Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 65
Found at i:3568867 original size:21 final size:21
Alignment explanation
Indices: 3568820--3568859 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3568810 GGAAGCAAAG
3568820 AGAGCAGCAGCAGAAGCAGCT
1 AGAGCAGCAGCAGAAGCAGCT
*
3568841 AGAGCAGCAGTAGAAGCAG
1 AGAGCAGCAGCAGAAGCAG
3568860 TGGCAGCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.35, T:0.05
Consensus pattern (21 bp):
AGAGCAGCAGCAGAAGCAGCT
Found at i:3568896 original size:21 final size:21
Alignment explanation
Indices: 3568856--3568896 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3568846 AGCAGTAGAA
* *
3568856 GCAGTGGCAGCACACAGAGAG
1 GCAGCGGCAGAACACAGAGAG
*
3568877 GCAGCGGCAGAACAGAGAGA
1 GCAGCGGCAGAACACAGAGA
3568897 AGTAATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.22, G:0.39, T:0.02
Consensus pattern (21 bp):
GCAGCGGCAGAACACAGAGAG
Found at i:3569284 original size:43 final size:42
Alignment explanation
Indices: 3569237--3569419 Score: 108
Period size: 43 Copynumber: 4.2 Consensus size: 42
3569227 CATACATTTA
3569237 GCGGCGTTTGTGATAAAAACGCCGCAAAATCTCAAGACATATT
1 GCGGCGTTTGTGATAAAAACGCCGCAAAA-CTCAAGACATATT
* * ** *
3569280 GCGGCGTTT-TCGATGAAAATGATGCTAAATCTCAAGACATATTCT
1 GCGGCGTTTGT-GATAAAAACGCCGC-AAAACTCAAGACATA-T-T
* * * * *
3569325 GCGACGTTTGT-AGGAAAAACGCCGGTAAAAAT-AA-ACATCTACT
1 GCGGCGTTTGTGA-TAAAAACGCC-GCAAAACTCAAGACA--TATT
* *
3569368 GCGGCGTTTGTGA-AGAAAACGCCGCTAAACATCAACG-CCTATT
1 GCGGCGTTTGTGATA-AAAACGCCGCAAAAC-TCAA-GACATATT
3569411 GCGGCGTTT
1 GCGGCGTTT
3569420 ATCTGCCAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
42 6 0.06
43 65 0.62
44 10 0.10
45 21 0.20
46 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (42 bp):
GCGGCGTTTGTGATAAAAACGCCGCAAAACTCAAGACATATT
Found at i:3569445 original size:43 final size:43
Alignment explanation
Indices: 3569383--3569505 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 43
3569373 GTTTGTGAAG
* *
3569383 AAAACGCCGCTAAACATCAACGCCTATTGCGGCGTTTATCTGC
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTATCTGC
* * * *
3569426 CAAATGCCGTTAAATATCAACACCTATTGCGGCGTTTTTCTGC
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTATCTGC
* * *
3569469 AAAACGCCGCTAAATATCAATACCTTTTGCGGTGTTT
1 AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTT
3569506 GTAACGCCGC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
AAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTATCTGC
Found at i:3570828 original size:33 final size:33
Alignment explanation
Indices: 3570786--3570863 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
3570776 CCTTGAGGTG
3570786 CGAGGCGCATGAAAGGCGCGGGATTCACGAAGC
1 CGAGGCGCATGAAAGGCGCGGGATTCACGAAGC
*
3570819 CGAGGCGCATGAAAGGCGCGGGATTCACGAAGG
1 CGAGGCGCATGAAAGGCGCGGGATTCACGAAGC
3570852 CGAGGCGCATGA
1 CGAGGCGCATGA
3570864 TATCTAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.41, T:0.09
Consensus pattern (33 bp):
CGAGGCGCATGAAAGGCGCGGGATTCACGAAGC
Found at i:3571940 original size:2 final size:2
Alignment explanation
Indices: 3571933--3571959 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3571923 TTATTGGTCG
3571933 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 A
3571960 CCTTTATTGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3575034 original size:20 final size:20
Alignment explanation
Indices: 3575003--3575057 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
3574993 ACTCGAGTAA
*
3575003 CGATACTGGATGAACAATAT
1 CGATAATGGATGAACAATAT
* *
3575023 CGATAATTGATGAACAGTAT
1 CGATAATGGATGAACAATAT
3575043 CGATAATGGATGAAC
1 CGATAATGGATGAAC
3575058 TAAGATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (20 bp):
CGATAATGGATGAACAATAT
Found at i:3577949 original size:15 final size:15
Alignment explanation
Indices: 3577899--3577951 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
3577889 TTTAAAAAAG
*
3577899 GAAAAAGTTAAATTTT
1 GAAAAAGGT-AATTTT
*
3577915 GAAAAACGG-AAATTT
1 GAAAAA-GGTAATTTT
3577930 G-AAAAGGTAATTTT
1 GAAAAAGGTAATTTT
3577944 GAAAAAGG
1 GAAAAAGG
