Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_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: 3753803
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 18
Found at i:763578 original size:23 final size:23
Alignment explanation
Indices: 763502--763587 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
763492 ATTCAAGTCA
*
763502 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
763525 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
763549 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* * *
763572 AGGATCATAACAGAAT
1 AGTATCAGATCAGAAT
763588 TCAAGTCGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 33 0.61
24 21 0.39
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:766079 original size:8 final size:8
Alignment explanation
Indices: 766066--766105 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
766056 TCCGGTCAAT
766066 GGTCAACG
1 GGTCAACG
766074 GGTCAAC-
1 GGTCAACG
766081 GGTCAACG
1 GGTCAACG
766089 GGT---CG
1 GGTCAACG
766094 GGTCAACG
1 GGTCAACG
766102 GGTC
1 GGTC
766106 GGGTAAACGG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:766079 original size:15 final size:15
Alignment explanation
Indices: 766059--766105 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
766049 GGTCAACTCC
*
766059 GGTCAATGGTCAACG
1 GGTCAACGGTCAACG
766074 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
766089 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
766102 GGTC
1 GGTC
766106 GGGTAAACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.40
15 18 0.60
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.17
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:766099 original size:13 final size:13
Alignment explanation
Indices: 766066--766123 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
766056 TCCGGTCAAT
*
766066 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
766081 GGTCAACGGGTCG
1 GGTCAACGGGTCG
766094 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
766107 GGTAAACGGGTCG
1 GGTCAACGGGTCG
766120 GGTC
1 GGTC
766124 GGGTCGTGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 28 0.70
15 12 0.30
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:767509 original size:20 final size:20
Alignment explanation
Indices: 767484--767521 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
767474 GACTTGATTT
767484 TACTGTAGTA-GTATCGATGC
1 TACTGTAG-AGGTATCGATGC
767504 TACTGTAGAGGTATCGAT
1 TACTGTAGAGGTATCGAT
767522 ACTCATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (20 bp):
TACTGTAGAGGTATCGATGC
Found at i:767609 original size:50 final size:50
Alignment explanation
Indices: 767551--767663 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
767541 TTTTTTGAGC
* *
767551 ATCAGTACTGTTCGTTACTGTTCACACATTATCGATATTATTCATACAAT
1 ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
** * *
767601 ATCAGTACTATTCGTTGTTGTTCACACATTATCGGTACTATTCATACAGT
1 ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
*
767651 A-CAATACTATTCG
1 ATCAGTACTATTCG
767664 CAAAAACATT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
49 11 0.20
50 45 0.80
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (50 bp):
ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
Found at i:768170 original size:14 final size:13
Alignment explanation
Indices: 768140--768238 Score: 58
Period size: 13 Copynumber: 6.8 Consensus size: 13
768130 TACACTTATA
768140 TATACTTATATACT
1 TATA-TTATATACT
*
768154 TATATTATATAGTTT
1 TATATTATATA--CT
768169 ATATAATTTATATACT
1 -TAT-A-TTATATACT
768185 TATATT-TATACTT
1 TATATTATATAC-T
*
768198 TATTGTTTATATACTT
1 TA-T-ATTATATAC-T
768214 TATATATATATA-T
1 TATAT-TATATACT
768227 TATATATATATA
1 TATAT-TATATA
768239 TATACATTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
12 5 0.07
13 25 0.35
14 7 0.10
15 13 0.18
16 13 0.18
17 1 0.01
18 7 0.10
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (13 bp):
TATATTATATACT
Found at i:768172 original size:9 final size:9
Alignment explanation
Indices: 768158--768219 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
768148 TATACTTATA
*
768158 TTATATAGT
1 TTATATACT
*
768167 TTATATAAT
1 TTATATACT
768176 TTATATACT
1 TTATATACT
768185 TATATTTATACT
1 T-TA--TATACT
*
768197 TTAT-T-GT
1 TTATATACT
768204 TTATATACT
1 TTATATACT
768213 TTATATA
1 TTATATA
768220 TATATATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 5 0.11
8 2 0.05
9 26 0.59
10 2 0.05
11 2 0.05
12 7 0.16
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (9 bp):
TTATATACT
Found at i:768206 original size:37 final size:37
Alignment explanation
Indices: 768138--768240 Score: 120
Period size: 37 Copynumber: 2.7 Consensus size: 37
768128 TATACACTTA
768138 TATATACTTATATACTTATATTATATAGTTTATATAATT
1 TATATACTTATAT--TTATATTATATAGTTTATATAATT
* *
768177 TATATACTTATATTTATACTT-TATTGTTTATATACTT
1 TATATACTTATATTTATA-TTATATAGTTTATATAATT
768214 TATATA-TATATATTATATATATATATA
1 TATATACT-TATATT-TATAT-TATATA
768241 TACATTATAA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
36 1 0.02
37 32 0.57
38 7 0.12
39 16 0.29
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (37 bp):
TATATACTTATATTTATATTATATAGTTTATATAATT
Found at i:768219 original size:2 final size:2
Alignment explanation
Indices: 768214--768302 Score: 52
Period size: 2 Copynumber: 48.0 Consensus size: 2
768204 TTATATACTT
* *
768214 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA CA T- TA TA -A CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
768253 TA TA TA CA -A GTT TCA TA T- TA TA T- TA T- TA TA TA -A TA TA TA
1 TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
768292 CA TA TA T- TA TA
1 TA TA TA TA TA TA
768303 ATTATTTCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
1 9 0.13
2 58 0.85
3 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:768230 original size:9 final size:9
Alignment explanation
Indices: 768154--768249 Score: 53
Period size: 9 Copynumber: 11.0 Consensus size: 9
768144 CTTATATACT
768154 TATATTATA
1 TATATTATA
768163 TAGT-TTATA
1 TA-TATTATA
768172 TA-ATT-TA
1 TATATTATA
*
768179 TATACT-TA
1 TATATTATA
768187 TAT-TTATA
1 TATATTATA
* * *
768195 CTTTATTGTT
1 -TATATTATA
*
768205 TATA-TACTT
1 TATATTA-TA
768214 TATA-TATA
1 TATATTATA
768222 TATATTATA
1 TATATTATA
768231 TATATATATA
1 TATAT-TATA
*
768241 TACATTATA
1 TATATTATA
768250 ACATATATAC
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
7 5 0.07
8 17 0.25
9 35 0.51
10 12 0.17
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATTATA
Found at i:770501 original size:42 final size:42
Alignment explanation
Indices: 770442--770525 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
770432 AAATCTCGCC
*
770442 GGTGTGGGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
1 GGTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
*
770484 GGTGTGCGATGCACTCTTAACTAGCTTGATTTCCATAGCTCT
1 GGTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
770526 ATTCGTTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (42 bp):
GGTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
Found at i:778675 original size:13 final size:13
Alignment explanation
Indices: 778644--778676 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
778634 CCTAATCACA
778644 TGAATTTTTTATC
1 TGAATTTTTTATC
*
778657 TG-ATTTTTTATT
1 TGAATTTTTTATC
778669 TGAATTTT
1 TGAATTTT
778677 ATTCTGGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (13 bp):
TGAATTTTTTATC
Found at i:778945 original size:16 final size:15
Alignment explanation
Indices: 778917--778947 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
778907 GCTTTTTGAA
778917 TTTTAAAAAATATGT
1 TTTTAAAAAATATGT
778932 TTTTAAAAATATATGT
1 TTTTAAAAA-ATATGT
778948 ATCTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TTTTAAAAAATATGT
Found at i:783319 original size:12 final size:12
Alignment explanation
Indices: 783299--783339 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
783289 CTTCCCAAAG
783299 CTCACTCTGTTA
1 CTCACTCTGTTA
*
783311 CTCAATCTGTTA
1 CTCACTCTGTTA
783323 CTCACTCTGTTA
1 CTCACTCTGTTA
783335 CTCAC
1 CTCAC
783340 CTTTTCAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (12 bp):
CTCACTCTGTTA
Found at i:785009 original size:12 final size:12
Alignment explanation
Indices: 784992--785016 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
784982 ACAAATTCAT
784992 AAATGAAAGAAA
1 AAATGAAAGAAA
785004 AAATGAAAGAAA
1 AAATGAAAGAAA
785016 A
1 A
785017 GTGATGTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAATGAAAGAAA
Found at i:785137 original size:15 final size:15
Alignment explanation
Indices: 785119--785151 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
785109 AGTTAGCTCT
785119 TTTATCCCCCATAGG
1 TTTATCCCCCATAGG
785134 TTTATCCCCCATAGG
1 TTTATCCCCCATAGG
785149 TTT
1 TTT
