Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009174.1 Hibiscus syriacus cultivar Beakdansim tig00112737_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: 1358226
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:714867 original size:2 final size:2
Alignment explanation
Indices: 714860--714896 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
714850 AATATGTTAT
714860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
714897 TCTTTCAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:715423 original size:26 final size:26
Alignment explanation
Indices: 715394--715463 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
715384 TTAAATTTTT
*
715394 ATTTATTTTTTTATTTTTTTAAAAAA
1 ATTTATTTTTTTATTATTTTAAAAAA
* * * * *
715420 ATTTATATATTTATTATTTTCATAAT
1 ATTTATTTTTTTATTATTTTAAAAAA
715446 ATTTATATTATTTTATTA
1 ATTTAT-TT-TTTTATTA
715464 ATATTTTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 26 0.76
27 1 0.03
28 7 0.21
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTTATTTTTTTATTATTTTAAAAAA
Found at i:715454 original size:20 final size:21
Alignment explanation
Indices: 715431--715480 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
715421 TTTATATATT
715431 TATTATTTTCA-TAATA-TTTA
1 TATTATTTT-ATTAATATTTTA
715451 TATTATTTTATTAATATTTTA
1 TATTATTTTATTAATATTTTA
*
715472 TTTTATTTT
1 TATTATTTT
715481 TCAAGTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 14 0.52
21 12 0.44
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTATTTTATTAATATTTTA
Found at i:715489 original size:21 final size:21
Alignment explanation
Indices: 715433--715499 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
715423 TATATATTTA
*
715433 TTATTTTCAT-AATA-TTTATA
1 TTATTTT-ATCAATATTTTATT
*
715453 TTATTTTATTAATATTTTATT
1 TTATTTTATCAATATTTTATT
**
715474 TTATTTT-TCAAGTATTAAATT
1 TTATTTTATCAA-TATTTTATT
715495 TTATT
1 TTATT
715500 ATTTATTGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.05
20 14 0.35
21 24 0.60
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (21 bp):
TTATTTTATCAATATTTTATT
Found at i:717955 original size:35 final size:34
Alignment explanation
Indices: 717900--717992 Score: 96
Period size: 34 Copynumber: 2.6 Consensus size: 34
717890 CATTCACATA
*
717900 TTTACATTTGCATTTGCATTTTGCATATTTGCATT
1 TTTACATTTGCATTTACATTTT-CATATTTGCATT
* * *
717935 TTTACGTTTGTATTTACATTTTCATGTTTGCATT
1 TTTACATTTGCATTTACATTTTCATATTTGCATT
** *
717969 TGCATATTTGCATAATTACATTTT
1 TTTACATTTGCAT--TTACATTTT
717993 ATTTTAAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 19 0.40
35 19 0.40
36 9 0.19
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.55
Consensus pattern (34 bp):
TTTACATTTGCATTTACATTTTCATATTTGCATT
Found at i:717963 original size:20 final size:20
Alignment explanation
Indices: 717925--717969 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
717915 GCATTTTGCA
* *
717925 TATTTGCATTTTTACGTTTG
1 TATTTACATTTTCACGTTTG
*
717945 TATTTACATTTTCATGTTTG
1 TATTTACATTTTCACGTTTG
*
717965 CATTT
1 TATTT
717970 GCATATTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.60
Consensus pattern (20 bp):
TATTTACATTTTCACGTTTG
Found at i:717968 original size:14 final size:14
Alignment explanation
Indices: 717905--717981 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
717895 ACATATTTAC
717905 ATTTGCATTTGCAT
1 ATTTGCATTTGCAT
717919 -TTTGCATATTTGCAT
1 ATTTGC--ATTTGCAT
* * *
717934 TTTTACGTTTG--T
1 ATTTGCATTTGCAT
* *
717946 ATTTACATTTTCAT
1 ATTTGCATTTGCAT
*
717960 GTTTGCATTTGCAT
1 ATTTGCATTTGCAT
717974 ATTTGCAT
1 ATTTGCAT
717982 AATTACATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
12 9 0.18
13 5 0.10
14 23 0.47
15 8 0.16
16 4 0.08
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (14 bp):
ATTTGCATTTGCAT
Found at i:720392 original size:1 final size:1
Alignment explanation
Indices: 720388--720451 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
720378 GGAAAAAAGG
* * ** * * * *
720388 AAAAAAAAGAAAAACAAAAAGGAAAAAAACAAAAAAAAAACAAAAAGAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
720452 GGAAAATTGA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.88, C:0.05, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:720394 original size:9 final size:9
Alignment explanation
Indices: 720365--720457 Score: 80
Period size: 9 Copynumber: 9.9 Consensus size: 9
720355 CTCATCTAGC
720365 AAAGAAAGAA
1 AAAGAAA-AA
* *
720375 GAAGGAAAA
1 AAAGAAAAA
*
720384 AAGGAAAAA
1 AAAGAAAAA
720393 AAAGAAAAACAA
1 AAAG--AAA-AA
*
720405 AAAGGAAAA
1 AAAGAAAAA
*
720414 AAACAAAAA
1 AAAGAAAAA
*
720423 AAA-AACAA
1 AAAGAAAAA
720431 AAAGAAAAA
1 AAAGAAAAA
720440 AAAGAAAAA
1 AAAGAAAAA
720449 AAAGGAAAA
1 AAA-GAAAA
720458 TTGAATCAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
8 7 0.10
9 39 0.58
10 12 0.18
11 3 0.04
12 6 0.09
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:720400 original size:8 final size:8
Alignment explanation
Indices: 720365--720450 Score: 59
Period size: 8 Copynumber: 10.4 Consensus size: 8
720355 CTCATCTAGC
720365 AAAGAAAGA
1 AAAGAAA-A
720374 AGAAGGAAAA
1 A-AA-GAAAA
*
720384 AAGGAAAA
1 AAAGAAAA
*
720392 AAA-AGAA
1 AAAGAAAA
*
720399 AAA-CAAA
1 AAAGAAAA
*
720406 AAGGAAAA
1 AAAGAAAA
*
720414 AAACAAAA
1 AAAGAAAA
*
720422 AAAAAACAA
1 AAAGAA-AA
720431 AAAGAAAAA
1 AAAG-AAAA
720440 AAAGAAAA
1 AAAGAAAA
720448 AAA
1 AAA
720451 AGGAAAATTG
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
7 10 0.16
8 28 0.46
9 13 0.21
10 6 0.10
11 4 0.07
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:720428 original size:26 final size:26
Alignment explanation
Indices: 720391--720451 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
720381 AAAAAGGAAA
*
720391 AAAAAGAAAAACAAAAAGGAAAAAAAC
1 AAAAA-AAAAACAAAAAGAAAAAAAAC
*
720418 AAAAAAAAAACAAAAAGAAAAAAAAG
1 AAAAAAAAAACAAAAAGAAAAAAAAC
720444 AAAAAAAA
1 AAAAAAAA
720452 GGAAAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAACAAAAAGAAAAAAAAC
Found at i:725048 original size:22 final size:22
Alignment explanation
Indices: 725018--725096 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
725008 ACATCTACAT
725018 TTTTCAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
* *
725040 TCTTCAAAGATGATATATTCTC
1 TTTTCAAAGATGATAGATTCTC
*
725062 TTTTTAAAGATGATAGATTCTC
1 TTTTCAAAGATGATAGATTCTC
725084 TTTTCAAAGATGA
1 TTTTCAAAGATGA
725097 AAGCTTTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (22 bp):
TTTTCAAAGATGATAGATTCTC
Found at i:725945 original size:76 final size:76
Alignment explanation
Indices: 725771--726635 Score: 1597
Period size: 76 Copynumber: 11.4 Consensus size: 76
725761 CTATTTACCA
*
725771 CATCTGTAAGTCCTAGAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT-TTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
725835 AGCCTTAGGGT
66 AGCCTTAGGGT
**
725846 CATCTGTAAGTCCTACAAAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
725911 AGCCTTAGGGC
66 AGCCTTAGGGT
725922 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
725987 AGCCTTAGGGT
66 AGCCTTAGGGT
725998 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
726063 AGCCTTAGGGT
66 AGCCTTAGGGT
726074 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
726139 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
726150 CATCTATTAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
726215 AGCCTTAGGGT
66 AGCCTTAGGGT
*
726226 CATCTGTAAGTCCTACAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
726291 AGCCTTAGGGT
66 AGCCTTAGGGT
*
726302 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
726367 AGCCTTAGGGT
66 AGCCTTAGGGT
726378 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
726443 AGCCTTAGGGT
66 AGCCTTAGGGT
*
726454 CATCTGTAAGTCCTACAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
726519 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
726530 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
726595 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
726606 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
726636 TCAACATTTC
Statistics
Matches: 766, Mismatches: 23, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
75 54 0.07
76 712 0.93
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:726778 original size:6 final size:6
Alignment explanation
Indices: 726769--726865 Score: 72
Period size: 6 Copynumber: 15.3 Consensus size: 6
726759 TTTTATTTTT
** * *
726769 TTATTA TTATTA AAATTA TTATTA TTATTA ATATTA -TATATA CATATATA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTAT-TA -TTAT-TA
*
726819 TTATTA TTATTA TTAATA TTA-TA TATATATA TATATATA TTATTA TT
1 TTATTA TTATTA TTATTA TTATTA T-TAT-TA T-TAT-TA TTATTA TT
726866 TAATAAATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
5 6 0.08
6 49 0.63
7 6 0.08
8 17 0.22
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (6 bp):
TTATTA
Found at i:726788 original size:9 final size:9
Alignment explanation
Indices: 726773--726863 Score: 64
Period size: 9 Copynumber: 9.9 Consensus size: 9
726763 ATTTTTTTAT
726773 TATTATTAA
1 TATTATTAA
* *
726782 AATTATTAT
1 TATTATTAA
726791 TATTATTAA
1 TATTATTAA
726800 TATTA-T-A
1 TATTATTAA
*
726807 TA-TACATATA
1 TATTA-TTA-A
*
726817 TATTATTAT
1 TATTATTAA
726826 TATTATTAA
1 TATTATTAA
726835 TATTA-TATA
1 TATTATTA-A
726844 TATATATATATA
1 TAT-TAT-TA-A
726856 TATTATTA
1 TATTATTA
726864 TTTAATAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.03
7 3 0.05
8 4 0.06
9 36 0.55
10 9 0.14
11 5 0.08
12 7 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTATTAA
