCATTG
746060 CTTTATCTTT-TTTTTTTATT
1 CTTTAT-TTTCTTTTTTTATT
746080 CTTTATTTTCTTTTTTTAT
1 CTTTATTTTCTTTTTTTAT
746099 AGGAATTTGA
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:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (20 bp):
CTTTATTTTCTTTTTTTATT
Found at i:747986 original size:155 final size:155
Alignment explanation
Indices: 747661--747974 Score: 610
Period size: 155 Copynumber: 2.0 Consensus size: 155
747651 CTTTAACATC
747661 TTTCACAAGTAAATCGACTGAAACTATTTCTAGATTTAATCGAAAATACTATATATTAACAAAAC
1 TTTCACAAGTAAATCGACTGAAACTATTTCTAGATTTAATCGAAAATACTATATATTAACAAAAC
747726 TAGTCAATTGGCCACAAACTTTTCAGCATAGAATATGCTACTCAATAACACCAATGCTCACAAAG
66 TAGTCAATTGGCCACAAACTTTTCAGCATAGAATATGCTACTCAATAACACCAATGCTCACAAAG
747791 GTATATAGCAAATCGACTAGAACTA
131 GTATATAGCAAATCGACTAGAACTA
*
747816 TTTCACAAGTAAATCGGCTGAAACTATTTCTAGATTTAATCGAAAATACTATATATTAACAAAAC
1 TTTCACAAGTAAATCGACTGAAACTATTTCTAGATTTAATCGAAAATACTATATATTAACAAAAC
*
747881 TAGTCAATTGGCCACATACTTTTCAGCATAGAATATGCTACTCAATAACACCAATGCTCACAAAG
66 TAGTCAATTGGCCACAAACTTTTCAGCATAGAATATGCTACTCAATAACACCAATGCTCACAAAG
747946 GTATATAGCAAATCGACTAGAACTA
131 GTATATAGCAAATCGACTAGAACTA
747971 TTTC
1 TTTC
747975 TAGATTTAAT
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 157 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (155 bp):
TTTCACAAGTAAATCGACTGAAACTATTTCTAGATTTAATCGAAAATACTATATATTAACAAAAC
TAGTCAATTGGCCACAAACTTTTCAGCATAGAATATGCTACTCAATAACACCAATGCTCACAAAG
GTATATAGCAAATCGACTAGAACTA
Found at i:752338 original size:14 final size:13
Alignment explanation
Indices: 752309--752353 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 13
752299 GAAATTTAAG
*
752309 ATAAATA-AATAA
1 ATAAATATAAAAA
752321 ATAAATATAAAAA
1 ATAAATATAAAAA
752334 TATAAAATATAAAAA
1 -AT-AAATATAAAAA
752349 ATAAA
1 ATAAA
752354 AGGAGGGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.24
13 7 0.24
14 4 0.14
15 11 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAATATAAAAA
Found at i:752348 original size:16 final size:17
Alignment explanation
Indices: 752309--752353 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
752299 GAAATTTAAG
752309 ATAAATAAATAAATAAAT
1 ATAAA-AAATAAATAAAT
*
752327 AT-AAAAATATA-AAAT
1 ATAAAAAATAAATAAAT
752342 ATAAAAAATAAA
1 ATAAAAAATAAA
752354 AGGAGGGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.25
16 14 0.58
17 2 0.08
18 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAAATAAATAAAT
Found at i:752354 original size:14 final size:14
Alignment explanation
Indices: 752313--752354 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
752303 TTTAAGATAA
752313 ATAAATAAAT-AAAT
1 ATAAA-AAATAAAAT
752327 ATAAAAATATAAAAT
1 ATAAAAA-ATAAAAT
752342 ATAAAAAATAAAA
1 ATAAAAAATAAAA
752355 GGAGGGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.08
14 13 0.50
15 11 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAAAAATAAAAT
Found at i:757165 original size:27 final size:27
Alignment explanation
Indices: 757135--757203 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
757125 TGTTCAGAGA
*
757135 AAAATAAAATAAAATTAAGCATCTAAT
1 AAAATAAAATAAAATTAAACATCTAAT
* * *
757162 AAAATTAAATTAAATTAAACATCTGAT
1 AAAATAAAATAAAATTAAACATCTAAT
757189 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
757204 AAATGGAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAATAAAATAAAATTAAACATCTAAT
Found at i:757195 original size:5 final size:5
Alignment explanation
Indices: 757190--757252 Score: 67
Period size: 5 Copynumber: 12.8 Consensus size: 5
757180 ACATCTGATA
* * *
757190 AAATA AAATA AAAT- AAATG GAATG AAATG AAATG AAATG AAATG AAAT-
1 AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAATG
*
757238 AAATTA AAATG AAAT
1 AAA-TG AAATG AAAT
757253 AAAGTTTGCT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
4 7 0.13
5 42 0.81
6 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (5 bp):
AAATG
Found at i:762611 original size:16 final size:16
Alignment explanation
Indices: 762590--762622 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
762580 GAAATTTAAG
762590 ATAAAA-AATAAATAAA
1 ATAAAATAA-AAATAAA
762606 ATAAAATAAAAATAAA
1 ATAAAATAAAAATAAA
762622 A
1 A
762623 GGTGAGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
ATAAAATAAAAATAAA
Found at i:774217 original size:45 final size:44
Alignment explanation
Indices: 774158--774294 Score: 177
Period size: 45 Copynumber: 3.1 Consensus size: 44
774148 CACTTTAAAT
* * **
774158 TATAACATATTTTCTGTTGATAATGCACTCATACGCATTTCAAC
1 TATAATATATTTTCTGTTGATAATGTACTCATATACATTTCAAC
774202 TATAATATATATTTCTGTTGATAATGTACAT-ATATACATTTCAAC
1 TATAATATAT-TTTCTGTTGATAATGTAC-TCATATACATTTCAAC
* * *
774247 CATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAATATA-TTTTCTGTTGATAATGTACTCATATACATTTCAAC
774292 TAT
1 TAT
774295 GGCATCCTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
44 9 0.11
45 70 0.86
46 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (44 bp):
TATAATATATTTTCTGTTGATAATGTACTCATATACATTTCAAC
Found at i:774761 original size:22 final size:20
Alignment explanation
Indices: 774721--774777 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
774711 CCTGGATTTT
*
774721 TAGTATCGATACCCCTACTA
1 TAGTATCAATACCCCTACTA
*
774741 TAGTATCCATACTACCCTACTA
1 TAGTATCAATAC--CCCTACTA
*
774763 TGGTATCAATACCCC
1 TAGTATCAATACCCC
774778 CTTCTAGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 14 0.44
22 18 0.56
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.30
Consensus pattern (20 bp):
TAGTATCAATACCCCTACTA
Found at i:774924 original size:94 final size:95
Alignment explanation
Indices: 774723--774936 Score: 288
Period size: 94 Copynumber: 2.3 Consensus size: 95
774713 TGGATTTTTA
* * * *
774723 GTATCGATACCCCTACTATAGTATCCATACTACCCTACTATGGTATCAATACCCCCTTCTAGTAT
1 GTATCGATACCCTTACTATGGTATCAATACTACCATACTATGGTATCAATACCCCCTTCTAGTAT
*
774788 CGATACCAAAATTAGCTTCGATGTAGCCTG
66 CGATACCAAAATTAGCTTCGATATAGCCTG
* * * *
774818 GTATCGATACCCTTACTATGGTATCAATACTACTATACTATTGTA-CTGATACCCCCTTC-GGTA
1 GTATCGATACCCTTACTATGGTATCAATACTACCATACTATGGTATC-AATACCCCCTTCTAGTA
* **
774881 TCGATACCAAAATTAGGTTCGATATTTCCTG
65 TCGATACCAAAATTAGCTTCGATATAGCCTG
*
774912 GTATCGATACCCTTACCATGGTATC
1 GTATCGATACCCTTACTATGGTATC
774937 GATAGTACAT
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
94 55 0.52
95 50 0.48
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (95 bp):
GTATCGATACCCTTACTATGGTATCAATACTACCATACTATGGTATCAATACCCCCTTCTAGTAT
CGATACCAAAATTAGCTTCGATATAGCCTG
Found at i:780452 original size:45 final size:44
Alignment explanation
Indices: 780389--780524 Score: 166
Period size: 45 Copynumber: 3.1 Consensus size: 44
780379 CACTTTAAAT
* * **
780389 TATAACATCTTTTCTGTTGATAATGCACCCATACGCATTTCAAC
1 TATAACATATTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
780433 TATAACATATATTTATGTTGATAATGTACCTATATACATTTCAAC
1 TATAACATAT-TTTCTGTTGATAATGTACCCATATACATTTCAAC
* **
780478 CATAGTATACTTTTCTG-TGATAATGTACCCATATACATTTCAAC
1 TATAACATA-TTTTCTGTTGATAATGTACCCATATACATTTCAAC
780522 TAT
1 TAT
780525 GGCATCCTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
44 37 0.47
45 40 0.51
46 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (44 bp):
TATAACATATTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:781081 original size:95 final size:92
Alignment explanation
Indices: 780967--781157 Score: 224
Period size: 92 Copynumber: 2.0 Consensus size: 92
780957 ACCCCTATTA
* * *
780967 TATCCATACTACCTTACTATGGTA-TCAATACCCCCTTCTAGTATCGATACTAAAATTAGCTTCG
1 TATCAATACTACCTTACTAT-GTACT-AATA-CCCCTTC-AGTATCGATACCAAAATTAGCTTCA
* *
781031 ATGTAGCCTGGTATCGATACCCTCACTATGG
62 ATATAGCCTGGTATCGATACCCTCACCATGG
* * *
781062 TATCAATACTA-CTATACTATGTACTGATACCCCTTCGGTATCGATACCAAAATTAGGTTCAATA
1 TATCAATACTACCT-TACTATGTACTAATACCCCTTCAGTATCGATACCAAAATTAGCTTCAATA
** *
781126 TTTCCTGGTATCGATACCCTTACCATGG
65 TAGCCTGGTATCGATACCCTCACCATGG
781154 TATC
1 TATC
781158 GATATTACAT
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
92 51 0.61
93 7 0.08
94 8 0.10
95 17 0.20
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (92 bp):
TATCAATACTACCTTACTATGTACTAATACCCCTTCAGTATCGATACCAAAATTAGCTTCAATAT
AGCCTGGTATCGATACCCTCACCATGG
Found at i:785268 original size:21 final size:21
Alignment explanation
Indices: 785244--785294 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
785234 TATCGCAAAT
785244 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
* *
785265 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
785286 TCGTGTTGC
1 TCGCGTTGC
785295 AATTTTCCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:785464 original size:6 final size:6
Alignment explanation
Indices: 785453--785518 Score: 111
Period size: 6 Copynumber: 11.5 Consensus size: 6
785443 GACACGTATT
785453 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