785152 TCGTCACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (15 bp):
TTTATCCCCCATAGG
Found at i:785999 original size:20 final size:19
Alignment explanation
Indices: 785971--786031 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 19
785961 ATATACATGT
785971 ATAACATATATGATATACAC
1 ATAACATATAT-ATATACAC
* *
785991 ATAATATATATATATACATGT
1 ATAACATATATATATACA--C
*
786012 ATAACATATATATACACAC
1 ATAACATATATATATACAC
786031 A
1 A
786032 CTTAAGTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 8 0.24
20 10 0.29
21 16 0.47
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (19 bp):
ATAACATATATATATACAC
Found at i:786079 original size:37 final size:37
Alignment explanation
Indices: 785959--786080 Score: 104
Period size: 37 Copynumber: 3.2 Consensus size: 37
785949 ATACATACAC
* * *
785959 ATATATACATGTATAACATATATGATATACACATAATATAT
1 ATATATACATGCATAAC--ATAT-ATATACACACACT-TAT
*
786000 ATATATACATGTATAACATATATATACACACACTTA-
1 ATATATACATGCATAACATATATATACACACACTTAT
* * * *
786036 AGTATATACATGCATAATATAT-TATATATATACTTAT
1 A-TATATACATGCATAACATATATATACACACACTTAT
786073 ACTATATA
1 A-TATATA
786081 TTTTATATAC
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
36 12 0.17
37 27 0.38
38 11 0.15
39 4 0.06
41 17 0.24
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (37 bp):
ATATATACATGCATAACATATATATACACACACTTAT
Found at i:786091 original size:16 final size:16
Alignment explanation
Indices: 786070--786105 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
786060 TATATATACT
*
786070 TATACTATATATTTTA
1 TATACTATATAGTTTA
*
786086 TATACTTTATAGTTTA
1 TATACTATATAGTTTA
786102 TATA
1 TATA
786106 ATTTATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TATACTATATAGTTTA
Found at i:786110 original size:16 final size:16
Alignment explanation
Indices: 786077--786112 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
786067 ACTTATACTA
* *
786077 TATATTTTATATACTT
1 TATAGTTTATATAATT
786093 TATAGTTTATATAATT
1 TATAGTTTATATAATT
786109 TATA
1 TATA
786113 TACCAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
TATAGTTTATATAATT
Found at i:786175 original size:11 final size:12
Alignment explanation
Indices: 786131--786175 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
786121 TTAATACTTT
786131 ATATATA-TATA
1 ATATATAGTATA
786142 ATATA-AGTATA
1 ATATATAGTATA
* *
786153 ATATACATTATA
1 ATATATAGTATA
786165 ATATATA-TATA
1 ATATATAGTATA
786176 TGTGTGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 1 0.03
11 18 0.60
12 11 0.37
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
ATATATAGTATA
Found at i:786239 original size:17 final size:15
Alignment explanation
Indices: 786196--786239 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
786186 TGTGTGTGTC
786196 ATATTATATTATTAT
1 ATATTATATTATTAT
*
786211 ATAATATA-TATTCAT
1 ATATTATATTATT-AT
786226 ATATTATAATTATT
1 ATATTAT-ATTATT
786240 TCCATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 15 0.62
16 1 0.04
17 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATTATTAT
Found at i:788821 original size:20 final size:20
Alignment explanation
Indices: 788796--788838 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
788786 CCATTATTCC
* *
788796 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
788816 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
788836 ATA
1 ATA
788839 GCCCAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:796509 original size:20 final size:20
Alignment explanation
Indices: 796484--796524 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
796474 GACTTGATTT
796484 TACTGTAGTA-GTATCGATAC
1 TACTGTAG-AGGTATCGATAC
796504 TACTGTAGAGGTATCGATAC
1 TACTGTAGAGGTATCGATAC
796524 T
1 T
796525 CATTTTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (20 bp):
TACTGTAGAGGTATCGATAC
Found at i:796594 original size:20 final size:20
Alignment explanation
Indices: 796566--796613 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
796556 TACTGTTCGT
* *
796566 TACTGTTCACACATTATC-G
1 TACTATTCACACAATATCAG
*
796585 ATACTATTCATACAATATCAG
1 -TACTATTCACACAATATCAG
796606 TACTATTC
1 TACTATTC
796614 GTTGTTGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (20 bp):
TACTATTCACACAATATCAG
Found at i:796609 original size:50 final size:50
Alignment explanation
Indices: 796551--796662 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 50
796541 TTTTTTGAGC
*
796551 ATCAGTACTGTTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
1 ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
** * *
796601 ATCAGTACTATTCGTTGTTGTTCACACATTATCGGTACTATTCATACAGT
1 ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
*
796651 A-CAATACTATTC
1 ATCAGTACTATTC
796663 ATACAGTACA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
49 10 0.18
50 46 0.82
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.38
Consensus pattern (50 bp):
ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
Found at i:796660 original size:19 final size:19
Alignment explanation
Indices: 796636--796674 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
796626 ACATTATCGG
796636 TACTATTCATACAGTACAA
1 TACTATTCATACAGTACAA
796655 TACTATTCATACAGTACAA
1 TACTATTCATACAGTACAA
796674 T
1 T
796675 TCAATTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (19 bp):
TACTATTCATACAGTACAA
Found at i:796681 original size:19 final size:19
Alignment explanation
Indices: 796640--796682 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
796630 TATCGGTACT
*
796640 ATTCATACAGTACAATACT
1 ATTCATACAGTACAATACA
*
796659 ATTCATACAGTACAATTCA
1 ATTCATACAGTACAATACA
796678 ATTCA
1 ATTCA
796683 AGTCCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTCATACAGTACAATACA
Found at i:797096 original size:23 final size:20
Alignment explanation
Indices: 797068--797170 Score: 66
Period size: 21 Copynumber: 4.8 Consensus size: 20
797058 ACATATACAC
797068 TTATATATACTTATATACTTATA
1 TTATATATA-TT-TATACTT-TA
*
797091 TTATATAGT-TTATATAATTTA
1 TTATATA-TATT-TATACTTTA
797112 -TATACTAATATTTATACTTTA
1 TTATA-T-ATATTTATACTTTA
* *
797133 TTGTTTATATACTTTATACTATA
1 -T-TATATATA-TTTATACTTTA
*
797156 TTATATATATATATA
1 TTATATATATTTATA
797171 ATATACATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
20 9 0.14
21 19 0.29
22 16 0.24
23 18 0.27
24 4 0.06
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (20 bp):
TTATATATATTTATACTTTA
Found at i:797139 original size:37 final size:39
Alignment explanation
Indices: 797071--797150 Score: 103
Period size: 37 Copynumber: 2.1 Consensus size: 39
797061 TATACACTTA
797071 TATATACTTATATACTTATATTATATAGTTTATATAATT
1 TATATACTTATATACTTATATTATATAGTTTATATAATT
* * *
797110 TATATAC-TA-ATATTTATACTT-TATTGTTTATATACTT
1 TATATACTTATATACTTATA-TTATATAGTTTATATAATT
797147 TATA
1 TATA
797151 CTATATTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 26 0.70
38 4 0.11
39 7 0.19
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (39 bp):
TATATACTTATATACTTATATTATATAGTTTATATAATT
Found at i:799799 original size:42 final size:42
Alignment explanation
Indices: 799740--799822 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
799730 AATCTCGCCG
*
799740 GTGTGGGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCTA
1 GTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCTA
*
799782 GTGTGCGATGCACTCTTAACTAGCTTGATTTCCATAGCTCT
1 GTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
799823 GTTCGTTTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (42 bp):
GTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCTA
Found at i:801982 original size:13 final size:16
Alignment explanation
Indices: 801946--801977 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
801936 TTATGAAACA
801946 AAAC-TAAATAATAAT
1 AAACTTAAATAATAAT
801961 AAACTTAAATAA-AAT
1 AAACTTAAATAATAAT
801976 AA
1 AA
801978 TTAAAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AAACTTAAATAATAAT
Found at i:803716 original size:32 final size:31
Alignment explanation
Indices: 803680--803755 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
803670 GGGGTCGTGA
*
803680 GGCCTACCTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
* **
803712 GGCCTACCTGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
803743 AGCCTACCTAAGA
1 GGCCTACCTAAGA
803756 GTCACATTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 25 0.66
32 13 0.34
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:807410 original size:2 final size:2
Alignment explanation
Indices: 807403--807432 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
807393 TTACTTAATC
*
807403 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
807433 TATTTATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:808213 original size:13 final size:14
Alignment explanation
Indices: 808190--808227 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
808180 TTACTATTTT