Found at i:726810 original size:2 final size:2
Alignment explanation
Indices: 726799--726858 Score: 55
Period size: 2 Copynumber: 34.0 Consensus size: 2
726789 ATTATTATTA
*
726799 AT AT -T AT AT AT AC AT AT AT AT -T AT -T AT -T AT -T AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
726834 AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
726859 TATTATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
1 8 0.17
2 40 0.83
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:726829 original size:35 final size:35
Alignment explanation
Indices: 726783--726865 Score: 148
Period size: 35 Copynumber: 2.3 Consensus size: 35
726773 TATTATTAAA
726783 ATTATTATTATTATTAATATTATATATACATATAT
1 ATTATTATTATTATTAATATTATATATACATATAT
*
726818 ATTATTATTATTATTAATATTATATATATATATAT
1 ATTATTATTATTATTAATATTATATATACATATAT
726853 ATATATTATTATT
1 AT-TATTATTATT
726866 TAATAAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 36 0.78
36 10 0.22
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (35 bp):
ATTATTATTATTATTAATATTATATATACATATAT
Found at i:728215 original size:22 final size:22
Alignment explanation
Indices: 728190--728238 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
728180 ATTATTTATT
*
728190 TATTATTTTGTTATTACTTTT-A
1 TATTATTTTATTATTA-TTTTCA
728212 TATTATTTTATTATTATTTTCA
1 TATTATTTTATTATTATTTTCA
728234 TATTA
1 TATTA
728239 GTCACATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTATTTTATTATTATTTTCA
Found at i:728237 original size:11 final size:10
Alignment explanation
Indices: 728169--728238 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 10
728159 GCTTTTTAAT
728169 TTATTTTAATCA
1 TTATTTT-AT-A
*
728181 TTATTTATTTA
1 TTATTT-TATA
*
728192 TTATTTTGTTA
1 TTATTTT-ATA
728203 TTACTTTTATA
1 TTA-TTTTATA
728214 TTATTTTATTA
1 TTATTTTA-TA
728225 TTATTTTCATA
1 TTATTTT-ATA
728236 TTA
1 TTA
728239 GTCACATAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.12
11 32 0.63
12 12 0.24
13 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (10 bp):
TTATTTTATA
Found at i:730430 original size:3 final size:3
Alignment explanation
Indices: 730422--730495 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
730412 TATTATACAT
730422 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
730469 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
730496 AAGAGTGTTA
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 68 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:731744 original size:5 final size:5
Alignment explanation
Indices: 731734--731760 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
731724 TTACATGACC
731734 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
731761 TAATAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:733760 original size:10 final size:10
Alignment explanation
Indices: 733716--733761 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
733706 TTTGTTTTAA
733716 AAAG-AAAGT
1 AAAGAAAAGT
*
733725 AAAAGAAAACTT
1 -AAAGAAAA-GT
733737 AAAGAAAA-T
1 AAAGAAAAGT
733746 AAAGAAAAGT
1 AAAGAAAAGT
733756 AAAGAA
1 AAAGAA
733762 CTGTAAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 9 0.28
10 11 0.34
11 11 0.34
12 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (10 bp):
AAAGAAAAGT
Found at i:736190 original size:80 final size:81
Alignment explanation
Indices: 735924--736237 Score: 515
Period size: 81 Copynumber: 3.9 Consensus size: 81
735914 TGTTCTGAAA
735924 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
735989 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
736005 TAAAAGATTAATGGCCTAGTTGTG-AGTTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGTTGTGCA-TTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
736069 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
*
736086 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTA-GCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
736150 GTTAAATGCCTTTGAG
66 GTTAAATACCTTTGAG
* * ** * *
736166 TAAAATACTAAAAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
736231 GTTAAAT
66 GTTAAAT
736238 GCTTTAGAAG
Statistics
Matches: 217, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
80 72 0.33
81 144 0.66
82 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:736210 original size:161 final size:162
Alignment explanation
Indices: 735924--736237 Score: 515
Period size: 161 Copynumber: 1.9 Consensus size: 162
735914 TGTTCTGAAA
*
735924 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* ** * *
735989 GTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTGTGAGTTTGACAGAAATGTGTCAATTAT
66 GTTAAATACCTTTGAGTAAAAGACTAAAAGCCTAGTTGTGAGTTTGACAGAAAGGTGTCAATCAT
*
736054 GCTAGTTAGATGAAAGGTTAAATACCTTTGAG
131 GCCAGTTAGATGAAAGGTTAAATACCTTTGAG
736086 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTA-GCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* * *
736150 GTTAAATGCCTTTGAGTAAAATACTAAAAGCCTAGTTGTGCA-TTTGGCAGAAAGGTGTCAATCA
66 GTTAAATACCTTTGAGTAAAAGACTAAAAGCCTAGTTGTG-AGTTTGACAGAAAGGTGTCAATCA
736214 TGCCAGTTAGATGAAAGGTTAAAT
130 TGCCAGTTAGATGAAAGGTTAAAT
736238 GCTTTAGAAG
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
161 93 0.66
162 48 0.34
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (162 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAGTAAAAGACTAAAAGCCTAGTTGTGAGTTTGACAGAAAGGTGTCAATCAT
GCCAGTTAGATGAAAGGTTAAATACCTTTGAG
Found at i:740557 original size:17 final size:17
Alignment explanation
Indices: 740523--740579 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
740513 TAGACCTGAA
* *
740523 AAATAAATATATATATAT
1 AAAT-AATAAATAAATAT
740541 AAATAATAAATAAATAT
1 AAATAATAAATAAATAT
740558 AAATAATATTAATATAATAT
1 AAATAATA--AATA-AATAT
740578 AA
1 AA
740580 TGTAATGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 19 0.56
18 4 0.12
19 4 0.12
20 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATAATAAATAAATAT
Found at i:740580 original size:10 final size:10
Alignment explanation
Indices: 740524--740600 Score: 62
Period size: 10 Copynumber: 8.2 Consensus size: 10
740514 AGACCTGAAA
740524 AATA-AATAT
1 AATATAATAT
740533 -ATAT-ATAT
1 AATATAATAT
740541 AA-ATAATA-
1 AATATAATAT
740549 AATA-AATAT
1 AATATAATAT
740558 AA-ATAATATT
1 AATATAATA-T
740568 AATATAATAT
1 AATATAATAT
*
740578 AATGTAATGA-
1 AATATAAT-AT
740588 AATATAACTAT
1 AATATAA-TAT
740599 AA
1 AA
740601 AAACATTTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
8 16 0.29
9 11 0.20
10 18 0.33
11 10 0.18
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (10 bp):
AATATAATAT
Found at i:740738 original size:107 final size:107
Alignment explanation
Indices: 740617--740927 Score: 274
Period size: 107 Copynumber: 2.8 Consensus size: 107
740607 TTTAAAAAAT
* * *
740617 AAAATCATATATTATAAGTTTTCAAAAAATGTTTTCAAAACTATATACTATACACGTTTT-TAAA
1 AAAATTATATATTATAAATTTTC-AAAAATGTTTTCAAAACTATATA-TATACACGTTTTCAAAA
740681 ACGTTTTCAAAATCATATATTATAC-GTTTTCAAAAATGTTTTC-
64 ACGTTTTCAAAATCATATATTATACAGTTTT-AAAAATGTTTTCA
* * * *
740724 AAAATTATATATTATATACATTTT-TAAAACGTTTTCAAAACCATATAT-TATACGTTTTCAAAA
1 AAAATTATATATTATA-A-ATTTTCAAAAATGTTTTCAAAACTATATATATACACGTTTTCAAAA
* ** *
740787 ATGTTTTCAAAATTTTATATTATACATGTTTTTAAAATGTTTTCA
64 ACGTTTTCAAAATCATATATTATACA-GTTTTAAAAATGTTTTCA
* * * * **
740832 AAACCATATATTATATACATAATTTTTCAAAAATATTTTCAAAACTATATATTATATATATTTTT
1 AAA--AT-TA-TATAT-TATAAATTTTCAAAAATGTTTTCAAAAC--TATA-TATATACACGTTT
*
740897 TCAAAAATGTTTTCAAAA-CTATATATATATA
58 TCAAAAACGTTTTCAAAATC-ATATAT-TATA
740928 TATATATATA
Statistics
Matches: 165, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
105 9 0.05
106 26 0.16
107 46 0.28
108 9 0.05
109 4 0.02
110 2 0.01
111 6 0.04
112 20 0.12
113 3 0.02
114 3 0.02
115 3 0.02
116 30 0.18
117 4 0.02
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (107 bp):
AAAATTATATATTATAAATTTTCAAAAATGTTTTCAAAACTATATATATACACGTTTTCAAAAAC
GTTTTCAAAATCATATATTATACAGTTTTAAAAATGTTTTCA
Found at i:740748 original size:71 final size:71
Alignment explanation
Indices: 740617--740927 Score: 361
Period size: 71 Copynumber: 4.2 Consensus size: 71
740607 TTTAAAAAAT
* * * *
740617 AAAATCATATATTATAAGTTTTCAAAAAATGTTTTCAAAACTATATACTATACACGTTTTTAAAA
1 AAAACCATATATTATACGTTTTC-AAAAATGTTTTCAAAACTATATATTATACACATTTTTAAAA
740682 CGTTTTC
65 CGTTTTC
* * *
740689 AAAATCATATATTATACGTTTTCAAAAATGTTTTCAAAATTATATATTATATACATTTTTAAAAC
1 AAAACCATATATTATACGTTTTCAAAAATGTTTTCAAAACTATATATTATACACATTTTTAAAAC
740754 GTTTTC
66 GTTTTC
* * ** *
740760 AAAACCATATATTATACGTTTTCAAAAATGTTTTCAAAATTTTATATTATACATGTTTTTAAAAT
1 AAAACCATATATTATACGTTTTCAAAAATGTTTTCAAAACTATATATTATACACATTTTTAAAAC
740825 GTTTTC
66 GTTTTC
* * * *
740831 AAAACCATATATTATATACATAATTTTTCAAAAATATTTTCAAAACTATATATTATATATATTTT
1 AAAACCATATA-T-TATAC----GTTTTCAAAAATGTTTTCAAAACTATATATTATACACA-TTT
*
740896 TTCAAAAATGTTTTC
59 TT--AAAACGTTTTC
*
740911 AAAACTATATATATATA
1 AAAACCATATAT-TATA
740928 TATATATATA
Statistics
Matches: 212, Mismatches: 18, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
71 120 0.57
72 23 0.11
73 5 0.02
77 32 0.15
78 5 0.02
79 6 0.03
80 21 0.10
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (71 bp):
AAAACCATATATTATACGTTTTCAAAAATGTTTTCAAAACTATATATTATACACATTTTTAAAAC
GTTTTC
Found at i:740923 original size:2 final size:2
Alignment explanation
Indices: 740916--740956 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
740906 TTTTCAAAAC
740916 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
