Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008290.1 Hibiscus syriacus cultivar Beakdansim tig00110954_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: 1890093
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:762275 original size:40 final size:40
Alignment explanation
Indices: 762181--762329 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
762171 CGCGATTCTA
* *
762181 CGATAGTC-AAGTTCGCGTTGCGATTTTCCAAA--T-TTA
1 CGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTTGTTG
* * * *
762217 CGTTAGTCCAAATTCGCGTTGCGATTTTTCGAATTTGTTG
1 CGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTTGTTG
*
762257 CGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTCGTTG
1 CGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTTGTTG
*
762297 CGATAGTCGAAGTTCGCGTTGCGATTTTCCAAA
1 CGATAGTCGAAGTTCGCGTTGCGATTTTTCAAA
762330 ATCGCAACGA
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
36 7 0.07
37 21 0.21
39 1 0.01
40 69 0.70
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (40 bp):
CGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTTGTTG
Found at i:762279 original size:21 final size:21
Alignment explanation
Indices: 762253--762321 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
762243 TTTCGAATTT
762253 GTTGCGATAGTCGAAGTTCGC
1 GTTGCGATAGTCGAAGTTCGC
** *
762274 GTTGCGATTTTTC-AAATT--C
1 GTTGCGA-TAGTCGAAGTTCGC
762293 GTTGCGATAGTCGAAGTTCGC
1 GTTGCGATAGTCGAAGTTCGC
762314 GTTGCGAT
1 GTTGCGAT
762322 TTTCCAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.08
19 12 0.32
21 20 0.53
22 3 0.08
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (21 bp):
GTTGCGATAGTCGAAGTTCGC
Found at i:762312 original size:19 final size:19
Alignment explanation
Indices: 762253--762312 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
762243 TTTCGAATTT
762253 GTTGCGATAGTCGAAGTTCGC
1 GTTGCGATAGTCGAAGTT--C
** *
762274 GTTGCGATTTTTC-AAATTC
1 GTTGCGA-TAGTCGAAGTTC
762293 GTTGCGATAGTCGAAGTTC
1 GTTGCGATAGTCGAAGTTC
762312 G
1 G
762313 CGTTGCGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
18 3 0.10
19 14 0.45
21 11 0.35
22 3 0.10
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (19 bp):
GTTGCGATAGTCGAAGTTC
Found at i:762334 original size:21 final size:21
Alignment explanation
Indices: 762270--762334 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
762260 TAGTCGAAGT
*
762270 TCGCGTTGCGATTTTTC-AAA
1 TCGCGTTGCGATTTTCCAAAA
* ** * **
762290 T-TCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATTTTCCAAAA
762310 TCGCGTTGCGATTTTCCAAAA
1 TCGCGTTGCGATTTTCCAAAA
762331 TCGC
1 TCGC
762335 AACGACTGGT
Statistics
Matches: 30, Mismatches: 13, Indels: 3
0.65 0.28 0.07
Matches are distributed among these distances:
19 10 0.33
20 3 0.10
21 17 0.57
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAA
Found at i:762748 original size:19 final size:19
Alignment explanation
Indices: 762724--762760 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
762714 TTATTTTGGA
762724 TTTTTCACTATCGCAACAT
1 TTTTTCACTATCGCAACAT
762743 TTTTTCACTATCGCAACA
1 TTTTTCACTATCGCAACA
762761 ACACGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAT
Found at i:763752 original size:30 final size:30
Alignment explanation
Indices: 763712--763769 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
763702 CATATTATAT
* *
763712 TGTCATTTTCGTTTTTATTGAGTTAAGAAA
1 TGTCACTTTCGTTTTTATTGAATTAAGAAA
*
763742 TGTCACTTTCGTTTTTATTTAATTAAGA
1 TGTCACTTTCGTTTTTATTGAATTAAGA
763770 TGTAGTCACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.52
Consensus pattern (30 bp):
TGTCACTTTCGTTTTTATTGAATTAAGAAA
Found at i:764969 original size:25 final size:24
Alignment explanation
Indices: 764921--764983 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
764911 ATATTTTATA
764921 TATATTAACTTTAAGAAATAATTTT
1 TATATTAACTTTAAGAAATAA-TTT
764946 TATATTAACTTATAA-AACAT-ATTT
1 TATATTAACTT-TAAGAA-ATAATTT
764970 TATTATTAA-TTTAA
1 TA-TATTAACTTTAA
764984 TTTAAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
23 3 0.09
24 7 0.20
25 20 0.57
26 5 0.14
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (24 bp):
TATATTAACTTTAAGAAATAATTT
Found at i:764975 original size:27 final size:26
Alignment explanation
Indices: 764910--765000 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 26
764900 TTAAATTCAT
764910 AATATTTTATATATATTAACTTTAAGA
1 AATATTTTAT-TATATTAACTTTAAGA
*
764937 AATAATTT-TTATATTAACTTATAA-A
1 AATATTTTATTATATTAACTT-TAAGA
764962 ACATATTTTATTATTAATTTAA-TTTAA-A
1 A-ATATTTTATTA-T-A-TTAACTTTAAGA
*
764990 ATTATTTTATT
1 AATATTTTATT
765001 TTAATTTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
25 13 0.24
26 10 0.18
27 19 0.35
28 6 0.11
29 3 0.05
30 4 0.07
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (26 bp):
AATATTTTATTATATTAACTTTAAGA
Found at i:765028 original size:30 final size:30
Alignment explanation
Indices: 764941--765069 Score: 113
Period size: 30 Copynumber: 4.3 Consensus size: 30
764931 TTAAGAAATA
* * * * *
764941 ATTTTTATATTAACTTATAAAACATATTTT
1 ATTTTAATTTTAATTTAAAAAATATATTTT
764971 ATTATTAA-TTTAATTT--AAAAT-TATTTT
1 ATT-TTAATTTTAATTTAAAAAATATATTTT
764998 ATTTTAATTTTAATTTAAAAAATATATTTT
1 ATTTTAATTTTAATTTAAAAAATATATTTT
* * * * *
765028 ATTTTTATCTAAACTTTTAAAAATACATTTT
1 ATTTTAATTTTAA-TTTAAAAAATATATTTT
765059 ATTATTAATTT
1 ATT-TTAATTT
765070 AACTTTTCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
26 4 0.05
27 17 0.21
28 4 0.05
29 5 0.06
30 25 0.31
31 21 0.26
32 5 0.06
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTTAATTTTAATTTAAAAAATATATTTT
Found at i:765074 original size:31 final size:29
Alignment explanation
Indices: 764941--765076 Score: 111
Period size: 31 Copynumber: 4.6 Consensus size: 29
764931 TTAAGAAATA
* *
764941 ATTTTTATATTAACTTATAAAACA-TATTTT
1 ATTTTAAT-TTAACTTTTAAAA-ATTATTTT
764971 ATTATTAATTTAA--TTT-AAAATTATTTT
1 ATT-TTAATTTAACTTTTAAAAATTATTTT
*
764998 ATTTTAATTTTAA-TTTAAAAAATATATTTT
1 ATTTTAA-TTTAACTTTTAAAAAT-TATTTT
* * *
765028 ATTTTTATCTAAACTTTTAAAAATACATTTT
1 ATTTTAAT-TTAACTTTTAAAAAT-TATTTT
765059 ATTATTAATTTAACTTTT
1 ATT-TTAATTTAACTTTT
765077 CAAAGTAAAT
Statistics
Matches: 88, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
26 5 0.06
27 17 0.19
28 4 0.05
29 6 0.07
30 22 0.25
31 30 0.34
32 4 0.05
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
ATTTTAATTTAACTTTTAAAAATTATTTT
Found at i:766880 original size:19 final size:20
Alignment explanation
Indices: 766856--766901 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
766846 ACCAATAAAA
* *
766856 TCGCAACGCGATCTCGAA-T
1 TCGCAACGCGAACTCCAATT
766875 TCGCAACGCGAACTCCAATT
1 TCGCAACGCGAACTCCAATT
766895 TCGCAAC
1 TCGCAAC
766902 TCAGTTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGAACTCCAATT
Found at i:766934 original size:20 final size:21
Alignment explanation
Indices: 766911--766963 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
766901 CTCAGTTTCC
766911 AAAATCGCAACGTGAATAGTA
1 AAAATCGCAACGTGAATAGTA
**
766932 AAAATCATAACGTGAATAGT-
1 AAAATCGCAACGTGAATAGTA
766952 AAAATCGCAACG
1 AAAATCGCAACG
766964 AATCTATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (21 bp):
AAAATCGCAACGTGAATAGTA
Found at i:767355 original size:20 final size:20
Alignment explanation
Indices: 767332--767382 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
767322 CTAAATTCGT
767332 GTTGCGATTTTACTATTCAC
1 GTTGCGATTTTACTATTCAC
*
767352 GTTGTGATTTTACTATTCAC
1 GTTGCGATTTTACTATTCAC
767372 GTTGCGATTTT
1 GTTGCGATTTT
767383 GGAAATTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (20 bp):
GTTGCGATTTTACTATTCAC
Found at i:769862 original size:3 final size:3
Alignment explanation
Indices: 769856--769911 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
769846 CATCCCTATG
**
769856 ACC ACC ACC ACC A-C ACC ACC ACC A-C ACC ACC ACC ACC ATT ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
*
769902 ACC ATC ACC A
1 ACC ACC ACC A
769912 TCATCATCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.36, C:0.59, G:0.00, T:0.05
Consensus pattern (3 bp):
ACC
Found at i:769874 original size:11 final size:11
Alignment explanation
Indices: 769858--769891 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
769848 TCCCTATGAC
769858 CACCACCACCA
1 CACCACCACCA
769869 CACCACCACCA
1 CACCACCACCA
769880 CACCACCACCA
1 CACCACCACCA
769891 C
1 C