785501 ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACC
785519 CGAGACGAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.25
6 45 0.75
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:787200 original size:2 final size:2
Alignment explanation
Indices: 787193--787220 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
787183 TCAATCTAAA
787193 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
787221 TACGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:787403 original size:26 final size:26
Alignment explanation
Indices: 787374--787425 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
787364 AATGAAGCTC
*
787374 AATGCGTGTCATAAATGTGAGTCATA
1 AATGCGTGTCATAAATGCGAGTCATA
* *
787400 AATGCGTGTCATCAATGCGCGTCATA
1 AATGCGTGTCATAAATGCGAGTCATA
787426 TATTTATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (26 bp):
AATGCGTGTCATAAATGCGAGTCATA
Found at i:787410 original size:13 final size:13
Alignment explanation
Indices: 787374--787425 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
787364 AATGAAGCTC
787374 AATGCGTGTCATA
1 AATGCGTGTCATA
* *
787387 AATGTGAGTCATA
1 AATGCGTGTCATA
*
787400 AATGCGTGTCATC
1 AATGCGTGTCATA
*
787413 AATGCGCGTCATA
1 AATGCGTGTCATA
787426 TATTTATGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:791789 original size:15 final size:15
Alignment explanation
Indices: 791771--791812 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
791761 CTTCATGGGG
*
791771 TAAGAAGACAACGTC
1 TAAGAAGAAAACGTC
791786 TAAGAAGAAAACGTC
1 TAAGAAGAAAACGTC
*
791801 AAAGAATGAAAA
1 TAAGAA-GAAAA
791813 ATAAAGCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.57, C:0.12, G:0.19, T:0.12
Consensus pattern (15 bp):
TAAGAAGAAAACGTC
Found at i:795715 original size:51 final size:50
Alignment explanation
Indices: 795639--795756 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 50
795629 AGAACTTGTT
*
795639 GAAAAGGAAGAAGAGAAAGGAGAAGGGACACCGAAGA-CGAAAAAAGAGAAA
1 GAAAAGGAAG-AGGGAAAGGAGAAGGGACACCGAAGAGCGAAAAAA-AGAAA
* * *
795690 GAAAAGGAAGAGGGTAAAGGAGAAGGGACACTGAAGAGGGGAAAAAAGAAA
1 GAAAAGGAAGAGGG-AAAGGAGAAGGGACACCGAAGAGCGAAAAAAAGAAA
*
795741 GAAAAGGAGGAGGGAA
1 GAAAAGGAAGAGGGAA
795757 CACCGCAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 5 0.08
51 49 0.82
52 6 0.10
ACGTcount: A:0.55, C:0.05, G:0.38, T:0.02
Consensus pattern (50 bp):
GAAAAGGAAGAGGGAAAGGAGAAGGGACACCGAAGAGCGAAAAAAAGAAA
Found at i:797649 original size:2 final size:2
Alignment explanation
Indices: 797642--797672 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
797632 TCAATGTACA
797642 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
797673 CGAAATACAA
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:797925 original size:83 final size:84
Alignment explanation
Indices: 797715--797935 Score: 288
Period size: 85 Copynumber: 2.6 Consensus size: 84
797705 GTCTTTTTTA
* *
797715 ATGACGTGTGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
1 ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
797780 AATGTATGTCAAGAAGATTT
66 AATG-ATGTCAAGAAGATTT
* * *
797800 ATGACGGGGGCTTCAATAACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACA
1 ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
***
797865 AATG-TGTCATCTTA-ATTT
66 AATGATGTCA-AGAAGATTT
* *
797883 ATGACGGGGGCTTCAATGACACTCAATG-AACGTCATTA-ATGCGCGTCATAAAT
1 ATGACGGGGGCTTCAATGACACGCAATGTAA-GTCA-TACATGCGTGTCATAAAT
797936 GTGTGTCATA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
82 2 0.02
83 52 0.43
84 3 0.02
85 64 0.53
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (84 bp):
ATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
AATGATGTCAAGAAGATTT
Found at i:797929 original size:13 final size:13
Alignment explanation
Indices: 797913--797958 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
797903 ACTCAATGAA
*
797913 CGTCATTAATGCG
1 CGTCATAAATGCG
*
797926 CGTCATAAATGTG
1 CGTCATAAATGCG
*
797939 TGTCATAAATGCG
1 CGTCATAAATGCG
797952 CGTCATA
1 CGTCATA
797959 GATTTATGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:797936 original size:26 final size:26
Alignment explanation
Indices: 797907--797958 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
797897 AATGACACTC
*
797907 AATGAACGTCATTAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
***
797933 AATGTGTGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
797959 GATTTATGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (26 bp):
AATGAACGTCATAAATGCGCGTCATA
Found at i:801935 original size:45 final size:45
Alignment explanation
Indices: 801877--802198 Score: 404
Period size: 45 Copynumber: 7.3 Consensus size: 45
801867 CACTTTAAAT
* * *
801877 TATAACATA-TTTTCTGTTGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
801921 TATTGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * *
801966 CATAGTATACTTTTCTGTTGATAATATA-CC-TATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * * *
802009 TCTAGCATGCTTTTCTATTGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* * * *
802054 TCTAGCATACATTTCTGTTGATAATGCACCCATATGCATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
802099 TCTAGCATACTTTTCTGTTGATAATGTA-CCATATACATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
802143 CATAGTATACTTTTCTGTTGATAATGTACCCATAT--ATTTCAAC
1 TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
* *
802186 TATGGCATCCTTT
1 TATAGCATACTTT
802199 CATGCCAATA
Statistics
Matches: 245, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
43 51 0.21
44 50 0.20
45 144 0.59
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (45 bp):
TATAGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
Found at i:802030 original size:88 final size:90
Alignment explanation
Indices: 801886--802186 Score: 425
Period size: 88 Copynumber: 3.4 Consensus size: 90
801876 TTATAACATA
* * * *
801886 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATTGTATACTTTTCTGTTGATAATGTACC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGCATACTTTTCTGTTGATAATGTACC
801951 CATATACATTTCAACCATAGTATAC
66 CATATACATTTCAACCATAGTATAC
** * * *
801976 TTTTCTGTTGATAATATA-CC-TATACATTTCAACTCTAGCATGCTTTTCTATTGATAATGCACC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGCATACTTTTCTGTTGATAATGTACC
* *
802039 CATATGCATTTCAACTC-TAGCATAC
66 CATATACATTTCAAC-CATAGTATAC
* *
802064 ATTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTA-C
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGCATACTTTTCTGTTGATAATGTACC
802128 CATATACATTTCAACCATAGTATAC
66 CATATACATTTCAACCATAGTATAC
*
802153 TTTTCTGTTGATAATGTACCCATAT--ATTTCAACT
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACT
802187 ATGGCATCCT
Statistics
Matches: 185, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
87 9 0.05
88 73 0.39
89 50 0.27
90 53 0.29
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.41
Consensus pattern (90 bp):
TTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGCATACTTTTCTGTTGATAATGTACC
CATATACATTTCAACCATAGTATAC
Found at i:802214 original size:177 final size:178
Alignment explanation
Indices: 801887--802225 Score: 533
Period size: 177 Copynumber: 1.9 Consensus size: 178
801877 TATAACATAT
* *
801887 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATTGTATACTTTTCTGTTGATAATGTACCC
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCC
* *
801952 ATATACATTTCAACCATAGTATACTTTTCTGTTGATAATATACCTATACATTTCAACTCTAGCAT
66 ATATACATTTCAACCATAGTATACTTTTCTGTTGATAATATACCCATACATTTCAACTATAGCAT
*
802017 GCTTTTCTATTGATAATGCACCCATATGCATTTCAACTCTAGCATACA
131 GCCTTTCTATTGATAATGCACCCATATGCATTTCAACTCTAGCATACA
*
802065 TTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGTA-CC
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCC
* * *
802129 ATATACATTTCAACCATAGTATACTTTTCTGTTGATAATGTACCCATATATTTCAACTATGGCAT
66 ATATACATTTCAACCATAGTATACTTTTCTGTTGATAATATACCCATACATTTCAACTATAGCAT
*
802194 -CCTTTC-A-TGCCAATAATGCACCCGTATGCATT
131 GCCTTTCTATTG---ATAATGCACCCATATGCATT
802226 AGTATTTTCA
Statistics
Matches: 148, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
174 2 0.01
175 1 0.01
176 5 0.03
177 81 0.55
178 59 0.40
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (178 bp):
TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATGTACCC
ATATACATTTCAACCATAGTATACTTTTCTGTTGATAATATACCCATACATTTCAACTATAGCAT
GCCTTTCTATTGATAATGCACCCATATGCATTTCAACTCTAGCATACA
Found at i:802660 original size:27 final size:25
Alignment explanation
Indices: 802618--802667 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
802608 GGCTCTTTAG
802618 TATCGATAACCCTACTATGGTATCA
1 TATCGATAACCCTACTATGGTATCA
802643 TATCGATACTACCCTACTATGGTAT
1 TATCGATA--ACCCTACTATGGTAT
802668 TGATACCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 8 0.35
27 15 0.65
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (25 bp):
TATCGATAACCCTACTATGGTATCA