740957 TAAAAAATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:740990 original size:37 final size:38
Alignment explanation
Indices: 740938--741106 Score: 218
Period size: 37 Copynumber: 4.4 Consensus size: 38
740928 TATATATATA
*
740938 TATATATATATATATATATT-AAAAAATGTTTTCAAAAC
1 TATATAT-TATATATATTTTAAAAAAATGTTTTCAAAAC
* *
740976 TATATACTATATATATTTT-CAAAAATGTTTTCAAAAC
1 TATATATTATATATATTTTAAAAAAATGTTTTCAAAAC
* *
741013 TATATATTATATATATTTTCAAAAAAT-TTCTCAAAAC
1 TATATATTATATATATTTTAAAAAAATGTTTTCAAAAC
* *
741050 TATATATTATATATATTTTCGAAAAAAAATGCTTTCAACAC
1 TATATATTATATATATTTT---AAAAAAATGTTTTCAAAAC
741091 TATATATTATATATAT
1 TATATATTATATATAT
741107 GCTATATGTA
Statistics
Matches: 116, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
37 74 0.64
38 12 0.10
40 7 0.06
41 23 0.20
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (38 bp):
TATATATTATATATATTTTAAAAAAATGTTTTCAAAAC
Found at i:745449 original size:27 final size:27
Alignment explanation
Indices: 745393--745450 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
745383 CAACTTCTTA
* * *
745393 TTCTTTCTTCTGGGATCTTGATTCATC
1 TTCTTTCTTCTAGGATCTTGATGCACC
*
745420 TTCTTTCTTCTAGGATTTTGCA-GCACC
1 TTCTTTCTTCTAGGATCTTG-ATGCACC
745447 TTCT
1 TTCT
745451 GGGACTGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.12, C:0.24, G:0.14, T:0.50
Consensus pattern (27 bp):
TTCTTTCTTCTAGGATCTTGATGCACC
Found at i:746711 original size:24 final size:24
Alignment explanation
Indices: 746680--746734 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
746670 CTGGTTTGGA
746680 TTGTTGTTATTATCGTTGTTCTTG
1 TTGTTGTTATTATCGTTGTTCTTG
746704 TTGTTGTTATTATCGTTGTTCTTG
1 TTGTTGTTATTATCGTTGTTCTTG
746728 TTGTTGT
1 TTGTTGT
746735 CACTGTCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.07, G:0.22, T:0.64
Consensus pattern (24 bp):
TTGTTGTTATTATCGTTGTTCTTG
Found at i:746733 original size:12 final size:12
Alignment explanation
Indices: 746679--746734 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
746669 TCTGGTTTGG
746679 ATTGTTGTTATT
1 ATTGTTGTTATT
* *
746691 ATCGTTGTTCTT
1 ATTGTTGTTATT
*
746703 GTTGTTGTTATT
1 ATTGTTGTTATT
* *
746715 ATCGTTGTTCTT
1 ATTGTTGTTATT
*
746727 GTTGTTGT
1 ATTGTTGT
746735 CACTGTCTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.09, C:0.07, G:0.21, T:0.62
Consensus pattern (12 bp):
ATTGTTGTTATT
Found at i:752027 original size:192 final size:191
Alignment explanation
Indices: 751700--752084 Score: 752
Period size: 192 Copynumber: 2.0 Consensus size: 191
751690 AAAATTCTGC
751700 TGCTATTTTAGCCTCTACCTTTGAAAACTGGAATAGTTATACCAATTATAACTCTGCTATGAATG
1 TGCTATTTTAGCCTCTACCTTTGAAAACTGGAATAGTTATACCAATTATAACTCTGCTATGAATG
751765 GTAGAATTTGGCTATTGTGGAGGAAAAATTTAAATATTTCTTTATGCCATGCCTCAGACCAAATT
66 GTAGAATTTGGCTATTGTGGAGGAAAAATTTAAATATTTCTTTATGCCATGCCTCAGACCAAATT
751830 ATCACTGTCAAAAGTTACTTCAATAACAACCCTTTCTTGATCTCGACAGTCTATGGCCACAA
131 ATCACTGTCAAAAGTTACTTCAAT-ACAACCCTTTCTTGATCTCGACAGTCTATGGCCACAA
*
751892 TGCTATTTTAGCCTCTACCTTTGAAAACTGTAATAGTTATACCAATTATAACTCTGCTATGAATG
1 TGCTATTTTAGCCTCTACCTTTGAAAACTGGAATAGTTATACCAATTATAACTCTGCTATGAATG
751957 GTAGAATTTGGCTATTGTGGAGGAAAAATTTAAATATTTCTTTATGCCATGCCTCAGACCAAATT
66 GTAGAATTTGGCTATTGTGGAGGAAAAATTTAAATATTTCTTTATGCCATGCCTCAGACCAAATT
752022 ATCACTGTCAAAAGTTACTTCAATACAACCCTTTCTTGATCTCGACAGTCTATGGCCACAA
131 ATCACTGTCAAAAGTTACTTCAATACAACCCTTTCTTGATCTCGACAGTCTATGGCCACAA
752083 TG
1 TG
752085 ATGGAATTTC
Statistics
Matches: 192, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
191 39 0.20
192 153 0.80
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (191 bp):
TGCTATTTTAGCCTCTACCTTTGAAAACTGGAATAGTTATACCAATTATAACTCTGCTATGAATG
GTAGAATTTGGCTATTGTGGAGGAAAAATTTAAATATTTCTTTATGCCATGCCTCAGACCAAATT
ATCACTGTCAAAAGTTACTTCAATACAACCCTTTCTTGATCTCGACAGTCTATGGCCACAA
Found at i:762708 original size:12 final size:11
Alignment explanation
Indices: 762691--762759 Score: 84
Period size: 12 Copynumber: 5.9 Consensus size: 11
762681 TTTGGGCTTG
*
762691 TAATAATATATT
1 TAATAATA-ATA
762703 TAATAATAATA
1 TAATAATAATA
762714 TAATATATAATA
1 TAATA-ATAATA
762726 TAATAATAATA
1 TAATAATAATA
*
762737 TTTATAATAATAA
1 -TAATAATAAT-A
762750 TAATAATAAT
1 TAATAATAAT
762760 TTAAGTAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
11 13 0.25
12 37 0.73
13 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATA
Found at i:762709 original size:3 final size:3
Alignment explanation
Indices: 762703--762759 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
762693 ATAATATATT
* *
762703 TAA TAA TAA T-A TAA TATA TAA T-A TAA TAA TAA TAT TTA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
762747 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
762760 TTAAGTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:762711 original size:15 final size:15
Alignment explanation
Indices: 762691--762759 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
762681 TTTGGGCTTG
762691 TAATAATATATTTAA
1 TAATAATATATTTAA
762706 TAATAATATAATATATAATA
1 TAATAATAT-AT-T-T-A-A
762726 TAATAATAATATTT-A
1 TAATAAT-ATATTTAA
762741 TAATAATA-A--TAA
1 TAATAATATATTTAA
762753 TAATAAT
1 TAATAAT
762760 TTAAGTAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
11 1 0.02
12 8 0.17
13 1 0.02
14 1 0.02
15 17 0.36
16 2 0.04
17 1 0.02
18 2 0.04
19 2 0.04
20 10 0.21
21 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAATATATTTAA
Found at i:762719 original size:18 final size:19
Alignment explanation
Indices: 762691--762754 Score: 91
Period size: 18 Copynumber: 3.6 Consensus size: 19
762681 TTTGGGCTTG
762691 TAATAAT-ATATTTAATAA
1 TAATAATAATATTTAATAA
*
762709 TAAT-ATAATATATAAT-A
1 TAATAATAATATTTAATAA
762726 TAATAATAATATTT-ATAA
1 TAATAATAATATTTAATAA
762744 TAATAATAATA
1 TAATAATAATA
762755 ATAATTTAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.22
18 32 0.78
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAATAATAATATTTAATAA
Found at i:763075 original size:76 final size:76
Alignment explanation
Indices: 762936--763603 Score: 1243
Period size: 76 Copynumber: 8.8 Consensus size: 76
762926 ATTGAAGGGT
762936 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGCAGGACTTACAGA
1 TTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGCAGGACTTACAGA
763001 TGACCCGAAGGC
65 TGACCCGAAGGC
763013 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763078 GACCCGAAGGC
66 GACCCGAAGGC
763089 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763154 GACCCGAAGGC
66 GACCCGAAGGC
* *
763165 -TTAAAAACATCAAAAAGCTTCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763229 GACCCGAAGGC
66 GACCCGAAGGC
763240 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763305 GACCCGAAGGC
66 GACCCGAAGGC
763316 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763381 GACCCGAAGGC
66 GACCCGAAGGC
* *
763392 -TTGAAAACATCAAAAATCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTATAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763456 GACCCGAAGGC
66 GACCCGAAGGC
763467 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763532 GACCCGAAGGC
66 GACCCGAAGGC
** *
763543 -TTGAAAACATCAAAAAGCTATCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACA
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACA
763604 TATGTGGGAA
Statistics
Matches: 578, Mismatches: 11, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
75 204 0.35
76 345 0.60
77 29 0.05
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
GACCCGAAGGC
Found at i:763217 original size:151 final size:152
Alignment explanation
Indices: 762936--763603 Score: 1243
Period size: 151 Copynumber: 4.4 Consensus size: 152
762926 ATTGAAGGGT
762936 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGCAGGACTTACAGA
1 TTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGCAGGACTTACAGA
763001 TGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCA
65 TGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCA
763066 GGACTTACAGATGACCCGAAGGC
130 GGACTTACAGATGACCCGAAGGC
763089 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* *
763154 GACCCGAAGGC-TTAAAAACATCAAAAAGCTTCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
66 GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
763218 GACTTACAGATGACCCGAAGGC
131 GACTTACAGATGACCCGAAGGC
763240 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763305 GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
66 GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
763370 GACTTACAGATGACCCGAAGGC
131 GACTTACAGATGACCCGAAGGC
* *
763392 -TTGAAAACATCAAAAATCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTATAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
763456 GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
66 GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
763521 GACTTACAGATGACCCGAAGGC
131 GACTTACAGATGACCCGAAGGC
** *
763543 -TTGAAAACATCAAAAAGCTATCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACA
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACA
763604 TATGTGGGAA
Statistics
Matches: 503, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
151 354 0.70
152 120 0.24
153 29 0.06
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (152 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
GACTTACAGATGACCCGAAGGC
Found at i:763336 original size:227 final size:227
Alignment explanation
Indices: 762940--763603 Score: 1249
Period size: 227 Copynumber: 2.9 Consensus size: 227
762930 AAGGGTTTTG