769892 CATTACCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (11 bp):
CACCACCACCA
Found at i:769901 original size:12 final size:12
Alignment explanation
Indices: 769858--769922 Score: 69
Period size: 12 Copynumber: 5.3 Consensus size: 12
769848 TCCCTATGAC
769858 CACCACCACCA-
1 CACCACCACCAT
*
769869 CACCACCACCACAC
1 CACCACCA-C-CAT
769883 CACCACCACCAT
1 CACCACCACCAT
*
769895 TACCACCACCAT
1 CACCACCACCAT
* *
769907 CACCATCATCAT
1 CACCACCACCAT
769919 CACC
1 CACC
769923 TTTATCTACA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
11 8 0.17
12 27 0.59
13 3 0.07
14 8 0.17
ACGTcount: A:0.34, C:0.57, G:0.00, T:0.09
Consensus pattern (12 bp):
CACCACCACCAT
Found at i:774243 original size:32 final size:33
Alignment explanation
Indices: 774207--774274 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 33
774197 TTGGTTAGAA
774207 GAAAGGA-G-TTTGT-TGTGTAAGAGATTGAAGAT
1 GAAAGGAGGTTTTGTGTGTGTAAGAGA-TGAA-AT
774239 GAAAGGAGTGTTTTGTGTGTGTAAGAGATGAAAT
1 GAAAGGAG-GTTTTGTGTGTGTAAGAGATGAAAT
774273 GA
1 GA
774275 GTGTGTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
32 7 0.22
34 5 0.16
35 9 0.28
36 11 0.34
ACGTcount: A:0.34, C:0.00, G:0.35, T:0.31
Consensus pattern (33 bp):
GAAAGGAGGTTTTGTGTGTGTAAGAGATGAAAT
Found at i:775193 original size:27 final size:25
Alignment explanation
Indices: 775163--775227 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 25
775153 TTTAAATGAA
775163 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATTTTT-AA-TAAGTTAAT
* *
775190 AATAAAATATATTTAATAAGTTGAT
1 AATAAAATATTTTTAATAAGTTAAT
775215 -ATAAAAATATTTT
1 AAT-AAAATATTTT
775228 AAGTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.06
25 17 0.50
26 2 0.06
27 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (25 bp):
AATAAAATATTTTTAATAAGTTAAT
Found at i:775232 original size:21 final size:22
Alignment explanation
Indices: 775180--775247 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
775170 TATTTTTAAA
775180 TTAAGTTAATAATAAAATATATT
1 TTAAGTTAAT-ATAAAATATATT
*
775203 TAATAAGTTGATATAAAA-ATATT
1 T--TAAGTTAATATAAAATATATT
*
775226 TTAAGTTAATATATATATATAT
1 TTAAGTTAATATA-AAATATAT
775248 ATAATTCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 11 0.29
22 2 0.05
23 11 0.29
24 6 0.16
25 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (22 bp):
TTAAGTTAATATAAAATATATT
Found at i:776121 original size:2 final size:2
Alignment explanation
Indices: 776114--776173 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
776104 ATAACAAGAC
776114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
776156 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
776174 TATCATTTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:776242 original size:31 final size:31
Alignment explanation
Indices: 776160--776250 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
776150 ATATATATAT
*
776160 ATATATATATATATTATCATTTTCAACACGCG
1 ATATATAT-TATATTATCATTTTCAACACGCA
* * * * * *
776192 ATATGTGTCACATCATCATTTTCAACACGTA
1 ATATATATTATATTATCATTTTCAACACGCA
* *
776223 ATATATATTATATTGTCATTTTGAACAC
1 ATATATATTATATTATCATTTTCAACAC
776251 ATGATATGTA
Statistics
Matches: 45, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
31 39 0.87
32 6 0.13
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (31 bp):
ATATATATTATATTATCATTTTCAACACGCA
Found at i:780331 original size:26 final size:26
Alignment explanation
Indices: 780283--780332 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
780273 AGGTGTTGAA
**
780283 TTTATAAAATTTTAAGATGAAATAAG
1 TTTATAAAATTTTAAGAAAAAATAAG
**
780309 TTTATAAAATTTTATTAAAAAATA
1 TTTATAAAATTTTAAGAAAAAATA
780333 TCTAAAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (26 bp):
TTTATAAAATTTTAAGAAAAAATAAG
Found at i:780566 original size:13 final size:14
Alignment explanation
Indices: 780543--780584 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
780533 ACATATAAAA
*
780543 ATTATAATATTATTG
1 ATTA-AATATTAATG
780558 A-TAAATATTAATG
1 ATTAAATATTAATG
780571 ATTAAATAATTAAT
1 ATTAAAT-ATTAAT
780585 AATTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 10 0.42
14 7 0.29
15 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
ATTAAATATTAATG
Found at i:785972 original size:29 final size:30
Alignment explanation
Indices: 785939--786023 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 30
785929 TAGGACTCAA
*
785939 TTATTTTAATATTTATTATTAAAGTT-TTT
1 TTATTCTAATATTTATTATTAAAGTTATTT
* *
785968 TTATTCTAATACTTATTATTATAGGTTCAATTT
1 TTATTCTAATATTTATTATTA-AAGTT--ATTT
786001 TT-TTCTAATATTTATTATTAAAG
1 TTATTCTAATATTTATTATTAAAG
786024 GACTACTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
29 19 0.40
30 4 0.09
31 2 0.04
32 17 0.36
33 5 0.11
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (30 bp):
TTATTCTAATATTTATTATTAAAGTTATTT
Found at i:786381 original size:42 final size:42
Alignment explanation
Indices: 786299--786382 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
786289 GTTATTAGAG
* * *
786299 ATTTATTTTTTCAAAACTTATTATTATGGAGCTACTCTTAAA
1 ATTTATTTTTTCAAAACTTATTATTATGAAACAACTCTTAAA
* * *
786341 ATTTATTTTTTCAACACTTGTTATTA-GAAACAATTACTTAAA
1 ATTTATTTTTTCAAAACTTATTATTATGAAACAACT-CTTAAA
786383 TAACAGTCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 5 0.14
42 30 0.86
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (42 bp):
ATTTATTTTTTCAAAACTTATTATTATGAAACAACTCTTAAA
Found at i:786749 original size:29 final size:29
Alignment explanation
Indices: 786707--786765 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
786697 GGACACTTTA
786707 ATCAATTTGCTGAACAATGTAGTAATAGG
1 ATCAATTTGCTGAACAATGTAGTAATAGG
786736 ATCAATTTGCTGAACAATGTAGTAATAGG
1 ATCAATTTGCTGAACAATGTAGTAATAGG
786765 A
1 A
786766 CATTTTAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (29 bp):
ATCAATTTGCTGAACAATGTAGTAATAGG
Found at i:791512 original size:25 final size:25
Alignment explanation
Indices: 791484--791547 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
791474 GAATTTTATG
*
791484 TTAA-AAAGAGAAAATTTATAAAATT
1 TTAAGAAAGA-AAAACTTATAAAATT
* *
791509 TTAAGAAATATAAACTTATAAAATT
1 TTAAGAAAGAAAAACTTATAAAATT
*
791534 TTAAGAAATAAAAA
1 TTAAGAAAGAAAAA
791548 AAAGTATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (25 bp):
TTAAGAAAGAAAAACTTATAAAATT
Found at i:791581 original size:17 final size:17
Alignment explanation
Indices: 791555--791599 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
791545 AAAAAAGTAT
*
791555 TAATTAAAAATACATAA
1 TAATTTAAAATACATAA
*
791572 -AATATTAAAATATATAA
1 TAAT-TTAAAATACATAA
791589 TAATTTAAAAT
1 TAATTTAAAAT
791600 TTTTAAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 3 0.12
17 18 0.75
18 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATTTAAAATACATAA
Found at i:792459 original size:24 final size:24
Alignment explanation
Indices: 792406--792459 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
792396 CCTTATACAC
*
792406 AACCAATGTGAGACTTTACCAAAA
1 AACCAACGTGAGACTTTACCAAAA
* *
792430 AA-CAACGTGGGACTTTGCCAAAA
1 AACCAACGTGAGACTTTACCAAAA
792453 AACCAAC
1 AACCAAC
792460 AAATCTCCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (24 bp):
AACCAACGTGAGACTTTACCAAAA
Found at i:797641 original size:25 final size:25
Alignment explanation
Indices: 797603--797653 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
797593 ATTTTCTATA
797603 TACACAAGACCTCGAACTCAATACT
1 TACACAAGACCTCGAACTCAATACT
*
797628 TACACAAGATCTCGAACTCAATACT
1 TACACAAGACCTCGAACTCAATACT
797653 T
1 T
797654 GCTTAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (25 bp):
TACACAAGACCTCGAACTCAATACT
Found at i:802226 original size:76 final size:75
Alignment explanation
Indices: 802060--802232 Score: 215
Period size: 76 Copynumber: 2.3 Consensus size: 75
802050 TAAGCCAAAC
*
802060 CAATGGTTAAACCAAATACGT-CTATACCACCACCATCAATGACTAAACCAAACCCACAACCCAA
1 CAATGGTTAAACCAAATTCGTCCTATACCACCACCATCAATGACTAAACCAAACCCACAACCCAA
802124 AATCCACCAA
66 AATCCACCAA
* * * * * **
802134 CAATGATTAAACCAAATTCGTCCATGTCACCACCACCATCAGTGACTAAACTAAACTCA-GTCCC
1 CAATGGTTAAACCAAATTCGTCC-TAT-ACCACCACCATCAATGACTAAACCAAACCCACAACCC
*
802198 AAAATCTACCAA
64 AAAATCCACCAA
* *
802210 TAATGGTTAAATCAAATTCGTCC
1 CAATGGTTAAACCAAATTCGTCC
802233 CCAAAATCCA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
74 19 0.23
75 1 0.01
76 36 0.43
77 28 0.33
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (75 bp):