Found at i:802801 original size:94 final size:95
Alignment explanation
Indices: 802659--802835 Score: 268
Period size: 94 Copynumber: 1.9 Consensus size: 95
802649 TACTACCCTA
** *
802659 CTATGGTATTGATACCCTCTTCCAGTATCGATACCAAAATTAGCTTCGATGTAGCCTGGTATCGA
1 CTATGGTACCGATACCCCCTTCCAGTATCGATACCAAAATTAGCTTCGATGTAGCCTGGTATCGA
802724 TACCC-TCACCATGGTATCTATACTACTACG
66 TACCCAT-ACCATGGTATCTATACTACTACG
* * **
802754 CTATGGTACCGATACCCCCTT-CGGTATCGATACCAAAATTAGGTTCGATGTTTCCTGGTATCGA
1 CTATGGTACCGATACCCCCTTCCAGTATCGATACCAAAATTAGCTTCGATGTAGCCTGGTATCGA
802818 TACCCATACCATGGTATC
66 TACCCATACCATGGTATC
802836 GATGCTACAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
94 55 0.74
95 19 0.26
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (95 bp):
CTATGGTACCGATACCCCCTTCCAGTATCGATACCAAAATTAGCTTCGATGTAGCCTGGTATCGA
TACCCATACCATGGTATCTATACTACTACG
Found at i:810790 original size:32 final size:32
Alignment explanation
Indices: 810754--810823 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
810744 GGCATATGCA
*
810754 ATGTCACCCAAAATGATGATGTAACATGTGCC
1 ATGTCACCCAAAATAATGATGTAACATGTGCC
810786 ATGTCACCCAAAATAATGATGTAACATGTGCC
1 ATGTCACCCAAAATAATGATGTAACATGTGCC
810818 ATGTCA
1 ATGTCA
810824 TGAAAGTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTCACCCAAAATAATGATGTAACATGTGCC
Found at i:818582 original size:16 final size:16
Alignment explanation
Indices: 818561--818607 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
818551 ACTCGACTCG
818561 TTGCTCGTTAAGCTCA
1 TTGCTCGTTAAGCTCA
* *
818577 TTGCTCATTAAGTTCA
1 TTGCTCGTTAAGCTCA
**
818593 TTATTCGTTAAGCTC
1 TTGCTCGTTAAGCTC
818608 GATGCTCATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (16 bp):
TTGCTCGTTAAGCTCA
Found at i:819043 original size:27 final size:27
Alignment explanation
Indices: 818981--819046 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
818971 TCGAGTCAAT
* * *
818981 CCAAGTCGAGATTTTATCGAGTTTCGA
1 CCAAGTCGAGTTTTTACCGAATTTCGA
*
819008 CCGAGTCGAGTTTTTACCGAATTTCGA
1 CCAAGTCGAGTTTTTACCGAATTTCGA
*
819035 CCAAATCGAGTT
1 CCAAGTCGAGTT
819047 CTAACTGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (27 bp):
CCAAGTCGAGTTTTTACCGAATTTCGA
Found at i:821784 original size:24 final size:24
Alignment explanation
Indices: 821757--821804 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
821747 TTACATATTG
821757 TACTTTTAATTTTTTT-AATTTAAT
1 TACTTTT-ATTTTTTTAAATTTAAT
821781 TACTTTTATTTTTTTAAATTTAAT
1 TACTTTTATTTTTTTAAATTTAAT
821805 CACTAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TACTTTTATTTTTTTAAATTTAAT
Found at i:822513 original size:16 final size:16
Alignment explanation
Indices: 822492--822556 Score: 80
Period size: 16 Copynumber: 4.1 Consensus size: 16
822482 TGATTTTTTG
822492 TTATTTTTA-TTTAAA
1 TTATTTTTAGTTTAAA
*
822507 TTAATTTGTTAGTTTAGA
1 TT-ATTT-TTAGTTTAAA
*
822525 TTATTTTTAGATTAAA
1 TTATTTTTAGTTTAAA
822541 TTATTTTT-GTTTAAA
1 TTATTTTTAGTTTAAA
822556 T
1 T
822557 CAATGTTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
15 9 0.21
16 20 0.47
17 7 0.16
18 7 0.16
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
TTATTTTTAGTTTAAA
Found at i:823534 original size:13 final size:14
Alignment explanation
Indices: 823510--823539 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
823500 TGGAGATAAT
823510 ATTTTTATATTTTA
1 ATTTTTATATTTTA
823524 ATTTTTA-ATTTTA
1 ATTTTTATATTTTA
823537 ATT
1 ATT
823540 AGAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTATATTTTA
Found at i:823766 original size:14 final size:14
Alignment explanation
Indices: 823716--823768 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
823706 ATAATATATT
823716 TTTATAATTATTTTA
1 TTTATAATT-TTTTA
* *
823731 TTTAT-GTTTATTTT
1 TTTATAATTT-TTTA
823745 TTTA-AATTTTTTA
1 TTTATAATTTTTTA
823758 TTTATAATTTT
1 TTTATAATTTT
823769 ATAATGCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
13 8 0.26
14 18 0.58
15 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTATAATTTTTTA
Found at i:826972 original size:90 final size:89
Alignment explanation
Indices: 826858--827032 Score: 296
Period size: 90 Copynumber: 2.0 Consensus size: 89
826848 TCCTGAATAT
* * *
826858 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATAATTAG
826923 AGTAACTTGGATATAAAAGGATTA
66 AGTAACTTGGATATAAAAGGATTA
826947 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATAATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATAATTA
* *
827012 GGGTAACTTGGCTATAAAAGG
65 GAGTAACTTGGATATAAAAGG
827033 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 7 0.09
90 73 0.91
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATAATTAG
AGTAACTTGGATATAAAAGGATTA
Found at i:836754 original size:20 final size:20
Alignment explanation
Indices: 836706--836755 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
836696 CTAGACAAAA
*
836706 AGTACCGATATTGTTCTTAC
1 AGTACCGATATTGTTCATAC
* *
836726 AGTATCGATATTGTTCATAT
1 AGTACCGATATTGTTCATAC
*
836746 GGTACCGATA
1 AGTACCGATA
836756 CCAAAGGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (20 bp):
AGTACCGATATTGTTCATAC
Found at i:842153 original size:18 final size:17
Alignment explanation
Indices: 842130--842163 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
842120 CGTGATCATA
*
842130 ATATTATTTTTTCATATT
1 ATATTATATTTT-ATATT
842148 ATATTATATTTTATAT
1 ATATTATATTTTATAT
842164 AAAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:847482 original size:15 final size:15
Alignment explanation
Indices: 847462--847498 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
847452 TTGTGGCTTG
*
847462 TTACTCTGCTGTAAA
1 TTACTCTGCTGCAAA
847477 TTACTCTGCTGCAAA
1 TTACTCTGCTGCAAA
847492 TTACTCT
1 TTACTCT
847499 ATAGCCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (15 bp):
TTACTCTGCTGCAAA
Found at i:849995 original size:148 final size:148
Alignment explanation
Indices: 849805--850077 Score: 433
Period size: 148 Copynumber: 1.8 Consensus size: 148
849795 TTATTTTTAT
* *
849805 AAATAAGATATTTATTTACTTAGAAATATCAGAAAAGGACTTCCAGGTGCTTTAAGACAGCCCAT
1 AAATAAGATATTTATTTACTTAAAAATATCAGAAAAGAACTTCCAGGTGCTTTAAGACAG-CCAT
849870 TTCTTAATATTAAAAAATAAATAAATATTAATAAAAT-ATTT-TTATAAAAATAATTAAAATAAA
65 TTCTTAATATTAAAAAATAAATAAATATTAA-AAAATGATTTATTATAAAAATAATTAAAATAAA
849933 TTAGTATATATAATTTATAA
129 TTAGTATATATAATTTATAA
* * * *
849953 AAATAAGATATTTATTTATTTAAAAATATCAGAAAATAACTTCTAGGTGCTTTAAGACAGCCTTT
1 AAATAAGATATTTATTTACTTAAAAATATCAGAAAAGAACTTCCAGGTGCTTTAAGACAGCCATT
* * *
850018 TCTTAATATTAAAAAATAAATAAATATTAAAATATGATTTATTTTAAAAATAATTTAAAT
66 TCTTAATATTAAAAAATAAATAAATATTAAAAAATGATTTATTATAAAAATAATTAAAAT
850078 TTATAAATAG
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
146 4 0.04
147 38 0.33
148 72 0.63
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (148 bp):
AAATAAGATATTTATTTACTTAAAAATATCAGAAAAGAACTTCCAGGTGCTTTAAGACAGCCATT
TCTTAATATTAAAAAATAAATAAATATTAAAAAATGATTTATTATAAAAATAATTAAAATAAATT
AGTATATATAATTTATAA
Found at i:850070 original size:34 final size:34
Alignment explanation
Indices: 850029--850107 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
850019 CTTAATATTA
* *
850029 AAAAATAA-ATAAATATTA-AAATATGATTTATTTT
1 AAAAATAATATAAAT-TTATAAATAGGATTT-TTAT
*
850063 AAAAATAATTTAAATTTATAAATAGGATTTTTAT
1 AAAAATAATATAAATTTATAAATAGGATTTTTAT
850097 AAAAA-AATATA
1 AAAAATAATATA
850108 TATATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
33 5 0.13
34 19 0.49
35 15 0.38
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (34 bp):
AAAAATAATATAAATTTATAAATAGGATTTTTAT
Found at i:850102 original size:35 final size:34
Alignment explanation
Indices: 850026--850116 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 34
850016 TTTCTTAATA
*
850026 TTAAAAAATAAATAAATATTAAAATATGATTTAT
1 TTAAAAAATAAATAAATATTAAAATAGGATTTAT
* *
850060 TTTAAAAATAATTTAAAT-TTATAAATAGGATTT-T
1 TTAAAAAATAA-ATAAATATTA-AAATAGGATTTAT
* *
850094 TATAAAAAAATATATATATATTA
1 T-T-AAAAAATAAATAAATATTA
850117 TTTATTATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
34 15 0.33
35 20 0.44
36 10 0.22
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (34 bp):
TTAAAAAATAAATAAATATTAAAATAGGATTTAT
Found at i:850187 original size:21 final size:23
Alignment explanation
Indices: 850157--850201 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
850147 TAAAAATAAA
*
850157 ATAAAAAT-AATAATTAAA-TAT
1 ATAAAAATAAAAAATTAAACTAT
*
850178 ATAAACATAAAAAATTAAACTAT
1 ATAAAAATAAAAAATTAAACTAT
850201 A
1 A
850202 AATAAGCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 9 0.45
23 4 0.20
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (23 bp):
ATAAAAATAAAAAATTAAACTAT
Found at i:851456 original size:3 final size:3
Alignment explanation
Indices: 851448--851540 Score: 64
Period size: 3 Copynumber: 31.0 Consensus size: 3
851438 CTGTAATATG
* * * * *