762940 AAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
1 AAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
763005 CCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGAC
65 CCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGAC
763070 TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
130 TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
763135 CACTGCAGGACTTACAGATGACCCGAAGGCTTA
195 CACTGCAGGACTTACAGATGACCCGAAGGCTTA
*
763168 AAAACATCAAAAAGCTTCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
763233 CGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACT
66 CGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACT
763298 TACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
131 TACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
*
763363 ACTGCAGGACTTACAGATGACCCGAAGGCTTG
196 ACTGCAGGACTTACAGATGACCCGAAGGCTTA
* *
763395 AAAACATCAAAAATCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTATAGATGACC
1 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
763460 CGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACT
66 CGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACT
**
763525 TACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCTATCGAAGGCTTTTTGGAAACATCATGC
131 TACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
*
763589 ACTGTAGGACTTACA
196 ACTGCAGGACTTACA
763604 TATGTGGGAA
Statistics
Matches: 428, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
226 58 0.14
227 346 0.81
228 24 0.06
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (227 bp):
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACC
CGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACT
TACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
ACTGCAGGACTTACAGATGACCCGAAGGCTTA
Found at i:764468 original size:22 final size:22
Alignment explanation
Indices: 764443--764497 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
764433 CATAAAGCTT
764443 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
764465 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
764487 TCATCTTTGAA
1 TCATCTTTGAA
764498 GAGTGTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:767192 original size:114 final size:114
Alignment explanation
Indices: 766992--767438 Score: 732
Period size: 114 Copynumber: 3.9 Consensus size: 114
766982 ATCATGCATC
* * * * * *
766992 TCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCGAACCAGATCAGATAACTCAAAGAA
1 TCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
* * * *
767057 TACTTCTAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAAT
66 CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAAT
767106 TCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
1 TCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
* *
767171 CACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCAAAT
66 CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAAT
*
767220 TCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTTAAAGAA
1 TCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
* *
767285 CACTTCTAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAAT
66 CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAAT
*
767334 TCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
1 TCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
* *
767399 CACTTCCAGAAGATACTATTGGGTCTCTTTATTTCTACTA
66 CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
767439 CGAGAACATG
Statistics
Matches: 312, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 312 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (114 bp):
TCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAAT
Found at i:774049 original size:29 final size:28
Alignment explanation
Indices: 774017--774072 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 28
774007 TAATTCTTGA
774017 ATATAATAAATAAATAA-AATAAAAAAAAT
1 ATATAA-AAAT-AATAAGAATAAAAAAAAT
774046 ATATAAAAATAATAAGTAATAAAAAAA
1 ATATAAAAATAATAAG-AATAAAAAAA
774073 TTTGAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.20
28 4 0.16
29 16 0.64
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (28 bp):
ATATAAAAATAATAAGAATAAAAAAAAT
Found at i:776365 original size:3 final size:3
Alignment explanation
Indices: 776359--776417 Score: 70
Period size: 3 Copynumber: 20.3 Consensus size: 3
776349 ATAATATATT
* *
776359 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
776402 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
776418 TTAAGTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.12
3 39 0.81
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:776374 original size:20 final size:21
Alignment explanation
Indices: 776347--776421 Score: 104
Period size: 20 Copynumber: 3.7 Consensus size: 21
776337 TTTGGGCTTG
776347 TAATAATATATTTAATAATAA
1 TAATAATATATTTAATAATAA
*
776368 T-ATAATATATATAAT-ATAA
1 TAATAATATATTTAATAATAA
776387 TAATAATAT-TTATAATAATAA
1 TAATAATATATT-TAATAATAA
776408 TAATAATA-ATTTAA
1 TAATAATATATTTAA
776422 GTAAAATGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
19 6 0.12
20 27 0.56
21 15 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATAATATATTTAATAATAA
Found at i:776379 original size:9 final size:9
Alignment explanation
Indices: 776349--776412 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
776339 TGGGCTTGTA
776349 ATAATATAT
1 ATAATATAT
*
776358 TTAATAATAAT
1 ATAAT-AT-AT
776369 ATAATATAT
1 ATAATATAT
776378 ATAATATAAT
1 ATAATAT-AT
*
776388 AATAATATTT
1 -ATAATATAT
776398 ATAATA-AT
1 ATAATATAT
776406 AATAATA
1 -ATAATA
776413 ATAATTTAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.54
10 7 0.15
11 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:778858 original size:16 final size:16
Alignment explanation
Indices: 778835--778888 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
778825 TTCTTTACGT
*
778835 TATATTATATTATTTT
1 TATATTATATTATTTA
* *
778851 TCTATTAT-TATATATA
1 TATATTATAT-TATTTA
778867 TATATTATATTA-TTA
1 TATATTATATTATTTA
778882 T-TATTAT
1 TATATTAT
778889 TATCTATGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 6 0.19
15 4 0.13
16 20 0.65
17 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTATATTATTTA
Found at i:778861 original size:24 final size:25
Alignment explanation
Indices: 778821--778891 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 25
778811 TTTTGTTTTC
778821 ATTTTTCT-TTACGTTATATTATAT-T
1 ATTTTTCTATTA--TTATATTATATAT
778846 ATTTTTCTATTATTATA-TATATAT
1 ATTTTTCTATTATTATATTATATAT
*
778870 ATTATAT-TATTATTATTATTAT
1 ATT-TTTCTATTATTA-TATTAT
778892 CTATGTTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
23 5 0.12
24 17 0.43
25 12 0.30
26 6 0.15
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (25 bp):
ATTTTTCTATTATTATATTATATAT
Found at i:778874 original size:13 final size:11
Alignment explanation
Indices: 778837--778891 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
778827 CTTTACGTTA
778837 TATTATATTAT
1 TATTATATTAT
* *
778848 TTTTCTATTAT
1 TATTATATTAT
778859 TA-TATA-TAT
1 TATTATATTAT
778868 ATATTATATTAT
1 -TATTATATTAT
778880 TATTATTATTAT
1 TATTA-TATTAT
778892 CTATGTTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 3 0.08
10 5 0.14
11 19 0.53
12 9 0.25
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATATTAT
Found at i:778883 original size:27 final size:26
Alignment explanation
Indices: 778835--778888 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
778825 TTCTTTACGT
*
778835 TATATTATATTATTTTTCTATTATTA
1 TATATTATATTATTTATCTATTATTA
778861 TATATATATATTATATTAT-TATTATTA
1 TATAT-TATATTAT-TTATCTATTATTA
778888 T
1 T
778889 TATCTATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 5 0.20
27 17 0.68
28 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TATATTATATTATTTATCTATTATTA
Found at i:778923 original size:13 final size:13
Alignment explanation
Indices: 778905--778930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
778895 TGTTTACTTA
778905 TTTACTATATTTT
1 TTTACTATATTTT
778918 TTTACTATATTTT
1 TTTACTATATTTT
778931 CCTAACGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:779112 original size:22 final size:22
Alignment explanation
Indices: 779016--779146 Score: 78
Period size: 22 Copynumber: 6.0 Consensus size: 22
779006 ATATGTATAT
*
779016 TTATTTT-TA-ATTTATTTATTA
1 TTATTTTATATATATATTT-TTA
*
779037 TTATTATTACTATTTAGTA-TTTTA
1 TTATT-TTA-TATATA-TATTTTTA
* ** *
779061 TTATATTATGCATACATTTTTA
1 TTATTTTATATATATATTTTTA
779083 -TATTTTTATATATATATTTTTA
1 TTA-TTTTATATATATATTTTTA
* *
779105 TTATTTTATTTATACTATTTAT-
1 TTATTTTATATATA-TATTTTTA
*
779127 TTATTTT-CAT-TATATTTTTA
1 TTATTTTATATATATATTTTTA
779147 GTTTCTTTGT
Statistics
Matches: 84, Mismatches: 16, Indels: 21
0.69 0.13 0.17
Matches are distributed among these distances:
19 6 0.07
20 2 0.02
21 9 0.11
22 42 0.50
23 11 0.13
24 9 0.11
25 3 0.04
26 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
TTATTTTATATATATATTTTTA
Found at i:779114 original size:14 final size:14
Alignment explanation
Indices: 779080--779146 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 14
779070 GCATACATTT
779080 TTATATTTTTA-TA
1 TTATATTTTTATTA
779093 TATATATTTTTATTA
1 T-TATATTTTTATTA
* * *
779108 TTTTATTTATACTA
1 TTATATTTTTATTA
779122 TT-TATTTATT-TTCA
1 TTATATTT-TTATT-A
779136 TTATATTTTTA
1 TTATATTTTTA
779147 GTTTCTTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 7 0.16
14 28 0.65
15 8 0.19
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATATTTTTATTA
