Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002772.1 Hibiscus syriacus cultivar Beakdansim tig00005712_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: 622842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 3 of 3
Found at i:517909 original size:2 final size:2
Alignment explanation
Indices: 517902--517933 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
517892 CAAATCTAAC
517902 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
517934 AAAGCAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:520679 original size:16 final size:16
Alignment explanation
Indices: 520658--520691 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
520648 TCAACTTTAT
520658 CGGTCGACGGATACGA
1 CGGTCGACGGATACGA
520674 CGGTCGACGGATACGA
1 CGGTCGACGGATACGA
520690 CG
1 CG
520692 ATTAACGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.38, T:0.12
Consensus pattern (16 bp):
CGGTCGACGGATACGA
Found at i:523617 original size:10 final size:11
Alignment explanation
Indices: 523600--523627 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
523590 GACCAAACAA
523600 CAAAAAAATGT
1 CAAAAAAATGT
523611 CAAAAAAATGT
1 CAAAAAAATGT
523622 CAAAAA
1 CAAAAA
523628 GAATAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.11, G:0.07, T:0.14
Consensus pattern (11 bp):
CAAAAAAATGT
Found at i:523644 original size:22 final size:23
Alignment explanation
Indices: 523619--523668 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
523609 GTCAAAAAAA
523619 TGTCAAAAAGA-ATAA-GAAAACG
1 TGTCAAAAAGACA-AATGAAAACG
*
523641 TGTCATAAAGACAAATGAAAACG
1 TGTCAAAAAGACAAATGAAAACG
523664 TGTCA
1 TGTCA
523669 TACAAGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (23 bp):
TGTCAAAAAGACAAATGAAAACG
Found at i:526687 original size:26 final size:28
Alignment explanation
Indices: 526608--526688 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 28
526598 GGACGAGGAC
526608 AAGATTTATTATTATTTTGAATAATCA-A
1 AAGATTTATTATTATTTTGAATAAT-ATA
*
526636 AA-ATTGT-TT-GTATTTTGAATAGATATA
1 AAGATT-TATTATTATTTTGAATA-ATATA
526663 AAGATTTATTATTATTTT-AA-AATATA
1 AAGATTTATTATTATTTTGAATAATATA
526689 TATATATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
26 17 0.38
27 12 0.27
28 10 0.22
29 6 0.13
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (28 bp):
AAGATTTATTATTATTTTGAATAATATA
Found at i:526919 original size:21 final size:21
Alignment explanation
Indices: 526895--526969 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
526885 ATTCTGACTA
*
526895 TCGCATTGTGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
526916 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
* ** *
526937 TCGCAATGCGATAGTCCAAAA
1 TCGCATTGCGATTTTCCAAAT
526958 TCGCATTGCGAT
1 TCGCATTGCGAT
526970 AGCACTGTTC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:526987 original size:21 final size:21
Alignment explanation
Indices: 526963--527065 Score: 161
Period size: 21 Copynumber: 4.9 Consensus size: 21
526953 CAAAATCGCA
526963 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
526984 TTGCGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
527005 TTGTGATAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
* *
527026 TTACGGTAGCACTGTTCACCG
1 TTGCGATAGCACTGTTCACCG
* *
527047 TTACGGTAGCACTGTTCAC
1 TTGCGATAGCACTGTTCAC
527066 ATTGCGAATT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.30
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:527778 original size:21 final size:21
Alignment explanation
Indices: 527744--527832 Score: 115
Period size: 21 Copynumber: 4.2 Consensus size: 21
527734 ATTTTGATCA
* *
527744 CTATCTCAATGGTAAACAGTG
1 CTATCGCAACGGTAAACAGTG
*
527765 CTATCGCAACGGTAAATAGTG
1 CTATCGCAACGGTAAACAGTG
* * *
527786 TTATCGCAACGATGAACAGTG
1 CTATCGCAACGGTAAACAGTG
*
527807 CTATCGCAACGGTGAACAGTG
1 CTATCGCAACGGTAAACAGTG
527828 CTATC
1 CTATC
527833 ACAATGCGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (21 bp):
CTATCGCAACGGTAAACAGTG
Found at i:527852 original size:21 final size:21
Alignment explanation
Indices: 527828--527884 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
527818 GTGAACAGTG