808190 TATTATTTTATTAA
1 TATTATTTTATTAA
*
808204 TATT-TTTTATTTA
1 TATTATTTTATTAA
808217 T-TTATTTTATT
1 TATTATTTTATT
808228 CAAGTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 2 0.09
13 16 0.73
14 4 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTTATTAA
Found at i:808218 original size:17 final size:17
Alignment explanation
Indices: 808168--808218 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
808158 TTTCTTTCAA
*
808168 ATTTTTTA-TTACTTACT
1 ATTTTTTATTTA-TTAAT
808185 ATTTTTATTATTTTATTAAT
1 A-TTTT-TTA-TTTATTAAT
808205 ATTTTTTATTTATT
1 ATTTTTTATTTATT
808219 TATTTTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 7 0.24
20 5 0.17
21 3 0.10
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTATTTATTAAT
Found at i:811206 original size:11 final size:11
Alignment explanation
Indices: 811192--811221 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
811182 TATGATCAAG
811192 AAATGAGGGGC
1 AAATGAGGGGC
*
811203 AAATGGGGGGC
1 AAATGAGGGGC
811214 AAATGAGG
1 AAATGAGG
811222 ACAAAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.47, T:0.10
Consensus pattern (11 bp):
AAATGAGGGGC
Found at i:812620 original size:19 final size:16
Alignment explanation
Indices: 812597--812688 Score: 86
Period size: 16 Copynumber: 5.9 Consensus size: 16
812587 CAGCAAAGAA
812597 AGAAAAAAAAGAAAATAG
1 AGAAAAAAAA-AAAAT-G
*
812615 ATGAAAAAAGAAAAATG
1 A-GAAAAAAAAAAAATG
812632 AGAAAAAAAAAAAA--
1 AGAAAAAAAAAAAATG
812646 A-AAAAAAAAAAAA--
1 AGAAAAAAAAAAAATG
* **
812659 AAAAAAAAAAAAAAAA
1 AGAAAAAAAAAAAATG
812675 AGAAAAAAAAAAAA
1 AGAAAAAAAAAAAA
812689 AAATAAAAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
13 13 0.19
14 13 0.19
16 25 0.37
17 2 0.03
18 6 0.09
19 8 0.12
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (16 bp):
AGAAAAAAAAAAAATG
Found at i:812621 original size:18 final size:17
Alignment explanation
Indices: 812600--812714 Score: 65
Period size: 17 Copynumber: 6.8 Consensus size: 17
812590 CAAAGAAAGA
812600 AAAAAAAG-AAAAT-AG
1 AAAAAAAGAAAAATGAG
812615 ATGAAAAAAGAAAAATGAG
1 A--AAAAAAGAAAAATGAG
* ** *
812634 AAAAAAAAAAAAAAAAAA
1 -AAAAAAAGAAAAATGAG
* ** *
812652 AAAAAAAAAAAAAAAAA
1 AAAAAAAGAAAAATGAG
* *
812669 AAAAAAAGAAAAA-AAA
1 AAAAAAAGAAAAATGAG
* *
812685 AAAAAAATAAAAAAGAG
1 AAAAAAAGAAAAATGAG
*
812702 AAAAAAGGAAAAA
1 AAAAAAAGAAAAA
812715 GAAAAAGGGA
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
15 1 0.01
16 15 0.18
17 48 0.57
18 17 0.20
19 2 0.02
20 1 0.01
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAAAATGAG
Found at i:812636 original size:16 final size:13
Alignment explanation
Indices: 812618--812720 Score: 115
Period size: 12 Copynumber: 7.9 Consensus size: 13
812608 AAAATAGATG
812618 AAAAAAGAAAAATGA
1 AAAAAAGAAAAA--A
812633 GAAAAAA-AAAAAA
1 -AAAAAAGAAAAAA
812646 AAAAAA-AAAAAA
1 AAAAAAGAAAAAA
812658 AAAAAA-AAAAAA
1 AAAAAAGAAAAAA
812670 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
*
812683 AAAAAA-AAATAA
1 AAAAAAGAAAAAA
*
812695 AAAAGAGAAAAAA
1 AAAAAAGAAAAAA
*
812708 GGAAAAAGAAAAA
1 -AAAAAAGAAAAA
812721 GGGAGAAATG
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
12 40 0.51
13 18 0.23
14 10 0.13
15 5 0.06
16 6 0.08
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:812636 original size:39 final size:37
Alignment explanation
Indices: 812595--812720 Score: 144
Period size: 37 Copynumber: 3.2 Consensus size: 37
812585 TCCAGCAAAG
* *
812595 AAAGAAAAAAAAGAAAATAGATGAAAAAAGAAAAATGAGAA
1 AAAGAAAAAAAA-AAAA-AAATAAAAAAAGAAAAA--AGAA
* * * *
812636 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAGAAAAAAAAAAAAAAATAAAAAAAGAAAAAAGAA
812673 AAAGAAAAAAAAAAAAAAATAAAAAAGAGAAAAAAGGAA
1 AAAGAAAAAAAAAAAAAAATAAAAAA-AGAAAAAA-GAA
812712 AAAGAAAAA
1 AAAGAAAAA
812721 GGGAGAAATG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 27 0.37
38 7 0.10
39 24 0.33
40 4 0.05
41 11 0.15
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (37 bp):
AAAGAAAAAAAAAAAAAAATAAAAAAAGAAAAAAGAA
Found at i:812637 original size:14 final size:13
Alignment explanation
Indices: 812615--812720 Score: 81
Period size: 11 Copynumber: 8.6 Consensus size: 13
812605 AAGAAAATAG
812615 ATGAAAAAAGAAAA
1 ATGAAAAAA-AAAA
*
812629 ATGAGAAAAAAAA
1 ATGAAAAAAAAAA
812642 A--AAAAAAAAAA
1 ATGAAAAAAAAAA
812653 A--AAAAAAAAAA
1 ATGAAAAAAAAAA
812664 A--AAAAAAAAAA
1 ATGAAAAAAAAAA
812675 A-GAAAAAAAAAA
1 ATGAAAAAAAAAA
812687 A--AAAATAAAAAA
1 ATGAAAA-AAAAAA
812699 GA-GAAAAAAGGAAAA
1 -ATGAAAAAA--AAAA
812714 A-GAAAAA
1 ATGAAAAA
812721 GGGAGAAATG
Statistics
Matches: 84, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
11 36 0.43
12 17 0.20
13 8 0.10
14 19 0.23
15 4 0.05
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (13 bp):
ATGAAAAAAAAAA
Found at i:812638 original size:17 final size:17
Alignment explanation
Indices: 812618--812720 Score: 113
Period size: 16 Copynumber: 6.0 Consensus size: 17
812608 AAAATAGATG
812618 AAAAAAGAAAAATGAGAAAA
1 AAAAAAGAAAAA--A-AAAA
812638 AAAAAA-AAAAAAAAAA
1 AAAAAAGAAAAAAAAAA
812654 AAAAAA-AAAAAAAAAA
1 AAAAAAGAAAAAAAAAA
812670 AAAAAAG-AAAAAAAAA
1 AAAAAAGAAAAAAAAAA
* * *
812686 AAAAAATAAAAAAGAGA
1 AAAAAAGAAAAAAAAAA
*
812703 AAAAAGGAAAAAGAAAAA
1 AAAAAAGAAAAA-AAAAA
812721 GGGAGAAATG
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
16 41 0.56
17 18 0.25
18 3 0.04
19 5 0.07
20 6 0.08
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAA
Found at i:812644 original size:23 final size:23
Alignment explanation
Indices: 812618--812720 Score: 131
Period size: 23 Copynumber: 4.5 Consensus size: 23
812608 AAAATAGATG
812618 AAAAAAGAAAAATGAGAAAAAAAAA
1 AAAAAAGAAAAA--AGAAAAAAAAA
812643 AAAAAA-AAAAAA-AAAAAAAAA
1 AAAAAAGAAAAAAGAAAAAAAAA
812664 AAAAAA-AAAAAAGAAAAAAAAA
1 AAAAAAGAAAAAAGAAAAAAAAA
* * *
812686 AAAAAATAAAAAAGAGAAAAAAG
1 AAAAAAGAAAAAAGAAAAAAAAA
*
812709 GAAAAAGAAAAA
1 AAAAAAGAAAAA
812721 GGGAGAAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
21 21 0.29
22 16 0.22
23 24 0.33
24 5 0.07
25 6 0.08
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAAAGAAAAAAAAA
Found at i:812646 original size:25 final size:22
Alignment explanation
Indices: 812599--812721 Score: 131
Period size: 22 Copynumber: 5.4 Consensus size: 22
812589 GCAAAGAAAG
*
812599 AAAAAAAAGAAAATAGATGAAAAAAG
1 AAAAAAAAGAAAA-A-A--AAAAAAA
**
812625 AAAAATGAGAAAAAAAAAAAAA
1 AAAAAAAAGAAAAAAAAAAAAA
812647 AAAAAAAA-AAAAAAAAAAAAA
1 AAAAAAAAGAAAAAAAAAAAAA
812668 AAAAAAAAGAAAAAAAAAAAAA
1 AAAAAAAAGAAAAAAAAAAAAA
* **
812690 AATAAAAAAGAGAAAAAAGGAAA
1 AA-AAAAAAGAAAAAAAAAAAAA
*
812713 AAGAAAAAG
1 AAAAAAAAG
812722 GGAGAAATGA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
21 21 0.24
22 33 0.38
23 19 0.22
24 1 0.01
25 1 0.01
26 11 0.13
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAAAAAA
Found at i:812648 original size:45 final size:42
Alignment explanation
Indices: 812571--812714 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 42
812561 CAGCAAAGAA
* * * * *
812571 AGAAAAAAGAAAAATCCAGCAAAGAAAGAAAAAAAAGAAAATAG
1 AGAAAAAAGAAAAAT-AAG-AAAAAAAAAAAAAAAAAAAAAAAG
*
812615 ATGAAAAAAGAAAAATGAGAAAAAAAAAAAAAAAAAAAAAAA-
1 A-GAAAAAAGAAAAATAAGAAAAAAAAAAAAAAAAAAAAAAAG
* * *
812657 A-AAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAATAAAAAAG
1 AGAAAAAAGAAAAATAAGAA-AAAAAAAAAAAAAAA-AAAAAAG
812700 AGAAAAAAGGAAAAA
1 AGAAAAAA-GAAAAA
812715 GAAAAAGGGA
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
40 14 0.17
41 15 0.18
42 7 0.08
43 20 0.24
44 9 0.11
45 19 0.23
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.03
Consensus pattern (42 bp):
AGAAAAAAGAAAAATAAGAAAAAAAAAAAAAAAAAAAAAAAG
Found at i:812714 original size:1 final size:1
Alignment explanation
Indices: 812634--812698 Score: 112
Period size: 1 Copynumber: 65.0 Consensus size: 1
812624 GAAAAATGAG
* *
812634 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
812699 GAGAAAAAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.97, C:0.00, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:816237 original size:76 final size:75
Alignment explanation
Indices: 816151--816312 Score: 207
Period size: 76 Copynumber: 2.1 Consensus size: 75
816141 CGAATGTTGT
* * * *
816151 GGCATACTGAAAACCCCTTTCAATCAGAATCAGGAATATTGAAGTATTTTGAATATTTATATCAG
1 GGCATGCTGAAAACCCCTTTCAATCAGAATCAGGAATATTGAAGCATTTTGAACACTTATATCAG
816216 CAAAATGCTGG
66 C-AAATGCTGG
* * * * * *
816227 GGCATGCTGAAAGCCCCTTTCAATCAGAATCAGGACTGTTGATGCATTTTGAACACTTGTATTAG
1 GGCATGCTGAAAACCCCTTTCAATCAGAATCAGGAATATTGAAGCATTTTGAACACTTATATCAG
* *
816292 CCAATGTTGG
66 CAAATGCTGG
816302 GGCATGCTGAA
1 GGCATGCTGAA
816313 GGCCCATATC
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
75 18 0.24
76 56 0.76
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (75 bp):
GGCATGCTGAAAACCCCTTTCAATCAGAATCAGGAATATTGAAGCATTTTGAACACTTATATCAG
CAAATGCTGG