851448 TAA TAA TAA TATT TAT TAA TAG TAA TAA TAA AAA T-A TAA TGAT TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * * *
851494 -AA TAA TTA TAA TAA TTA TAA TAA TTA TAA TAA TTA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
851541 AAACAAAACG
Statistics
Matches: 68, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.06
3 60 0.88
4 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:851501 original size:9 final size:9
Alignment explanation
Indices: 851482--851540 Score: 100
Period size: 9 Copynumber: 6.6 Consensus size: 9
851472 ATAATAAAAA
*
851482 TATAATGAT
1 TATAATAAT
*
851491 TAAAATAAT
1 TATAATAAT
851500 TATAATAAT
1 TATAATAAT
851509 TATAATAAT
1 TATAATAAT
851518 TATAATAAT
1 TATAATAAT
851527 TATAATAAT
1 TATAATAAT
851536 TATAA
1 TATAA
851541 AAACAAAACG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (9 bp):
TATAATAAT
Found at i:852077 original size:139 final size:139
Alignment explanation
Indices: 851876--852128 Score: 373
Period size: 139 Copynumber: 1.8 Consensus size: 139
851866 GGGGTTGTTG
* * * * * *
851876 ATTCAGCTTCATATGTGATGAATTAAGGCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
1 ATTCAACTCCATAGGTGATGAATCAAGGCAAGATCGAACAAGTTCTTCTCATTATGAACTTCTTC
* *
851941 TTCCTATTCAGACGAGTTCTTCTTATTATGAACTTCCTCTGAAAATGTTGATCATCAAGAGATAA
66 TTCCTATTCAGACAAGTTCTTCTCATTATGAACTTCCTCTGAAAATGTTGATCATCAAGAGATAA
852006 TCTACTTTC
131 TCTACTTTC
852015 ATTCAACTCCATAGGTGATGAATCAA-GCTAAGATCGAACAAGTTCTTCTCATTATGAACTTCTT
1 ATTCAACTCCATAGGTGATGAATCAAGGC-AAGATCGAACAAGTTCTTCTCATTATGAACTTCTT
* * ** *
852079 CTTCCTTTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAATGTT
65 CTTCCTATTCAGACAAGTTCTTCTCATTATGAACTTCCTCTGAAAATGTT
852129 AGTGCTAATC
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
138 2 0.02
139 98 0.98
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (139 bp):
ATTCAACTCCATAGGTGATGAATCAAGGCAAGATCGAACAAGTTCTTCTCATTATGAACTTCTTC
TTCCTATTCAGACAAGTTCTTCTCATTATGAACTTCCTCTGAAAATGTTGATCATCAAGAGATAA
TCTACTTTC
Found at i:852197 original size:123 final size:123
Alignment explanation
Indices: 852050--852485 Score: 577
Period size: 123 Copynumber: 3.7 Consensus size: 123
852040 AGCTAAGATC
852050 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATAAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
*
852114 TTTTCTGGAAATGTTAGTGCTAATCTATTTCCTTCTGTGATAGAGTCAAGCAAAAGGTT
66 TTTTCTGGAAATGTTAGTGCTGATCTA-TTCCTTCTGTGATAGAGTCAAGCAAAAGGTT
*
852173 GAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTATGAAAT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
* * *
852237 TTCTCTGGAAATATT-GATGCTGATCTATCTCCTTCTGTGATAGAGTCATGC-AAAGGTT
66 TTTTCTGGAAATGTTAG-TGCTGATCTAT-TCCTTCTGTGATAGAGTCAAGCAAAAGGTT
852295 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGAT-AGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
** * *
852358 TTCTT-TGGAAA----AGT--TGATGC-A--CC--GAGTGAT-GAATTAGAGCAAAAGGTT
66 TT-TTCTGGAAATGTTAGTGCTGAT-CTATTCCTTCTGTGATAGAGTCA-AGCAAAAGGTT
*
852406 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
**
852471 TTACCTGGAAATGTT
66 TTTTCTGGAAATGTT
852486 GATCCATTGA
Statistics
Matches: 283, Mismatches: 14, Indels: 38
0.84 0.04 0.11
Matches are distributed among these distances:
109 4 0.01
110 7 0.02
111 41 0.14
112 11 0.04
113 28 0.10
115 5 0.02
116 1 0.00
117 1 0.00
118 1 0.00
121 27 0.10
122 54 0.19
123 103 0.36
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (123 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
TTTTCTGGAAATGTTAGTGCTGATCTATTCCTTCTGTGATAGAGTCAAGCAAAAGGTT
Found at i:852205 original size:262 final size:232
Alignment explanation
Indices: 852029--852489 Score: 572
Period size: 245 Copynumber: 1.9 Consensus size: 232
852019 AACTCCATAG
* *
852029 GTGAT-GAATCAAGCTAAGATCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGAT
1 GTGATAGAATCAAGCAAAGATCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
*
852093 AAGTTCTTCTCATTATGAACTTT-TTCTGGAAATGTTAGTGCTAAT-CTATTTCCTTCTGTGATA
66 -AGTTCTTCTCATTATGAACTTTCTT-TGGAAA----AGT--TAATGC-A---CC--CAGTGAT-
* * *
852156 GAGTCA-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGT
116 GAATCAGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGT
* * * *
852220 TCTTCTCATTATGAAATTTCTCTGGAAATATTGATGCTGATCTATCTCCTTCT
181 TCTTCTCATTATGAACTTACTCTGGAAATGTTGAT-CTGATCTATCTCCTCCT
* * * *
852273 GTGATAGAGTCATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
1 GTGATAGAATCAAGCAAAGATCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
* * *
852338 AGTTCTTCTCATTATGAACTTTCTTTGGAAAAGTTGATGCACCGAGTGATGAATTAGAGCAAAAG
66 AGTTCTTCTCATTATGAACTTTCTTTGGAAAAGTTAATGCACCCAGTGATGAATCAGAGCAAAAG
852403 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
131 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGA
852468 ACTTTAC-CTGGAAATGTTGATC
195 AC-TTACTCTGGAAATGTTGATC
852490 CATTGAGTGA
Statistics
Matches: 195, Mismatches: 16, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
232 4 0.02
233 50 0.26
234 40 0.21
235 5 0.03
238 4 0.02
239 1 0.01
240 3 0.02
244 33 0.17
245 55 0.28
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (232 bp):
GTGATAGAATCAAGCAAAGATCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
AGTTCTTCTCATTATGAACTTTCTTTGGAAAAGTTAATGCACCCAGTGATGAATCAGAGCAAAAG
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTTACTCTGGAAATGTTGATCTGATCTATCTCCTCCT
Found at i:852501 original size:113 final size:111
Alignment explanation
Indices: 852288--852501 Score: 349
Period size: 113 Copynumber: 1.9 Consensus size: 111
852278 AGAGTCATGC
852288 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAGTTCTTCTCATTAT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAGTTCTTCTCATTAT
* *
852353 GAACTTTCTTTGGAAAAGTTGATGCACCGAGTGATGAATTAGAGCA
66 GAACTTTCTCTGGAAAAGTTGATCCACCGAGTGATGAATTAGAGCA
852399 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGAT-AGTTCTTCTCATT
* **
852464 ATGAACTTTAC-CTGGAAATGTTGATCCATTGAGTGATG
64 ATGAACTTT-CTCTGGAAAAGTTGATCCACCGAGTGATG
852502 GATTCAAATC
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
111 41 0.43
112 9 0.09
113 44 0.46
114 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (111 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAGTTCTTCTCATTAT
GAACTTTCTCTGGAAAAGTTGATCCACCGAGTGATGAATTAGAGCA
Found at i:852894 original size:22 final size:22
Alignment explanation
Indices: 852869--852944 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 22
852859 AATAAAGATT
*
852869 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATCTA
*
852891 TCATCTTTGGAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
852913 TCATTTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
852935 TCATCTTTGA
1 TCATCTTTGA
852945 GGAATGTAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:854397 original size:70 final size:71
Alignment explanation
Indices: 854281--854514 Score: 181
Period size: 75 Copynumber: 3.2 Consensus size: 71
854271 CATAATGATG
* * * * *
854281 TGGGCCTTT-AGCATGCCCCAACATTTACTAATATGAACATTCAAAAT-G-TTATTCTAATTTCT
1 TGGG-CTTTCAGCAT-CCCCAACATTTGCTAATAAGAACATTAAAAATCGCATATTCCAATTTCT
854343 GATTGAAA
64 GATTGAAA
*
854351 TGGGCTTTCAGCATACCCCAACATTTGCTAATACAG-ACGTTAAAAATGCGCCAATATTCCAATT
1 TGGGCTTTCAGCAT-CCCCAACATTTGCTAATA-AGAACATTAAAAAT-CG-C-ATATTCCAATT
854415 TCTGATTGAAA
61 TCTGATTGAAA
* * * *** * *
854426 TGGGCTTTCAGCATGCCCAAGCATTTGTTGACGTGAACATTCAAAATGCGTCAATATTCCTGA-T
1 TGGGCTTTCAGCATCCCCAA-CATTTGCTAATAAGAACATTAAAAAT-CG-C-ATATTCC-AATT
*
854490 TATGATTGAAA
61 TCTGATTGAAA
*
854501 TGGGTTTTCAGCAT
1 TGGGCTTTCAGCAT
854515 ACCCTAGTAT
Statistics
Matches: 135, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
69 4 0.03
70 35 0.26
71 1 0.01
72 1 0.01
74 6 0.04
75 87 0.64
76 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (71 bp):
TGGGCTTTCAGCATCCCCAACATTTGCTAATAAGAACATTAAAAATCGCATATTCCAATTTCTGA
TTGAAA
Found at i:854433 original size:75 final size:76
Alignment explanation
Indices: 854330--854518 Score: 219
Period size: 75 Copynumber: 2.5 Consensus size: 76
854320 TTCAAAATGT
* *
854330 TATTCTAATTTCTGATTGAAATGGGCTTTCAGCATACCCCAA-CATTTGCTAAT-AC-AG-ACGT
1 TATTCCAATTTCTGATTGAAATGGGCTTTCAGCATACCCCAAGCATTTG-T--TGACGAGAACAT
854391 TAAAAATGCGCCAA
63 TAAAAATGCGCCAA
* * *
854405 TATTCCAATTTCTGATTGAAATGGGCTTTCAGCAT-GCCCAAGCATTTGTTGACGTGAACATTCA
1 TATTCCAATTTCTGATTGAAATGGGCTTTCAGCATACCCCAAGCATTTGTTGACGAGAACATTAA
*
854469 AAATGCGTCAA
66 AAATGCGCCAA
* * *
854480 TATTCCTGA-TTATGATTGAAATGGGTTTTCAGCATACCC
1 TATTCC-AATTTCTGATTGAAATGGGCTTTCAGCATACCC
854519 TAGTATTTGC
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
72 1 0.01
73 2 0.02
74 7 0.07
75 85 0.87
76 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (76 bp):
TATTCCAATTTCTGATTGAAATGGGCTTTCAGCATACCCCAAGCATTTGTTGACGAGAACATTAA
AAATGCGCCAA
Found at i:857621 original size:1 final size:1
Alignment explanation