CAATGGTTAAACCAAATTCGTCCTATACCACCACCATCAATGACTAAACCAAACCCACAACCCAA
AATCCACCAA
Found at i:802244 original size:77 final size:77
Alignment explanation
Indices: 802085--802250 Score: 181
Period size: 76 Copynumber: 2.1 Consensus size: 77
802075 ATACGTCTAT
802085 ACCACCACCATCAATGACTAAACCAAACCCACAACCCAAAATCCACCAACAATGATTAAACCAAA
1 ACCACCACCATCAATGACTAAACCAAACCCACAACCCAAAATCCACCAACAATGATTAAACCAAA
****
802150 TTCGTCCATGTC
66 TTCGTCCACAAA
* * * ** * * * *
802162 ACCACCACCATCAGTGACTAAACTAAACTCA-GTCCCAAAATCTACCAATAATGGTTAAATCAAA
1 ACCACCACCATCAATGACTAAACCAAACCCACAACCCAAAATCCACCAACAATGATTAAACCAAA
*
802226 TTCGTCCCCAAA
66 TTCGTCCACAAA
802238 ATCCACCAACCAT
1 A-CCACC-ACCAT
802251 GGTTAAACCA
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
76 35 0.48
77 33 0.45
78 5 0.07
ACGTcount: A:0.42, C:0.34, G:0.06, T:0.18
Consensus pattern (77 bp):
ACCACCACCATCAATGACTAAACCAAACCCACAACCCAAAATCCACCAACAATGATTAAACCAAA
TTCGTCCACAAA
Found at i:802278 original size:113 final size:114
Alignment explanation
Indices: 802119--802341 Score: 308
Period size: 113 Copynumber: 2.0 Consensus size: 114
802109 AAACCCACAA
* * *
802119 CCCAAAATCCACCAACAATGATTAAACCAAATTCGTCCATGTCACCACCACCATCAGTGACTAAA
1 CCCAAAATCCACCAACAATGATTAAACCAAATCCGTACATGCCACCACCACCATCAGTGACTAAA
* * *
802184 -CTAAA-CTCAGTCCCAAAA-TCTACCAATAATGGTTAAATCAAATTCGTC
66 TC-AAACCACAGTCCCAAAATTC-ACCAACAATAGTTAAATCAAATTCGTC
* * *
802232 CCCAAAATCCACCAACCATGGTTAAACCAAATCCGTACATGCCACCACCATCATCAGTGACTAAA
1 CCCAAAATCCACCAACAATGATTAAACCAAATCCGTACATGCCACCACCACCATCAGTGACTAAA
*
802297 TCAAACCCACATTCCCAAAATTCACCAACAATAGTTAAATCAAAT
66 TCAAA-CCACAGTCCCAAAATTCACCAACAATAGTTAAATCAAAT
802342 CCATCCATAC
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
113 62 0.65
114 1 0.01
115 31 0.32
116 2 0.02
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.21
Consensus pattern (114 bp):
CCCAAAATCCACCAACAATGATTAAACCAAATCCGTACATGCCACCACCACCATCAGTGACTAAA
TCAAACCACAGTCCCAAAATTCACCAACAATAGTTAAATCAAATTCGTC
Found at i:802315 original size:78 final size:77
Alignment explanation
Indices: 802231--802501 Score: 325
Period size: 75 Copynumber: 3.5 Consensus size: 77
802221 TCAAATTCGT
* *
802231 CCCCAAAATCCACCAACCATGGTTAAACCAAATCCGTACATGCCACCACCATCATCAGTGACTAA
1 CCCCAAAATCCACCAACAATGGTTAAACCAAATCCGTCCATGCCACCACCATCATCAGTGACTAA
*
802296 ATCAAACCCACAT
66 A-CAAACCCACAA
* * * * * *
802309 TCCCAAAATTCACCAACAATAGTTAAATCAAATCCATCCATACCACCA-C-T-ATCAGTGACTAA
1 CCCCAAAATCCACCAACAATGGTTAAACCAAATCCGTCCATGCCACCACCATCATCAGTGACTAA
802371 ACTAAACCCACAA
66 AC-AAACCCACAA
* * * * *
802384 CCCCAAAATCCACCAACGATGGTTAAACCAAGTTCGTCCATGCCACCACCACCATCAGCGACTAA
1 CCCCAAAATCCACCAACAATGGTTAAACCAAATCCGTCCATGCCACCACCATCATCAGTGACTAA
802449 ACCAAACCCA-AA
66 A-CAAACCCACAA
* * * *
802461 GCCCAAAATCTACGAACAATGGTTAAACCAAATCCATCCAT
1 CCCCAAAATCCACCAACAATGGTTAAACCAAATCCGTCCAT
802502 TTAAGCACCA
Statistics
Matches: 161, Mismatches: 27, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
74 1 0.01
75 61 0.38
76 2 0.01
77 37 0.23
78 59 0.37
79 1 0.01
ACGTcount: A:0.40, C:0.35, G:0.08, T:0.17
Consensus pattern (77 bp):
CCCCAAAATCCACCAACAATGGTTAAACCAAATCCGTCCATGCCACCACCATCATCAGTGACTAA
ACAAACCCACAA
Found at i:802390 original size:75 final size:75
Alignment explanation
Indices: 802231--802501 Score: 294
Period size: 78 Copynumber: 3.5 Consensus size: 75
802221 TCAAATTCGT
* * * *
802231 CCCCAAAATCCACCAACCATGGTTAAACCAAATCCGTACATGCCACCACCATCATCAGTGACTAA
1 CCCCAAAATCCACCAACAATGGTTAAACCAAATCCATCCATACCACCA-C-T-ATCAGTGACTAA
*
802296 A-TCAAACCCACAT
63 ACT-AAACCCACAA
* * * *
802309 TCCCAAAATTCACCAACAATAGTTAAATCAAATCCATCCATACCACCACTATCAGTGACTAAACT
1 CCCCAAAATCCACCAACAATGGTTAAACCAAATCCATCCATACCACCACTATCAGTGACTAAACT
802374 AAACCCACAA
66 AAACCCACAA
* * * * * *
802384 CCCCAAAATCCACCAACGATGGTTAAACCAAGTTCGTCCATGCCACCACCACCATCAGCGACTAA
1 CCCCAAAATCCACCAACAATGGTTAAACCAAATCCATCCAT---ACCACCACTATCAGTGACTAA
*
802449 ACCAAACCCA-AA
63 ACTAAACCCACAA
* * *
802461 GCCCAAAATCTACGAACAATGGTTAAACCAAATCCATCCAT
1 CCCCAAAATCCACCAACAATGGTTAAACCAAATCCATCCAT
802502 TTAAGCACCA
Statistics
Matches: 162, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
75 55 0.34
76 2 0.01
77 37 0.23
78 68 0.42
ACGTcount: A:0.40, C:0.35, G:0.08, T:0.17
Consensus pattern (75 bp):
CCCCAAAATCCACCAACAATGGTTAAACCAAATCCATCCATACCACCACTATCAGTGACTAAACT
AAACCCACAA
Found at i:802391 original size:190 final size:187
Alignment explanation
Indices: 802057--802422 Score: 463
Period size: 190 Copynumber: 1.9 Consensus size: 187
802047 AACTAAGCCA
802057 AACCAATGGTTAAACCAAATACGTCTATACCACCACCATCAATGACTAAACCAAACCCACAACCC
1 AACCAATGGTTAAACCAAATACGTCTATACCACCACCATCAATGACTAAACCAAACCCACAACCC
* *
802122 AAAATCCACCAACAATGATTAAACCAAATTCGTCCATGTCACCACCACCATCAGTGACTAAACTA
66 AAAATCCACCAACAATGATTAAACCAAATCCATCCA-GTCACCACCACCATCAGTGACTAAACTA
* ** * * *
802187 AACTCAGTCCCAAAATCTACCAATAATGGTTAAATCAAATTCGTCCCCAAAATCCACC
130 AACACAACCCCAAAATCCACCAACAATGGTTAAACCAAATTCGTCCCCAAAATCCACC
* * *
802245 AACC-ATGGTTAAACCAAATCCGTAC-ATGCCACCACCATCATCAGTGACTAAATCAAACCCACA
1 AACCAATGGTTAAACCAAATACGT-CTATACCACCACCATCA--A-TGACTAAACCAAACCCACA
* * * *
802308 TTCCCAAAATTCACCAACAAT-AGTTAAATCAAATCCATCCA-T-ACCACCACTATCAGTGACTA
62 -ACCCAAAATCCACCAACAATGA-TTAAACCAAATCCATCCAGTCACCACCACCATCAGTGACTA
* *
802370 AACTAAACCCACAACCCCAAAATCCACCAACGATGGTTAAACCAAGTTCGTCC
125 AACTAAA--CACAACCCCAAAATCCACCAACAATGGTTAAACCAAATTCGTCC
802423 ATGCCACCAC
Statistics
Matches: 153, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
187 32 0.21
188 31 0.20
189 2 0.01
190 55 0.36
191 33 0.22
ACGTcount: A:0.41, C:0.33, G:0.07, T:0.19
Consensus pattern (187 bp):
AACCAATGGTTAAACCAAATACGTCTATACCACCACCATCAATGACTAAACCAAACCCACAACCC
AAAATCCACCAACAATGATTAAACCAAATCCATCCAGTCACCACCACCATCAGTGACTAAACTAA
ACACAACCCCAAAATCCACCAACAATGGTTAAACCAAATTCGTCCCCAAAATCCACC
Found at i:803035 original size:20 final size:20
Alignment explanation
Indices: 803010--803051 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
803000 TTGTACTAAT
803010 ATAATTTGCCATGTCATCTC
1 ATAATTTGCCATGTCATCTC
803030 ATAATTTGCCATGTCATCTC
1 ATAATTTGCCATGTCATCTC
803050 AT
1 AT
803052 GGGGTGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (20 bp):
ATAATTTGCCATGTCATCTC
Found at i:814375 original size:18 final size:18
Alignment explanation
Indices: 814352--814400 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
814342 TGTTTCTGAG
*
814352 GGAATTGAAATTTATGAA
1 GGAATTGAAATCTATGAA
814370 GGAATTGAAATCTATGAA
1 GGAATTGAAATCTATGAA
*
814388 GGAATTGGAATCT
1 GGAATTGAAATCT
814401 GTCAGGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (18 bp):
GGAATTGAAATCTATGAA
Found at i:815416 original size:202 final size:191
Alignment explanation
Indices: 815011--815397 Score: 568
Period size: 202 Copynumber: 2.0 Consensus size: 191
815001 ATAAAGTTCC
815011 ACCCGACCCAACCCGAATATATGAATTAGAAACTCGACCCGAAATAATAAAAAATTATTTTATTC
1 ACCCGACCCAACCCGAATATATGAATTAGAAACTCGACCCGAAATAATAAAAAATTATTTTATTC
815076 AATAAAAACAGTGACTTAATTGGAAAAAAAATTATATAGAGGGGTATTATTGTAATTTTCCTAAA
66 AATAAAAACAGTGACTTAATTGGAAAAAAAATTATATAGAGGGGTATTATTGTAATTTTCCTAAA
* *
815141 TATATAAGGTAAAATTATATATTTTCAGGTCGGGTCGGGTCGGGTATTTTTCACCCTAAACCCG
131 TATATAAGGTAAAATTATATATTTT---GTCGGGTCAGATCGGGTATTTTTCACCCTAAACCCG
* *
815205 ACCCCGACCCGACCCGAATATATGAATTAGAAATTCGACTCGACCTGAAATAATAAAAAAAATTA
1 A-CCCGACCCAACCCGAATATATGAATTAG-AA----ACTCGACCCGAAATAAT--AAAAAATTA
*
815270 -TTTATTCAATAAAAACAGTGATTTAATT-GAAAAAAAATTATATATAGAGGGGTATTATTGTAA
58 TTTTATTCAATAAAAACAGTGACTTAATTGGAAAAAAAA-T-TATATAGAGGGGTATTATTGTAA
815333 TTTTTCCTAAATATATAAGGTAAAATTATAT-TTTT-TCGGGTCAGATCGGGTA-TTTTCACCCT
121 -TTTTCCTAAATATATAAGGTAAAATTATATATTTTGTCGGGTCAGATCGGGTATTTTTCACCCT
815395 AAA
185 AAA
815398 TTAGAACCCG
Statistics
Matches: 177, Mismatches: 5, Indels: 19
0.88 0.02 0.09
Matches are distributed among these distances:
194 1 0.01
195 27 0.15
196 2 0.01
197 13 0.07
198 15 0.08
200 25 0.14
201 28 0.16
202 36 0.20
203 30 0.17
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (191 bp):
ACCCGACCCAACCCGAATATATGAATTAGAAACTCGACCCGAAATAATAAAAAATTATTTTATTC
AATAAAAACAGTGACTTAATTGGAAAAAAAATTATATAGAGGGGTATTATTGTAATTTTCCTAAA
TATATAAGGTAAAATTATATATTTTGTCGGGTCAGATCGGGTATTTTTCACCCTAAACCCG
Found at i:816850 original size:15 final size:15
Alignment explanation
Indices: 816806--816850 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