3577952 AAAATTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 2 0.06
14 10 0.32
15 12 0.39
16 6 0.19
17 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.21, T:0.26
Consensus pattern (15 bp):
GAAAAAGGTAATTTT
Found at i:3578085 original size:28 final size:28
Alignment explanation
Indices: 3578014--3578119 Score: 117
Period size: 28 Copynumber: 3.8 Consensus size: 28
3578004 GGGGGGGGAA
* * *
3578014 GAAATTTTACACAA-TAATTCTGAAACAC
1 GAAATTTTA-AAAATTAATTCTTAAACAG
3578042 G-AATTTTAAAAATTAATTCTTAAACAG
1 GAAATTTTAAAAATTAATTCTTAAACAG
* ** *
3578069 GAAATTTTAAAAGTTAATTCCAAAATAG
1 GAAATTTTAAAAATTAATTCTTAAACAG
*
3578097 GAAATTTTAAAAATCAATTCTTA
1 GAAATTTTAAAAATTAATTCTTA
3578120 CTGATTAGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.05
27 20 0.31
28 42 0.65
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (28 bp):
GAAATTTTAAAAATTAATTCTTAAACAG
Found at i:3578523 original size:28 final size:29
Alignment explanation
Indices: 3578481--3578743 Score: 181
Period size: 28 Copynumber: 9.3 Consensus size: 29
3578471 AAAATAAAAG
3578481 AATTAATTCCGAAACAGGA-ATTCTTAAA
1 AATTAATTCCGAAACAGGATATTCTTAAA
* * *
3578509 AACTAACTT-GGAAACATGATATT-TTAAA
1 AATTAA-TTCCGAAACAGGATATTCTTAAA
** *
3578537 AATTAATTCAAAAACAGAATA-TCTTAAA
1 AATTAATTCCGAAACAGGATATTCTTAAA
** * *
3578565 AATTAATTCCGAAGTAGGACATTTTTAAA
1 AATTAATTCCGAAACAGGATATTCTTAAA
* *
3578594 TATTAATTCCGAAACAGGA-ACTCTTAAA
1 AATTAATTCCGAAACAGGATATTCTTAAA
* *
3578622 AATTAACTT-GGAAACAAGATATT-TTAAA
1 AATTAA-TTCCGAAACAGGATATTCTTAAA
* *
3578650 AATTAATT-CAAAATCATGATA-TCTTAAA
1 AATTAATTCCGAAA-CAGGATATTCTTAAA
* ** *
3578678 AATTAATCCCGAAGTAGGACATT-TTAAA
1 AATTAATTCCGAAACAGGATATTCTTAAA
* *** *
3578706 TATTAATAATG-AACTAGAATATT-TTAAA
1 AATTAATTCCGAAAC-AGGATATTCTTAAA
3578734 AATTAATTCC
1 AATTAATTCC
3578744 AGCAAAGACA
Statistics
Matches: 178, Mismatches: 45, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
27 10 0.06
28 133 0.75
29 35 0.20
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (29 bp):
AATTAATTCCGAAACAGGATATTCTTAAA
Found at i:3578563 original size:56 final size:57
Alignment explanation
Indices: 3578481--3578683 Score: 218
Period size: 56 Copynumber: 3.6 Consensus size: 57
3578471 AAAATAAAAG
** * *
3578481 AATTAATTCCGAAACAGGAAT-TCTTAAAAACTAACTTGGAAACATGATATTTTAAA
1 AATTAATTCAAAAACAGGAATATCTTAAAAATTAACTTGGAAACAAGATATTTTAAA
* ** * *
3578537 AATTAATTCAAAAACA-GAATATCTTAAAAATTAA-TTCCGAAGTAGGACATTTTTAAA
1 AATTAATTCAAAAACAGGAATATCTTAAAAATTAACTT-GGAAACAAGATA-TTTTAAA
* ** *
3578594 TATTAATTCCGAAACAGGAA-CTCTTAAAAATTAACTTGGAAACAAGATATTTTAAA
1 AATTAATTCAAAAACAGGAATATCTTAAAAATTAACTTGGAAACAAGATATTTTAAA
* *
3578650 AATTAATTCAAAATCATG-ATATCTTAAAAATTAA
1 AATTAATTCAAAAACAGGAATATCTTAAAAATTAA
3578684 TCCCGAAGTA
Statistics
Matches: 118, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
55 7 0.06
56 66 0.56
57 40 0.34
58 5 0.04
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (57 bp):
AATTAATTCAAAAACAGGAATATCTTAAAAATTAACTTGGAAACAAGATATTTTAAA
Found at i:3578680 original size:113 final size:112
Alignment explanation
Indices: 3578482--3578712 Score: 392
Period size: 113 Copynumber: 2.1 Consensus size: 112
3578472 AAATAAAAGA
* *
3578482 ATTAATTCCGAAACAGGAATTCTTAAAAACTAACTTGGAAACATGATATTTTAAAAATTAATTCA
1 ATTAATTCCGAAACAGGAACTCTTAAAAACTAACTTGGAAACAAGATATTTTAAAAATTAATTCA
*
3578547 AAAACAGAATATCTTAAAAATTAATTCCGAAGTAGGACATTTTTAAAT
66 AAAACAGAATATCTTAAAAATTAATCCCGAAGTAGGACA-TTTTAAAT
*
3578595 ATTAATTCCGAAACAGGAACTCTTAAAAATTAACTTGGAAACAAGATATTTTAAAAATTAATTCA
1 ATTAATTCCGAAACAGGAACTCTTAAAAACTAACTTGGAAACAAGATATTTTAAAAATTAATTCA
*
3578660 AAATCATG-ATATCTTAAAAATTAATCCCGAAGTAGGACATTTTAAAT
66 AAAACA-GAATATCTTAAAAATTAATCCCGAAGTAGGACATTTTAAAT
3578707 ATTAAT
1 ATTAAT
3578713 AATGAACTAG
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
112 14 0.12
113 97 0.87
114 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.32
Consensus pattern (112 bp):
ATTAATTCCGAAACAGGAACTCTTAAAAACTAACTTGGAAACAAGATATTTTAAAAATTAATTCA
AAAACAGAATATCTTAAAAATTAATCCCGAAGTAGGACATTTTAAAT
Found at i:3578794 original size:28 final size:27