Indices: 857617--857682 Score: 69
Period size: 1 Copynumber: 66.0 Consensus size: 1
857607 CAATTTTTCC
* * * * * **
857617 TTTTTTTTCTTTTTCTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTCTTTTTTCTTTCCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
857682 T
1 T
857683 GATGAATGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:857631 original size:16 final size:16
Alignment explanation
Indices: 857610--857668 Score: 86
Period size: 15 Copynumber: 3.8 Consensus size: 16
857600 CTTGATTCAA
*
857610 TTTTTCCTTTTTTTTC
1 TTTTTTCTTTTTTTTC
857626 -TTTTTCTTTTTTTT-
1 TTTTTTCTTTTTTTTC
*
857640 TTTTTTTTTTTTTTTC
1 TTTTTTCTTTTTTTTC
857656 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
857669 CTTTCCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 26 0.68
16 12 0.32
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTC
Found at i:857637 original size:14 final size:13
Alignment explanation
Indices: 857618--857682 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 13
857608 AATTTTTCCT
857618 TTTTTTTCTTTTTC
1 TTTTTTT-TTTTTC
857632 -TTTTTTTTTTT-
1 TTTTTTTTTTTTC
857643 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
857656 TTTTTTCTTTTTTC
1 TTTTTT-TTTTTTC
857670 TTTCCTTTTTTTT
1 TTT--TTTTTTTT
857683 GATGAATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
12 16 0.35
13 12 0.26
14 10 0.22
15 5 0.11
16 3 0.07
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:857638 original size:24 final size:23
Alignment explanation
Indices: 857610--857679 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 23
857600 CTTGATTCAA
*
857610 TTTTTCCTTTTTTTTCTTTTTCTT
1 TTTTTCTTTTTTTTTCTTTTTC-T
* *
857634 TTTTTTTTTTTTTTTTTTTTTCT
1 TTTTTCTTTTTTTTTCTTTTTCT
857657 TTTTTCTTTTTTCTTTCCTTTTT
1 TTTTTCTTTTTT-TTT-CTTTTT
857680 TTTGATGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 12 0.31
24 22 0.56
25 5 0.13
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (23 bp):
TTTTTCTTTTTTTTTCTTTTTCT
Found at i:857644 original size:30 final size:28
Alignment explanation
Indices: 857610--857682 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
857600 CTTGATTCAA
*
857610 TTTTTCCTTTTTTTTCTTTTTCTTTTTTTT
1 TTTTTCCTTTTTTTTC-TTTT-TTCTTTTT
**
857640 TTTTTTTTTTTTTTTCTTTTTTCTTTTT
1 TTTTTCCTTTTTTTTCTTTTTTCTTTTT
*
857668 TCTTTCCTTTTTTTT
1 TTTTTCCTTTTTTTT
857683 GATGAATGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 19 0.51
29 4 0.11
30 14 0.38
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (28 bp):
TTTTTCCTTTTTTTTCTTTTTTCTTTTT
Found at i:857679 original size:31 final size:30
Alignment explanation
Indices: 857617--857682 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
857607 CAATTTTTCC
* **
857617 TTTTTTTTCTTTTTCTTTTTTTTTTTTTTT
1 TTTTTTTTCTTTTTCTTTTTTCTTTCCTTT
857647 TTTTTTTTCTTTTTTCTTTTTTCTTTCCTTT
1 TTTTTTTTC-TTTTTCTTTTTTCTTTCCTTT
857678 TTTTT
1 TTTTT
857683 GATGAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (30 bp):
TTTTTTTTCTTTTTCTTTTTTCTTTCCTTT
Found at i:861602 original size:36 final size:36
Alignment explanation
Indices: 861542--861613 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
861532 TCTTGCCGTA
* *
861542 GAATGCTTTTGGTATCAATCTAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
*
861578 GAATACTTTTGGTATTAATATAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
861614 TGCATAGCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (36 bp):
GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
Found at i:863330 original size:34 final size:34
Alignment explanation
Indices: 863289--863367 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
863279 CTTAATATTA
* *
863289 AAAAATAA-ATAAATATTA-AAATATGATTTATTTT
1 AAAAATAATATAAAT-TTATAAATAGGATTT-TTAT
*
863323 AAAAATAATTTAAATTTATAAATAGGATTTTTAT
1 AAAAATAATATAAATTTATAAATAGGATTTTTAT
863357 AAAAA-AATATA
1 AAAAATAATATA
863368 TTATTTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
33 5 0.13
34 19 0.49
35 15 0.38
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (34 bp):
AAAAATAATATAAATTTATAAATAGGATTTTTAT
Found at i:863362 original size:35 final size:34
Alignment explanation
Indices: 863286--863362 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
863276 TTTCTTAATA
*
863286 TTAAAAAATAAATAAATATTAAAATATGATTTAT
1 TTAAAAAATAAATAAATATTAAAATAGGATTTAT
* *
863320 TTTAAAAATAATTTAAAT-TTATAAATAGGATTT-T
1 TTAAAAAATAA-ATAAATATTA-AAATAGGATTTAT
863354 TATAAAAAA
1 T-TAAAAAA
863363 ATATATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 15 0.42
35 21 0.58
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (34 bp):
TTAAAAAATAAATAAATATTAAAATAGGATTTAT
Found at i:864699 original size:3 final size:3
Alignment explanation
Indices: 864685--864787 Score: 64
Period size: 3 Copynumber: 34.0 Consensus size: 3
864675 TTTGGGATTG
* * * **
864685 TAA TATA TAA TAA TATT TAA TAA TAA TAA TAA TAA TAA TCA TCA CCA
1 TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
864732 T-A TAA TAA TAA TTA TTA TTA TAA AAA TTA TAA TAA TTA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
864779 TAA AAA TAA
1 TAA TAA TAA
864788 AACGGGTCAA
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
2 2 0.03
3 73 0.91
4 5 0.06
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:864786 original size:21 final size:21
Alignment explanation
Indices: 864691--864787 Score: 79
Period size: 21 Copynumber: 4.5 Consensus size: 21
864681 ATTGTAATAT
* *
864691 ATAATAATATTTAATAATAATA
1 ATAATAATAATT-ATAATAAAA
* *
864713 ATAATAATAATCATCACCAT-ATA
1 ATAATAATAATTAT-A--ATAAAA
* *
864736 ATAATAATTATTATTATAAAA
1 ATAATAATAATTATAATAAAA
*
864757 ATTATAATAATTATAATAAAA
1 ATAATAATAATTATAATAAAA
*
864778 ATAAAAATAA
1 ATAATAATAA
864788 AACGGGTCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.03
21 30 0.50
22 11 0.18
23 15 0.25
24 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATAATAATTATAATAAAA
Found at i:866097 original size:23 final size:24
Alignment explanation
Indices: 866039--866098 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
866029 GATATTTTAG
866039 AATATTTTAATAAAATATTAATTATT
1 AATATTTT--TAAAATATTAATTATT
* *
866065 AACATATTTAAAATA-T-ATGTATT
1 AATATTTTTAAAATATTAAT-TATT
866088 AATATTTTTAA
1 AATATTTTTAA
866099 TAAAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 2 0.07
23 14 0.48
24 7 0.24
26 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
AATATTTTTAAAATATTAATTATT
Found at i:866451 original size:29 final size:29
Alignment explanation
Indices: 866401--866462 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
866391 TTTATCATAT
* **
866401 TTTTTATTTAGAATATACTAGAGTTAATA
1 TTTTTATTTAGAAAATACTAGAAATAATA
*
866430 TTTTTATTTATAAAATTA-TAGAAATAATA
1 TTTTTATTTAGAAAA-TACTAGAAATAATA
866459 TTTT
1 TTTT
866463 AATAATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (29 bp):
TTTTTATTTAGAAAATACTAGAAATAATA
Found at i:867028 original size:11 final size:11
Alignment explanation
Indices: 867009--867039 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
866999 AGAATTTTTT
867009 TTTAAATTTAA
1 TTTAAATTTAA
*
867020 TTTATATTTAA
1 TTTAAATTTAA
867031 TTTAAATTT
1 TTTAAATTT
867040 TCCTCTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:872875 original size:13 final size:13
Alignment explanation
Indices: 872857--872890 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
872847 GTGGTTATTT
872857 GAGAAACGAGCGA
1 GAGAAACGAGCGA
872870 GAGAAACGAGCGA
1 GAGAAACGAGCGA
872883 GAGAAACG
1 GAGAAACG
872891 GAAGACGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.38, T:0.00
Consensus pattern (13 bp):
GAGAAACGAGCGA
Found at i:873328 original size:23 final size:23
Alignment explanation
Indices: 873293--873419 Score: 107
Period size: 23 Copynumber: 5.4 Consensus size: 23
873283 TTCATTTATA
873293 TTCGTTTATGTTCATTTATTGTG
1 TTCGTTTATGTTCATTTATTGTG
* *
873316 TTCTTTTAAGTTCATTCGT-TTGTG
1 TTCGTTTATGTTCATT--TATTGTG
* * *
873340 TTCGTTTACGCTCGTTTATTGTG
1 TTCGTTTATGTTCATTTATTGTG
*
873363 TTCGTTTATGTTCTTTTACATTCGT-
1 TTCGTTTATGTTCATTT--ATT-GTG
* *
873388 TT-GTTTATGTTTATTCATTTGTG
1 TTCGTTTATGTTCATTTA-TTGTG
873411 TTCGTTTAT
1 TTCGTTTAT
873420 CATTTAAATG
Statistics
Matches: 83, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.05
23 37 0.45
24 34 0.41
25 6 0.07
26 2 0.02
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.60
Consensus pattern (23 bp):
TTCGTTTATGTTCATTTATTGTG
Found at i:892315 original size:16 final size:16
Alignment explanation
Indices: 892291--892349 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
892281 AATTGGTATT
*
892291 ACCTGACCTGTTTTCA
1 ACCTAACCTGTTTTCA
892307 ACCTAACCTGTTTTCA
1 ACCTAACCTGTTTTCA
*
892323 ACCTAACCTATTTTCA
1 ACCTAACCTGTTTTCA
892339 ACCTAACCTGT
1 ACCTAACCTGT
892350 AAATGATCCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.36
Consensus pattern (16 bp):
ACCTAACCTGTTTTCA