816796 AAAGATGGGG
816806 TAATAAAAATAAT-AT
1 TAAT-AAAATAATAAT
*
816821 TAATAAAATATTAAT
1 TAATAAAATAATAAT
816836 TAATAAAATAATAAT
1 TAATAAAATAATAAT
816851 AAATGTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 7 0.26
15 20 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATAAAATAATAAT
Found at i:817986 original size:23 final size:23
Alignment explanation
Indices: 817960--818003 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
817950 AATGTAATAG
817960 TTAA-TTAAATAATTTAAAATAAT
1 TTAATTTAAA-AATTTAAAATAAT
*
817983 TTAATTTAAAATTTTAAAATA
1 TTAATTTAAAAATTTAAAATA
818004 TATAAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAATTTAAAAATTTAAAATAAT
Found at i:818081 original size:17 final size:18
Alignment explanation
Indices: 818059--818095 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
818049 GGAAATGTTT
818059 TTTTTG-AGGGAAATTGA
1 TTTTTGAAGGGAAATTGA
818076 TTTTTGAAGGGAAATTGA
1 TTTTTGAAGGGAAATTGA
818094 TT
1 TT
818096 AAAAGAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (18 bp):
TTTTTGAAGGGAAATTGA
Found at i:818446 original size:2 final size:2
Alignment explanation
Indices: 818439--818469 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
818429 ACATGCATCA
818439 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
818470 TACTTACATA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:818526 original size:2 final size:2
Alignment explanation
Indices: 818519--818546 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
818509 TAATGATAAG
818519 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
818547 AAGTTATGTA
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):
TA
Found at i:818770 original size:19 final size:19
Alignment explanation
Indices: 818743--818781 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
818733 AATTATATTT
*
818743 ATACTTATGTACATACATC
1 ATACATATGTACATACATC
818762 ATACATATGTACATACATC
1 ATACATATGTACATACATC
818781 A
1 A
818782 ATGATTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACATATGTACATACATC
Found at i:818890 original size:75 final size:74
Alignment explanation
Indices: 818722--818890 Score: 216
Period size: 75 Copynumber: 2.3 Consensus size: 74
818712 ATTTATTTCA
* * *
818722 ATATATAAATAAATTATATTTATACTTATGTACATACATCATACATATGTACATACATCAATGAT
1 ATATATATATAAATTATATTCATACTTATGTACATACATCATACATATATACATA-ATCAATGAT
*
818787 TAATGATAAG
65 CAATGATAAG
* * *
818797 ATATATAT-TAAACTTATATTCATACTTATGTATATACATCATATATATATACAT-ATCATTGAT
1 ATATATATATAAA-TTATATTCATACTTATGTACATACATCATACATATATACATAATCAATGAT
818860 CAATGATAAG
65 CAATGATAAG
*
818870 TATATATATATATATATATAT
1 -ATATATATATAAAT-TATAT
818891 ATAGCATAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
73 17 0.21
74 13 0.16
75 52 0.63
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.41
Consensus pattern (74 bp):
ATATATATATAAATTATATTCATACTTATGTACATACATCATACATATATACATAATCAATGATC
AATGATAAG
Found at i:822421 original size:20 final size:21
Alignment explanation
Indices: 822367--822429 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
822357 GATTATCCTG
822367 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
822391 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
822411 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
822430 TACACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:826277 original size:22 final size:21
Alignment explanation
Indices: 826235--826274 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
826225 GAGCTTATTT
*
826235 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
826256 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
826275 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:830587 original size:27 final size:25
Alignment explanation
Indices: 830541--830594 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
830531 AAAACTTATA
* * *
830541 TATATATACTATTATTTTTTTAAAC
1 TATATATAATATTATGTTTTAAAAC
830566 TATATATAATATTTAATGTTTTAAAAC
1 TATATATAATA-TT-ATGTTTTAAAAC
830593 TA
1 TA
830595 CTTTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.42
26 2 0.08
27 12 0.50
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
TATATATAATATTATGTTTTAAAAC
Found at i:832064 original size:31 final size:31
Alignment explanation
Indices: 832026--832150 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
832016 CCCGAATGAC
* * *
832026 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
832057 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
832088 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
832119 CAGTCCATATGTCTCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
832150 C
1 C
832151 CCTCGACCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:837642 original size:7 final size:7
Alignment explanation
Indices: 837605--837634 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
837595 TCAATATTTT
837605 AATAAAA
1 AATAAAA
837612 AATAAAA
1 AATAAAA
837619 AATAAAA
1 AATAAAA
837626 AATAAAA
1 AATAAAA
837633 AA
1 AA
837635 AATTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AATAAAA
Found at i:854124 original size:38 final size:38
Alignment explanation
Indices: 854073--854148 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
854063 TCGATCACAC
854073 ATTACCAATGCTTTATTTTGGTGGAATAATTTTTCTTT
1 ATTACCAATGCTTTATTTTGGTGGAATAATTTTTCTTT
854111 ATTACCAATGCTTTATTTTGGTGGAATAATTTTTCTTT
1 ATTACCAATGCTTTATTTTGGTGGAATAATTTTTCTTT
854149 GTTTTGTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.53
Consensus pattern (38 bp):
ATTACCAATGCTTTATTTTGGTGGAATAATTTTTCTTT
Found at i:857366 original size:73 final size:73
Alignment explanation
Indices: 857241--857386 Score: 204
Period size: 73 Copynumber: 2.0 Consensus size: 73
857231 TTTTAAGTTT
* * * * * ** *
857241 AATAATTAAAAAATATTTTTAAATATACTTTTTTATTTTAAATATTTGAAAATATGATAATTTAG
1 AATAATTAAAAAATATATTTAAACATACTTTTTTATTTAAAAAACTCAAAAATATAATAATTTAG
857306 TGGGCTCC
66 TGGGCTCC
857314 AATAATTAAAAAATATATTTAAACAT-CATTTTTTATTTAAAAAACTCAAAAATATAATAATTTA
1 AATAATTAAAAAATATATTTAAACATAC-TTTTTTATTTAAAAAACTCAAAAATATAATAATTTA
857378 GTGGGCTCC
65 GTGGGCTCC
857387 CATTTTAATG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 1 0.02
73 63 0.98
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.41
Consensus pattern (73 bp):
AATAATTAAAAAATATATTTAAACATACTTTTTTATTTAAAAAACTCAAAAATATAATAATTTAG
TGGGCTCC
Found at i:857839 original size:31 final size:31
Alignment explanation
Indices: 857782--857846 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
857772 AAAAGTAATT
**
857782 TTTTAGTCACTTATGTTATCATTTTATAACA
1 TTTTAGTCACTTACATTATCATTTTATAACA
* *
857813 TTTTGGTCACTTACATTAT-ATATTTATAATA
1 TTTTAGTCACTTACATTATCAT-TTTATAACA
857844 TTT
1 TTT
857847 CGATCAGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (31 bp):
TTTTAGTCACTTACATTATCATTTTATAACA
Found at i:857962 original size:31 final size:32
Alignment explanation
Indices: 857917--857986 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
857907 ACTTTTTAAT
* **
857917 TTGACCCCTGAATTTTAG-GTAAAATATCAAA
1 TTGACCCCTAAATTTTAGAAAAAAATATCAAA
* *
857948 TTGACCCTTAAATTTTAGAAAAAAATATCAAT
1 TTGACCCCTAAATTTTAGAAAAAAATATCAAA
857980 TTGACCC
1 TTGACCC
857987 GTTACCTAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 16 0.48
32 17 0.52
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (32 bp):
TTGACCCCTAAATTTTAGAAAAAAATATCAAA
Found at i:863182 original size:33 final size:33
Alignment explanation
Indices: 863126--863188 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
863116 AATAATAATC
* *
863126 TCTTTCATTTTGAAATCTTTATAAATTTATATT
1 TCTTTCATTTTAAAATCTATATAAATTTATATT
863159 TCTTTCAATTTTAAAAT-TATATAAATTTAT
1 TCTTTC-ATTTTAAAATCTATATAAATTTAT
863189 GTTTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (33 bp):
TCTTTCATTTTAAAATCTATATAAATTTATATT
Found at i:863290 original size:15 final size:14
Alignment explanation
Indices: 863270--863315 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 14
863260 CACATGAAAT
863270 AAAATATTTTATATA
1 AAAATATTTTA-ATA
863285 AAAATAATTTTAATCA
1 AAAAT-ATTTTAAT-A
863301 AAAA-ATTTTAATA
1 AAAATATTTTAATA
863314 AA
1 AA
863316 TAATTACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.10
14 8 0.28
15 7 0.24
16 11 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATATTTTAATA
Found at i:871901 original size:18 final size:19