Alignment explanation
Indices: 3578750--3578873 Score: 117
Period size: 28 Copynumber: 4.5 Consensus size: 27
3578740 TTCCAGCAAA
*
3578750 GACATTTTAAAATTAATTCTAAAATAG
1 GACATTTTATAATTAATTCTAAAATAG
3578777 TG-CATTTTCATAATTAATTCTAAAATAG
1 -GACATTTT-ATAATTAATTCTAAAATAG
* * **
3578805 GACATTTTAATAATTAGTTCTGAAAGCG
1 GACATTTT-ATAATTAATTCTAAAATAG
* *
3578833 GAGATTTTAATAATTAATTCCAAAAT-G
1 GACATTTT-ATAATTAATTCTAAAATAG
*
3578860 AACATTTTAATAAT
1 GACATTTT-ATAAT
3578874 CAGTTACAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
27 20 0.25
28 61 0.75
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (27 bp):
GACATTTTATAATTAATTCTAAAATAG
Found at i:3578810 original size:55 final size:55
Alignment explanation
Indices: 3578726--3578873 Score: 151
Period size: 56 Copynumber: 2.7 Consensus size: 55
3578716 GAACTAGAAT
* *
3578726 ATTTTAAAAATTAATTCCAGCAAA--GACATTTTAA-AATTAATTCTAAAATAGTG-C
1 ATTTTAATAATTAATTCCA--AAATGGACATTTTAATAATTAATTCTAAAAGAG-GAC
* * * * * *
3578780 ATTTTCATAATTAATTCTAAAATAGGACATTTTAATAATTAGTTCTGAAAGCGGAG
1 ATTTTAATAATTAATTCCAAAAT-GGACATTTTAATAATTAATTCTAAAAGAGGAC
*
3578836 ATTTTAATAATTAATTCCAAAATGAACATTTTAATAAT
1 ATTTTAATAATTAATTCCAAAATGGACATTTTAATAAT
3578874 CAGTTACAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
52 3 0.04
54 16 0.21
55 25 0.32
56 34 0.44
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (55 bp):
ATTTTAATAATTAATTCCAAAATGGACATTTTAATAATTAATTCTAAAAGAGGAC
Found at i:3578996 original size:29 final size:28
Alignment explanation
Indices: 3578964--3579096 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 28
3578954 CCCACCATAA
* *
3578964 GATAGTTTAATAATTAATTCGGAACACAG
1 GATA-TTTAATAATTAATTCGAAACACTG
* * ****
3578993 GATATTTTACTAATTAACTCCTGTCAC-G
1 GATA-TTTAATAATTAATTCGAAACACTG
* *
3579021 GATATTTCAATAATTAATTCTAAACATTG
1 GATATTT-AATAATTAATTCGAAACACTG
* *
3579050 GATATTTTAGTAATTAATTTGAAACACTG
1 GATA-TTTAATAATTAATTCGAAACACTG
3579079 GATATTTCAATAATTAAT
1 GATATTT-AATAATTAAT
3579097 ATCGTTGGAT
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
27 3 0.04
28 20 0.25
29 55 0.68
30 3 0.04
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (28 bp):
GATATTTAATAATTAATTCGAAACACTG
Found at i:3579035 original size:57 final size:57
Alignment explanation
Indices: 3578964--3579096 Score: 146
Period size: 57 Copynumber: 2.3 Consensus size: 57
3578954 CCCACCATAA
* *
3578964 GATAGTTT-AATAATTAATTCGGAACACAGGATATTTTACTAATTAACTCCTG-TCAC-G
1 GATA-TTTCAATAATTAATTCGAAACACAGGATATTTTACTAATTAA-T-CTGAACACTG
* ** * *
3579021 GATATTTCAATAATTAATTCTAAACATTGGATATTTTAGTAATTAATTTGAAACACTG
1 GATATTTCAATAATTAATTCGAAACACAGGATATTTTACTAATTAATCTG-AACACTG
3579079 GATATTTCAATAATTAAT
1 GATATTTCAATAATTAAT
3579097 ATCGTTGGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
55 2 0.03
56 4 0.06
57 40 0.62
58 19 0.29
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (57 bp):
GATATTTCAATAATTAATTCGAAACACAGGATATTTTACTAATTAATCTGAACACTG
Found at i:3579367 original size:21 final size:21
Alignment explanation
Indices: 3579321--3579374 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
3579311 GATTGTGACT
*
3579321 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAA
* * *
3579342 TTCGCGTTGCGATTTTAGAAA
1 ATCGCATTGCGATTTTACAAA
*
3579363 ATCGCAATGCGA
1 ATCGCATTGCGA
3579375 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
ATCGCATTGCGATTTTACAAA
Found at i:3579406 original size:20 final size:20
Alignment explanation
Indices: 3579383--3579435 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3579373 GAATATGTAA
3579383 ATCGCAACGCGATTCT-GACT
1 ATCGCAACGCGATTCTAG-CT
*
3579403 ATCGCAACGTGATTCTAGCT
1 ATCGCAACGCGATTCTAGCT
*
3579423 ATCACAACGCGAT
1 ATCGCAACGCGAT
3579436 AATACAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTAGCT
Found at i:3579635 original size:22 final size:22
Alignment explanation
Indices: 3579596--3579651 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
3579586 ACTCTCTACG
* * *
3579596 GCGACATCCATCCTCATCTCC-
1 GCGAAATCCGTCCCCATCTCCA
3579617 GACGAAATCCGTCCCCATCTCCA
1 G-CGAAATCCGTCCCCATCTCCA
3579640 GCGAAATCCGTC