Found at i:892520 original size:40 final size:40
Alignment explanation
Indices: 892441--892521 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
892431 AATTGTGAGA
* *
892441 TTTTAAGTTTATAATAAATCATACTAATTAATATGATTAAT
1 TTTTAAATTTATAATAAA-CATACTAATTAATATAATTAAT
892482 TTTTAAATGTTATAATAAA-ATACTAATT-ATAATAATTAAT
1 TTTTAAAT-TTATAATAAACATACTAATTAAT-ATAATTAAT
892522 ATTATTATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
39 2 0.06
40 17 0.47
41 7 0.19
42 10 0.28
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (40 bp):
TTTTAAATTTATAATAAACATACTAATTAATATAATTAAT
Found at i:893043 original size:17 final size:17
Alignment explanation
Indices: 893013--893046 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
893003 TCCATATTAA
*
893013 TTCATGTTTAATTGCAT
1 TTCATGTTGAATTGCAT
*
893030 TTCATGTTGCATTGCAT
1 TTCATGTTGAATTGCAT
893047 GTTAAATAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.50
Consensus pattern (17 bp):
TTCATGTTGAATTGCAT
Found at i:893315 original size:19 final size:19
Alignment explanation
Indices: 893266--893316 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
893256 CATTATAAAT
893266 AAAT-AAATAAAAAGGAAA
1 AAATAAAATAAAAAGGAAA
*
893284 AAATAAAAAAAAAAGGAAA
1 AAATAAAATAAAAAGGAAA
893303 AAA-AAAACTAAAAA
1 AAATAAAA-TAAAAA
893317 CTACTCCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.08
Consensus pattern (19 bp):
AAATAAAATAAAAAGGAAA
Found at i:893763 original size:82 final size:82
Alignment explanation
Indices: 893588--893832 Score: 415
Period size: 82 Copynumber: 3.0 Consensus size: 82
893578 TTAGTCCAAA
893588 AATGTATTAATTTAGGCTTTAAATTTTTA-TTTATTTCAATTTT-ATCCTACG-ATTTTATAATT
1 AATGTATTAATTTAGGCTTTAAATTTTTATTTTATTTC-ATTTTGATCCTACGAATTTTATAATT
893650 TAATATATATAACTATAT
65 TAATATATATAACTATAT
*
893668 AATGTATTAATTTATGCTTTAAATTTTTATTTTATTTCATTTTGATCCTACGAATTTTATAATTT
1 AATGTATTAATTTAGGCTTTAAATTTTTATTTTATTTCATTTTGATCCTACGAATTTTATAATTT
893733 AATATATATAACTATAT
66 AATATATATAACTATAT
* * *
893750 AATGTATTTATTTAGGCTTTAAATTTTTATTTTATTTCAATTTGATTCTACGAATTTTATAATTT
1 AATGTATTAATTTAGGCTTTAAATTTTTATTTTATTTCATTTTGATCCTACGAATTTTATAATTT
*
893815 AATATATATAACTCTAT
66 AATATATATAACTATAT
893832 A
1 A
893833 TTTATGTACT
Statistics
Matches: 156, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
80 33 0.21
81 16 0.10
82 107 0.69
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (82 bp):
AATGTATTAATTTAGGCTTTAAATTTTTATTTTATTTCATTTTGATCCTACGAATTTTATAATTT
AATATATATAACTATAT
Found at i:893881 original size:35 final size:35
Alignment explanation
Indices: 893842--894004 Score: 123
Period size: 35 Copynumber: 4.8 Consensus size: 35
893832 ATTTATGTAC
893842 TTTAATATTTTATATTTTATACTTATAT-TATATA
1 TTTAATATTTTATATTTTATACTTATATATATATA
* *
893876 GTTTAAT-TCTTTATATTATATACTTATATACTTTATA
1 -TTTAATAT-TTTATATTTTATACTTATATA-TATATA
*
893913 TTTAATA-TTTATATTTATATACTT-TAATACTTTATA
1 TTTAATATTTTATATTT-TATACTTAT-ATA-TATATA
* *
893949 TTTAATA-CTTATATTATATA-TT-T-TA-ATAT-
1 TTTAATATTTTATATTTTATACTTATATATATATA
* *
893978 TTT-ATATTATATACTTTAATACTTATA
1 TTTAATATTTTATA-TTTTATACTTATA
894005 ACTTATATAT
Statistics
Matches: 107, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
28 3 0.03
29 7 0.07
30 8 0.07
31 2 0.02
32 3 0.03
34 4 0.04
35 38 0.36
36 37 0.35
37 5 0.05
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.58
Consensus pattern (35 bp):
TTTAATATTTTATATTTTATACTTATATATATATA
Found at i:893892 original size:22 final size:22
Alignment explanation
Indices: 893829--894519 Score: 159
Period size: 22 Copynumber: 32.0 Consensus size: 22
893819 TATATAACTC
* * *
893829 TATATTTATGTACTTTAATATTT
1 TATACTTATATACTTT-ATATTA
*
893852 TATA-TTTTATAC-TTATATTA
1 TATACTTATATACTTTATATTA
* *
893872 TATAGTT-TAATTCTTTATATTA
1 TATACTTAT-ATACTTTATATTA
893894 TATACTTATATACTTTATATT-
1 TATACTTATATACTTTATATTA
*
893915 TAATA-TT-TATA-TTTATATACTT
1 T-ATACTTATATACTTTATAT--TA
*
893937 TAATACTT-TATA-TTTAATACT-
1 T-ATACTTATATACTTT-ATATTA
* *
893958 TATA-TTATATATTTTAATATTT
1 TATACTTATATACTTT-ATATTA
893980 TATA-TTATATACTTTAATACTTA
1 TATACTTATATACTTT-ATA-TTA
* *
894003 TA-ACTTATATA-TATACACTT-
1 TATACTTATATACTTTATA-TTA
* * * *
894023 TATAATT-TATA-TATAAACT-
1 TATACTTATATACTTTATATTA
*
894042 TATACTT-TATAGTTTATATACTTA
1 TATACTTATATA-CTT-TATA-TTA
894066 TATA-TATAATTATACTTTATAGTT-
1 TATACT-T-A-TATACTTTATA-TTA
894090 TATA--TATATAC-TTATATTGA
1 TATACTTATATACTTTATATT-A
* * *
894110 TAT-GTATATATAC-ATATAGTA
1 TATACT-TATATACTTTATATTA
*
894131 TATA--TATATA-TATATA-TA
1 TATACTTATATACTTTATATTA
*
894149 TATA--TATATA-TATATATATA
1 TATACTTATATACTTTATAT-TA
894169 TATACTTA--TA-TTTATA-TA
1 TATACTTATATACTTTATATTA
*
894187 TATATTTTATATA-TATTATATATA
1 TATA-CTTATATACT-TTATAT-TA
**
894211 TATA-TATATATA-TAAAATATATA
1 TATACT-TATATACT-TTATAT-TA
894234 TATA-TATATATACTTTTATATATA
1 TATACT-TATATAC-TTTATAT-TA
* *
894258 TACACACTT-TATATTTTATA-TA
1 T--ATACTTATATACTTTATATTA
894280 TATAC-T-TATACTTTATATGTATA
1 TATACTTATATACTTTATA--T-TA
* *
894303 TATACTTTTATACTATATAGTTTA
1 TATACTTATATACTTTATA--TTA
*
894327 TATATTTATATACTTTATATTA
1 TATACTTATATACTTTATATTA
* *
894349 TATGCTTATATACTTTAGTCTT-
1 TATACTTATATACTTTA-TATTA
*
894371 TATAATTAT-T-CTTTATA-TA
1 TATACTTATATACTTTATATTA
* ** * *
894390 TAAAAATATATA--ATATACT-
1 TATACTTATATACTTTATATTA
894409 TATACTTTATATTA-TTATATATGTA
1 TATAC-TTATA-TACTT-TATAT-TA
* *
894434 TATATGCTT-TATA-TGTACATGTA
1 TATA--CTTATATACTTTATAT-TA
* *
894457 TATAATT-TATATTTTATA-TA
1 TATACTTATATACTTTATATTA
*
894477 TATACTTGTATACTTTATATT-
1 TATACTTATATACTTTATATTA
* *
894498 TAAAC-TATATAATTTATATTA
1 TATACTTATATACTTTATATTA
894519 T
1 T
894520 TATATATGCT
Statistics
Matches: 534, Mismatches: 63, Indels: 144
0.72 0.09 0.19
Matches are distributed among these distances:
18 27 0.05
19 65 0.12
20 88 0.16
21 61 0.11
22 118 0.22
23 79 0.15
24 55 0.10
25 28 0.05
26 7 0.01
27 6 0.01
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (22 bp):
TATACTTATATACTTTATATTA
Found at i:893903 original size:93 final size:91
Alignment explanation
Indices: 893827--894106 Score: 262
Period size: 93 Copynumber: 3.1 Consensus size: 91
893817 TATATATAAC
* * *
893827 TCTATATTTATGTACTTTAATATTTTATATTTTATACTTATATTATATAGTTTAAT-TCTTTATA
1 TCTATATTTATATACTTTAATACTTTATATTTAATACTTATATTATATAGTTTAATAT-TTTATA
893891 TTATATACTTATATACTTTATATTTAATA
65 TTATATACTTATA-A-TTTATATTTAATA
* *
893920 TTTATATTTATATACTTTAATACTTTATATTTAATACTTATATTATATATTTTAATATTTTATAT
1 TCTATATTTATATACTTTAATACTTTATATTTAATACTTATATTATATAGTTTAATATTTTATAT
*
893985 TATATACTT-T-A---ATACTT-ATA
66 TATATACTTATAATTTATATTTAATA
* * * * * *
894005 ACTTATATATATACACTTT-ATAATTTATATATAA-ACTTATACTT-TATAGTTT-ATATACTTA
1 TC-TATATTTATATACTTTAATACTTTATATTTAATACTTATA-TTATATAGTTTAATAT-TTTA
* *
894066 TA-TATATAATTATACTTTATAGTTT-ATA
63 TATTATATACTTATAATTTATA-TTTAATA
* *
894094 TATATACTTATAT
1 TCTATATTTATAT
894107 TGATATGTAT
Statistics
Matches: 155, Mismatches: 22, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
83 12 0.08
84 20 0.13
85 18 0.12
86 19 0.12
88 11 0.07
89 5 0.03
90 1 0.01
92 1 0.01
93 67 0.43
94 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (91 bp):
TCTATATTTATATACTTTAATACTTTATATTTAATACTTATATTATATAGTTTAATATTTTATAT
TATATACTTATAATTTATATTTAATA
Found at i:893934 original size:71 final size:72
Alignment explanation
Indices: 893842--894091 Score: 217
Period size: 71 Copynumber: 3.6 Consensus size: 72
893832 ATTTATGTAC
* *
893842 TTTA-ATATTTTATATTT-TATACTTATA-TTATATAGTTTAATTCTTTATATTATATACTTATA
1 TTTATATACTTTATATTTATATACTTATACTT-TATAGTTTAATACTTTATATTATATACTT-TA
893904 TACTTTATA
64 TACTTTATA
*
893913 TTTA-ATA-TTTATATTTATATACTTTAATACTTTATA-TTTAATAC-TTATATTATATATTTTA
1 TTTATATACTTTATATTTATATAC-TT-ATACTTTATAGTTTAATACTTTATATTATATACTTT-
*
893974 ATATTTTATA
63 ATACTTTATA
* * * * *
893984 -TTATATACTTTAATACTTATA-ACTTATA-TATATACACTTT-ATAATTTATA-TATAAAC-TT
1 TTTATATACTTT-ATATTTATATACTTATACT-T-TATAGTTTAATACTTTATATTATATACTTT
894043 ATACTTTATA
63 ATACTTTATA
*
894053 GTTTATATAC-TTATA--TATATAATTATACTTTATAGTTTA
1 -TTTATATACTTTATATTTATATACTTATACTTTATAGTTTA
894092 TATATATACT
Statistics
Matches: 150, Mismatches: 12, Indels: 37
0.75 0.06 0.19
Matches are distributed among these distances:
67 10 0.07
68 7 0.05
69 14 0.09
70 21 0.14
71 59 0.39
72 22 0.15
73 15 0.10
74 2 0.01
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (72 bp):
TTTATATACTTTATATTTATATACTTATACTTTATAGTTTAATACTTTATATTATATACTTTATA
CTTTATA
Found at i:894069 original size:2 final size:2
Alignment explanation
Indices: 894064--894351 Score: 197
Period size: 2 Copynumber: 143.5 Consensus size: 2
894054 TTTATATACT
* *
894064 TA TA TA TA TA -A T- TA TA CTT TA TA GTT TA TA TA TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA
* *
894104 TA T- TGA TA TG TA TA TA TA CA TA TA GTA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