Found at i:779141 original size:44 final size:43
Alignment explanation
Indices: 779056--779145 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
779046 CTATTTAGTA
*
779056 TTTTATTATATTATGCATACATTTTTATATTTTTATATATATAT
1 TTTTATTATATTATGCATACATTTTTATATTTTCATATATAT-T
* **
779100 TTTTATTATTTTATTTATACTATTTATT-TATTTTCAT-TATATT
1 TTTTATTATATTATGCATAC-ATTT-TTATATTTTCATATATATT
779143 TTT
1 TTT
779146 AGTTTCTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.10
44 22 0.55
45 12 0.30
46 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (43 bp):
TTTTATTATATTATGCATACATTTTTATATTTTCATATATATT
Found at i:792704 original size:12 final size:12
Alignment explanation
Indices: 792687--792713 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
792677 AAATATCCTC
792687 CTTTAGTTAAGG
1 CTTTAGTTAAGG
792699 CTTTAGTTAAGG
1 CTTTAGTTAAGG
792711 CTT
1 CTT
792714 AGGGGCATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (12 bp):
CTTTAGTTAAGG
Found at i:801648 original size:22 final size:23
Alignment explanation
Indices: 801611--801654 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
801601 TAGTCGCTAA
801611 ATTATTAAATTAAATTTATTATG
1 ATTATTAAATTAAATTTATTATG
* *
801634 ATTATTGAA-TAAATTTCTTAT
1 ATTATTAAATTAAATTTATTAT
801655 TAAGGTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (23 bp):
ATTATTAAATTAAATTTATTATG
Found at i:803527 original size:22 final size:22
Alignment explanation
Indices: 803499--803540 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
803489 GGGTCTACGC
803499 GGTCCTTCGGGACATATACAGT
1 GGTCCTTCGGGACATATACAGT
803521 GGTCCTTCGGGACATATACA
1 GGTCCTTCGGGACATATACA
803541 TAGGTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
GGTCCTTCGGGACATATACAGT
Found at i:804434 original size:12 final size:12
Alignment explanation
Indices: 804414--804457 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
804404 TAACATTCGC
804414 TATTGTTCATGA
1 TATTGTTCATGA
*
804426 TAATGTTCAT--
1 TATTGTTCATGA
*
804436 TATTGTTCACGA
1 TATTGTTCATGA
804448 TATTGTTCAT
1 TATTGTTCAT
804458 ACCTTATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 8 0.31
12 18 0.69
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (12 bp):
TATTGTTCATGA
Found at i:804442 original size:22 final size:22
Alignment explanation
Indices: 804414--804457 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
804404 TAACATTCGC
*
804414 TATTGTTCATGATAATGTTCAT
1 TATTGTTCACGATAATGTTCAT
*
804436 TATTGTTCACGATATTGTTCAT
1 TATTGTTCACGATAATGTTCAT
804458 ACCTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (22 bp):
TATTGTTCACGATAATGTTCAT
Found at i:804958 original size:120 final size:120
Alignment explanation
Indices: 804742--804984 Score: 441
Period size: 120 Copynumber: 2.0 Consensus size: 120
804732 TTTGCTCTTC
**
804742 ACCGCCGCCGTAACCTTTCCTTGACCGACTATAATAAGTGAAGCACTTAGCATGGCAAATCAGGT
1 ACCGCCGCCGTAACCTTTCCTTGACCGACTATAATAAGTGAAGCACTTAGCATGGCAAATCAACT
804807 TCTTGTTATAACAGGGGCTTTCAAATGTACAAACAATTGTGGGTTTAATAACACA
66 TCTTGTTATAACAGGGGCTTTCAAATGTACAAACAATTGTGGGTTTAATAACACA
*
804862 ACCGCCGCCGTAACCTTTCCTTGACCGAGTATAATAAGTGAAGCACTTAGCATGGCAAATCAACT
1 ACCGCCGCCGTAACCTTTCCTTGACCGACTATAATAAGTGAAGCACTTAGCATGGCAAATCAACT
* *
804927 TCTTGTTATAACAGGGGCTTTCATATTTACAAACAATTGTGGGTTTAATAACACA
66 TCTTGTTATAACAGGGGCTTTCAAATGTACAAACAATTGTGGGTTTAATAACACA
804982 ACC
1 ACC
804985 TTTAGAGTAT
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (120 bp):
ACCGCCGCCGTAACCTTTCCTTGACCGACTATAATAAGTGAAGCACTTAGCATGGCAAATCAACT
TCTTGTTATAACAGGGGCTTTCAAATGTACAAACAATTGTGGGTTTAATAACACA
Found at i:813689 original size:36 final size:36
Alignment explanation
Indices: 813582--813700 Score: 193
Period size: 37 Copynumber: 3.2 Consensus size: 36
813572 AAAGAAGAAC
*
813582 TAAAATAAATAAAAGTAACAAGAAAATTTGAATATAT
1 TAAAATAAATAAAAGTAACAAGAAAA-TTGAATAAAT
813619 TAAAATAAATAAAAGTAACAAGAAAAATTGAATAAAT
1 TAAAATAAATAAAAGTAACAAG-AAAATTGAATAAAT
* *
813656 TAAAATAAACAAAAGTAACAAGAAAATCGAATAAAT
1 TAAAATAAATAAAAGTAACAAGAAAATTGAATAAAT
813692 TAAAATAAA
1 TAAAATAAA
813701 ATCGGTTGCC
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
36 22 0.28
37 52 0.67
38 4 0.05
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (36 bp):
TAAAATAAATAAAAGTAACAAGAAAATTGAATAAAT
Found at i:820999 original size:16 final size:15
Alignment explanation
Indices: 820973--821002 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
820963 GTGGTTGACC
820973 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
820988 GGTCAGTCCCGGGAT
1 GGTCA-TCCCGGGAT
821003 TTCGGCTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.27, G:0.40, T:0.20
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:821187 original size:3 final size:3
Alignment explanation
Indices: 821163--821222 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
821153 ACCTGAAAAA
* *
821163 AAT AA- AAT AA- AAT AAGT AAT AAT AA- AAA AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
821206 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
821223 ATATAAAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:821373 original size:38 final size:38
Alignment explanation
Indices: 821308--821513 Score: 271
Period size: 38 Copynumber: 5.5 Consensus size: 38
821298 TTTAGAAAAC
*
821308 TATATA-ATTTTCAAAAATGTTTTAAAAAATATATAT-
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATATA
821344 TATATATATTTTC-AAAATGTTTTTCAAAAACTATATAT-
1 TATATATATTTTCAAAAATG-TTTT-AAAAACTATATATA
* *
821382 TATATTTATTTTCAAAAACGTTTTAAAAACTATATAATA
1 TATATATATTTTCAAAAATGTTTTAAAAACTATAT-ATA
* *
821421 TATAAATGTTTTC-AAAATGTTTTAAAAACTATATAATA
1 TATATATATTTTCAAAAATGTTTTAAAAACTATAT-ATA
* *
821459 TATATATGTTTTCAAAAATGTTTTAAAAACTATATATC
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATATA
821497 T-TATATATTTTCAAAAA
1 TATATATATTTTCAAAAA
821514 AATTTCAAAA
Statistics
Matches: 153, Mismatches: 10, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
36 12 0.08
37 36 0.24
38 69 0.45
39 36 0.24
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (38 bp):
TATATATATTTTCAAAAATGTTTTAAAAACTATATATA
Found at i:821405 original size:75 final size:76
Alignment explanation
Indices: 821308--821537 Score: 290
Period size: 75 Copynumber: 3.1 Consensus size: 76
821298 TTTAGAAAAC
*
821308 TATATA-ATTTTCAAAAATGTTTTAAAAAATATATAT-TATATATATTTTCAAAATGTTTTTCAA
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATATATATATATATTTTCAAAATG-TTTT-AA
821371 AAACTATAT-AT-
64 AAACTATATAATA
* * * *
821382 TATATTTATTTTCAAAAACGTTTTAAAAACTATATAATATATAAATGTTTTCAAAATGTTTTAAA
1 TATATATATTTTCAAAAATGTTTTAAAAACTATAT-ATATATATATATTTTCAAAATGTTTTAAA
821447 AACTATATAATA
65 AACTATATAATA
* * *** *
821459 TATATATGTTTTCAAAAATGTTTTAAAAACTATATATCT-TATATATTTTCAAAAAAATTTCAAA
1 TATATATATTTTCAAAAATGTTTTAAAAACTATATATATATATATATTTTCAAAATGTTTTAAAA
*
821523 ATTATATAATA
66 ACTATATAATA
821534 TATA
1 TATA
821538 AACAAAATAA
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
74 5 0.04
75 70 0.52
76 11 0.08
77 49 0.36
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (76 bp):
TATATATATTTTCAAAAATGTTTTAAAAACTATATATATATATATATTTTCAAAATGTTTTAAAA
ACTATATAATA
Found at i:822200 original size:84 final size:84
Alignment explanation
Indices: 822100--822255 Score: 285
Period size: 84 Copynumber: 1.9 Consensus size: 84
822090 TTGACAGATA
822100 GCCCTTCTTACCTTGAGCTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
1 GCCCTTCTTACCTTGAGCTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
822165 GGTCTTTTGTTGGCAAATT
66 GGTCTTTTGTTGGCAAATT
* * *
822184 GCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAA
1 GCCCTTCTTACCTTGAGCTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
822249 GGTCTTT
66 GGTCTTT
822256 GTGATTCTAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 69 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (84 bp):
GCCCTTCTTACCTTGAGCTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
GGTCTTTTGTTGGCAAATT
Found at i:822312 original size:34 final size:31
Alignment explanation
Indices: 822264--822336 Score: 85
Period size: 34 Copynumber: 2.3 Consensus size: 31
822254 TTGTGATTCT
* *
822264 AGAGAAACATTTTCAAATGTTTTTTTATGTTTCA
1 AGAGAAACATTTTCAAA-G-GTTTTCA-GTTTCA
822298 AGAGAAACGA-TTTCAAAGGTTTTCAGTTTCA
1 AGAGAAAC-ATTTTCAAAGGTTTTCAGTTTCA
822329 AGAGAAAC
1 AGAGAAAC
822337 TATCTCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 14 0.39
32 5 0.14
33 1 0.03
34 15 0.42
35 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (31 bp):
AGAGAAACATTTTCAAAGGTTTTCAGTTTCA
Found at i:822382 original size:36 final size:35
Alignment explanation
Indices: 822323--822494 Score: 236
Period size: 36 Copynumber: 4.7 Consensus size: 35
822313 AAGGTTTTCA
* *
822323 GTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTT
1 GTTTCAAG-GGAACTGTCTCAAGAGAGACAAAA-TTT
*
822360 GTTTCAAGGGAACTGTCTCAAGAGAGTCAAAATTT
1 GTTTCAAGGGAACTGTCTCAAGAGAGACAAAATTT
*
822395 GTTTTAAGGGAAACTGTCTCAAGAGAGACAAAAATTT
1 GTTTCAAGGG-AACTGTCTCAAGAGAGAC-AAAATTT
*
822432 GTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTT
1 GTTTCAAGGG-AACTGTCTCAAGAGAGACAAAATTT
*
822468 GTTTCAAGAGAACCTGTCTCAAGAGAG
1 GTTTCAAGGGAA-CTGTCTCAAGAGAG
822495 CTGACCCCTT
Statistics
Matches: 124, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
35 14 0.11
36 68 0.55
37 42 0.34
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (35 bp):
GTTTCAAGGGAACTGTCTCAAGAGAGACAAAATTT
Found at i:822419 original size:72 final size:73
Alignment explanation