1 GCGAAATCCGTC
3579652 TATCTCCATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (22 bp):
GCGAAATCCGTCCCCATCTCCA
Found at i:3579658 original size:20 final size:21
Alignment explanation
Indices: 3579596--3579659 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
3579586 ACTCTCTACG
* *
3579596 GCGACATCCATCCTCATCTCC-
1 GCGAAATCCGTCC-CATCTCCA
3579617 GACGAAATCCGTCCCCATCTCCA
1 G-CGAAATCCGT-CCCATCTCCA
*
3579640 GCGAAATCCGT-CTATCTCCA
1 GCGAAATCCGTCCCATCTCCA
3579660 TCTCTCAGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.22
21 1 0.03
22 25 0.68
23 3 0.08
ACGTcount: A:0.23, C:0.42, G:0.12, T:0.22
Consensus pattern (21 bp):
GCGAAATCCGTCCCATCTCCA
Found at i:3580051 original size:20 final size:20
Alignment explanation
Indices: 3580026--3580069 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3580016 AAAATCGCAA
3580026 CGATAGTCAAATTCGTGTTG
1 CGATAGTCAAATTCGTGTTG
**
3580046 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCGTGTTG
3580066 CGAT
1 CGAT
3580070 TTTCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (20 bp):
CGATAGTCAAATTCGTGTTG
Found at i:3580084 original size:19 final size:20
Alignment explanation
Indices: 3580037--3580163 Score: 90
Period size: 20 Copynumber: 6.7 Consensus size: 20
3580027 GATAGTCAAA
*
3580037 TTCGTGTTGCGATAGTCATT
1 TTCGTGTTGCGATTGTCATT
*
3580057 TTCGTGTTGCGATTTTCA-T
1 TTCGTGTTGCGATTGTCATT
*
3580076 TTCGCGTTGCGA-T-T-A-T
1 TTCGTGTTGCGATTGTCATT
* * * *
3580092 CTC--GTTCCGATAGTCAAAT
1 TTCGTGTTGCGATTGTC-ATT
* *
3580111 TT-GCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTGTCATT
*
3580130 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTGTCATT
*
3580150 TTCGTATTGCGATT
1 TTCGTGTTGCGATT
3580164 TTAAGTTTCA
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
14 6 0.07
16 5 0.06
17 1 0.01
18 2 0.02
19 18 0.21
20 54 0.63
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (20 bp):
TTCGTGTTGCGATTGTCATT
Found at i:3580172 original size:20 final size:20
Alignment explanation
Indices: 3580129--3580172 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3580119 CGATAGTCAT
* * *
3580129 TTTCGTGTTGCGATTTTCAT
1 TTTCGTATTGCGATTTTAAG
3580149 TTTCGTATTGCGATTTTAAG
1 TTTCGTATTGCGATTTTAAG
3580169 TTTC
1 TTTC
3580173 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTATTGCGATTTTAAG
Found at i:3582104 original size:20 final size:20
Alignment explanation
Indices: 3582076--3582151 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
3582066 AAACTTAAAA
3582076 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
3582096 ATTGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
3582116 ATCGCATCGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
3582136 ATCGCAACGGGAAAAT
1 ATCGCAACGCGAAAAT
3582152 CGCAAAGCGA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:3582183 original size:33 final size:34
Alignment explanation
Indices: 3582136--3582211 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
3582126 GAATTTGACT
3582136 ATCGCAACGGGAAAATCGCAAAGCG-AAATAAAA
1 ATCGCAACGGGAAAATCGCAAAGCGAAAATAAAA
* * *
3582169 ATCGCAACGTGAAAATCGCAATGCGAAAATGAAA
1 ATCGCAACGGGAAAATCGCAAAGCGAAAATAAAA
3582203 ATCGCAACG
1 ATCGCAACG
3582212 CGAATTTAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 23 0.59
34 16 0.41
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (34 bp):
ATCGCAACGGGAAAATCGCAAAGCGAAAATAAAA
Found at i:3582201 original size:20 final size:20
Alignment explanation
Indices: 3582178--3582215 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3582168 AATCGCAACG
*
3582178 TGAAAATCGCAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
3582198 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
3582216 TTTAGTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:3582233 original size:19 final size:19
Alignment explanation
Indices: 3582211--3582273 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
3582201 AAATCGCAAC
*
3582211 GCGAATTTAGTTTCGCATT
1 GCGATTTTAGTTTCGCATT
* **
3582230 GCGATTTTGGTTTCGTGTT
1 GCGATTTTAGTTTCGCATT
3582249 GCGATTTTTA-TTTCGCATT
1 GCGA-TTTTAGTTTCGCATT