894147 TA TA TA TA TA TA TA TA TA TA TA TA TA CT- TA TA TT 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
* *
894189 TA T- TT TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
894228 TA TA TA TA TA TA TA TA TA CT- TT TA TA TA TA TA CA CA CTT TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
894271 T- TT TA TA TA TA TA CT- TA TA CTT TA TA TG TA TA TA TA CT- TT
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * *
894311 TA TA CTA TA TA GTT TA TA TA TT TA TA TA CTT TA TA T- TA TA T
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T
894352 GCTTATATAC
Statistics
Matches: 230, Mismatches: 29, Indels: 54
0.73 0.09 0.17
Matches are distributed among these distances:
1 13 0.06
2 202 0.88
3 15 0.07
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:894330 original size:9 final size:8
Alignment explanation
Indices: 893829--894346 Score: 177
Period size: 8 Copynumber: 65.4 Consensus size: 8
893819 TATATAACTC
893829 TATATTTA
1 TATATTTA
*
893837 TGTACTTTA
1 TATA-TTTA
893846 -ATATTT-
1 TATATTTA
893852 TATATTTTA
1 TATA-TTTA
893861 TACTTATATTA
1 TA--TAT-TTA
893872 TATAGTTTA
1 TATA-TTTA
893881 -AT-TCTT-
1 TATAT-TTA
893887 TATA-TTA
1 TATATTTA
*
893894 TATACTTA
1 TATATTTA
*
893902 TATACTT-
1 TATATTTA
893909 TATATTTA
1 TATATTTA
893917 -ATA-TT-
1 TATATTTA
893922 TATATTTA
1 TATATTTA
893930 TATACTTTA
1 TATA-TTTA
*
893939 -ATACTT-
1 TATATTTA
893945 TATATTTA
1 TATATTTA
*
893953 -ATACTTA
1 TATATTTA
*
893960 TAT-TATA
1 TATATTTA
893967 TAT-TTTA
1 TATATTTA
893974 -ATATTT-
1 TATATTTA
893980 TATA-TTA
1 TATATTTA
893987 TATACTTTA
1 TATA-TTTA
*
893996 -ATACTTA
1 TATATTTA
*
894003 TA-ACTTA
1 TATATTTA
894010 TATA--TA
1 TATATTTA
*
894016 TACACTTTA
1 TATA-TTTA
894025 TA-ATTTA
1 TATATTTA
**
894032 TATATAAA
1 TATATTTA
894040 CTTATACTTTA
1 --TATA-TTTA
*
894051 TA-GTTTA
1 TATATTTA
*
894058 TATACTTA
1 TATATTTA
*
894066 TATATATAA
1 TATAT-TTA
894075 TTATACTTTA
1 -TATA-TTTA
*
894085 TA-GTTTA
1 TATATTTA
*
894092 TATATATA
1 TATATTTA
*
894100 CTTATATTGA
1 --TATATTTA
* *
894110 TATGTATA
1 TATATTTA
**
894118 TATACATA
1 TATATTTA
*
894126 TAGTATATA
1 TA-TATTTA
*
894135 TATATATA
1 TATATTTA
*
894143 TATATATA
1 TATATTTA
*
894151 TATATATA
1 TATATTTA
*
894159 TATATATA
1 TATATTTA
*
894167 TATATACT-
1 TATAT-TTA
894175 TATATTTA
1 TATATTTA
894183 TATA--TA
1 TATATTTA
894189 TAT-TTTA
1 TATATTTA
894196 TATATATTA
1 TATAT-TTA
*
894205 TATATATA
1 TATATTTA
*
894213 TATATATA
1 TATATTTA
**
894221 TATA-AAA
1 TATATTTA
*
894228 TATATATA
1 TATATTTA
*
894236 TATATATA
1 TATATTTA
894244 TACT-TTTA
1 TA-TATTTA
*
894252 TATATATA
1 TATATTTA
* *
894260 CACACTTTA
1 TATA-TTTA
894269 TAT-TTTA
1 TATATTTA
*
894276 TATATATA
1 TATATTTA
894284 CTTATACTTTA
1 --TATA-TTTA
* *
894295 TATGTATA
1 TATATTTA
894303 TATACTTT-
1 TATA-TTTA
*
894311 TATA-CTA
1 TATATTTA
894318 TATAGTTTA
1 TATA-TTTA
894327 TATATTTA
1 TATATTTA
894335 TATACTTTA
1 TATA-TTTA
894344 TAT
1 TAT
894347 TATATGCTTA
Statistics
Matches: 396, Mismatches: 52, Indels: 123
0.69 0.09 0.22
Matches are distributed among these distances:
6 23 0.06
7 108 0.27
8 163 0.41
9 67 0.17
10 22 0.06
11 13 0.03
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.54
Consensus pattern (8 bp):
TATATTTA
Found at i:894351 original size:69 final size:65
Alignment explanation
Indices: 893900--894359 Score: 230
Period size: 67 Copynumber: 7.0 Consensus size: 65
893890 ATTATATACT
* * *
893900 TATATACTTTATA-TTTAATATTTATATTTATATACTTTA-ATACTTTATATT-TAATACTTATA
1 TATATA-TATATACTTTTATATATATATTTATATA-TTTATATA-TTTATATTAT-ATACTTATA
893962 -TTA
62 TTTA
* * * *
893965 TATAT-TTTAATA-TTTTATATTATATACTTTA-ATACTTATA-ACTTATATATATACACTTTAT
1 TATATATAT-ATACTTTTATA-TATATA-TTTATATATTTATATATTTATAT-TATATAC-TTAT
894026 AATTTA
61 -ATTTA
* *
894032 TATATAAACTTATACTTTATAGTTTATATACTTATATATATAATTATACT-TTATAGTTTATATA
1 TATATATA--TATACTTT-TA-TATATATA-TT-TATATAT--TTATA-TATT-TA---TAT-TA
*
894096 TATACTTATATTGA
52 TATACTTATATTTA
* * * * * * *
894110 TATGTATATATACATATAGTATATATATATATATATATATATATATATATATATATA-TATATAC
1 TATATATATATACTTTTA-TATATATATTTATATATTTATATATTTATAT-TATATACT-TATAT
894174 TTA
63 TTA
* ** *
894177 TATTTATATATA-TATTT-TATATATA-TTATATA--TATATA--TATA-TATATA-AAATATAT
1 TATATATATATACT-TTTATATATATATTTATATATTTATATATTTATATTATATACTTATATTT
894233 A
65 A
* * *
894234 TATATATATATACTTTTATATATATA--CACA-CTTTATAT-TTTATA-TATATACTTATACTTT
1 TATATATATATACTTTTATATATATATTTATATATTTATATATTTATATTATATACTTATA-TTT
894294 A
65 A
* *
894295 TATGTATATATACTTTTATACTATATAGTTTATATATTTATATACTTTATATTATATGCTTATAT
1 TATATATATATACTTTTATA-TATATA-TTTATATATTTATATA-TTTATATTATATACTTATAT
894360 ACTTTAGTCT
Statistics
Matches: 309, Mismatches: 42, Indels: 85
0.71 0.10 0.19
Matches are distributed among these distances:
57 21 0.07
58 20 0.06
59 10 0.03
60 7 0.02
61 22 0.07
62 12 0.04
63 9 0.03
64 23 0.07
65 29 0.09
66 13 0.04
67 37 0.12
68 7 0.02
69 14 0.05
70 7 0.02
71 16 0.05
72 3 0.01
73 10 0.03
74 1 0.00
75 15 0.05
76 7 0.02
77 2 0.01
78 10 0.03
79 4 0.01
80 10 0.03
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.53
Consensus pattern (65 bp):
TATATATATATACTTTTATATATATATTTATATATTTATATATTTATATTATATACTTATATTTA
Found at i:894561 original size:17 final size:17
Alignment explanation
Indices: 894540--894578 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
894530 TTATTTGTAC
* *
894540 ATATATATAATTTATAA
1 ATATACATAATATATAA
*
894557 TTATACATAATATATAA
1 ATATACATAATATATAA
894574 ATATA
1 ATATA
894579 AGTTGTATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATACATAATATATAA
Found at i:894611 original size:11 final size:11
Alignment explanation
Indices: 894595--894675 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
894585 ATATATTTAA
894595 ATATAATTCAT
1 ATATAATTCAT
*
894606 ATATAATTTAT
1 ATATAATTCAT
*
894617 ATATAA-AC-T
1 ATATAATTCAT
*
894626 ATATAATTTAT
1 ATATAATTCAT
**
894637 AT-TAATAAACT
1 ATATAATTCA-T
* *
894648 ATATATTTTAT
1 ATATAATTCAT
* *
894659 ATATAGTTCAA
1 ATATAATTCAT
894670 ATATAA
1 ATATAA
894676 ACTCTATACG
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
9 7 0.13
10 5 0.10
11 36 0.69
12 4 0.08
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (11 bp):
ATATAATTCAT
Found at i:894617 original size:9 final size:10
Alignment explanation
Indices: 894541--894638 Score: 55
Period size: 11 Copynumber: 9.7 Consensus size: 10
894531 TATTTGTACA
894541 TATATATAA-
1 TATATATAAT
894550 T-T-TATAAT
1 TATATATAAT
*
894558 TATACATAAT
1 TATATATAAT
894568 ATATAAATATAAGT
1 -TAT--ATATAA-T
* *
894582 TGTATATATT
1 TATATATAAT
*
894592 TAAATATAAT
1 TATATATAAT
894602 TCATATATAATT
1 T-ATATATAA-T
894614 TATATATAA-
1 TATATATAAT
894623 -ACTATATAAT
1 TA-TATATAAT
894633 T-TATAT
1 TATATAT
894639 TAATAAACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
7 5 0.07
8 3 0.04
9 14 0.20
10 14 0.20
11 23 0.33
12 2 0.03
13 7 0.10
14 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (10 bp):
TATATATAAT
Found at i:894620 original size:22 final size:22
Alignment explanation
Indices: 894464--894663 Score: 90
Period size: 21 Copynumber: 9.7 Consensus size: 22
894454 GTATATAATT
* * *
894464 TATATTTTATATAT-ATACTTG
1 TATAATTTATATATAATACATA
* *
894485 TATACTTTATATTTAA-AC-TA
1 TATAATTTATATATAATACATA
*
894505 TATAATTTATAT-T-AT-TATA
1 TATAATTTATATATAATACATA
** * *
894524 TATGCTTTATTTGTACAT--ATA
1 TATAATTTATATATA-ATACATA
*
894545 TATAATTTATA-ATTATACATA
1 TATAATTTATATATAATACATA
* * **
894566 -AT-ATATAAATATAAGT-TGTA
1 TATAATTTATATATAA-TACATA
* *
894586 TAT-ATTTAAATATAATTCATA
1 TATAATTTATATATAATACATA
894607 TATAATTTATATATAA-AC-TA
1 TATAATTTATATATAATACATA
*
894627 TATAATTTATAT-TAATAAACTA
1 TATAATTTATATATAATACA-TA
*
894649 TATATTTTATATATA
1 TATAATTTATATATA
894664 GTTCAAATAT
Statistics
Matches: 137, Mismatches: 25, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
18 1 0.01
19 22 0.16
20 37 0.27
21 48 0.35
22 27 0.20
23 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (22 bp):
TATAATTTATATATAATACATA
Found at i:894628 original size:20 final size:20
Alignment explanation
Indices: 894605--894663 Score: 91
Period size: 22 Copynumber: 2.9 Consensus size: 20
894595 ATATAATTCA
894605 TATATAATTTATATATAAAC
1 TATATAATTTATATATAAAC
894625 TATATAATTTATATTAATAAAC
1 TATATAATTTATA-T-ATAAAC
*
894647 TATATATTTTATATATA
1 TATATAATTTATATATA
894664 GTTCAAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 16 0.44
21 2 0.06
22 18 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATAATTTATATATAAAC
Found at i:894710 original size:11 final size:11
Alignment explanation
Indices: 894696--894854 Score: 57
Period size: 11 Copynumber: 14.7 Consensus size: 11
894686 TTATACATGG
894696 TATATATAATT
1 TATATATAATT
*
894707 TATACATAA--
1 TATATATAATT
*
894716 TATATATAGTT
1 TATATATAATT
*
894727 TATATATAGTT
1 TATATATAATT
*
894738 TATA-ATAATA
1 TATATATAATT
* **
894748 TAAATATAAAC