Found at i:817125 original size:22 final size:22
Alignment explanation
Indices: 817093--817157 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
817083 ACATCTACAC
817093 TCTTTTCAAAGATGATAGATTA
1 TCTTTTCAAAGATGATAGATTA
* *
817115 TCTTTTTAAAGATGATAGATTC
1 TCTTTTCAAAGATGATAGATTA
* *
817137 TCTTTTCAAAAATGAAAGATT
1 TCTTTTCAAAGATGATAGATT
817158 TATTGGATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (22 bp):
TCTTTTCAAAGATGATAGATTA
Found at i:817954 original size:76 final size:76
Alignment explanation
Indices: 817828--818059 Score: 410
Period size: 76 Copynumber: 3.1 Consensus size: 76
817818 CTATTTCCCA
817828 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
817893 AGCCTTAGGGT
66 AACCTTAGGGT
817904 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
817969 ATCCCTAGGGT
66 AACCTTAGGGT
* *
817980 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGATTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
818045 AACCTTCGGGT
66 AACCTTAGGGT
818056 CATC
1 CATC
818060 AGCATTTCCA
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 149 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:818269 original size:113 final size:112
Alignment explanation
Indices: 818057--818719 Score: 789
Period size: 113 Copynumber: 5.8 Consensus size: 112
818047 CCTTCGGGTC
* *
818057 ATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* *
818121 ATGAGAAGAACTTGTTTAACCTTTCGCTTGAATTCATCATTCGATGG
66 ATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
* * * *
818168 ATCAGCATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAGGAATGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * *
818233 AATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGA
65 AATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
* * *
818281 ATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAATTCAT
1 ATCAACATTTCCAGG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *
818346 AATGAGAAGAATTTGTTCAACGTTTTGTTTGAATTCATCACTCGATGG
65 AATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
* *
818394 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAG-GAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * * * * * *
818459 AATAAGAAGAGCTTGTTCGATCTTTTGCATGACTCTATCACATAAAGAGATATATC-AT-C
65 AATGAGAAGAACTTGTTCAACCTTTTGCTTGA----AT-TCAT-------CAT-TCGATGG
*
818518 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGGAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
818583 AATGAGAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTT-GATGG
65 AATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCA-TTCGATGG
* * *
818631 ATTAACTTTTCCAAAGAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTCC-AGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
818695 AATAAGAAGAATTTGTTCAA-CTTTT
65 AATGAGAAGAACTTGTTCAACCTTTT
818720 ATGATTCTAT
Statistics
Matches: 475, Mismatches: 56, Indels: 42
0.83 0.10 0.07
Matches are distributed among these distances:
111 18 0.04
112 68 0.14
113 284 0.60
114 4 0.01
117 2 0.00
118 3 0.01
119 3 0.01
120 2 0.00
123 1 0.00
124 85 0.18
125 3 0.01
126 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
ATCAACATTTCCAGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCATTCGATGG
Found at i:818380 original size:226 final size:227
Alignment explanation
Indices: 818056--818808 Score: 862
Period size: 226 Copynumber: 3.3 Consensus size: 227
818046 ACCTTCGGGT
* *
818056 CATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
1 CATCAACATTACCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *
818120 AATGAGAAGAACTTGTTTAACCTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAGGTA
66 AATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGG-A
* * * *
818185 GAGTTCATAATGAGAAGAACTCATCTGAGGAATGAAGAAGAAGTTCATAATGAGAAGAACTTATT
130 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
* * * *
818250 CAACCTTTCGCTTGAAT-TCAT-CAT-TCGATGA
195 CAACCTTTCGCATGACTCT-ATACATATAGATCA
* * *
818281 -ATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAATTCA
1 CATCAACATTACCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * * * *
818345 TAATGAGAAGAATTTGTTCAACGTTTTGTTTGAATTCATCACTCGATGGATCAACTTTTCCAGAG
65 TAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTTTTCCAG-G
* *
818410 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAGCTTGT
129 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* * * *
818475 TCGATCTTTTGCATGACTCTATCACATAAAGAGATATATCA
194 TCAACCTTTCGCATGACTCTAT-ACAT------ATAGATCA
*
818516 TCATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
1 -CATCAACATTACCAGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
* *
818581 ATAATGAGAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTT-GATGGATTAACTTTTCCAA
64 ATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCA-TTCGATGGATCAACTTTTCC-A
* *
818645 AGAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATAAGAAGAATTT
127 GGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTT
* * *
818709 GTTCAA-CTTT--TATGATTCTATCACAGAACGAGATAGATCA
192 GTTCAACCTTTCGCATGACTCTAT------AC-ATATAGATCA
* * * *
818749 GCATCAACATTTCCAGAAGTGTTCATAATGAGAAGAAATCATCTGAAG-ATGAAGAAGAAG
1 -CATCAACATTACCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
818809 ATCGATCAAT
Statistics
Matches: 451, Mismatches: 53, Indels: 42
0.83 0.10 0.08
Matches are distributed among these distances:
224 11 0.02
225 31 0.07
226 143 0.32
227 2 0.00
228 3 0.01
231 11 0.02
232 27 0.06
233 34 0.08
235 8 0.02
236 37 0.08
237 139 0.31
238 4 0.01
239 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (227 bp):
CATCAACATTACCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGGAG
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
AACCTTTCGCATGACTCTATACATATAGATCA
Found at i:818619 original size:237 final size:232
Alignment explanation
Indices: 818055--818808 Score: 969
Period size: 237 Copynumber: 3.3 Consensus size: 232
818045 AACCTTCGGG
*
818055 TCATCAGCATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 TCATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * * * *
818120 AATGAGAAGAACTTGTTTAACCTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAG-GT
66 AATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAG-
* * * *
818184 AGAGTTCATAATGAGAAGAACTCATCTGAGGAATGAAGAAGAAGTTCATAATGAGAAGAACTTAT
130 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* * * * *
818249 TCAACCTTTCGCTTGA-AT-TCATCAT------TCGATGA
195 TCAA-CTTTTGCATGATCTATCA-CATAAGAGATAGATCA
* * * *
818281 --ATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAATTC
1 TCATCAACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTC
* * * *
818344 ATAATGAGAAGAATTTGTTCAACGTTTTGTTTGAATTCATCACTCGATGGATCAACTTTTCCAGA
64 ATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGA
* *
818409 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAGCTTG
129 GAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTG
* *
818474 TTCGATCTTTTGCATGACTCTATCACATAAAGAGATATATCA
194 TTC-AACTTTTGCATGA-TCTATCACAT-AAGAGATAGATCA
818516 TCATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
1 TCATCAACATTTCCAGAAG-AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTC
* * * *
818581 ATAATGAGAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTTGATGGATTAACTTTTCCAAA
64 ATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGA
*
818646 GAGAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATAAGAAGAATTTG
129 GAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTG
*
818710 TTCAACTTTT--ATGATTCTATCACAGAACGAGATAGATCA
194 TTCAACTTTTGCATGA-TCTATCACATAA-GAGATAGATCA
* * * *
818749 GCATCAACATTTCCAGAAGTGTTCATAATGAGAAGAAATCATCTGAAGATGAAGAAGAAG
1 TCATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAG
818809 ATCGATCAAT
Statistics
Matches: 460, Mismatches: 50, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
224 11 0.02
225 31 0.07
226 139 0.30
227 2 0.00
228 4 0.01
229 3 0.01
231 11 0.02
232 29 0.06
233 41 0.09
235 10 0.02
236 36 0.08
237 143 0.31
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (232 bp):
TCATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGA
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
CAACTTTTGCATGATCTATCACATAAGAGATAGATCA
Found at i:818623 original size:124 final size:120
Alignment explanation
Indices: 818394--818808 Score: 473
Period size: 124 Copynumber: 3.5 Consensus size: 120
818384 CACTCGATGG
*
818394 ATCAACTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 ATCAACATTTCCAGAAG-AAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCA
* * *
818458 TAATAAGAAGAGCTTGTTCGATCTTTTGCATGACTCTATCACATAAAGAGATATATCATC
64 TAATAAGAAGAACTTGTTC-AACTTTTGC-TGATTCTATCACATAAAGAGATATATCA-C
818518 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCAT
* * * * *
818583 AATGAGAAGAACTTGTTTAACCTTTTGCTCGAATTC-ATCACTTGATG-GAT-TA--AC
65 AATAAGAAGAACTTGTTCAA-CTTTTGCT-G-ATTCTATCACATAAAGAGATATATCAC