3582268 GCGATT
1 GCGATT
3582274 ATCCCGTTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 2 0.06
19 30 0.83
20 4 0.11
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCATT
Found at i:3582303 original size:20 final size:20
Alignment explanation
Indices: 3582278--3582346 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
3582268 GCGATTATCC
* *
3582278 CGTTGCAATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
3582298 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
* *
3582318 CGTTGCGATATTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
3582338 CGTTGCGAT
1 CGTTGCGAT
3582347 TTTAAGGTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.07
20 37 0.86
21 3 0.07
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:3582362 original size:20 final size:20
Alignment explanation
Indices: 3582339--3582377 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3582329 TCATTTTCGC
3582339 GTTGCGATTTTAAGGTTCAT
1 GTTGCGATTTTAAGGTTCAT
*
3582359 GTTGCGATTTTAAGTTTCA
1 GTTGCGATTTTAAGGTTCA
3582378 GAAACTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (20 bp):
GTTGCGATTTTAAGGTTCAT
Found at i:3582957 original size:21 final size:21
Alignment explanation
Indices: 3582862--3582984 Score: 86
Period size: 21 Copynumber: 5.9 Consensus size: 21
3582852 GCCCAACTCA
3582862 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
3582883 TCT-CCTATCATTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** *
3582904 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
3582925 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
3582946 ACTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
* * *
3582967 CCTCTCACCATTCAAGAG
1 CCTGTCATCGTTCAAGAG
3582985 CCCGATTCAT
Statistics
Matches: 75, Mismatches: 25, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 1 0.01
21 73 0.97
22 1 0.01
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:3582963 original size:42 final size:42
Alignment explanation
Indices: 3582863--3582984 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
3582853 CCCAACTCAC
* * * * *
3582863 CTGTCATCGTTCAAGAGGCCTCTCCTATCATTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCATTCAAGAGGCCA
* ** *
3582905 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCATTCAAGAGGCCA
* *
3582947 CTGTCATCGTTGAAGAGGT-CCCTCTCACCATTCAAGAG
1 CTGTCATCGTTCAAGA-GTCCCCTCCCACCATTCAAGAG
3582985 CCCGATTCAT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 62 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCATTCAAGAGGCCA
Found at i:3584298 original size:16 final size:17
Alignment explanation
Indices: 3584268--3584304 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
3584258 TAATTGATTC
3584268 TTAAAAGTATGATTTGT
1 TTAAAAGTATGATTTGT
3584285 TTAAAAGT-TGATTTGT
1 TTAAAAGTATGATTTGT
3584301 TTAA
1 TTAA
3584305 TTGATGTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TTAAAAGTATGATTTGT
Found at i:3584344 original size:36 final size:35
Alignment explanation
Indices: 3584297--3584419 Score: 106
Period size: 36 Copynumber: 3.3 Consensus size: 35
3584287 AAAAGTTGAT
3584297 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTG
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTG
* * *
3584332 CTTGTTTAATTGATTTGTAAAAGTTGATT-TGTAAAAATTGAT-
1 -TTGTTTAATTGATGTGT-AAA--TAATTCT-T---ATTTG-TG
3584374 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTG
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTG
*
3584409 ATTATTTAATT
1 -TTGTTTAATT
3584420 TATTGAAATG
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
34 1 0.01
35 4 0.06
36 25 0.36
37 3 0.04
38 6 0.09
39 6 0.09
40 3 0.04
41 16 0.23
42 4 0.06
43 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.53
Consensus pattern (35 bp):
TTGTTTAATTGATGTGTAAATAATTCTTATTTGTG
Found at i:3584360 original size:14 final size:14
Alignment explanation
Indices: 3584339--3584377 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
3584329 GTGCTTGTTT
3584339 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
3584353 AGTTGATTTGTAAA
1 AATTGATTTGTAAA
3584367 AATTGATTTGT