Indices: 822323--822494 Score: 276
Period size: 73 Copynumber: 2.4 Consensus size: 73
822313 AAGGTTTTCA
* *
822323 GTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGGG-AACTGTCTCAAGAGAG-
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
822386 TCAAAATTT
66 T-AAAATTT
* *
822395 GTTTTAAGGGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
822460 TAAAATTT
66 TAAAATTT
*
822468 GTTTCAAGAGAACCTGTCTCAAGAGAG
1 GTTTCAAGAGAAACTGTCTCAAGAGAG
822495 CTGACCCCTT
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
72 43 0.47
73 47 0.52
74 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (73 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
TAAAATTT
Found at i:823301 original size:110 final size:110
Alignment explanation
Indices: 823176--823608 Score: 661
Period size: 110 Copynumber: 3.9 Consensus size: 110
823166 GTATTGTATG
* *
823176 TTTCAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACT-ATGAAGTTGTT
1 TTTCAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGA-AAAGTTGTT
* * *
823240 TGTTGACAGCCAGTCGCCCTTTCGCTGTGAAGTTGAGCTTATGTTA
65 TGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTA
* *
823286 TTTCAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGTAATGTTGTTT
1 TTTCAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTT
* * *
823351 GTTGACAATCAGTCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTG
66 GTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTA
* * * *
823396 TCTCGAGTCCAATATCCTTCGTTGTGAAGTTGGAATTGACTCTGAATGAAACTGAAAAGTTGTTT
1 TTTCAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTT
* * *
823461 GTTGATAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCATGTGTTC
66 GTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTA
* *
823506 TATCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTT
1 TTTCAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTT
* *
823571 GTTGATAGTCAGTCGCCCCTTCGCTGTGAAGTTTAGCT
66 GTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCT
823609 ACCATCATCA
Statistics
Matches: 296, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
110 296 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (110 bp):
TTTCAAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTT
GTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTA
Found at i:827586 original size:30 final size:30
Alignment explanation
Indices: 827551--827616 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
827541 AGAACCGGAA
* *
827551 GAACCGGCTGAGAACCAGCAAAACCGGGGT
1 GAACCGGCTGAAAACCAGCAAAACCAGGGT
* * *
827581 GAACCGGCTGAAAATCGGCAAAACCAGTGT
1 GAACCGGCTGAAAACCAGCAAAACCAGGGT
827611 GAACCG
1 GAACCG
827617 TCGGTTGTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.30, T:0.09
Consensus pattern (30 bp):
GAACCGGCTGAAAACCAGCAAAACCAGGGT
Found at i:827719 original size:27 final size:27
Alignment explanation
Indices: 827673--827798 Score: 218
Period size: 27 Copynumber: 4.7 Consensus size: 27
827663 TTTGTTAAAC
*
827673 GAGC-CGAGTCGAACTCGAGTACTGCT
1 GAGCTCGACTCGAACTCGAGTACTGCT
*
827699 GATCTCGACTCGAACTCGAGTACTGCT
1 GAGCTCGACTCGAACTCGAGTACTGCT
*
827726 GATCTCGACTCGAACTCGAGTACTGCT
1 GAGCTCGACTCGAACTCGAGTACTGCT
827753 GAGCTCGACTCGAACTCGAGTACTGCT
1 GAGCTCGACTCGAACTCGAGTACTGCT
827780 GAGCTCGACTCGAACTCGA
1 GAGCTCGACTCGAACTCGA
827799 AAACTTTAAA
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
26 3 0.03
27 93 0.97
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (27 bp):
GAGCTCGACTCGAACTCGAGTACTGCT
Found at i:829612 original size:3 final size:3
Alignment explanation
Indices: 829588--829657 Score: 83
Period size: 3 Copynumber: 23.7 Consensus size: 3
829578 ACCTGAAAAA
* *
829588 AAT AA- AAT AA- AAT AAGT AAT AAT AA- AAA AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
829631 AAAT AAT AAT AAT AAT AAT AAT AAT AA
1 -AAT AAT AAT AAT AAT AAT AAT AAT AA
829658 ATATAAAAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
2 6 0.10
3 47 0.80
4 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:829800 original size:29 final size:30
Alignment explanation
Indices: 829724--829811 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 30
829714 TATACATAAA
829724 TTCAAAAATATTTTTAGAAAACTATATAATT
1 TTCAAAAATATTTTTA-AAAACTATATAATT
*
829755 TTCAAAAATGTTTTTTAAAAACTATATAATT
1 TTCAAAAAT-ATTTTTAAAAACTATATAATT
* *
829786 TTCAAAAA-AATTTTAAAAATTATATA
1 TTCAAAAATATTTTTAAAAACTATATA
829812 TTATATATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.29
31 31 0.60
32 6 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (30 bp):
TTCAAAAATATTTTTAAAAACTATATAATT
Found at i:829820 original size:38 final size:38
Alignment explanation
Indices: 829777--830051 Score: 291
Period size: 38 Copynumber: 7.2 Consensus size: 38
829767 TTTTAAAAAC
** *
829777 TATATAATTTTCAAAAAAATTTTAAAAATTATATATTA
1 TATATAATTTTCAAAAATGTTTTAAAAACTATATATTA
829815 TATAT-ATTTTC-AAAATGTTTTTCAAAAACTATATATTA
1 TATATAATTTTCAAAAATG-TTTT-AAAAACTATATATTA
* *
829853 TAT-TTATTTTCAAAAATGTTTTAAAAACTATATAATA
1 TATATAATTTTCAAAAATGTTTTAAAAACTATATATTA
829890 TATA-AATGTTTTC-AAAATGTTTTAAAAACTATATTATATATA
1 TATATAA--TTTTCAAAAATGTTTTAAAAAC--TA-TATAT-TA
*
829932 TATATATATATATTC-AAAATGTTTTAAAAACTATATAATA
1 TATATA-AT-T-TTCAAAAATGTTTTAAAAACTATATATTA
* *
829972 TATATATGTTTTCAAAAATGTTTTAAAAACTATATATCA
1 TATATA-ATTTTCAAAAATGTTTTAAAAACTATATATTA
*
830011 TATAT-ATTTTC-AAAATGTTTTCAAAA-T-TATATTA
1 TATATAATTTTCAAAAATGTTTTAAAAACTATATATTA
830045 TATATAA
1 TATATAA
830052 ACAAAATAAA
Statistics
Matches: 207, Mismatches: 13, Indels: 37
0.81 0.05 0.14
Matches are distributed among these distances:
34 11 0.05
35 2 0.01
36 18 0.09
37 34 0.16
38 51 0.25
39 40 0.19
40 12 0.06
41 8 0.04
42 9 0.04
43 2 0.01
44 20 0.10
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (38 bp):
TATATAATTTTCAAAAATGTTTTAAAAACTATATATTA
Found at i:829868 original size:75 final size:74
Alignment explanation
Indices: 829796--830050 Score: 307
Period size: 75 Copynumber: 3.3 Consensus size: 74
829786 TTCAAAAAAA
*
829796 TTTTAAAAATTATAT-AT-TATATATATTTTCAAAATGTTTTTCAAAAACTATATATTATATTTA
1 TTTTAAAAACTATATAATATATATATATTTTCAAAATG-TTTT-AAAAACTATATATTATATTTA
829859 TTTTCAAAAATG
64 TTTTC-AAAATG
* *
829871 TTTTAAAAACTATATAATATATAAATGTTTTCAAAATGTTTTAAAAACTATATTATATATATATA
1 TTTTAAAAACTATATAATATATATATATTTTCAAAATGTTTTAAAAAC--TA-TATAT-TATAT-
829936 TATATATATTCAAAATG
61 T-TAT-T-TTCAAAATG
* * *
829953 TTTTAAAAACTATATAATATATATATGTTTTCAAAAATGTTTTAAAAACTATATATCATATATAT
1 TTTTAAAAACTATATAATATATATATATTTTC-AAAATGTTTTAAAAACTATATATTATATTTAT
830018 TTTCAAAATG
65 TTTCAAAATG
* * *
830028 TTTTCAAAATTATATTATATATA
1 TTTTAAAAACTATATAATATATA
830051 AACAAAATAA
Statistics
Matches: 160, Mismatches: 9, Indels: 22
0.84 0.05 0.12
Matches are distributed among these distances:
75 49 0.31
76 7 0.04
77 22 0.14
78 5 0.03
79 9 0.06
80 6 0.04
81 5 0.03
82 38 0.24
83 19 0.12
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (74 bp):
TTTTAAAAACTATATAATATATATATATTTTCAAAATGTTTTAAAAACTATATATTATATTTATT
TTCAAAATG
Found at i:829951 original size:121 final size:118
Alignment explanation
Indices: 829806--830050 Score: 361
Period size: 121 Copynumber: 2.1 Consensus size: 118
829796 TTTTAAAAAT
* *
829806 TATATATTATATATATTTTCAAAATGTTTTTCAAAAACTATAT-AT-TATATTTATTTTCAAAAA
1 TATATATTATATATATATTCAAAATG-TTTT-AAAAACTATATAATATATATATATTTTCAAAAA
*
829869 TGTTTTAAAAACTATATAAT-ATATAAATGTTTTCAAAATGTTTTAAAAACTATATTA
64 TGTTTTAAAAACTATAT-ATCATAT--ATATTTTCAAAATGTTTTAAAAACTATATTA
*
829926 TATATATATATATATATATTCAAAATGTTTTAAAAACTATATAATATATATATGTTTTCAAAAAT
1 TATATAT-TATATATATATTCAAAATGTTTTAAAAACTATATAATATATATATATTTTCAAAAAT
* *
829991 GTTTTAAAAACTATATATCATATATATTTTCAAAATGTTTTCAAAATTATATTA
65 GTTTTAAAAACTATATATCATATATATTTTCAAAATGTTTTAAAAACTATATTA
830045 TATATA
1 TATATA
830051 AACAAAATAA
Statistics
Matches: 115, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
119 45 0.39
120 15 0.13
121 55 0.48
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (118 bp):
TATATATTATATATATATTCAAAATGTTTTAAAAACTATATAATATATATATATTTTCAAAAATG
TTTTAAAAACTATATATCATATATATTTTCAAAATGTTTTAAAAACTATATTA
Found at i:830963 original size:2 final size:2
Alignment explanation
Indices: 830958--830986 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
830948 TATTTTAAAC
830958 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
830987 TAAAACTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:834318 original size:17 final size:16
Alignment explanation
Indices: 834296--834334 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
834286 ATATCGTAGT
*
834296 ATAAAAAAATTATTAAA
1 ATAAAAAAAGTA-TAAA
*
834313 ATAAAACAAGTATAAA
1 ATAAAAAAAGTATAAA
834329 ATAAAA
1 ATAAAA
834335 TTACTTGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAAAAAAAGTATAAA
Found at i:836075 original size:11 final size:11
Alignment explanation
Indices: 836059--836084 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
836049 CTTTTATCTA
836059 ATTTAAAATTC
1 ATTTAAAATTC
836070 ATTTAAAATTC
1 ATTTAAAATTC
836081 ATTT
1 ATTT
836085 TAATCCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTAAAATTC
Found at i:837507 original size:18 final size:19
Alignment explanation
Indices: 837486--837532 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
837476 GTAAAAATAT
*
837486 ATTAAAAT-AATAAAAGCG
1 ATTAAAATAAATAAAAGCA
*
837504 ATT-AAATAAATAACAGCA
1 ATTAAAATAAATAAAAGCA
*
837522 ATTAAAGTAAA
1 ATTAAAATAAA
837533 AATAAGAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (19 bp):