*
527828 CTATCACAATGCGATTTTGGA
1 CTATCGCAATGCGATTTTGGA
* *
527849 CTATCGCATTGCGAATTTGGA
1 CTATCGCAATGCGATTTTGGA
**
527870 AAATCGCAATGCGAT
1 CTATCGCAATGCGAT
527885 AGTCAGAATC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (21 bp):
CTATCGCAATGCGATTTTGGA
Found at i:531759 original size:21 final size:21
Alignment explanation
Indices: 531735--531789 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
531725 ATACTTAAAT
531735 GGACTTACATGGATTTAAGGA
1 GGACTTACATGGATTTAAGGA
* *
531756 GGACTTGCATAGATTTAAGGA
1 GGACTTACATGGATTTAAGGA
*
531777 GAACTTACATGGA
1 GGACTTACATGGA
531790 CTTTCTGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (21 bp):
GGACTTACATGGATTTAAGGA
Found at i:534414 original size:27 final size:24
Alignment explanation
Indices: 534362--534414 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
534352 GTCGGAAGAG
*
534362 GATGTTGTCAGTCGAAAGTCAGTT
1 GATGTTGTCAGTCGAAAGTCAATT
534386 GATGTTGTCAGTGCTGGAAAGTCAATT
1 GATGTTGTCAGT-C--GAAAGTCAATT
534413 GA
1 GA
534415 GAGTAGAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 12 0.48
25 1 0.04
27 12 0.48
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.32
Consensus pattern (24 bp):
GATGTTGTCAGTCGAAAGTCAATT
Found at i:543305 original size:29 final size:30
Alignment explanation
Indices: 543246--543306 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
543236 CATTTTGAGT
* *
543246 AACGGAATGAAACATTAGGCATCAAATTAA
1 AACGAAATGAAACATTAGGCATCAAACTAA
*
543276 AACGAAAT-AAACGTTAGGCA-CAAAACTAA
1 AACGAAATGAAACATTAGGCATC-AAACTAA
543305 AA
1 AA
543307 AAACGGGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.04
29 19 0.70
30 7 0.26
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.16
Consensus pattern (30 bp):
AACGAAATGAAACATTAGGCATCAAACTAA
Found at i:544950 original size:22 final size:22
Alignment explanation
Indices: 544925--544972 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
544915 GCTGCATTGG
* *
544925 CCAAAAATGAAAAAGCAGTGAA
1 CCAAAAATGAAAAAACAGCGAA
**
544947 CC-AAGTTGAAAAAACAGCGAA
1 CCAAAAATGAAAAAACAGCGAA
544968 CCAAA
1 CCAAA
544973 GCGAGGAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.56, C:0.19, G:0.17, T:0.08
Consensus pattern (22 bp):
CCAAAAATGAAAAAACAGCGAA
Found at i:544956 original size:21 final size:21
Alignment explanation
Indices: 544932--544971 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
544922 TGGCCAAAAA
* *
544932 TGAAAAAGCAGTGAACCAAGT
1 TGAAAAAACAGCGAACCAAGT
544953 TGAAAAAACAGCGAACCAA
1 TGAAAAAACAGCGAACCAA
544972 AGCGAGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.17, G:0.20, T:0.10
Consensus pattern (21 bp):
TGAAAAAACAGCGAACCAAGT
Found at i:553088 original size:29 final size:28
Alignment explanation
Indices: 553018--553168 Score: 135
Period size: 29 Copynumber: 5.1 Consensus size: 28
553008 CATTTTACAG
* * *
553018 AAATAACACCCTTTTTAAAATAATTACCA
1 AAATAGCACCCTTTTTGAATTAATT-CCA
553047 AAATAGCACCCTTTTTTGAATTAATTCTCA
1 AAATAGCACCC-TTTTTGAATTAATTC-CA
*
553077 AAATAGCA-CCTTGTTCGAATTAAATTCCCA
1 AAATAGCACCCTT-TTTGAATT-AATT-CCA
* * *
553107 AAATAACA-CATTTTCGAATTAAATTCCTA
1 AAATAGCACCCTTTTTGAATT-AATTCC-A
*
553136 AAATAGCACCCATTTTGAATTAATTCCCA
1 AAATAGCACCCTTTTTGAATTAATT-CCA
553165 AAAT
1 AAAT
553169 GTTACTCGGT
Statistics
Matches: 104, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.04
29 50 0.48
30 49 0.47
31 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (28 bp):
AAATAGCACCCTTTTTGAATTAATTCCA
Found at i:560333 original size:29 final size:29
Alignment explanation
Indices: 560291--560353 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
560281 CATTTTATAG
*
560291 AAATAGCACCCTTTTTAAAATAATTACCA
1 AAATAGCACCCTTTTCAAAATAATTACCA
* * *
560320 AAATAGCACCCTTTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTCAAAATAATTACCA
560349 AAATA
1 AAATA
560354 ATACTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (29 bp):
AAATAGCACCCTTTTCAAAATAATTACCA
Found at i:560382 original size:59 final size:58
Alignment explanation
Indices: 560311--560440 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 58
560301 CTTTTTAAAA
* * * * * * **