1 AATTGATTTGT
3584378 TTAATTGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:3584384 original size:77 final size:79
Alignment explanation
Indices: 3584252--3584419 Score: 270
Period size: 77 Copynumber: 2.1 Consensus size: 79
3584242 ACACTTTTTT
*
3584252 ATTGTTTAATTGATTCTTAAAAGTATGATTTGTTTAAAAGTTGATTTGTTTAATTGATGTGTAAA
1 ATTGTTTAATTGATTCTTAAAAGTATGATTTG-TTAAAAATTGATTTGTTTAATTGATGTGTAAA
3584317 TAATTCTTATTTGTG
65 TAATTCTTATTTGTG
*
3584332 CTTGTTTAATTGATT-TGTAAAAGT-TGATTTG-TAAAAATTGATTTGTTTAATTGATGTGTAAA
1 ATTGTTTAATTGATTCT-TAAAAGTATGATTTGTTAAAAATTGATTTGTTTAATTGATGTGTAAA
3584394 TAATTCTTATTTGTG
65 TAATTCTTATTTGTG
*
3584409 ATTATTTAATT
1 ATTGTTTAATT
3584420 TATTGAAATG
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
77 54 0.65
79 8 0.10
80 21 0.25
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.52
Consensus pattern (79 bp):
ATTGTTTAATTGATTCTTAAAAGTATGATTTGTTAAAAATTGATTTGTTTAATTGATGTGTAAAT
AATTCTTATTTGTG
Found at i:3584385 original size:13 final size:13
Alignment explanation
Indices: 3584339--3584393 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 13
3584329 GTGCTTGTTT
3584339 AATTGATTTGTAA
1 AATTGATTTGTAA
3584352 AAGTTGATTTGTAAA
1 AA-TTGATTTGT-AA
**
3584367 AATTGATTTGTTT
1 AATTGATTTGTAA
*
3584380 AATTGATGTGTAA
1 AATTGATTTGTAA
3584393 A
1 A
3584394 TAATTCTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 13 0.37
14 18 0.51
15 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:3584398 original size:28 final size:29
Alignment explanation
Indices: 3584338--3584398 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
3584328 TGTGCTTGTT
*
3584338 TAATTGATTTGTAAAAGTTGATTTGTAAA
1 TAATTGATTTGTAAAAGTTGATGTGTAAA
**
3584367 -AATTGATTTGTTTAA-TTGATGTGTAAA
1 TAATTGATTTGTAAAAGTTGATGTGTAAA
3584394 TAATT
1 TAATT
3584399 CTTATTTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (29 bp):
TAATTGATTTGTAAAAGTTGATGTGTAAA
Found at i:3584522 original size:20 final size:20
Alignment explanation
Indices: 3584497--3584574 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
3584487 ATGTACACTT
* *
3584497 TCGCAACGCTAAACTCAAAA
1 TCGCAATGCGAAACTCAAAA
*
3584517 TCGCAATGCGAAAGTCAAAA
1 TCGCAATGCGAAACTCAAAA
3584537 TCGCAATGCGAAAGC-CAAAA
1 TCGCAATGCGAAA-CTCAAAA
*
3584557 TCGCAATGCGAAAGTCAA
1 TCGCAATGCGAAACTCAA
3584575 TTCGCGTTGC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.14
Consensus pattern (20 bp):
TCGCAATGCGAAACTCAAAA
Found at i:3584541 original size:40 final size:40
Alignment explanation
Indices: 3584497--3584574 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
3584487 ATGTACACTT
*
3584497 TCGCAACGCTAAA-CTCAAAATCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAAGC-CAAAATCGCAATGCGAAAGTCAAAA
*
3584537 TCGCAATGCGAAAGCCAAAATCGCAATGCGAAAGTCAA
1 TCGCAACGCGAAAGCCAAAATCGCAATGCGAAAGTCAA
3584575 TTCGCGTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.14
Consensus pattern (40 bp):
TCGCAACGCGAAAGCCAAAATCGCAATGCGAAAGTCAAAA
Found at i:3584622 original size:34 final size:34
Alignment explanation
Indices: 3584578--3584675 Score: 153
Period size: 34 Copynumber: 2.9 Consensus size: 34
3584568 AAGTCAATTC
* * *
3584578 GCGTTGCGATAGTCTAATACGCTTTGCGATTTTCT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-T
3584613 -CGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
3584646 GCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGAT
3584676 AGTCAAATTT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
33 1 0.02
34 58 0.98
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (34 bp):
GCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
Found at i:3584682 original size:20 final size:20
Alignment explanation
Indices: 3584563--3584703 Score: 110
Period size: 20 Copynumber: 7.7 Consensus size: 20
3584553 AAAATCGCAA
*
3584563 TGCGAAAGTC-AATTCGCGT
1 TGCGATAGTCAAATTCGCGT
* * *
3584582 TGCGATAGTCTAATACGCTT
1 TGCGATAGTCAAATTCGCGT
*
3584602 TGCGAT--T----TTCTCGT
1 TGCGATAGTCAAATTCGCGT
3584616 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTCAAATTCGCGT
*
3584636 TGCGAT--T----TTTGCGT
1 TGCGATAGTCAAATTCGCGT