ATTAAAATAAATAAAAGCA
Found at i:839360 original size:14 final size:14
Alignment explanation
Indices: 839338--839369 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
839328 CGTTCGTGAA
*
839338 CGTTTGGTTATGTT
1 CGTTCGGTTATGTT
839352 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
839366 CGTT
1 CGTT
839370 TATGTTCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.28, T:0.53
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:840472 original size:16 final size:16
Alignment explanation
Indices: 840451--840496 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
840441 GTCTCCAACG
*
840451 TTTATGTTCGTTTTCA
1 TTTATGTTCGTGTTCA
*
840467 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
840483 TTTATGTTCGTGTT
1 TTTATGTTCGTGTT
840497 TGTATATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.09, C:0.11, G:0.20, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:840536 original size:32 final size:31
Alignment explanation
Indices: 840499--840559 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
840489 TTCGTGTTTG
*
840499 TATATTTATTAAATGAACGAACATAAACAAGC
1 TATATTCATT-AATGAACGAACATAAACAAGC
* *
840531 TATATTCCTTAATGAACGAACATGAACAA
1 TATATTCATTAATGAACGAACATAAACAA
840560 AAAAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.28
Consensus pattern (31 bp):
TATATTCATTAATGAACGAACATAAACAAGC
Found at i:840590 original size:16 final size:16
Alignment explanation
Indices: 840569--840600 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
840559 AAAAAAAATT
840569 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
840585 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
840601 CTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:843803 original size:2 final size:2
Alignment explanation
Indices: 843796--843826 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
843786 TAGAACACCC
843796 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
843827 ATAAACTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:845244 original size:19 final size:19
Alignment explanation
Indices: 845220--845290 Score: 133
Period size: 19 Copynumber: 3.7 Consensus size: 19
845210 AAATGCAATT
845220 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
845239 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
*
845258 AGTGCATCGATGCATAAGA
1 AGTGCATCGATGCATAAGG
845277 AGTGCATCGATGCA
1 AGTGCATCGATGCA
845291 CCCCCTTAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:846757 original size:18 final size:18
Alignment explanation
Indices: 846714--846806 Score: 87
Period size: 18 Copynumber: 4.9 Consensus size: 18
846704 AGGGATTATC
* *
846714 AGTGGTCCATCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
846734 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
846752 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
* *
846771 CAATGGTCCTTCGAGACAT
1 -AGTGGTCCTTCGGGACAT
*
846790 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
846807 AATATTCAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
18 29 0.48
19 4 0.07
20 27 0.45
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:846782 original size:20 final size:20
Alignment explanation
Indices: 846711--846807 Score: 103
Period size: 20 Copynumber: 5.0 Consensus size: 20
846701 TCGAGGGATT
*
846711 ATCAGTGGTCCATCGGGACA
1 ATCAGTGGTCCTTCGGGACA
*
846731 AACAGTGGTCCTTCGGGAC-
1 ATCAGTGGTCCTTCGGGACA
* *
846750 AT-AGTGGTTCTTCGGAACA
1 ATCAGTGGTCCTTCGGGACA
* *
846769 ATCAATGGTCCTTCGAGAC-
1 ATCAGTGGTCCTTCGGGACA
*
846788 AT-AGTGGTCATTCGGGACA
1 ATCAGTGGTCCTTCGGGACA
846807 A
1 A
846808 ATATTCAGTG
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
18 27 0.44
19 6 0.10
20 29 0.47
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (20 bp):
ATCAGTGGTCCTTCGGGACA
Found at i:846802 original size:38 final size:38
Alignment explanation
Indices: 846714--846808 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
846704 AGGGATTATC
* *
846714 AGTGGTCCA-TCGGGACAAACAGTGGTCCTTCGGGACAT
1 AGTGGT-CATTCGGGACAAACAATGGTCCTTCGAGACAT
* *
846752 AGTGGTTC-TTCGGAACAATCAATGGTCCTTCGAGACAT
1 AGTGG-TCATTCGGGACAAACAATGGTCCTTCGAGACAT
846790 AGTGGTCATTCGGGACAAA
1 AGTGGTCATTCGGGACAAA
846809 TATTCAGTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
37 2 0.04
38 45 0.94
39 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (38 bp):
AGTGGTCATTCGGGACAAACAATGGTCCTTCGAGACAT
Found at i:849551 original size:22 final size:22
Alignment explanation
Indices: 849526--849567 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
849516 GGTCAAAGGA
849526 AGTCAACGGTCGGGTCGGGTCG
1 AGTCAACGGTCGGGTCGGGTCG
849548 AGTCAACGGTCGGGTCGGGT
1 AGTCAACGGTCGGGTCGGGT
849568 TGGGTCGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.19
Consensus pattern (22 bp):
AGTCAACGGTCGGGTCGGGTCG
Found at i:849593 original size:9 final size:9
Alignment explanation
Indices: 849575--849653 Score: 59
Period size: 10 Copynumber: 8.3 Consensus size: 9
849565 GGTTGGGTCG
*
849575 GGTCAGACC
1 GGTCAAACC
849584 GGTCAAACC
1 GGTCAAACC
*
849593 GGTTCAGACC
1 GG-TCAAACC
*
849603 GGTCAAACT
1 GGTCAAACC
**
849612 GGTTCAAATT
1 GG-TCAAACC
*
849622 GGTCGAAACT
1 GGTC-AAACC
*
849632 GATCAAACC
1 GGTCAAACC
849641 GGTCAAAACC
1 GGTC-AAACC
849651 GGT
1 GGT
849654 TGAAAACTGG
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 26 0.46
10 31 0.54
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.19
Consensus pattern (9 bp):
GGTCAAACC
Found at i:849625 original size:19 final size:19
Alignment explanation
Indices: 849581--849647 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
849571 GTCGGGTCAG
* *
849581 ACCGGTCAAACCGGTTCAG
1 ACCGGTCAAACTGGTTCAA
849600 ACCGGTCAAACTGGTTCAA
1 ACCGGTCAAACTGGTTCAA
** *
849619 ATTGGTCGAAACT-GATCAA
1 ACCGGTC-AAACTGGTTCAA
849638 ACCGGTCAAA
1 ACCGGTCAAA
849648 ACCGGTTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 3 0.08
19 32 0.80
20 5 0.12
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.19
Consensus pattern (19 bp):
ACCGGTCAAACTGGTTCAA
Found at i:856806 original size:17 final size:17
Alignment explanation
Indices: 856786--856824 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
856776 GGAAGTCAAC
*
856786 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCA
856803 GGTCAACGGTCGGGTCA
1 GGTCAACGGTCGGGTCA
856820 GGTCA
1 GGTCA
856825 TTCGGGTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.44, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCA
Found at i:856841 original size:24 final size:26
Alignment explanation
Indices: 856800--856848 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
856790 AACGGTCGGG
856800 TCGGGTCAACGGTCGGGTCAGGTCAT
1 TCGGGTCAACGGTCGGGTCAGGTCAT
*
856826 TCGGGTC-A-GGTCGGGTCGGGTCA
1 TCGGGTCAACGGTCGGGTCAGGTCA
856849 AACCGGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.64
25 1 0.05
26 7 0.32
ACGTcount: A:0.12, C:0.22, G:0.43, T:0.22
Consensus pattern (26 bp):
TCGGGTCAACGGTCGGGTCAGGTCAT
Found at i:856856 original size:24 final size:24
Alignment explanation
Indices: 856810--856857 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
856800 TCGGGTCAAC
** *
856810 GGTCGGGTCAGGTCATTCGGGTCA
1 GGTCGGGTCAGGTCAAACCGGTCA
*
856834 GGTCGGGTCGGGTCAAACCGGTCA
1 GGTCGGGTCAGGTCAAACCGGTCA
856858 AACCGGTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.23, G:0.42, T:0.21
Consensus pattern (24 bp):
GGTCGGGTCAGGTCAAACCGGTCA
Found at i:856858 original size:9 final size:9
Alignment explanation
Indices: 856844--856942 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
856834 GGTCGGGTCG
856844 GGTCAAACC
1 GGTCAAACC
856853 GGTCAAACC
1 GGTCAAACC
*
856862 GGTTCAGACC
1 GG-TCAAACC
856872 GGTCAAACC
1 GGTCAAACC
856881 GGTTCAAACC
1 GG-TCAAACC
*
856891 GGTCGAAACT
1 GGTC-AAACC
*
856901 GATCAAACC
1 GGTCAAACC
*
856910 AGTCAGAACC
1 GGTCA-AACC
* *
856920 GGTTGAAAACT
1 GG-T-CAAACC
856931 GGTCAAACC
1 GGTCAAACC
856940 GGT
1 GGT
856943 TTCCAGCCCT
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
9 35 0.49
10 30 0.42
11 6 0.08
12 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:856872 original size:19 final size:19
Alignment explanation
Indices: 856846--856943 Score: 108
Period size: 19 Copynumber: 5.1 Consensus size: 19
856836 TCGGGTCGGG
856846 TCAAACCGGTCAAACCGGT
1 TCAAACCGGTCAAACCGGT
*
856865 TCAGACCGGTCAAACCGGT
1 TCAAACCGGTCAAACCGGT
* *
856884 TCAAACCGGTCGAAA-CTGA
1 TCAAACCGGTC-AAACCGGT
*
856903 TCAAACCAGTCAGAACCGGT
1 TCAAACCGGTCA-AACCGGT
* *
856923 TGAAAACTGGTCAAACCGGT
1 T-CAAACCGGTCAAACCGGT
856943 T
1 T
856944 TCCAGCCCTC
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.02
19 42 0.65
20 14 0.22
21 8 0.12
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.17
Consensus pattern (19 bp):
TCAAACCGGTCAAACCGGT
Found at i:856874 original size:10 final size:10
Alignment explanation
Indices: 856846--856893 Score: 73
Period size: 10 Copynumber: 5.0 Consensus size: 10
856836 TCGGGTCGGG
856846 TCAAACCGG-
1 TCAAACCGGT
856855 TCAAACCGGT
1 TCAAACCGGT
*
856865 TCAGACCGG-
1 TCAAACCGGT
856874 TCAAACCGGT
1 TCAAACCGGT
856884 TCAAACCGGT
1 TCAAACCGGT
856894 CGAAACTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
9 17 0.49
10 18 0.51
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:856906 original size:29 final size:28
Alignment explanation
Indices: 856844--856942 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 28
856834 GGTCGGGTCG
* *
856844 GGTCAAACCGGTCAAACCGGTTC-AGACC
1 GGTCAAACCGGTCAAACCGG-TCGAAACT