560311 TAATTACCAAAATAGCACCCTTTTCGAATT-AATTCCCAAAATAATACTTTTTTTTAAT
1 TAATTCCCAAAATAACA-CATTTTCGAATTAAATTCCCAAAATAACACCTATTTCAAAT
560369 TAAATTCCCAAAATAACACATTTTCGAATTAAATTCCCAAAATAACACCTATTTCAAAT
1 T-AATTCCCAAAATAACACATTTTCGAATTAAATTCCCAAAATAACACCTATTTCAAAT
560428 TAATTCCCAAAAT
1 TAATTCCCAAAAT
560441 GTCACCCGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 24 0.39
59 38 0.61
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (58 bp):
TAATTCCCAAAATAACACATTTTCGAATTAAATTCCCAAAATAACACCTATTTCAAAT
Found at i:560446 original size:29 final size:29
Alignment explanation
Indices: 560312--560440 Score: 136
Period size: 29 Copynumber: 4.4 Consensus size: 29
560302 TTTTTAAAAT
* * *
560312 AATTACCAAAATAGCACCCTTTTCGAATT-
1 AATTCCCAAAATAACA-CCTTTTCAAATTA
* * **
560341 AATTCCCAAAATAATACTTTTTTTTAATTA
1 AATTCCCAAAATAACAC-CTTTTCAAATTA
* *
560371 AATTCCCAAAATAACACATTTTCGAATTA
1 AATTCCCAAAATAACACCTTTTCAAATTA
560400 AATTCCCAAAATAACACCTATTTCAAATT-
1 AATTCCCAAAATAACACCT-TTTCAAATTA
560429 AATTCCCAAAAT
1 AATTCCCAAAAT
560441 GTCACCCGGT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
28 1 0.01
29 60 0.71
30 24 0.28
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (29 bp):
AATTCCCAAAATAACACCTTTTCAAATTA
Found at i:567185 original size:6 final size:6
Alignment explanation
Indices: 567174--567216 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
567164 GCTAATAAGA
* *
567174 GAGAGG GAGAGG GAGAGGG AGAGAGG GAGGGG GAGAGA GAGAG
1 GAGAGG GAGAGG GAGA-GG -GAGAGG GAGAGG GAGAGG GAGAG
567217 TAGGCATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 24 0.75
7 4 0.12
8 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:567197 original size:14 final size:14
Alignment explanation
Indices: 567180--567212 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
567170 AAGAGAGAGG
567180 GAGAGGGAGAGGGA
1 GAGAGGGAGAGGGA
*
567194 GAGAGGGAGGGGGA
1 GAGAGGGAGAGGGA
567208 GAGAG
1 GAGAG
567213 AGAGTAGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (14 bp):
GAGAGGGAGAGGGA
Found at i:567197 original size:20 final size:20
Alignment explanation
Indices: 567171--567216 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
567161 TTTGCTAATA
567171 AGAGAGAGGGAGAGGGAGAG
1 AGAGAGAGGGAGAGGGAGAG
* *
567191 GGAGAGAGGGAGGGGGAGAG
1 AGAGAGAGGGAGAGGGAGAG
567211 AGAGAG
1 AGAGAG
567217 TAGGCATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (20 bp):
AGAGAGAGGGAGAGGGAGAG
Found at i:567383 original size:39 final size:42
Alignment explanation
Indices: 567301--567384 Score: 120
Period size: 45 Copynumber: 2.0 Consensus size: 42
567291 AAAATAAATG
567301 TCAACATAAAACAATAGGAAGTGTAGTGAAATATACGAGTGAAAC
1 TCAACATAAAACAATAGGAAG-GTAGT--AATATACGAGTGAAAC
567346 TCAACATAAAACAATAGGAA-GTA-T-ATATACGAGTGAAAC
1 TCAACATAAAACAATAGGAAGGTAGTAATATACGAGTGAAAC
567385 CGTGTCTACC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
39 15 0.38
42 1 0.03
43 3 0.08
45 20 0.51
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (42 bp):
TCAACATAAAACAATAGGAAGGTAGTAATATACGAGTGAAAC
Found at i:572276 original size:2 final size:2
Alignment explanation
Indices: 572269--572295 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
572259 CTGTTCATTC
572269 CT 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 CT C
572296 CCAAGCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:574066 original size:23 final size:23
Alignment explanation
Indices: 574040--574084 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
574030 AAAAAATGAT
574040 TAAACTGATGAAATTT-TTAAATA
1 TAAA-TGATGAAATTTATTAAATA
* *
574063 TAAATGATTAATTTTATTAAAT
1 TAAATGATGAAATTTATTAAAT
574085 TGTTTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (23 bp):
TAAATGATGAAATTTATTAAATA
Found at i:575617 original size:34 final size:36
Alignment explanation
Indices: 575542--575617 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
575532 TCCGAAATAT
* * *
575542 ATAAGCAATAAATAGAAACTCTCTCTTATTCGTCGAT
1 ATAAGCAATAAATAG-AACTCTCTCTTAATCGTCAAA
575579 ATAAGCAATAAATAG-ACTAC-CT-TTAATCGTCAAA
1 ATAAGCAATAAATAGAACT-CTCTCTTAATCGTCAAA
575613 ATAAG
1 ATAAG