3584650 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTCAAATTCGCGT
* *
3584670 TGCGATAGTCAAATTTGTGT
1 TGCGATAGTCAAATTCGCGT
*
3584690 TGCGATATTCAAAT
1 TGCGATAGTCAAAT
3584704 GAATGTATAA
Statistics
Matches: 97, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
14 22 0.23
16 2 0.02
18 2 0.02
19 9 0.09
20 62 0.64
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (20 bp):
TGCGATAGTCAAATTCGCGT
Found at i:3584926 original size:140 final size:140
Alignment explanation
Indices: 3584674--3584956 Score: 512
Period size: 140 Copynumber: 2.0 Consensus size: 140
3584664 TCGCGTTGCG
* * *
3584674 ATAGTCAAATTTGTGTTGCGATATTCAAATGAATGTATAATAATTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
* *
3584739 TAGCAATGTTTAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
3584804 AATACACATA
131 AATACACATA
*
3584814 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
3584879 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
3584944 AATACACATA
131 AATACACATA
3584954 ATA
1 ATA
3584957 CAACGTTTGC
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:3585037 original size:18 final size:18
Alignment explanation
Indices: 3585014--3585048 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3585004 AAGCCGGTTG
*
3585014 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
3585032 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
3585049 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:3587342 original size:24 final size:24
Alignment explanation
Indices: 3587308--3587361 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
3587298 CTGAAACATC
3587308 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
3587332 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
3587356 ATCAAA
1 ATCAAA
3587362 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:3587375 original size:24 final size:24
Alignment explanation
Indices: 3587308--3587375 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
3587298 CTGAAACATC
* * *
3587308 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
3587332 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
3587356 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
3587376 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:3588340 original size:19 final size:19
Alignment explanation
Indices: 3588316--3588352 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3588306 TGCGATACTG
*
3588316 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
3588335 GAGATCGTATTGCGATTT
1 GAGATCGCATTGCGATTT
3588353 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:3588797 original size:29 final size:29
Alignment explanation
Indices: 3588708--3588799 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
3588698 AAAAGCAGGT
* *
3588708 TATTTTAAGAATTAATTCTGAACACTGAA
1 TATTTTAATAATTAATTCTGAACATTGAA
* * *
3588737 TATTTTAATAGTTAATTCGGATCATATG-A
1 TATTTTAATAATTAATTCTGAACAT-TGAA
*
3588766 TATTTTAATAATAAATTCTGAAC-TTGGAA
1 TATTTTAATAATTAATTCTGAACATT-GAA
3588795 TATTT
1 TATTT
3588800 ATATTTTTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 1 0.02
28 2 0.04
29 46 0.90
30 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (29 bp):
TATTTTAATAATTAATTCTGAACATTGAA
Found at i:3588881 original size:28 final size:28
Alignment explanation
Indices: 3588802--3588893 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
3588792 GAATATTTAT
* * *
3588802 ATTTTTATAATTAATTCCAATAACCGGAT
1 ATTTTAATAATTAATTCCAA-AACAGGAC
**
3588831 ATTGCAATAATTAATTCCAAAACAGGAC
1 ATTTTAATAATTAATTCCAAAACAGGAC
** *
3588859 ATTTTAATAATTAATTCTGAAACAGGGC
1 ATTTTAATAATTAATTCCAAAACAGGAC
3588887 ATTTTAA
1 ATTTTAA
3588894 AAAATACGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 36 0.68
29 17 0.32
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (28 bp):
ATTTTAATAATTAATTCCAAAACAGGAC
Found at i:3590051 original size:12 final size:12
Alignment explanation
Indices: 3590025--3590058 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
3590015 TTTTGAAAGG
3590025 ATAATTAAATAT
1 ATAATTAAATAT
3590037 ATAATATAAAT-T
1 ATAAT-TAAATAT