856872 GGTCAAACCGGTTCAAACCGGTCGAAACT
1 GGTCAAACCGG-TCAAACCGGTCGAAACT
* * *
856901 GATCAAACCAGTCAGAACCGGTTGAAAACT
1 GGTCAAACCGGTCA-AACCGGTCG-AAACT
856931 GGTCAAACCGGT
1 GGTCAAACCGGT
856943 TTCCAGCCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 16 0.27
29 29 0.48
30 15 0.25
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.16
Consensus pattern (28 bp):
GGTCAAACCGGTCAAACCGGTCGAAACT
Found at i:860158 original size:19 final size:19
Alignment explanation
Indices: 860134--860174 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
860124 GCAATTAGTA
860134 CATCGATGCATAAGGAGTG
1 CATCGATGCATAAGGAGTG
860153 CATCGATGCATAAGGAGTG
1 CATCGATGCATAAGGAGTG
860172 CAT
1 CAT
860175 TGATAAACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (19 bp):
CATCGATGCATAAGGAGTG
Found at i:860630 original size:2 final size:2
Alignment explanation
Indices: 860623--860652 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
860613 GTAGTAAATC
860623 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
860653 CTAATTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:861706 original size:38 final size:38
Alignment explanation
Indices: 861618--861712 Score: 145
Period size: 38 Copynumber: 2.5 Consensus size: 38
861608 AGGGATTATC
861618 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGGAACAT
1 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGGAACAT
** * * *
861656 AGTGGTTTTTCGGAACAATCAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGGAACAT
861694 AGTGGTCCTTCGGGACAAA
1 AGTGGTCCTTCGGGACAAA
861713 TATTCAGTGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (38 bp):
AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGGAACAT
Found at i:861707 original size:18 final size:18
Alignment explanation
Indices: 861618--861710 Score: 105
Period size: 18 Copynumber: 4.9 Consensus size: 18
861608 AGGGATTATC
*
861618 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
*
861638 AGTGGTCCTTCGGAACAT
1 AGTGGTCCTTCGGGACAT
** *
861656 AGTGGTTTTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
861675 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
861694 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
861711 AATATTCAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
18 32 0.50
19 4 0.06
20 28 0.44
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:869878 original size:21 final size:18
Alignment explanation
Indices: 869839--869878 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
869829 TATAATTTCA
869839 TATCTTATATTTTAAGTT
1 TATCTTATATTTTAAGTT
869857 TATCTTCATCATTTTCAAGTT
1 TATCTT-AT-ATTTT-AAGTT
869878 T
1 T
869879 TAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 5 0.26
21 6 0.32
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.57
Consensus pattern (18 bp):
TATCTTATATTTTAAGTT
Found at i:875852 original size:34 final size:34
Alignment explanation
Indices: 875814--875896 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
875804 ACTTAGTTTG
* * * *
875814 ATTGAAAGTATGAAGTTTATTCTATTTTATGTTA
1 ATTGAAAGTAGGAAATCTATTATATTTTATGTTA
* *
875848 ATTGAAAGTCGGAAATCTATTATATTTTATGTTG
1 ATTGAAAGTAGGAAATCTATTATATTTTATGTTA
*
875882 ATTGAAAGTAAGAAA
1 ATTGAAAGTAGGAAA
875897 CATAGTTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (34 bp):
ATTGAAAGTAGGAAATCTATTATATTTTATGTTA
Found at i:876779 original size:20 final size:21
Alignment explanation
Indices: 876754--876846 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
876744 TTTTCCCAAT
*
876754 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
876774 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
* *
876795 TCGCAATGTGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
876815 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
876836 TCGCAATGCGA
1 TCGCAATGCGA
876847 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:876799 original size:41 final size:41
Alignment explanation
Indices: 876754--876846 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
876744 TTTTCCCAAT
876754 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
876795 TCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
876836 TCGCAATGCGA
1 TCGCAATGCGA
876847 TACTGACTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:876877 original size:41 final size:41
Alignment explanation
Indices: 876832--876969 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
876822 GCGAATTGGG
* * * *
876832 AAAATCGCAATGCGATACTGACTATCACAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
876873 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
876915 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
876954 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
876970 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.40
41 43 0.55
42 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:876902 original size:20 final size:20
Alignment explanation
Indices: 876877--876949 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
876867 TAATACAAAA
* *
876877 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
876897 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
876917 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
876937 TCGCAACGCGATA
1 TCGCAACGCGATA
876950 ATACATAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:877165 original size:22 final size:22
Alignment explanation
Indices: 877137--877180 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
877127 CACTCTCTCA
877137 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
877159 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
877181 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:877497 original size:20 final size:20
Alignment explanation
Indices: 877443--877501 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
877433 GCGATTATCT
**
877443 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
877463 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
877483 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
877502 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:878841 original size:18 final size:18
Alignment explanation
Indices: 878820--878864 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
878810 TCCACTTCGG
* *
878820 GAGCCATCACCTCGCCTA
1 GAGCCATCACCTCACCCA
*
878838 GAGCAATCACCTCACCCA
1 GAGCCATCACCTCACCCA
878856 GAGCCATCA
1 GAGCCATCA
878865 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.42, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:879371 original size:20 final size:20
Alignment explanation
Indices: 879346--879391 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
879336 TAGTTTACTT
879346 TCGCAACACGAAAAT-GACTA
1 TCGCAACACGAAAATAG-CTA
* *
879366 TCGCAACGCGGAAATAGCTA
1 TCGCAACACGAAAATAGCTA
879386 TCGCAA
1 TCGCAA
879392 TGCGAAATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATAGCTA
Found at i:879407 original size:19 final size:17
Alignment explanation
Indices: 879385--879480 Score: 69
Period size: 19 Copynumber: 5.7 Consensus size: 17
879375 GGAAATAGCT
879385 ATCGCAATGCGAAATGGAA
1 ATCGCAATGCGAAAT--AA
*
879404 ATCGCAA--CGACA-AA
1 ATCGCAATGCGAAATAA
879418 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAAT-AA
*
879436 ATCGCAA--CGACA-AA
1 ATCGCAATGCGAAATAA
*
879450 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAAT--AA
*
879469 ATCACAATGCGA
1 ATCGCAATGCGA
879481 TTTGTGTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 18 0.29
16 12 0.19
17 4 0.06
18 9 0.15
19 19 0.31
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (17 bp):
ATCGCAATGCGAAATAA
Found at i:879421 original size:14 final size:14
Alignment explanation
Indices: 879402--879458 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
879392 TGCGAAATGG
879402 AAATCGCAACGACA
1 AAATCGCAACGACA
*
879416 AAATCGCAATGCGAAA
1 AAATCGCAA--CGACA
879432 TGAAATCGCAACGACA
1 --AAATCGCAACGACA
879448 AAATCGCAACG
1 AAATCGCAACG
879459 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.11
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:879442 original size:32 final size:32
Alignment explanation
Indices: 879385--879468 Score: 150
Period size: 32 Copynumber: 2.6 Consensus size: 32
879375 GGAAATAGCT
879385 ATCGCAATGCGAAATGGAAATCGCAACGACAAA
1 ATCGCAATGCGAAAT-GAAATCGCAACGACAAA
879418 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
*
879450 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
879469 ATCACAATGC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 35 0.70
33 15 0.30
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:879511 original size:14 final size:14
Alignment explanation
Indices: 879492--879549 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
879482 TTGTGTTTCG
879492 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
879506 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
879522 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
879538 CGTTGCGATTTT
1 CGTTGCGATTTT
879550 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:879526 original size:32 final size:33
Alignment explanation
Indices: 879487--879557 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 33
879477 GCGATTTGTG
879487 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
879519 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
879552 TTTCGC
1 TTTCGC
879558 ATTACGATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 27 0.71
33 11 0.29
ACGTcount: A:0.08, C:0.20, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Done.