Alignment explanation
Indices: 871859--871897 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
871849 CACTAGACTC
*
871859 ATTAAATTATTAACATCTA
1 ATTAAATTATTAACATCAA
871878 ATTAAATT-TTAAC-TCAA
1 ATTAAATTATTAACATCAA
871895 ATT
1 ATT
871898 TAAAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAAATTATTAACATCAA
Found at i:872331 original size:75 final size:75
Alignment explanation
Indices: 872193--872394 Score: 262
Period size: 75 Copynumber: 2.7 Consensus size: 75
872183 TAAAATTTGG
* * * *** *
872193 ATTTTCTTCGATTAGTCGCCAATTTTATTGATGGTGTACATCCTAAAAAAATATTGTGTCCACCA
1 ATTTTCTTCGATTAGTCGCCAATTTTATTGATGGTATCCACCCTAAAATTTTATTGTGCCCACCA
872258 TGAAATCTGA
66 TGAAATCTGA
* * * *
872268 TTTTTCTTCGATTAGTCGCCAATTTTATTGATGGTACCCACCCTAAAATTTTATTTTGCCCACCC
1 ATTTTCTTCGATTAGTCGCCAATTTTATTGATGGTATCCACCCTAAAATTTTATTGTGCCCACCA
872333 TGAAATCTGA
66 TGAAATCTGA
* * *
872343 ATTTTCTTCAATTAGT-GACCCATTTTATTGATGGTTTCCACCCTAAAATTTT
1 ATTTTCTTCGATTAGTCG-CCAATTTTATTGATGGTATCCACCCTAAAATTTT
872395 TGAAAATTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 1 0.01
75 109 0.99
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (75 bp):
ATTTTCTTCGATTAGTCGCCAATTTTATTGATGGTATCCACCCTAAAATTTTATTGTGCCCACCA
TGAAATCTGA
Found at i:874835 original size:18 final size:18
Alignment explanation
Indices: 874812--874879 Score: 127
Period size: 18 Copynumber: 3.8 Consensus size: 18
874802 GCGTAGAATT
*
874812 TGTCCCGTAGGACCACTA
1 TGTCCCGAAGGACCACTA
874830 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
874848 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
874866 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
874880 GCGTAGAACC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.25, C:0.34, G:0.24, T:0.18
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:878129 original size:31 final size:30
Alignment explanation
Indices: 878091--878150 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
878081 TTATATAAGC
878091 TATGTGATAAA-GTGATGGAACATGATATGTT
1 TATGTGATAAAGGT-ATGGAA-ATGATATGTT
*
878122 TATGTGATAAAGGTATGGAAATTATATGT
1 TATGTGATAAAGGTATGGAAATGATATGT
878151 CTATACAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 17 0.63
32 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
TATGTGATAAAGGTATGGAAATGATATGTT
Found at i:878415 original size:23 final size:23
Alignment explanation
Indices: 878389--878441 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
878379 TATGGTGCAA
878389 TTCTACGCGGCACTTCGGTACAT
1 TTCTACGCGGCACTTCGGTACAT
* * *
878412 TTCTACGTGGCATTTCGGTGCAT
1 TTCTACGCGGCACTTCGGTACAT
*
878435 TTATACG
1 TTCTACG
878442 AGCTGTGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (23 bp):
TTCTACGCGGCACTTCGGTACAT
Found at i:885089 original size:30 final size:31
Alignment explanation
Indices: 885032--885091 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
885022 TTATATAAGA
885032 TATGTGATAAAGTGATGGAACATTATATGTT
1 TATGTGATAAAGTGATGGAACATTATATGTT
885063 TATGTGATAAAG-GTATGGAA-ATTATATGT
1 TATGTGATAAAGTG-ATGGAACATTATATGT
885092 CTGTACAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (31 bp):
TATGTGATAAAGTGATGGAACATTATATGTT
Found at i:885382 original size:23 final size:23
Alignment explanation
Indices: 885314--885374 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
885304 CAATCTTATA
*
885314 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
885337 CGACACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
885360 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
885375 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:890734 original size:15 final size:15
Alignment explanation
Indices: 890711--890741 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
890701 ATCTTACATT
*
890711 CCAATAATATTATTA
1 CCAAAAATATTATTA
890726 CCAAAAATATTATTA
1 CCAAAAATATTATTA
890741 C
1 C
890742 ATTCGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (15 bp):
CCAAAAATATTATTA
Found at i:893916 original size:18 final size:19
Alignment explanation
Indices: 893881--893916 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
893871 AAATGAAGGT
893881 TTTCAAAGTTTTGGGTTTA
1 TTTCAAAGTTTTGGGTTTA
*
893900 TTTCAAA-TTTTGTGTTT
1 TTTCAAAGTTTTGGGTTT
893917 TCTATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.58
Consensus pattern (19 bp):
TTTCAAAGTTTTGGGTTTA
Found at i:895159 original size:20 final size:20
Alignment explanation
Indices: 895124--895174 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
895114 TTAAACTTTG
* *
895124 CAATACTGATATTGCAAGAA
1 CAATACCGATACTGCAAGAA
*
895144 CATTACCGATACTGCAAGAA
1 CAATACCGATACTGCAAGAA
895164 CAATACCGATA
1 CAATACCGATA
895175 TTGTTCATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.14, T:0.22
Consensus pattern (20 bp):
CAATACCGATACTGCAAGAA
Found at i:895202 original size:12 final size:12
Alignment explanation
Indices: 895185--895209 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
895175 TTGTTCATGC
895185 AGTACTGATACT
1 AGTACTGATACT
895197 AGTACTGATACT
1 AGTACTGATACT
895209 A
1 A
895210 TTGTGCTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
AGTACTGATACT
Found at i:895548 original size:20 final size:20
Alignment explanation
Indices: 895523--895573 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
895513 TTAAACTCTG
*
895523 CAATACCGATACTGTAAGAA
1 CAATACCGATACTGCAAGAA
895543 CAATACCGATACTGCAAGAA
1 CAATACCGATACTGCAAGAA
*
895563 CAATACTGATA
1 CAATACCGATA
895574 TTGTTCATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.20
Consensus pattern (20 bp):
CAATACCGATACTGCAAGAA
Found at i:895716 original size:399 final size:401
Alignment explanation
Indices: 894976--895775 Score: 1406
Period size: 399 Copynumber: 2.0 Consensus size: 401
894966 AGCTAGGGCT
*
894976 TCCTCACATCTGCCCAACACCGTCTGATGCCATCCGTTGGATCTAAATAGATCCAATAGTGTAGA
1 TCCTCACATCTGCCCAACACCGTCTGATGCCATCCGTTGGATCTAAATAGATCCAATAGTCTAGA
*
895041 TTTGTTATTGTTGAACTATGCTTTGAATTTTGATATACCAAAAATGAATATTTTTAAAAAAAATT
66 TTTGTTACTGTTGAACTATGCTTTGAATTTTGATATACCAAAAATGAATATTTTTAAAAAAAATT
* * * *
895106 AAGAGATTTTAAACTTTGCAATACTGATATTGCAAGAACATTACCGATACTGCAAGAACAATACC
131 AAGAGATTTTAAACTCTGCAATACCGATACTGCAAGAACAATACCGATACTGCAAGAACAATACC
* *
895171 GATATTGTTCATGCAGTACTGATACTAGTACTGATACTATTGTGCTAAAATAGGCAGTAGTATCG
196 GATATTGTTCATGCAGTACTGATACCAGTACTGATACTATTATGCTAAAATAGGCAGTAGTATCG
*
895236 ATACTTGGGATGGGAGTATTGATACTCCCTTTATGGTTTTGATAAAAACGAATTTCATAAGCCAT
261 ATACTTGGGATAGGAGTATTGATACTCCCTTTATGGTTTTGATAAAAACGAATTTCATAAGCCAT
*
895301 TTTTGGTATCGATACTGTGCAAGTATCGATAACGATATCGATACTCAGGCTAGAGTACTGATACA
326 TTTTGGTATCGATACTGTGCAAGTATCGATAAAGATATCGATACTCAGGCTAGAGTACTGATACA
895366 CCCCTCTTTTA
391 CCCCTCTTTTA
* *
895377 TCCTCACATCTTCCCAACACCGTCTGATGCCATCCGTTGGATCTAAATAGATCTAATAGTCTAGA
1 TCCTCACATCTGCCCAACACCGTCTGATGCCATCCGTTGGATCTAAATAGATCCAATAGTCTAGA
895442 TTTGTTACTGTTGAACTATGCTTTGAATTTTGATATACCAAAAATGAATA-TTTT-AAAAAAATT
66 TTTGTTACTGTTGAACTATGCTTTGAATTTTGATATACCAAAAATGAATATTTTTAAAAAAAATT
* *
895505 AAGAGATTTTAAACTCTGCAATACCGATACTGTAAGAACAATACCGATACTGCAAGAACAATACT
131 AAGAGATTTTAAACTCTGCAATACCGATACTGCAAGAACAATACCGATACTGCAAGAACAATACC
* *
895570 GATATTGTTCATGCAGTATTGATACCAGTATTGATACTATTATGCTAAAATAGGCAGTAGTATCG
196 GATATTGTTCATGCAGTACTGATACCAGTACTGATACTATTATGCTAAAATAGGCAGTAGTATCG
* *
895635 ATACTTGGGATAGGAGTATTGATACTCCCTTTATGGTTTTGATAAAAACGAATTTCCTAAGTCAT
261 ATACTTGGGATAGGAGTATTGATACTCCCTTTATGGTTTTGATAAAAACGAATTTCATAAGCCAT
* *
895700 TTTTGGTATCGATACTGTGGAAGTATCGATAAAGATATCGATACTCAGGCTAGAGTACTGATACT
326 TTTTGGTATCGATACTGTGCAAGTATCGATAAAGATATCGATACTCAGGCTAGAGTACTGATACA
895765 CCCCTCTTTTA
391 CCCCTCTTTTA
895776 ACGGTCAAAT
Statistics
Matches: 379, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
399 264 0.70
400 4 0.01
401 111 0.29
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (401 bp):
TCCTCACATCTGCCCAACACCGTCTGATGCCATCCGTTGGATCTAAATAGATCCAATAGTCTAGA
TTTGTTACTGTTGAACTATGCTTTGAATTTTGATATACCAAAAATGAATATTTTTAAAAAAAATT
AAGAGATTTTAAACTCTGCAATACCGATACTGCAAGAACAATACCGATACTGCAAGAACAATACC
GATATTGTTCATGCAGTACTGATACCAGTACTGATACTATTATGCTAAAATAGGCAGTAGTATCG
ATACTTGGGATAGGAGTATTGATACTCCCTTTATGGTTTTGATAAAAACGAATTTCATAAGCCAT
TTTTGGTATCGATACTGTGCAAGTATCGATAAAGATATCGATACTCAGGCTAGAGTACTGATACA
CCCCTCTTTTA
Found at i:897926 original size:20 final size:20
Alignment explanation
Indices: 897901--897939 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