818637 -T-----TTTCCA-AAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* * * * *
818695 AATAAGAAGAATTTGTTCAACTTTT-ATGATTCTATCACAGAACGAGATAGATCAGC
65 AATAAGAAGAACTTGTTCAACTTTTGCTGATTCTATCACATAAAGAGATATATCA-C
* * *
818751 ATCAACATTTCCAGAAG-TGTTCATAATGAGAAGAAATCATCTGAAGATGAAGAAGAAG
1 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAG
818809 ATCGATCAAT
Statistics
Matches: 252, Mismatches: 21, Indels: 41
0.80 0.07 0.13
Matches are distributed among these distances:
108 4 0.02
109 8 0.03
110 4 0.02
111 6 0.02
112 38 0.15
113 36 0.14
114 1 0.00
115 1 0.00
118 1 0.00
119 39 0.15
120 7 0.03
121 3 0.01
122 2 0.01
123 5 0.02
124 92 0.37
125 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (120 bp):
ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATAAGAAGAACTTGTTCAACTTTTGCTGATTCTATCACATAAAGAGATATATCAC
Found at i:819098 original size:14 final size:14
Alignment explanation
Indices: 819081--819130 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
819071 CATTTGTTTT
819081 ATTTATTATTATTA
1 ATTTATTATTATTA
*
819095 ATTTATT-TTAATA
1 ATTTATTATTATTA
*
819108 TTATTATTA-TATTA
1 AT-TTATTATTATTA
819122 TATTTATTA
1 -ATTTATTA
819131 AATAATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 6 0.21
14 22 0.76
15 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTATTATTATTA
Found at i:819111 original size:11 final size:12
Alignment explanation
Indices: 819084--819122 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
819074 TTGTTTTATT
819084 TATTATTATTAA
1 TATTATTATTAA
819096 T-TTATT-TTAA
1 TATTATTATTAA
819106 TATTATTATT-A
1 TATTATTATTAA
819117 TATTAT
1 TATTAT
819123 ATTTATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.20
11 17 0.68
12 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:819112 original size:22 final size:22
Alignment explanation
Indices: 819084--819151 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
819074 TTGTTTTATT
819084 TATTATTATTAATTTATTTTAA
1 TATTATTATTAATTTATTTTAA
*
819106 TATTATTATT-ATATTATATTTAT
1 TATTATTATTAAT-TTAT-TTTAA
* * *
819129 TA-AATAATTAATTAATTTTAA
1 TATTATTATTAATTTATTTTAA
819150 TA
1 TA
819152 CATTGCAGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 8 0.21
22 22 0.58
23 8 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTATTATTAATTTATTTTAA
Found at i:819120 original size:19 final size:19
Alignment explanation
Indices: 819078--819113 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
819068 TTTCATTTGT
*
819078 TTTA-TTTATTATTATTAA
1 TTTATTTTAATATTATTAA
819096 TTTATTTTAATATTATTA
1 TTTATTTTAATATTATTA
819114 TTATATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTTTAATATTATTAA
Found at i:820569 original size:25 final size:24
Alignment explanation
Indices: 820525--820573 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
820515 TTGTAATTTC
820525 TTTTATATTTTAGTTATTTATCAT
1 TTTTATATTTTAGTTATTTATCAT
*
820549 TTTTTTATTATTA-TTACTTTATCAT
1 TTTTATATT-TTAGTTA-TTTATCAT
820574 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTATATTTTAGTTATTTATCAT
Found at i:820579 original size:2 final size:2
Alignment explanation
Indices: 820572--820617 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
820562 TTACTTTATC
820572 AT AT AT AT AT AT AT AT AT AT A- AT -T 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
820612 AT AT AT
1 AT AT AT
820618 TATTTATTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:827822 original size:13 final size:14
Alignment explanation
Indices: 827795--827848 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
827785 CCCAAGCAAT
827795 ATGCTTTTCCCCAG
1 ATGCTTTTCCCCAG
827809 ATGCTTTT-CCCAG
1 ATGCTTTTCCCCAG
827822 ATGCTTTTCCCCAG
1 ATGCTTTTCCCCAG
* *
827836 ACGTTTTTCCCCA
1 ATGCTTTTCCCCA
827849 ATTTTCTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.35
14 24 0.65
ACGTcount: A:0.15, C:0.35, G:0.13, T:0.37
Consensus pattern (14 bp):
ATGCTTTTCCCCAG
Found at i:827826 original size:27 final size:27
Alignment explanation
Indices: 827795--827846 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
827785 CCCAAGCAAT
*
827795 ATGCTTTTCCCCAGATGCTTTTCCCAG
1 ATGCTTTTCCCCAGACGCTTTTCCCAG
*
827822 ATGCTTTTCCCCAGACGTTTTTCCC
1 ATGCTTTTCCCCAGACGCTTTTCCC
827847 CAATTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.38
Consensus pattern (27 bp):
ATGCTTTTCCCCAGACGCTTTTCCCAG
Found at i:832719 original size:13 final size:13
Alignment explanation
Indices: 832703--832729 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
832693 ACAAATTCAT
832703 AAAATGAAAGAAA
1 AAAATGAAAGAAA
832716 AAAATGAAAGAAA
1 AAAATGAAAGAAA
832729 A
1 A
832730 GTGATGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAATGAAAGAAA
Found at i:833613 original size:2 final size:2
Alignment explanation
Indices: 833606--833905 Score: 82
Period size: 2 Copynumber: 154.5 Consensus size: 2
833596 TATACTTTTG
* * * * * *
833606 TA TA TA TA CA TA TA TG TA TA TA CA TA -A CA TA TG TA CT- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * * *
833647 TA TA TA CA TA CA CA TA TA TA CA TG TA TA -A CA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* * *
833689 CA CA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
833730 TA TG TA TG TA TA -A CA TA TA TA CA CA CA CT- TA -A GTA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * *
833771 TG CA TA -A TA TA T- TA TA TA TA TA CT- TA TA CTA TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * * *
833811 TA TA CTT TA TA GTT TA TA TA -A TT TA TA TA CCA -A TA T- TA -A
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
833850 TA CTT TA TA TA TA TA TA -A TA TA -A GTA TA -A TA TA CA T- TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
833890 -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
833906 GTGTGTGTGT
Statistics
Matches: 219, Mismatches: 48, Indels: 62
0.67 0.15 0.19
Matches are distributed among these distances:
1 20 0.09
2 187 0.85
3 12 0.05
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:833970 original size:17 final size:15
Alignment explanation
Indices: 833927--833970 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
833917 TGTGTGTGTC
833927 ATATTATATTATTAT
1 ATATTATATTATTAT
*
833942 ATAATATA-TATTCAT
1 ATATTATATTATT-AT
833957 ATATTATAATTATT
1 ATATTAT-ATTATT
833971 TCCATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 15 0.62
16 1 0.04
17 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATTATTAT
Found at i:844159 original size:20 final size:20
Alignment explanation
Indices: 844134--844174 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
844124 GACTTGATTT
844134 TACTGTAGTA-GTATCGATAC
1 TACTGTAG-AGGTATCGATAC
844154 TACTGTAGAGGTATCGATAC
1 TACTGTAGAGGTATCGATAC
844174 T
1 T
844175 CATTTTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (20 bp):
TACTGTAGAGGTATCGATAC
Found at i:844244 original size:20 final size:20
Alignment explanation
Indices: 844216--844263 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
844206 TAGTGTTCGT
* *
844216 TACTGTTCACACATTATCAA
1 TACTATTCACACAATATCAA
* *
844236 TACTATTCATACAATATCAG
1 TACTATTCACACAATATCAA
844256 TACTATTC
1 TACTATTC
844264 GTTGTTGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (20 bp):
TACTATTCACACAATATCAA
Found at i:844276 original size:50 final size:50
Alignment explanation
Indices: 844201--844311 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
844191 TTTTTTGAGC
* *
844201 ATCAGTAGTGTTCGTTACTGTTCACACATTATCAATACTATTCATACAAT
1 ATCAGTACTATTCGTTACTGTTCACACATTATCAATACTATTCATACAAT
** ** *
844251 ATCAGTACTATTCGTTGTTGTTCACACATTATCGGTACTATTCATACAGT
1 ATCAGTACTATTCGTTACTGTTCACACATTATCAATACTATTCATACAAT
*
844301 A-CAATACTATT
1 ATCAGTACTATT
844312 TGCAAAAACA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 9 0.17
50 44 0.83
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.39
Consensus pattern (50 bp):
ATCAGTACTATTCGTTACTGTTCACACATTATCAATACTATTCATACAAT
Found at i:844821 original size:28 final size:30
Alignment explanation
Indices: 844778--844889 Score: 108
Period size: 31 Copynumber: 3.8 Consensus size: 30
844768 TAGTTCAACA
* *
844778 TATACACTTATATATACTTATATACTTATAT
1 TATATACTT-TATATATTTATATACTTATAT
*
844809 TATATAGTTTATATAATTTATATACTTATAT
1 TATATACTTTATAT-ATTTATATACTTATAT
*
844840 T-TATACTTTAT-TGTTTATATACTT-TA-
1 TATATACTTTATATATTTATATACTTATAT
*
844866 TACTATA-TTATATATATATATATA
1 TA-TATACTT-TATATATTTATATA
844890 ATATACATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 4 0.06
28 18 0.26
29 9 0.13
30 14 0.20
31 23 0.33
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.54
Consensus pattern (30 bp):
TATATACTTTATATATTTATATACTTATAT
Found at i:844822 original size:9 final size:9
Alignment explanation
Indices: 844808--844867 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
844798 TATACTTATA
*
844808 TTATATAGT