575618 ATATCTTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 14 0.40
35 5 0.14
36 1 0.03
37 15 0.43
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (36 bp):
ATAAGCAATAAATAGAACTCTCTCTTAATCGTCAAA
Found at i:579025 original size:2 final size:2
Alignment explanation
Indices: 579018--579049 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
579008 GTAGTTATTA
579018 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
579050 GCGGATAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:579075 original size:8 final size:8
Alignment explanation
Indices: 579059--579092 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
579049 TGCGGATAAG
579059 TAATTAAA
1 TAATTAAA
*
579067 TAGTTAAA
1 TAATTAAA
579075 TAATTAAA
1 TAATTAAA
579083 TAATTAAA
1 TAATTAAA
579091 TA
1 TA
579093 TATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:592562 original size:28 final size:26
Alignment explanation
Indices: 592517--592568 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
592507 TGCTTGAAGA
*
592517 AAAAAAAGAAGAAGAAAAAATGAGTG
1 AAAAAAAGAAGAACAAAAAATGAGTG
*
592543 AAAAAAAGAGAGAAACAAAAGATGAG
1 AAAAAAAGA-AG-AACAAAAAATGAG
592569 GGTTCAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 2 0.09
28 11 0.50
ACGTcount: A:0.69, C:0.02, G:0.23, T:0.06
Consensus pattern (26 bp):
AAAAAAAGAAGAACAAAAAATGAGTG
Found at i:592563 original size:13 final size:12
Alignment explanation
Indices: 592517--592564 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
592507 TGCTTGAAGA
592517 AAAAAAAGAAGAAG
1 AAAAAAAG-AG-AG
* *
592531 AAAAAATGAGTG
1 AAAAAAAGAGAG
592543 AAAAAAAGAGAG
1 AAAAAAAGAGAG
592555 AAACAAAAGA
1 AAA-AAAAGA
592565 TGAGGGTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 14 0.48
13 8 0.28
14 7 0.24
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (12 bp):
AAAAAAAGAGAG
Found at i:593641 original size:55 final size:55
Alignment explanation
Indices: 593565--594360 Score: 1398
Period size: 55 Copynumber: 14.5 Consensus size: 55
593555 CAACGATTGA
* *
593565 TGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAAGGGGCAGACGCGATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
593618 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
*
593673 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
*
593728 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
* *
593783 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
*
593838 TAAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
* * *
593893 TAAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATCAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
*
593948 TAAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
*
594003 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
* *
594058 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
*
594113 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
594168 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
* *
594223 TGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
*
594278 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
* *
594333 TAAAGATTTTTCGAGTCTTATACTCTCT
1 TGAAGATTGTTCGAGTCTTATACTCTCT
594361 AAAGGACTAT
Statistics
Matches: 710, Mismatches: 31, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
53 9 0.01
54 1 0.00
55 700 0.99
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
Found at i:594465 original size:61 final size:61
Alignment explanation
Indices: 594370--594492 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
594360 TAAAGGACTA
*
594370 TGGAGGTTTTTGAAAATGTTCGAGTTCTATTCTCCTGGAGAAAGAGAGAGTGAACCCATTT
1 TGGAGGTTTTTGAAAATGTTCGAGTTCTATTCTCCTGGAGAAAGAGAGAGCGAACCCATTT
* *
594431 TGGAGGTTTTTGAAAATGTTCGAGTTCTATTCTCCTGGAGAAAGAGGGAGCGAACCCGTTT
1 TGGAGGTTTTTGAAAATGTTCGAGTTCTATTCTCCTGGAGAAAGAGAGAGCGAACCCATTT
594492 T
1 T
594493 CAGAAGATTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (61 bp):
TGGAGGTTTTTGAAAATGTTCGAGTTCTATTCTCCTGGAGAAAGAGAGAGCGAACCCATTT
Found at i:594748 original size:2 final size:2
Alignment explanation
Indices: 594741--594770 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
594731 GTAGTTATTA