897891 TTGTATTTGT
*
897901 TAAAAATAAATTATTTCTAA
1 TAAAAATAAATTATATCTAA
897921 TAAAAATAAATTATATCTA
1 TAAAAATAAATTATATCTA
897940 TTTTATGGGA
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:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAAATAAATTATATCTAA
Found at i:898386 original size:13 final size:14
Alignment explanation
Indices: 898352--898378 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
898342 AGAAGGGTTG
898352 TGTAATGAAACTTA
1 TGTAATGAAACTTA
898366 TGTAATGAAACTT
1 TGTAATGAAACTT
898379 TTTAATGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
TGTAATGAAACTTA
Found at i:898793 original size:20 final size:20
Alignment explanation
Indices: 898768--898812 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
898758 GGATGAATGG
898768 GCAAATTTGGCCCAATAAGT
1 GCAAATTTGGCCCAATAAGT
898788 GCAAATTTGGCCCAATAAGT
1 GCAAATTTGGCCCAATAAGT
898808 -CAAAT
1 GCAAAT
898813 GGATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
GCAAATTTGGCCCAATAAGT
Found at i:904260 original size:15 final size:15
Alignment explanation
Indices: 904242--904277 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
904232 TAAGTTTCCC
904242 TTCTTTCTTTTTCT-T
1 TTCTTTC-TTTTCTGT
904257 TTCTTTCTTTTCTGT
1 TTCTTTCTTTTCTGT
904272 TTCTTT
1 TTCTTT
904278 GCTGCGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (15 bp):
TTCTTTCTTTTCTGT
Found at i:904698 original size:3 final size:3
Alignment explanation
Indices: 904690--904719 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
904680 GTTGGGCTTG
904690 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
904720 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:904749 original size:3 final size:3
Alignment explanation
Indices: 904741--904824 Score: 123
Period size: 3 Copynumber: 28.0 Consensus size: 3
904731 TTAATATATT
* * *
904741 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
904789 TAA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
904825 ATAAATCAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:905335 original size:116 final size:116
Alignment explanation
Indices: 905146--905707 Score: 705
Period size: 116 Copynumber: 4.9 Consensus size: 116
905136 TAGAATTATG
* * *
905146 CAAAAAGTTGAACAAGCTCTTCTTATTATGAA---CTTCTT-CTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
* * * *
905207 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
66 TCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAATGATGAATTCAAA
*
905258 CAAAAAGTTGATCAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
* * * *
905323 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAA
66 TCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAATGATGAATTCAAA
* * *
905374 CAAAAATTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
* * * ** *
905439 TCATTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGAT-AGATTTGAG
66 TCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAATGATGA-ATTCAAA
* * * *
905490 CAAAAGGTTGAACAAATTCCTCTCATTATGAACTTCTTCATCCTTCTTC--A-GATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
* * * ** *
905552 TCATTATGAACTCGAACTGGAAAAGCTAATCCATCAAATGATGGATTTGAG
66 TCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAATGATGAATTCAAA
* * * *
905603 CGAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
**
905665 TCATTATGAACTCGAACTGGAAAAGTTGATCCATTGAATGATG
66 TCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAATGATG
905708 GATTTAAATC
Statistics
Matches: 408, Mismatches: 36, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
112 29 0.07
113 155 0.38
114 1 0.00
115 7 0.02
116 216 0.53
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (116 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
TCATTATGAACTCGAACTGGAAAAGTTGATCCATCAAATGATGAATTCAAA
Found at i:906689 original size:83 final size:83
Alignment explanation
Indices: 906548--906939 Score: 694
Period size: 83 Copynumber: 4.7 Consensus size: 83
906538 TTGGGGTTCA
* *
906548 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
906613 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
*
906631 TACCAAACCATATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
906696 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
906714 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
906779 AAATTCAATGATTGGTTT
66 AAATTCAATAACTGGTTT
906797 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* * * *
906862 AATTTCAATGATTGGTTC
66 AAATTCAATAACTGGTTT
*
906880 TGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
906940 TTGTTCCAGT
Statistics
Matches: 300, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 300 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATAACTGGTTT
Found at i:908094 original size:10 final size:10
Alignment explanation
Indices: 908079--908134 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
908069 CCCCCCCCCC
908079 TTTTTCTTCT
1 TTTTTCTTCT
908089 TTTTTC-TC-
1 TTTTTCTTCT
908097 TTTTT-TTCT
1 TTTTTCTTCT
908106 TTTTTC-TCTT
1 TTTTTCTTC-T
*
908116 TTTTTTTTCT
1 TTTTTCTTCT
908126 TTTTTCTTC
1 TTTTTCTTC
908135 AAGCATAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 7 0.18
9 9 0.23
10 21 0.54
11 2 0.05
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:908095 original size:7 final size:7
Alignment explanation
Indices: 908089--908133 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
908079 TTTTTCTTCT
908089 TTTTTCTC
1 TTTTT-TC
908097 TTTTTTTC
1 T-TTTTTC
908105 TTTTTTC
1 TTTTTTC
*
908112 TCTTTT-
1 TTTTTTC
908118 TTTTTTC
1 TTTTTTC
908125 TTTTTTC
1 TTTTTTC
908132 TT
1 TT
908134 CAAGCATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 5 0.15
7 20 0.61
8 4 0.12
9 4 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:908105 original size:17 final size:17
Alignment explanation
Indices: 908078--908120 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
908068 CCCCCCCCCC
908078 CTTTTTCTTCTTTTTTCT
1 CTTTTT-TTCTTTTTTCT
908096 CTTTTTTTCTTTTTTCT
1 CTTTTTTTCTTTTTTCT
908113 CTTTTTTT
1 CTTTTTTT
908121 TTTCTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
CTTTTTTTCTTTTTTCT
Found at i:908121 original size:20 final size:18
Alignment explanation
Indices: 908078--908132 Score: 76
Period size: 17 Copynumber: 3.0 Consensus size: 18
908068 CCCCCCCCCC
*
908078 CTTTTTCTTCTTTTTTCT
1 CTTTTTTTTCTTTTTTCT
908096 C-TTTTTTTCTTTTTTCT
1 CTTTTTTTTCTTTTTTCT
908113 CTTTTTTTTTTCTTTTTTCT
1 C--TTTTTTTTCTTTTTTCT
908133 TCAAGCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 16 0.48
18 1 0.03
20 16 0.48
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
CTTTTTTTTCTTTTTTCT
Found at i:920855 original size:3 final size:3
Alignment explanation
Indices: 920847--920888 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
920837 GTTGGGCTTG
920847 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
920889 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:920918 original size:3 final size:3
Alignment explanation
Indices: 920910--920983 Score: 96
Period size: 3 Copynumber: 25.0 Consensus size: 3
920900 TTAATATATT
* *
920910 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
920957 TAA TTA TTA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
920984 ATAAATCAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:929853 original size:40 final size:40
Alignment explanation
Indices: 929777--929853 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
929767 ACACTTTCCA
* * *
929777 GAAAGGCGCGACCCATACACCGCTCCTTACGTCACGTGTT
1 GAAAGGCACGACCCATACACCGCGCCTTACGCCACGTGTT
* * *
929817 GAAAGGCACGGCCCATACACTGCGCCTTATGCCACGT
1 GAAAGGCACGACCCATACACCGCGCCTTACGCCACGT
929854 TTAAAAACTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.18
Consensus pattern (40 bp):
GAAAGGCACGACCCATACACCGCGCCTTACGCCACGTGTT
Found at i:933871 original size:21 final size:21
Alignment explanation
Indices: 933840--933879 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
933830 TGTTGTATAT
933840 AGCCGTTGGGGATG-TTTTGG
1 AGCCGTTGGGGATGATTTTGG
933860 AGCCGCTTGGGGATGATTTT
1 AGCCG-TTGGGGATGATTTT
933880 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.12, G:0.40, T:0.35
Consensus pattern (21 bp):
AGCCGTTGGGGATGATTTTGG
Found at i:934202 original size:29 final size:29
Alignment explanation
Indices: 934170--934232 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
934160 GAAACCTTTT