1 TTATATACT
*
844817 TTATATAAT
1 TTATATACT
844826 TTATATACT
1 TTATATACT
844835 TATATTTATACT
1 T-TA--TATACT
*
844847 TTAT-T-GT
1 TTATATACT
844854 TTATATACT
1 TTATATACT
844863 TTATA
1 TTATA
844868 CTATATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 24 0.57
10 2 0.05
11 2 0.05
12 7 0.17
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.58
Consensus pattern (9 bp):
TTATATACT
Found at i:844856 original size:37 final size:38
Alignment explanation
Indices: 844788--844889 Score: 113
Period size: 37 Copynumber: 2.7 Consensus size: 38
844778 TATACACTTA
844788 TATATACTTATATACTTATATTATATAGTTTATATAATT
1 TATATACTTATATA-TTATATTATATAGTTTATATAATT
* *
844827 TATATACTTATAT-TTATACTT-TATTGTTTATATACTT
1 TATATACTTATATATTATA-TTATATAGTTTATATAATT
*
844864 TATACTATATTATATA-TATA-TATATA
1 TATA-TA-CTTATATATTATATTATATA
844890 ATATACATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
37 24 0.44
38 7 0.13
39 23 0.43
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (38 bp):
TATATACTTATATATTATATTATATAGTTTATATAATT
Found at i:847539 original size:42 final size:41
Alignment explanation
Indices: 847481--847564 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 41
847471 AAATCTCGCC
847481 GGTGTGCATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
1 GGTGTGCATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
* *
847522 GGTGTGCGATGCACTCTTAACTATCTTGATTTCCATAGCTCT
1 GGTGTGC-ATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
847564 G
1 G
847565 TTCGTTTCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 7 0.17
42 33 0.82
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (41 bp):
GGTGTGCATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
Found at i:854662 original size:28 final size:25
Alignment explanation
Indices: 854631--854683 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
854621 AAGCACTAAT
854631 AATTATTAAAAGCAAGTTAATAAATTAA
1 AATTATTAAAAG--A-TTAATAAATTAA
*
854659 AATTATTCAAAGATTAATAAATTAA
1 AATTATTAAAAGATTAATAAATTAA
854684 GAAATCAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 12 0.50
26 1 0.04
28 11 0.46
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
AATTATTAAAAGATTAATAAATTAA
Found at i:854880 original size:13 final size:16
Alignment explanation
Indices: 854844--854875 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
854834 TTATGAAACA
854844 AAAC-TAAATAATAAT
1 AAACTTAAATAATAAT
854859 AAACTTAAATAA-AAT
1 AAACTTAAATAATAAT
854874 AA
1 AA
854876 TTAAAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AAACTTAAATAATAAT
Found at i:856618 original size:31 final size:31
Alignment explanation
Indices: 856545--856630 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
856535 CCTAAGGGAA
856545 CATCTTAGGGCC-TGAGAGCCTACCCAAGATAG
1 CATCTTAGGGCCGTGAG-GCCTA-CCAAGATAG
* * *
856577 -ATTTTGGGGCCGTGAGGCCTACTAAGA-ACG
1 CATCTTAGGGCCGTGAGGCCTACCAAGATA-G
*
856607 CATCTTAGGGCCGTAAGGCCTACC
1 CATCTTAGGGCCGTGAGGCCTACC
856631 CGAGAATGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
29 1 0.02
30 6 0.14
31 33 0.75
32 4 0.09
ACGTcount: A:0.24, C:0.27, G:0.28, T:0.21
Consensus pattern (31 bp):
CATCTTAGGGCCGTGAGGCCTACCAAGATAG
Found at i:860277 original size:40 final size:40
Alignment explanation
Indices: 860222--860342 Score: 224
Period size: 40 Copynumber: 3.0 Consensus size: 40
860212 GCAGGTTTAA
*
860222 AATACACTTTGGTGTATTTGGTGGGCACGACCTTATGTGT
1 AATACACTTTGGTGTATATGGTGGGCACGACCTTATGTGT
*
860262 AATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
1 AATACACTTTGGTGTATATGGTGGGCACGACCTTATGTGT
860302 AATACACTTTGGTGTATATGGTGGGCACGACCTTATGTGT
1 AATACACTTTGGTGTATATGGTGGGCACGACCTTATGTGT
860342 A
1 A
860343 GCACTACGGT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (40 bp):
AATACACTTTGGTGTATATGGTGGGCACGACCTTATGTGT
Found at i:860499 original size:46 final size:47
Alignment explanation
Indices: 860446--860558 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 47
860436 GTAACCATGC
860446 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGAAAAA
1 AAATAAGCTTATGAGCTTACGGAATTAAATGGCAAGTATATTG-AAAA
* * * * **
860492 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTACGGAA-TTAAATGGCAAGTATATTGAAAA
860540 AAATAAGCTTATGAGCTTA
1 AAATAAGCTTATGAGCTTA
860559 TGGGATAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 22 0.39
48 21 0.37
49 14 0.25
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (47 bp):
AAATAAGCTTATGAGCTTACGGAATTAAATGGCAAGTATATTGAAAA
Found at i:860556 original size:48 final size:46
Alignment explanation
Indices: 860446--860566 Score: 145
Period size: 48 Copynumber: 2.6 Consensus size: 46
860436 GTAACCATGC
*
860446 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAAA
* * * **
860492 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTG-GTAA
1 AAATAAGCTTATGAGCTTATGGAA--T-AATGGCAAGTATATTGAAAAA
*
860540 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
860567 AAGGTAGGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.03
46 23 0.36
48 25 0.39
49 14 0.22
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAAA
Found at i:862620 original size:13 final size:13
Alignment explanation
Indices: 862602--862641 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
862592 AGTGGTCAAC
862602 GGTCAACGGGTCG
1 GGTCAACGGGTCG
862615 GGTCAACGGGTCG
1 GGTCAACGGGTCG
862628 GGTCAACGGGTCG
1 GGTCAACGGGTCG
862641 G
1 G
862642 TTGTGGCCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.23, G:0.47, T:0.15
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:863688 original size:3 final size:3
Alignment explanation
Indices: 863682--863713 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
863672 ATTATTATTA
863682 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
863714 CCTAATCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:867261 original size:16 final size:15
Alignment explanation
Indices: 867236--867266 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
867226 GCTTTTTGAA
867236 TTTTAAAAAATATGT
1 TTTTAAAAAATATGT
867251 TTTTAAAAAAATATGT
1 TTTT-AAAAAATATGT
867267 ATCTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
TTTTAAAAAATATGT
Found at i:871640 original size:12 final size:12
Alignment explanation
Indices: 871623--871651 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
871613 CTTCCCAAAG
871623 CTCACTCTGTTA
1 CTCACTCTGTTA
871635 CTCACTCTGTTA
1 CTCACTCTGTTA
871647 CTCAC
1 CTCAC
871652 CTTTTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.38, G:0.07, T:0.38
Consensus pattern (12 bp):
CTCACTCTGTTA
Found at i:873320 original size:13 final size:13
Alignment explanation
Indices: 873304--873330 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
873294 ACAAATTCAT
873304 AAAATGAAAGAAA
1 AAAATGAAAGAAA
873317 AAAATGAAAGAAA
1 AAAATGAAAGAAA
873330 A
1 A
873331 GTGATGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAATGAAAGAAA
Found at i:873451 original size:15 final size:15
Alignment explanation
Indices: 873433--873465 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
873423 ATTTAGCTCT
873433 TTTATCCCCCATAGG
1 TTTATCCCCCATAGG
873448 TTTATCCCCCATAGG
1 TTTATCCCCCATAGG
873463 TTT
1 TTT
873466 TCGTCACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (15 bp):
TTTATCCCCCATAGG
Found at i:874227 original size:2 final size:2
Alignment explanation
Indices: 874220--874435 Score: 67
Period size: 2 Copynumber: 109.5 Consensus size: 2
874210 TATACTTTTG
* * * * * *
874220 TA TA TA TA CA TA TA TG TA CA TA TA TA -A CA TA TG TA CT- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
874261 TA TA TA CA TA CA CA TA TA TA CA TG TA TA -A TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* * * * *
874303 CA CA TA TA -A TA TA TA TA TA TA TA CA TG TA TA -A CA 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
* * * * * *
874343 TA CA CA CA CT- TA -A GTA TA TA CA TG CA TA -A TA TA T- 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
* *
874383 TA TA CT- TA TA CTA TA TA T- TT TA TA TA CTT TA TA GTA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
874425 TA TA TA TA TA T
1 TA TA TA TA TA T
874436 GTGTGTGTGT
Statistics
Matches: 159, Mismatches: 36, Indels: 38
0.68 0.15 0.16
Matches are distributed among these distances:
1 11 0.07
2 138 0.87
3 10 0.06
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:874289 original size:43 final size:41
Alignment explanation
Indices: 874212--874294 Score: 103
Period size: 43 Copynumber: 2.0 Consensus size: 41
874202 CTTATGTCTA
* * *
874212 TACTTTTGTATATATACATATATGTACATATATAACATATG
1 TACTTTTATATATATACACATATATACATATATAACATATG
* *
874253 TACTTTTATATATACATACACATATATACATGTATAATATAT
1 TACTTTTATATAT--ATACACATATATACATATATAACATAT
874295 ATGATATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 12 0.34
43 23 0.66
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (41 bp):