1 TATATATAATT
894759 TATATAGT--TT
1 TATATA-TAATT
* * *
894769 CTCTATCTAACT
1 -TATATATAATT
894781 TATATAT-ATAT
1 TATATATAAT-T
* *
894792 AATATATACTT
1 TATATATAATT
894803 TATATATAA--
1 TATATATAATT
*
894812 -ACTATATAGTT
1 TA-TATATAATT
* *
894823 TATATATTATAA
1 TATATATAAT-T
*
894835 TATTATATAGTT
1 TA-TATATAATT
894847 TATATATA
1 TATATATA
894855 TTATAATTGT
Statistics
Matches: 105, Mismatches: 28, Indels: 30
0.64 0.17 0.18
Matches are distributed among these distances:
8 1 0.01
9 13 0.12
10 9 0.09
11 68 0.65
12 8 0.08
13 6 0.06
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (11 bp):
TATATATAATT
Found at i:894741 original size:20 final size:20
Alignment explanation
Indices: 894686--894730 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
894676 ACTCTATACG
**
894686 TTATACATGGTATATATAAT
1 TTATACATAATATATATAAT
*
894706 TTATACATAATATATATAGT
1 TTATACATAATATATATAAT
894726 TTATA
1 TTATA
894731 TATAGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (20 bp):
TTATACATAATATATATAAT
Found at i:894788 original size:2 final size:2
Alignment explanation
Indices: 894781--894859 Score: 51
Period size: 2 Copynumber: 40.0 Consensus size: 2
894771 CTATCTAACT
* * *
894781 TA TA TA TA TA TA -A TA TA TA CTT TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA
*
894823 TA TA TA T- TA TA -A TA T- TA TA TA GTT TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
894860 ATTGTTTCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
1 5 0.08
2 51 0.85
3 4 0.07
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:894808 original size:20 final size:20
Alignment explanation
Indices: 894778--894837 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 20
894768 TCTCTATCTA
894778 ACTTATATATATATAATATAT
1 ACTT-TATATATATAATATAT
894799 ACTTTATATATA-AACTATAT
1 ACTTTATATATATAA-TATAT
*
894819 AGTTTATATATTATAATAT
1 ACTTTATATA-TATAATAT
894838 TATATAGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 2 0.06
20 22 0.63
21 9 0.26
22 2 0.06
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (20 bp):
ACTTTATATATATAATATAT
Found at i:894808 original size:24 final size:24
Alignment explanation
Indices: 894781--894861 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
894771 CTATCTAACT
*
894781 TATATATATATAATATATA-CTT-
1 TATATATATATAATATATAGTTTA
*
894803 TATATATA-A-ACTATATAGTTTA
1 TATATATATATAATATATAGTTTA
*
894825 TATAT-TATAATATTATATAGTTTA
1 TATATATAT-ATAATATATAGTTTA
894849 TATATAT-TATAAT
1 TATATATATATAAT
894862 TGTTTCAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.14
21 5 0.10
22 13 0.27
23 5 0.10
24 18 0.37
25 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TATATATATATAATATATAGTTTA
Found at i:894852 original size:55 final size:55
Alignment explanation
Indices: 894726--894860 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 55
894716 TATATATAGT
* * *
894726 TTATATATAGTTTATA-ATAATATAAATATAAACTATATAGTTTCTCTATCTAAC
1 TTATATATAGTTTATATATAATATAAATATAAACTATATAGTTTATATATCTAAA
* * * *
894780 TTATATATA-TATAATATATACTTTATATATAAACTATATAGTTTATATAT-TATAA
1 TTATATATAGT-TTATATATAATATAAATATAAACTATATAGTTTATATATCTA-AA
*
894835 -TATTATATAGTTTATATATATTATAA
1 TTA-TATATAGTTTATATATAATATAA
894861 TTGTTTCAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
53 1 0.02
54 17 0.26
55 46 0.71
56 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (55 bp):
TTATATATAGTTTATATATAATATAAATATAAACTATATAGTTTATATATCTAAA
Found at i:906303 original size:19 final size:19
Alignment explanation
Indices: 906279--906321 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
906269 TGCTCCATAG
906279 AAAAAA-ATAGCAGTTCGAA
1 AAAAAAGAT-GCAGTTCGAA
**
906298 AAAAAAGATGTTGTTCGAA
1 AAAAAAGATGCAGTTCGAA
906317 AAAAA
1 AAAAA
906322 GAGAGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.19
Consensus pattern (19 bp):
AAAAAAGATGCAGTTCGAA
Found at i:912727 original size:21 final size:21
Alignment explanation
Indices: 912701--912740 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
912691 CCCCCTTTGA
*
912701 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
912722 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
912741 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:912728 original size:44 final size:44
Alignment explanation
Indices: 912654--912739 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
912644 AGCATTTTAG
* * *
912654 TGAAGAGGGAATCGATCCCCCCATGAGGGAACCGATTCCCCCTT
1 TGAAGAGGGAACCGATCCCCCCAAGAGGGAACCGATACCCCCTT
*
912698 TGAAG-GGGAACCGATTCCCCCCACAG-GGGAATCGATACCCCC
1 TGAAGAGGGAACCGA-TCCCCCCA-AGAGGGAACCGATACCCCC
912740 CTGGGGTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 8 0.22
44 27 0.75
45 1 0.03
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.15
Consensus pattern (44 bp):
TGAAGAGGGAACCGATCCCCCCAAGAGGGAACCGATACCCCCTT
Found at i:914704 original size:17 final size:17
Alignment explanation
Indices: 914679--914712 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
914669 TTGAATATTT
*
914679 TGGAATGTTTGATTTTG
1 TGGAATGTTGGATTTTG
*
914696 TGGATTGTTGGATTTTG
1 TGGAATGTTGGATTTTG
914713 GATTTATGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (17 bp):
TGGAATGTTGGATTTTG
Found at i:914973 original size:11 final size:11
Alignment explanation
Indices: 914957--914989 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
914947 AAAGGGGGAG
914957 AAGTGTGTTTT
1 AAGTGTGTTTT
914968 AAGTGTGTTTT
1 AAGTGTGTTTT
914979 AAGTGTGTTTT
1 AAGTGTGTTTT
914990 TAAAAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (11 bp):
AAGTGTGTTTT
Found at i:915382 original size:20 final size:22
Alignment explanation
Indices: 915351--915390 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
915341 CTCAGAGGGA
915351 ACCGATTCCCCCCT-AAGGGGT
1 ACCGATTCCCCCCTGAAGGGGT
915372 ACCGATT-CCCCCTGAAGGG
1 ACCGATTCCCCCCTGAAGGG
915391 TTTGGCTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (22 bp):
ACCGATTCCCCCCTGAAGGGGT
Found at i:916558 original size:26 final size:26
Alignment explanation
Indices: 916508--916558 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
916498 TCTGATGTGG
* * *
916508 CAGTTTCTAGAAGGTCTAGTTAGCGA
1 CAGTTTCTAGAAGATCTACTCAGCGA
916534 CAGTTTCTAGAAGATCTACTCAGCG
1 CAGTTTCTAGAAGATCTACTCAGCG
916559 CGCCTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (26 bp):
CAGTTTCTAGAAGATCTACTCAGCGA
Found at i:918013 original size:170 final size:171
Alignment explanation
Indices: 917706--918045 Score: 445
Period size: 170 Copynumber: 2.0 Consensus size: 171
917696 TGCAAGATAA
* * * * *
917706 AAAAGAGAATTTGTGAGGAGGTTGGAAACTTTAAGAAAAAAGACCAAATTAAGAGAGGTCACAAC
1 AAAAGAGAATTTATGAGGAGGTTGGAAACTTAAAGAAAAAAGACAAAATTAAAAGAGATCACAAC
* * ** * *
917771 CCATAAAATCCATGAACATTACGTATGGAAGGTGAGTGATCCTATTTGTAAAGAAAAGATTGACT
66 CCATAAAAGCCATGAACATGACCCATGGAAGGTGAGTGATCCTATTTGTAAAGAAAAAAGTGACT
*
917836 CAAACATACATGTGAGCAAAAACGAATTGAGAGAAAACCTC
131 CAAACATACATGTGAGCAAAAAAGAATTGAGAGAAAACCTC
* * * *
917877 AAAATAGAATTTATGAGGATGTTGGGAACTTAAAG-AAAAAGACAAAATTAAAAGAGATCATAAC
1 AAAAGAGAATTTATGAGGAGGTTGGAAACTTAAAGAAAAAAGACAAAATTAAAAGAGATCACAAC
*
917941 CCATAAAAGCCAAT-AACATGACCCAT-GAGAGGTGAGTGA-CCTATTTGTGAAGAAAAAAGTGA
66 CCATAAAAGCC-ATGAACATGACCCATGGA-AGGTGAGTGATCCTATTTGTAAAGAAAAAAGTGA
* * *
918003 CTCAAAACATAGATGTTAGCAAAAAAGAATTGTGAGAAAACCT
129 CTC-AAACATACATGTGAGCAAAAAAGAATTGAGAGAAAACCT
918046 TTTTCACAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
169 25 0.17
170 89 0.61
171 32 0.22
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (171 bp):
AAAAGAGAATTTATGAGGAGGTTGGAAACTTAAAGAAAAAAGACAAAATTAAAAGAGATCACAAC
CCATAAAAGCCATGAACATGACCCATGGAAGGTGAGTGATCCTATTTGTAAAGAAAAAAGTGACT
CAAACATACATGTGAGCAAAAAAGAATTGAGAGAAAACCTC
Found at i:929469 original size:17 final size:15
Alignment explanation
Indices: 929440--929473 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
929430 TGGCACCATC
929440 TAAAAAATATAAAAA
1 TAAAAAATATAAAAA
929455 TAAAAAATGATTAAAAA
1 TAAAAAAT-A-TAAAAA
929472 TA
1 TA
929474 GATAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
TAAAAAATATAAAAA
Found at i:934918 original size:20 final size:20
Alignment explanation
Indices: 934893--935026 Score: 117
Period size: 20 Copynumber: 6.7 Consensus size: 20
934883 AATTGGGAAA
*
934893 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
934913 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
934933 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
934954 ATTGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
934974 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
934994 TTCGCAACGTGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
935014 TTCGCAACGCGAT
1 ATCGCAACGCGAT
935027 TTACATAGCG
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.02
20 81 0.84
21 12 0.12
22 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Done.