*
934170 AAAACTTTGAATAAATTTAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
*
934200 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
934230 AAA
1 AAA
934233 CATTTTGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 14 0.48
31 5 0.17
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:934228 original size:30 final size:29
Alignment explanation
Indices: 934181--934239 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
934171 AAACTTTGAA
* *
934181 TAAATTTAATTAAGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
934210 TAAATTCAATTCAAGTCCAAAAACATTTTG
1 TAAATTCAATT-AAGTCCAAAAACATTTTG
934240 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:935501 original size:19 final size:19
Alignment explanation
Indices: 935477--935522 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
935467 TCTAAATCCT
935477 TTTCAAAAT-TCATTTTGGC
1 TTTCAAAATCT-ATTTTGGC
* *
935496 TTTCAAAATCTATTTTTGT
1 TTTCAAAATCTATTTTGGC
935515 TTTCAAAA
1 TTTCAAAA
935523 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTCAAAATCTATTTTGGC
Found at i:936830 original size:8 final size:7
Alignment explanation
Indices: 936778--936887 Score: 52
Period size: 8 Copynumber: 15.1 Consensus size: 7
936768 GTTGCAGCCT
936778 TGATGCA
1 TGATGCA
936785 TGGATGCA
1 T-GATGCA
936793 TG--GCA
1 TGATGCA
*
936798 GGATGCA
1 TGATGCA
936805 TCGATGCA
1 T-GATGCA
936813 TG--GCA
1 TGATGCA
936818 TGATGCA
1 TGATGCA
936825 TCGATGCA
1 T-GATGCA
*
936833 CTAAGTGCA
1 -TGA-TGCA
**
936842 TTCGATGTT
1 -T-GATGCA
936851 TGAGTGCA
1 TGA-TGCA
936859 TGGATGCA
1 T-GATGCA
936867 T--TGCA
1 TGATGCA
936872 TGATGCA
1 TGATGCA
936879 TCGATGCA
1 T-GATGCA
936887 T
1 T
936888 TAGTGCAGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 29
0.68 0.08 0.25
Matches are distributed among these distances:
5 14 0.18
7 17 0.22
8 37 0.47
9 10 0.13
10 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (7 bp):
TGATGCA
Found at i:936884 original size:20 final size:20
Alignment explanation
Indices: 936778--936888 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
936768 GTTGCAGCCT
* *
936778 TGATGCATGGATGCATGGCA
1 TGATGCATCGATGCATTGCA
* *
936798 GGATGCATCGATGCATGGCA
1 TGATGCATCGATGCATTGCA
*
936818 TGATGCATCGATGCACT--A
1 TGATGCATCGATGCATTGCA
* *
936836 AG-TGCATTCGATG-TTTG-A
1 TGATGCA-TCGATGCATTGCA
*
936854 -G-TGCATGGATGCATTGCA
1 TGATGCATCGATGCATTGCA
936872 TGATGCATCGATGCATT
1 TGATGCATCGATGCATT
936889 AGTGCAGGTG
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
16 5 0.07
17 13 0.18
18 10 0.14
19 1 0.01
20 45 0.61
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (20 bp):
TGATGCATCGATGCATTGCA
Found at i:937039 original size:29 final size:30
Alignment explanation
Indices: 937007--937065 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
936997 AAACTTTGAA
* *
937007 TAAATTTAATT-AAGTCCAAAAATATTTTG
1 TAAATTCAATTCAAGTCCAAAAACATTTTG
937036 TAAATTCAATTCAAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACATTTTG
937066 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (30 bp):
TAAATTCAATTCAAGTCCAAAAACATTTTG
Found at i:937997 original size:27 final size:26
Alignment explanation
Indices: 937948--937998 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
937938 TTCATATTAC
**
937948 AAACTTTTTTAATTATTTTTTAATAG
1 AAACTTTTTTAATTATTAATTAATAG
937974 AAACTTTTTTAATTAATTAATTAAT
1 AAACTTTTTTAATT-ATTAATTAAT
937999 CAACAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (26 bp):
AAACTTTTTTAATTATTAATTAATAG
Found at i:941139 original size:221 final size:217
Alignment explanation
Indices: 940717--941155 Score: 729
Period size: 221 Copynumber: 2.0 Consensus size: 217
940707 CTAATTCATA
940717 TATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGACGGGTCGGTTTTTTTAAGTGTGATATTCGG
1 TATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGACGGGTCGGTTTTTTTAAGTGTGATATTCGG
* * *
940782 GTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTA
66 GTCGGGTCGAGGTCGGGTTTAGGGTGAAAAATACCCGACCCAAAAAAATATATAATTTTACCTTA
*
940847 CATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACTGTTT
131 CATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATGTTT
940912 TTATTGAATAAAAATATTTTTT
196 TTATTGAATAAAAATATTTTTT
**
940934 TATTCGGGTCGGGTCGGGTGAAACTTTA-TTTGTTCGGGTCGGGTTTTTTTAAGTGTGATATTCG
1 TATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGACGGGTC-GGTTTTTTTAAGTGTGATATTCG
*
940998 GGTCGGGTCGGGGTCGGGTTTAGGGTGAAAAA-ACCGGACCGACCCAAAAAAAATATATAATTTT
65 GGTCGGGTCGAGGTCGGGTTTAGGGTGAAAAATA-C---CCGACCC-AAAAAAATATATAATTTT
* *
941062 ATCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCA
125 ACCTTACATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCA
941127 ATGTTTTTATTGAATAAAAATATTTTTT
190 ATGTTTTTATTGAATAAAAATATTTTTT
941155 T
1 T
941156 TATTATTTCG
Statistics
Matches: 207, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
216 11 0.05
217 82 0.40
220 7 0.03
221 107 0.52
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (217 bp):
TATTCGGGTCGGGTCGGGTGAAACTTTATTTTGGACGGGTCGGTTTTTTTAAGTGTGATATTCGG
GTCGGGTCGAGGTCGGGTTTAGGGTGAAAAATACCCGACCCAAAAAAATATATAATTTTACCTTA
CATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATGTTT
TTATTGAATAAAAATATTTTTT
Found at i:942097 original size:37 final size:36
Alignment explanation
Indices: 942025--942097 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
942015 TTATATTTTA
* *
942025 AATTTTGTAAAAAAATTATATAAATATTATGAATTT
1 AATTTTCTAAAAAAATTATATAAATATTATCAATTT
*
942061 AATTTTCTAAAGAAAA-TATATAAATATTTTACAATTT
1 AATTTTCTAAA-AAAATTATATAAATATTAT-CAATTT
942098 GTAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 23 0.72
37 9 0.28
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (36 bp):
AATTTTCTAAAAAAATTATATAAATATTATCAATTT
Found at i:942279 original size:20 final size:20
Alignment explanation
Indices: 942243--942280 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
942233 ATCCTATTCC
**
942243 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
942263 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
942281 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:943001 original size:45 final size:45
Alignment explanation
Indices: 942933--943019 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
942923 TGCAGTAGTG
* * *
942933 AAAACCAATAATAATGTTAATTTATTATGCAGTAGAAAAATCTAA
1 AAAAACAATAATAATATTAATTTATTATGCAATAGAAAAATCTAA
* *
942978 AAAAACAATAATAATAATT-ATTTATTCTGCAATAGGAAAATC
1 AAAAACAATAATAAT-ATTAATTTATTATGCAATAGAAAAATC
943020 CATTAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 34 0.94
46 2 0.06
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (45 bp):
AAAAACAATAATAATATTAATTTATTATGCAATAGAAAAATCTAA
Found at i:945295 original size:2 final size:2
Alignment explanation
Indices: 945288--945325 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
945278 GATGTGTCCC
945288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
945326 GAGCCTTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:951055 original size:2 final size:2
Alignment explanation
Indices: 951048--951072 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
951038 TAGTATACTA
951048 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
951073 ACACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:952488 original size:3 final size:3
Alignment explanation
Indices: 952480--952518 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
952470 TATTACATTA
* * *
952480 CCT CCT CCT CCT CCT CCT CCT CCT CAT TCT CCT TCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
952519 TCTTGTAACG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.59, G:0.00, T:0.38
Consensus pattern (3 bp):
CCT
Found at i:957461 original size:5 final size:5
Alignment explanation
Indices: 957425--957458 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
957415 TATGGGGTTT
*
957425 GGAGG GGAGG GGAGG GGAGG GGAGG GGAGA GGAG
1 GGAGG GGAGG GGAGG GGAGG GGAGG GGAGG GGAG
957459 AGGCATTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (5 bp):
GGAGG
Found at i:963810 original size:21 final size:21
Alignment explanation
Indices: 963784--963844 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
963774 AATCTTATAT
*
963784 GGGGGTATCCGTACCCTCTTG
1 GGGGGTATCAGTACCCTCTTG
963805 GGGGGTATCAGTACCCTCTTG
1 GGGGGTATCAGTACCCTCTTG
963826 GGGGGTATCAGTACCCTCT
1 GGGGGTATCAGTACCCTCT