TACTTTTATATATATACACATATATACATATATAACATATG
Found at i:874294 original size:15 final size:15
Alignment explanation
Indices: 874272--874342 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
874262 ATATACATAC
874272 ACATATATACATGTAT
1 ACATATATA-ATGTAT
874288 A-ATATAT-ATGATAT
1 ACATATATAATG-TAT
* *
874302 ACACATATAATATAT
1 ACATATATAATGTAT
*
874317 ATATATATACATGTAT
1 ACATATATA-ATGTAT
874333 AACATATATA
1 -ACATATATA
874343 TACACACACT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 3 0.07
14 4 0.09
15 21 0.48
16 8 0.18
17 8 0.18
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.38
Consensus pattern (15 bp):
ACATATATAATGTAT
Found at i:874304 original size:32 final size:33
Alignment explanation
Indices: 874268--874342 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 33
874258 TTATATATAC
*
874268 ATACACATATATACATGTATA-ATATATATGAT
1 ATACACATATATACATATATATATATATATGAT
* *
874300 ATACACATATA-ATATATATATATATACATG-T
1 ATACACATATATACATATATATATATATATGAT
874331 ATA-ACATATATA
1 ATACACATATATA
874343 TACACACACT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 7 0.18
31 12 0.32
32 19 0.50
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.37
Consensus pattern (33 bp):
ATACACATATATACATATATATATATATATGAT
Found at i:874372 original size:82 final size:82
Alignment explanation
Indices: 874275--874426 Score: 200
Period size: 82 Copynumber: 1.9 Consensus size: 82
874265 TACATACACA
*
874275 TATATACATGTATAATATA-TATGATATACACATATAATATATA-TATATATACATGTATAACAT
1 TATATACATGCATAATATATTAT-ATATACACATATAATATATATTATATATAC-TGTATAACAT
874338 ATATATACACACACTTAAG
64 ATATATACACACACTTAAG
* * * * * **
874357 TATATACATGCATAATATATTATATATATACTTATACTATATATTTTATATACTTTATAGTATAT
1 TATATACATGCATAATATATTATATATACACATATAATATATATTATATATACTGTATAACATAT
874422 ATATA
66 ATATA
874427 TATATATATG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
82 49 0.82
83 11 0.18
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (82 bp):
TATATACATGCATAATATATTATATATACACATATAATATATATTATATATACTGTATAACATAT
ATATACACACACTTAAG
Found at i:874398 original size:37 final size:37
Alignment explanation
Indices: 874316--874399 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
874306 ATATAATATA
*
874316 TATATATATACATGTATAACATATATATACACACACT
1 TATATATATACATGCATAACATATATATACACACACT
* * * *
874353 TA-AGTATATACATGCATAATATAT-TATATATATACT
1 TATA-TATATACATGCATAACATATATATACACACACT
874389 TATACTATATA
1 TATA-TATATA
874400 TTTTATATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 12 0.31
37 27 0.69
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (37 bp):
TATATATATACATGCATAACATATATATACACACACT
Found at i:874500 original size:17 final size:15
Alignment explanation
Indices: 874457--874500 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
874447 TGTGTGTGTC
874457 ATATTATATTATTAT
1 ATATTATATTATTAT
*
874472 ATAATATA-TATTCAT
1 ATATTATATTATT-AT
874487 ATATTATAATTATT
1 ATATTAT-ATTATT
874501 TCCATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 15 0.62
16 1 0.04
17 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATTATTAT
Found at i:877007 original size:20 final size:20
Alignment explanation
Indices: 876982--877024 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
876972 CCATTATTCC
* *
876982 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
877002 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
877022 ATA
1 ATA
877025 GCCCTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:880793 original size:14 final size:14
Alignment explanation
Indices: 880771--880827 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
880761 CGTTCGTGAA
*
880771 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
880785 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
*
880799 C--AT--TTATGTT
1 CGTTTGGTTATGTT
* *
880809 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
880823 CGTTT
1 CGTTT
880828 ATGTTCATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
10 8 0.24
12 1 0.03
14 25 0.74
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:880799 original size:24 final size:24
Alignment explanation
Indices: 880772--880846 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
880762 GTTCGTGAAC
* * *
880772 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
880796 GTTCATTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
880820 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCGTTCGA-TTAT
880844 GTT
1 GTT
880847 TAACACAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 1 0.02
24 43 0.98
ACGTcount: A:0.13, C:0.11, G:0.20, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGATTAT
Found at i:880839 original size:38 final size:37
Alignment explanation
Indices: 880771--880846 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 37
880761 CGTTCGTGAA
*
880771 CGTTCGGTTATGTTCGTTTGGTTATGTTCATTTATGTT
1 CGTTCGATTATGTTCGTTTGGTTA-GTTCATTTATGTT
*
880809 CGTTCGATTATGTTCGTTTATGTTCA-TTCATTTATGTT
1 CGTTCGATTATGTTCGTTT-GGTT-AGTTCATTTATGTT
880847 TAACACAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 30 0.88
39 3 0.09
40 1 0.03
ACGTcount: A:0.13, C:0.12, G:0.20, T:0.55
Consensus pattern (37 bp):
CGTTCGATTATGTTCGTTTGGTTAGTTCATTTATGTT
Found at i:881848 original size:10 final size:10
Alignment explanation
Indices: 881833--881907 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
881823 GGGTCTCCAA
881833 CGTTTATGTT
1 CGTTTATGTT
881843 CGTTTATGTT
1 CGTTTATGTT
881853 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* *
881864 ATGTTCATGTT
1 -CGTTTATGTT
881875 CGTTTATGTT
1 CGTTTATGTT
881885 CG----TGTT
1 CGTTTATGTT
881891 CGTTTATGTT
1 CGTTTATGTT
*
881901 CATTTAT
1 CGTTTAT
881908 TTATTAAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.12
10 35 0.67
11 7 0.13
12 4 0.08
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:881864 original size:16 final size:16
Alignment explanation
Indices: 881839--881901 Score: 108
Period size: 16 Copynumber: 3.9 Consensus size: 16
881829 CCAACGTTTA
881839 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
881855 TGTTCATTTATGTTCA
1 TGTTCGTTTATGTTCG
881871 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
881887 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
881902 ATTTATTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.10, C:0.13, G:0.21, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:881879 original size:32 final size:32
Alignment explanation
Indices: 881838--881903 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
881828 TCCAACGTTT
881838 ATGTTCGTTTATGTTCGTGTTCATTTATGTTC
1 ATGTTCGTTTATGTTCGTGTTCATTTATGTTC
*
881870 ATGTTCGTTTATGTTCGTGTTCGTTTATGTTC
1 ATGTTCGTTTATGTTCGTGTTCATTTATGTTC
881902 AT
1 AT
881904 TTATTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (32 bp):
ATGTTCGTTTATGTTCGTGTTCATTTATGTTC
Found at i:884500 original size:5 final size:5
Alignment explanation
Indices: 884490--884553 Score: 60
Period size: 5 Copynumber: 12.8 Consensus size: 5
884480 TGACCGGTCT
* * * *
884490 GACCC GACCC GA-CC AACCC GACCC GA-CC AACCC CACCC GACCC GACCGTT
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACC--C
884540 GACCC GACCC GACC
1 GACCC GACCC GACC
884554 GTTGATCGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 6 0.12
5 38 0.79
7 4 0.08
ACGTcount: A:0.23, C:0.56, G:0.17, T:0.03
Consensus pattern (5 bp):
GACCC
Found at i:884508 original size:14 final size:14
Alignment explanation
Indices: 884491--884531 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
884481 GACCGGTCTG
884491 ACCCGACCCGACCA
1 ACCCGACCCGACCA
884505 ACCCGACCCGACCA
1 ACCCGACCCGACCA
*
884519 ACCCCACCCGACC
1 ACCCGACCCGACC
884532 CGACCGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.27, C:0.61, G:0.12, T:0.00
Consensus pattern (14 bp):
ACCCGACCCGACCA
Found at i:884512 original size:19 final size:20
Alignment explanation
Indices: 884490--884536 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
884480 TGACCGGTCT
*
884490 GACCCGACCCGA-CCAACCC
1 GACCCGACCCAACCCAACCC
*
884509 GACCCGA-CCAACCCCACCC
1 GACCCGACCCAACCCAACCC
884528 GACCCGACC
1 GACCCGACC
884537 GTTGACCCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 20 0.83
20 1 0.04
ACGTcount: A:0.26, C:0.60, G:0.15, T:0.00
Consensus pattern (20 bp):
GACCCGACCCAACCCAACCC
Found at i:884546 original size:17 final size:17
Alignment explanation
Indices: 884524--884558 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
884514 GACCAACCCC
884524 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCGTTG
884541 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCGTTG
884558 A
1 A
884559 TCGTTGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (17 bp):
ACCCGACCCGACCGTTG
Found at i:891765 original size:10 final size:10
Alignment explanation
Indices: 891736--891883 Score: 180