594741 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
594771 GCAGATAAGT
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:594796 original size:8 final size:8
Alignment explanation
Indices: 594780--594813 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
594770 TGCAGATAAG
594780 TAATTAAA
1 TAATTAAA
*
594788 TAGTTAAA
1 TAATTAAA
594796 TAATTAAA
1 TAATTAAA
594804 TAATTAAA
1 TAATTAAA
594812 TA
1 TA
594814 TATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:601018 original size:18 final size:18
Alignment explanation
Indices: 600995--601030 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
600985 CAGTGAACAT
600995 CTGATCAAACCTGTACCA
1 CTGATCAAACCTGTACCA
601013 CTGATCAAACCTGTACCA
1 CTGATCAAACCTGTACCA
601031 GCAATCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.11, T:0.22
Consensus pattern (18 bp):
CTGATCAAACCTGTACCA
Found at i:601037 original size:18 final size:18
Alignment explanation
Indices: 600998--601039 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
600988 TGAACATCTG
*
600998 ATCAAACCTGTACCACTG
1 ATCAAACCTGTACCACTA
601016 ATCAAACCTGTACCAGC-A
1 ATCAAACCTGTACCA-CTA
601034 ATCAAA
1 ATCAAA
601040 AATCAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.19
Consensus pattern (18 bp):
ATCAAACCTGTACCACTA
Found at i:603493 original size:11 final size:11
Alignment explanation
Indices: 603479--603505 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
603469 ATGATCCATG
603479 CAACTTTCTTA
1 CAACTTTCTTA
603490 CAACTTTCTTA
1 CAACTTTCTTA
603501 CAACT
1 CAACT
603506 CCCATATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (11 bp):
CAACTTTCTTA
Found at i:604117 original size:15 final size:14
Alignment explanation
Indices: 604086--604120 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
604076 ACAACATGTG
604086 ATAAGAAAAAAAAA
1 ATAAGAAAAAAAAA
*
604100 ATAAGAAATAAGAAA
1 ATAAGAAA-AAAAAA
604115 ATAAGA
1 ATAAGA
604121 CCCAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (14 bp):
ATAAGAAAAAAAAA
Found at i:604363 original size:22 final size:21
Alignment explanation
Indices: 604329--604372 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
604319 GAGAGAGAGG
*
604329 GAAAAATATATAATAATAATA
1 GAAAAATAAATAATAATAATA
*
604350 GAAAAATTAAATAATAATTATA
1 GAAAAA-TAAATAATAATAATA
604372 G
1 G
604373 TAATACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
GAAAAATAAATAATAATAATA
Found at i:604364 original size:19 final size:21
Alignment explanation
Indices: 604329--604367 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
604319 GAGAGAGAGG
604329 GAAAAATATATAATAATAATA
1 GAAAAATATATAATAATAATA
604350 GAAAAAT-TA-AATAATAAT
1 GAAAAATATATAATAATAAT
604368 TATAGTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (21 bp):
GAAAAATATATAATAATAATA
Found at i:606694 original size:211 final size:210
Alignment explanation
Indices: 606361--607031 Score: 1112
Period size: 211 Copynumber: 3.2 Consensus size: 210
606351 GTATTGTTCA
* * * * * * *
606361 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATT-ATTGTTGACAA
* * * * * *
606426 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTT--GTGCTGTCTTGAGTCCAATATCCTTCGCTGTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGT-C-GTCTGGAGTCCAATATCCTTCGTTGTG
* * * *
606489 AAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
128 AAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAA
*
606554 GTTGAACTTACGTCGTCTG
192 GTTGAACTTACGTTGTCTG
606573 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTGTTGACAAC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTGTTGACAAC
606638 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTGGAGTCCAATATCCTTCGTTGTGAAG
606703 TTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
131 TTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
606768 AACTTACGTTGTCTG
196 AACTTACGTTGTCTG
606783 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTA-TTGTTGACAA
606848 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTGGAGTCCAATATCCTTCGTTGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTGGAGTCCAATATCCTTCGTTGTGAA
606913 GTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