963845 GGGCAATCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (21 bp):
GGGGGTATCAGTACCCTCTTG
Found at i:966582 original size:22 final size:23
Alignment explanation
Indices: 966536--966595 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
966526 TACTCTCCTG
966536 GGGGGTATCGGTACCCACTCAAA
1 GGGGGTATCGGTACCCACTCAAA
* *
966559 GGGGGAATCGGTACCCATTC-AA
1 GGGGGTATCGGTACCCACTCAAA
*
966581 GGGGGTATCGATACC
1 GGGGGTATCGGTACC
966596 TCATGCACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.18
Consensus pattern (23 bp):
GGGGGTATCGGTACCCACTCAAA
Found at i:969918 original size:10 final size:10
Alignment explanation
Indices: 969903--969938 Score: 56
Period size: 9 Copynumber: 3.6 Consensus size: 10
969893 CAACTTCATT
969903 TTTTTTTTCA
1 TTTTTTTTCA
969913 -TTTTTTTCAA
1 TTTTTTTTC-A
969923 TTTTTTTTCA
1 TTTTTTTTCA
969933 TTTTTT
1 TTTTTT
969939 GTGGGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.33
10 8 0.33
11 8 0.33
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:969918 original size:11 final size:11
Alignment explanation
Indices: 969897--969938 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
969887 TATTCACAAC
969897 TTCATTTTTTTT
1 TTCA-TTTTTTT
969909 TTCA--TTTTT
1 TTCATTTTTTT
*
969918 TTCAATTTTTT
1 TTCATTTTTTT
969929 TTCATTTTTT
1 TTCATTTTTT
969939 GTGGGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 9 0.33
11 14 0.52
12 4 0.15
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCATTTTTTT
Found at i:974756 original size:22 final size:22
Alignment explanation
Indices: 974731--974786 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
974721 TGGTATATTA
974731 GTCATTCGGGACGTATCCAGTG
1 GTCATTCGGGACGTATCCAGTG
* *
974753 GTCATTCGGGATGTATCTAGTG
1 GTCATTCGGGACGTATCCAGTG
*
974775 GTCCTTCGGGAC
1 GTCATTCGGGAC
974787 AGATACTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.16, C:0.21, G:0.32, T:0.30
Consensus pattern (22 bp):
GTCATTCGGGACGTATCCAGTG
Found at i:981516 original size:22 final size:22
Alignment explanation
Indices: 981488--981567 Score: 99
Period size: 22 Copynumber: 3.7 Consensus size: 22
981478 GGGTATATTA
*
981488 GTCCTTCGGGATATATCCAGTG
1 GTCCTTCGGGACATATCCAGTG
*
981510 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACATATCCAGTG
* * *
981532 GTCATTCGGGACGTATCTAGTG
1 GTCCTTCGGGACATATCCAGTG
*
981554 GT-TTTCGGGACATA
1 GTCCTTCGGGACATA
981568 GTGGTTATTC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 10 0.19
22 42 0.81
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.31
Consensus pattern (22 bp):
GTCCTTCGGGACATATCCAGTG
Found at i:981571 original size:17 final size:18
Alignment explanation
Indices: 981549--981583 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
981539 GGGACGTATC
981549 TAGTGGTT-TTCGGGACA
1 TAGTGGTTATTCGGGACA
981566 TAGTGGTTATTCGGGACA
1 TAGTGGTTATTCGGGACA
981584 AATACTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.20, C:0.11, G:0.34, T:0.34
Consensus pattern (18 bp):
TAGTGGTTATTCGGGACA
Found at i:986488 original size:20 final size:21
Alignment explanation
Indices: 986450--986488 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
986440 AAGCTTTAAG
* *
986450 ATCATCAATTTTCTTTTGATA
1 ATCATCAATTTACTCTTGATA
986471 ATCATC-ATTTACTCTTGA
1 ATCATCAATTTACTCTTGA
986489 AAGTAAGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (21 bp):
ATCATCAATTTACTCTTGATA
Found at i:996880 original size:22 final size:21
Alignment explanation
Indices: 996822--996881 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
996812 ACTAGTATTT
* * *
996822 AAAATATGTTTATATTTTAATC
1 AAAATAT-TTTATATATGAATA
*
996844 AAAATATTTCAATATATGAATA
1 AAAATATTT-TATATATGAATA
996866 AAAATATATTTATATA
1 AAAATAT-TTTATATA
996882 AATGTATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (21 bp):
AAAATATTTTATATATGAATA
Found at i:996882 original size:16 final size:16
Alignment explanation
Indices: 996863--996896 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
996853 CAATATATGA
996863 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
996879 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
996895 AT
1 AT
996897 TTAGATGTAT
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:996970 original size:16 final size:18
Alignment explanation
Indices: 996938--996971 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
996928 TATTAATGTA
996938 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
996956 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
996972 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:997636 original size:130 final size:130
Alignment explanation
Indices: 997432--997679 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
997422 AATTTTCTTC
* *
997432 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
* *
997497 CCTAGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * * *
997562 TAATTATGTGGTGACATGTGTCATCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
997627 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
997680 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:998137 original size:35 final size:35
Alignment explanation
Indices: 998076--998151 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
998066 AATTGAATTT
* *
998076 AATTGAATTATTTTAGAATTTAGGGTTTAGAATAA
1 AATTGAATTACTTTAGAAATTAGGGTTTAGAATAA
* * *
998111 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTAGAAATTAGGGTTTAGAATAA
998146 AATTGA
1 AATTGA
998152 GGACTGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.01, G:0.21, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTAGAAATTAGGGTTTAGAATAA
Found at i:1009133 original size:6 final size:6
Alignment explanation
Indices: 1009122--1009148 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1009112 ATTTATAATT
1009122 GTAGGA GTAGGA GTAGGA GTAGGA GTA
1 GTAGGA GTAGGA GTAGGA GTAGGA GTA
1009149 ATATTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.48, T:0.19
Consensus pattern (6 bp):
GTAGGA
Found at i:1015884 original size:27 final size:27
Alignment explanation
Indices: 1015853--1015910 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
1015843 TAGTCAGGTC
*
1015853 GTCGGTTTTTTTAAGTGTGATATTCGG
1 GTCGGGTTTTTTAAGTGTGATATTCGG
1015880 GTCGGGTTTTTTAAGTGTGATATTCGG
1 GTCGGGTTTTTTAAGTGTGATATTCGG
1015907 GTCG
1 GTCG
1015911 AGTCGGGTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.14, C:0.09, G:0.33, T:0.45
Consensus pattern (27 bp):
GTCGGGTTTTTTAAGTGTGATATTCGG
Found at i:1015937 original size:38 final size:38
Alignment explanation
Indices: 1015876--1015962 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 38
1015866 AGTGTGATAT
1015876 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
*
1015913 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
*
1015951 TGGGGTCGGGTT
1 TCGGGTCGGGTT
1015963 CGGGTTTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 10 0.21
38 37 0.79
ACGTcount: A:0.10, C:0.10, G:0.41, T:0.38
Consensus pattern (38 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
Found at i:1016534 original size:18 final size:17
Alignment explanation
Indices: 1016497--1016547 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
1016487 TATAGAATTG
*
1016497 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
*
1016514 GATTACAATTCCTTCACA
1 GATTCCAATTCC-TCACA
1016532 GATTCCAATTTCCTCA
1 GATTCCAA-TTCCTCA
1016548 TAAACATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 11 0.38
18 14 0.48
19 4 0.14
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:1020642 original size:18 final size:19
Alignment explanation
Indices: 1020605--1020644 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1020595 AAAAAAATTA
1020605 ATAATAATATAGGATAATG
1 ATAATAATATAGGATAATG
* *
1020624 ATAATAATGT-GGATGATG
1 ATAATAATATAGGATAATG
1020642 ATA
1 ATA
1020645 CATGTGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (19 bp):
ATAATAATATAGGATAATG
Found at i:1022298 original size:23 final size:22
Alignment explanation
Indices: 1022258--1022308 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1022248 TTAGAGGGTA
1022258 TGTATATTATAAACCCTTTATTT
1 TGTATATTATAAACCC-TTATTT
*
1022281 TGTATATTTTGAAA-CCTTATTT
1 TGTATATTAT-AAACCCTTATTT
*
1022303 TATATA
1 TGTATA
1022309 ATCAAGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 11 0.44
24 3 0.12
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (22 bp):
TGTATATTATAAACCCTTATTT
Done.