Period size: 10 Copynumber: 15.1 Consensus size: 10
891726 TGGACGCTGC
891736 TTTTGACCGG
1 TTTTGACCGG
*
891746 TTTTCAACCGG
1 TTTT-GACCGG
891757 TTTTGACCGG
1 TTTTGACCGG
891767 -TTTGACCGG
1 TTTTGACCGG
*
891776 TTTCGACCGG
1 TTTTGACCGG
891786 TTTTGACCGG
1 TTTTGACCGG
891796 TTTTGACCGG
1 TTTTGACCGG
891806 -TTTGACCGG
1 TTTTGACCGG
*
891815 TTTCGACCGG
1 TTTTGACCGG
891825 TTTTGACCGG
1 TTTTGACCGG
*
891835 -TTTGACCAG
1 TTTTGACCGG
*
891844 TTTCGACCGG
1 TTTTGACCGG
891854 TTTTGACC-G
1 TTTTGACCGG
* *
891863 ATTCGAACC-G
1 TTTTG-ACCGG
891873 TTTTGACCGG
1 TTTTGACCGG
891883 T
1 T
891884 CTGACCCGAC
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
9 33 0.28
10 76 0.64
11 9 0.08
ACGTcount: A:0.13, C:0.24, G:0.28, T:0.36
Consensus pattern (10 bp):
TTTTGACCGG
Found at i:891788 original size:29 final size:30
Alignment explanation
Indices: 891736--891883 Score: 198
Period size: 29 Copynumber: 5.0 Consensus size: 30
891726 TGGACGCTGC
*
891736 TTTTGACCGGTTTTCAACCGGTTTTGACCGG
1 TTTTGACCGG-TTTCGACCGGTTTTGACCGG
891767 -TTTGACCGGTTTCGACCGGTTTTGACCGG
1 TTTTGACCGGTTTCGACCGGTTTTGACCGG
*
891796 TTTTGACCGGTTT-GACCGGTTTCGACCGG
1 TTTTGACCGGTTTCGACCGGTTTTGACCGG
* *
891825 TTTTGACCGGTTT-GACCAGTTTCGACCGG
1 TTTTGACCGGTTTCGACCGGTTTTGACCGG
*
891854 TTTTGACC-GATTCGAACC-GTTTTGACCGG
1 TTTTGACCGGTTTCG-ACCGGTTTTGACCGG
891883 T
1 T
891884 CTGACCCGAC
Statistics
Matches: 109, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.03
29 82 0.75
30 24 0.22
ACGTcount: A:0.13, C:0.24, G:0.28, T:0.36
Consensus pattern (30 bp):
TTTTGACCGGTTTCGACCGGTTTTGACCGG
Found at i:891800 original size:39 final size:39
Alignment explanation
Indices: 891740--891889 Score: 198
Period size: 39 Copynumber: 3.8 Consensus size: 39
891730 CGCTGCTTTT
*
891740 GACCGGTTTTCAACCGGTTTTGACCGGTTTGACCGGTTTC
1 GACCGGTTTT-GACCGGTTTTGACCGGTTTGACCGGTTTC
891780 GACCGGTTTTGACCGGTTTTGACCGGTTTGACCGGTTTC
1 GACCGGTTTTGACCGGTTTTGACCGGTTTGACCGGTTTC
* *
891819 GACCGGTTTTGACCGG-TTTGACCAGTTTCGACCGGTTTT
1 GACCGGTTTTGACCGGTTTTGACCGGTTT-GACCGGTTTC
* * *
891858 GACC-GATTCGAACC-GTTTTGACCGGTCTGACC
1 GACCGGTTTTG-ACCGGTTTTGACCGGTTTGACC
891890 CGACCCGACC
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
38 20 0.20
39 70 0.70
40 10 0.10
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.33
Consensus pattern (39 bp):
GACCGGTTTTGACCGGTTTTGACCGGTTTGACCGGTTTC
Found at i:891896 original size:5 final size:5
Alignment explanation
Indices: 891886--891935 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
891876 TGACCGGTCT
* *
891886 GACCC GACCC GACCC AACCC GA-CC GACCC GACCGTT GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC--C GACCC GACCC GACC
891936 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 4 0.11
5 30 0.79
7 4 0.11
ACGTcount: A:0.22, C:0.54, G:0.20, T:0.04
Consensus pattern (5 bp):
GACCC
Found at i:891930 original size:17 final size:17
Alignment explanation
Indices: 891908--891942 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
891898 CCCAACCCGA
891908 CCGACCCGACCGTTGAC
1 CCGACCCGACCGTTGAC
891925 CCGACCCGACCGTTGAC
1 CCGACCCGACCGTTGAC
891942 C
1 C
891943 GTTGACCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (17 bp):
CCGACCCGACCGTTGAC
Found at i:895848 original size:20 final size:20
Alignment explanation
Indices: 895823--895863 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
895813 GACTTGATTT
895823 TACTGTAGTA-GTATCGATAC
1 TACTGTAG-AGGTATCGATAC
895843 TACTGTAGAGGTATCGATAC
1 TACTGTAGAGGTATCGATAC
895863 T
1 T
895864 CATTTTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (20 bp):
TACTGTAGAGGTATCGATAC
Found at i:895965 original size:50 final size:50
Alignment explanation
Indices: 895890--895987 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 50
895880 TTTTTTGAGC
*
895890 ATCAGTAATGTTCGTTACTGTTCACAAATTATCGATAATATTCATACAAT
1 ATCAGTAATATTCGTTACTGTTCACAAATTATCGATAATATTCATACAAT
** * * *
895940 ATCAGTAATATTCGTTGTTGTTCACACATTATCGGTACTATTCATACA
1 ATCAGTAATATTCGTTACTGTTCACAAATTATCGATAATATTCATACA
895988 GTACAATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (50 bp):
ATCAGTAATATTCGTTACTGTTCACAAATTATCGATAATATTCATACAAT
Found at i:896839 original size:42 final size:42
Alignment explanation
Indices: 896792--896876 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
896782 AAATCTCGCC
*
896792 GGTGTGGGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
1 GGTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
*
896834 GGTGTGCGATGCACTCTTAACTAGCTTGATTTCCATAGCTCT
1 GGTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
896876 G
1 G
896877 TTCGTTTCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (42 bp):
GGTGTGCGATGCACTCTTAACTAGCTTGATTTCCAAAGCTCT
Found at i:899279 original size:13 final size:16
Alignment explanation
Indices: 899243--899274 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
899233 TTATGAAACA
899243 AAAC-TAAATAATAAT
1 AAACTTAAATAATAAT
899258 AAACTTAAATAA-AAT
1 AAACTTAAATAATAAT
899273 AA
1 AA
899275 TTAAAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AAACTTAAATAATAAT
Found at i:901026 original size:32 final size:31
Alignment explanation
Indices: 900990--901065 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
900980 GGGGCCGTGA
*
900990 GGCCTACCTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
** **
901022 GGCCTACCCGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
901053 AGCCTACCTAAGA
1 GGCCTACCTAAGA
901066 GTCACATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:907984 original size:13 final size:13
Alignment explanation
Indices: 907966--907995 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
907956 TTGACTCTTA
*
907966 ATGAGAAAGTATC
1 ATGAGAAAGTACC
907979 ATGAGAAAGTACC
1 ATGAGAAAGTACC
907992 ATGA
1 ATGA
907996 AAATTCGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (13 bp):
ATGAGAAAGTACC
Found at i:909707 original size:16 final size:15
Alignment explanation
Indices: 909679--909709 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
909669 GTTTTTTGAA
909679 TTTTAAAAAATATGT
1 TTTTAAAAAATATGT
909694 TTTTAAAAATATATGT
1 TTTTAAAAA-ATATGT
909710 ATCTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TTTTAAAAAATATGT
Found at i:911313 original size:8 final size:8
Alignment explanation
Indices: 911300--911325 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
911290 CGAGGTCTCG
911300 ATCTAAAA
1 ATCTAAAA
911308 ATCTAAAA
1 ATCTAAAA
911316 ATCTAAAA
1 ATCTAAAA
911324 AT
1 AT
911326 TTCATGCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (8 bp):
ATCTAAAA
Found at i:915756 original size:13 final size:13
Alignment explanation
Indices: 915740--915766 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
915730 ACAAATTCAT
915740 AAAATGAAAGAAA
1 AAAATGAAAGAAA
915753 AAAATGAAAGAAA
1 AAAATGAAAGAAA
915766 A
1 A
915767 GTGATGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAATGAAAGAAA
Found at i:915887 original size:15 final size:15
Alignment explanation
Indices: 915869--915901 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
915859 ATTTAGCTCT
915869 TTTATCCCCCATAGG
1 TTTATCCCCCATAGG
915884 TTTATCCCCCATAGG
1 TTTATCCCCCATAGG
915899 TTT
1 TTT
915902 TCGTCACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (15 bp):
TTTATCCCCCATAGG
Found at i:916730 original size:43 final size:42
Alignment explanation
Indices: 916650--916780 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 42
916640 TACTTATGTC
* * **
916650 TATACTTTTGTATAT-ATACATATATGTACATACATAACATA
1 TATACTTTTATATATAATACATATATATACATGTATAACATA
* *
916691 TGTACTTTTATATATACATACACATATATACATGTATAACATA
1 TATACTTTTATATATA-ATACATATATATACATGTATAACATA
** * *
916734 TATGA-TATACACATATAATATATATATATACATGTATAACATA
1 TAT-ACT-TTTATATATAATACATATATATACATGTATAACATA
916777 TATA
1 TATA
916781 TACACACACT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
41 13 0.18
42 1 0.01
43 52 0.70
44 8 0.11
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (42 bp):
TATACTTTTATATATAATACATATATATACATGTATAACATA
Found at i:916734 original size:17 final size:14
Alignment explanation
Indices: 916661--916780 Score: 61
Period size: 13 Copynumber: 8.5 Consensus size: 14
916651 ATACTTTTGT
*
916661 ATATATACATATAT
1 ATATATACATATAC
* *
916675 GTACATACATA-AC
1 ATATATACATATAC
* **
916688 ATATGTAC-T-TTT
1 ATATATACATATAC
*
916700 ATATATACATACAC
1 ATATATACATATAC
916714 ATATATACATGTATAAC
1 ATATATACA--TAT-AC
*
916731 ATATAT-GATATAC
1 ATATATACATATAC
* *
916744 ACATATA-ATATAT
1 ATATATACATATAC
916757 ATATATACATGTATAAC
1 ATATATACA--TAT-AC
916774 ATATATA
1 ATATATA
916781 TACACACACT
Statistics
Matches: 77, Mismatches: 18, Indels: 19
0.68 0.16 0.17
Matches are distributed among these distances:
12 8 0.10
13 25 0.32
14 22 0.29
16 6 0.08
17 16 0.21
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATATACATATAC
Done.