130 GTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
606978 GAACTTACGTTGTCTG
195 GAACTTACGTTGTCTG
*
606994 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
607032 TGGGTAAAAC
Statistics
Matches: 437, Mismatches: 19, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
210 105 0.24
211 281 0.64
212 49 0.11
213 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (210 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTACGTTGTCTG
Found at i:606995 original size:316 final size:317
Alignment explanation
Indices: 606361--607033 Score: 1152
Period size: 316 Copynumber: 2.1 Consensus size: 317
606351 GTATTGTTCA
* * * * *
606361 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATTGTTCGTTGACAA
* * ** *
606426 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCCGCCCCTTCGTCGTGAAGTTGAACTTACGCTGTCTGGAGTCCAATATCCTTCGCTGTGAA
606491 GTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
606556 TGAACTTACGTCGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
196 TGAACTTACGTCGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGAG
*
606621 AAATTATTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
261 AAATTATCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
*
606678 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATTGTTCGTTGACAA
* * *
606742 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCCGCCCCTTCGTCGTGAAGTTGAACTTACGCTGTCTGGAGTCCAATATCCTTCGCTGTGAA
606807 GTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
606872 TGAACTTACGTCGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
196 TGAACTTACGTCGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGAG
*
606937 AAATGT-TCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
261 AAAT-TATCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
606994 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
607034 GGTAAAACCT
Statistics
Matches: 336, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
316 288 0.86
317 48 0.14
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (317 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAACTGAGAAATTGTTCGTTGACAA
CCAGCCGCCCCTTCGTCGTGAAGTTGAACTTACGCTGTCTGGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
TGAACTTACGTCGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGAG
AAATTATCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
Found at i:607032 original size:105 final size:106
Alignment explanation
Indices: 606361--607033 Score: 1077
Period size: 105 Copynumber: 6.4 Consensus size: 106
606351 GTATTGTTCA
* * * *
606361 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * *
606426 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTT--GTGCTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGT-C-GTCTG
* * *
606467 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
606532 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
* * *
606573 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATT-ATTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
606637 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
* *
606678 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
606742 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
* * *
606783 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
606848 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
* *
606889 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
606953 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
606994 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
607034 GGTAAAACCT
Statistics
Matches: 532, Mismatches: 31, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
104 1 0.00
105 287 0.54
106 241 0.45
107 1 0.00
108 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTCGTCTG
Found at i:622209 original size:2 final size:2
Alignment explanation
Indices: 622202--622266 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
622192 CTTTACCCTA
622202 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
622243 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
622267 CGTTTTCTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Done.