3590049 ATAATTAAAT
1 ATAATTAAAT
3590059 CTTTAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 11 0.52
13 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAATTAAATAT
Found at i:3592648 original size:55 final size:55
Alignment explanation
Indices: 3592581--3592725 Score: 193
Period size: 55 Copynumber: 2.6 Consensus size: 55
3592571 TTTGTATGAG
* *
3592581 TGTGTATCGGTACAGTGAGGCA-TGTATCGATACCCTCAAAACATTGAATGCCATT
1 TGTGTATCGGTACACTGAGG-AGTGTATCGATACCCTCAAAACATCGAATGCCATT
* * * **
3592636 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTTAAAATATCGAGTGTTATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCCATT
* *
3592691 TGTGTATTGGTACACTTAGGAGTGTATCGATACCC
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
3592726 CCAAGTATGA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 1 0.01
55 79 0.99
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGCCATT
Found at i:3593281 original size:21 final size:21
Alignment explanation
Indices: 3593255--3593311 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
3593245 GTCGAGGGTC
* *
3593255 TATGTGGTCTTTCGGGACAAT
1 TATGTGGTCATTCGGGACAAA
3593276 TATGTGGTCATTCGGGACAAA
1 TATGTGGTCATTCGGGACAAA
3593297 TATGTGG-CACTTCGG
1 TATGTGGTCA-TTCGG
3593312 TGCAACCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (21 bp):
TATGTGGTCATTCGGGACAAA
Found at i:3593341 original size:23 final size:23
Alignment explanation
Indices: 3593297--3593341 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3593287 TCGGGACAAA
* *
3593297 TATGTGGCACTTCGGTGCAACCC
1 TATGTGGCACTTCAGTACAACCC
*
3593320 TATGTGGCACTTCAGTATAACC
1 TATGTGGCACTTCAGTACAACC
3593342 TATATGGTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (23 bp):
TATGTGGCACTTCAGTACAACCC
Found at i:3595260 original size:18 final size:18
Alignment explanation
Indices: 3595237--3595282 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
3595227 CTGTGCTCGT
3595237 AAGAGGAAGATGTCGAAG
1 AAGAGGAAGATGTCGAAG
*
3595255 AAGAGGAAGATGTCGAGG
1 AAGAGGAAGATGTCGAAG
3595273 AAGAGGAAGA
1 AAGAGGAAGA
3595283 AATCAATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.41, T:0.09
Consensus pattern (18 bp):
AAGAGGAAGATGTCGAAG
Found at i:3599880 original size:12 final size:12
Alignment explanation
Indices: 3599863--3599905 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
3599853 AAAGCATATA
3599863 TTTATTTTATGT
1 TTTATTTTATGT
3599875 TTTATTTTATGT
1 TTTATTTTATGT
*
3599887 TTTATTTAAATGT
1 TTTATTT-TATGT
3599900 TTTATT
1 TTTATT
3599906 CAATTTCCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (12 bp):
TTTATTTTATGT
Found at i:3600162 original size:21 final size:23
Alignment explanation
Indices: 3600135--3600239 Score: 93
Period size: 21 Copynumber: 4.8 Consensus size: 23
3600125 AGTCGAGGGT
3600135 CTATGTGGTCA-TTCGG-GACAA-
1 CTATGTGGTCACTTCGGTG-CAAC
*
3600156 ATATGTGGT-ACTTCGGTGCAACC
1 CTATGTGGTCACTTCGGTGCAA-C
3600179 CTATGTGG-CACTTCGGTGCAAC
1 CTATGTGGTCACTTCGGTGCAAC
*
3600201 CTATGTGGTC-TTTCGG-GACAA-
1 CTATGTGGTCACTTCGGTG-CAAC
*
3600222 TTATGTGG-CACTTCGGTG
1 CTATGTGGTCACTTCGGTG
3600240 TAAATTACGA
Statistics
Matches: 70, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
20 2 0.03
21 29 0.41
22 19 0.27
23 20 0.29
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (23 bp):
CTATGTGGTCACTTCGGTGCAAC
Found at i:3600185 original size:23 final size:22
Alignment explanation
Indices: 3600157--3600239 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
3600147 TCGGGACAAA
3600157 TATGTGGTACTTCGGTGCAACCC
1 TATGTGGTACTTCGGTGCAA-CC
*
3600180 TATGTGGCACTTCGGTGCAACC
1 TATGTGGTACTTCGGTGCAACC
*
3600202 TATGTGGT-CTTTCGG-GACAA-T
1 TATGTGGTAC-TTCGGTG-CAACC
*
3600223 TATGTGGCACTTCGGTG
1 TATGTGGTACTTCGGTG
3600240 TAAATTACGA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
21 14 0.27
22 19 0.37
23 19 0.37
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.33
Consensus pattern (22 bp):
TATGTGGTACTTCGGTGCAACC
Found at i:3601122 original size:3 final size:3
Alignment explanation
Indices: 3601114--3601150 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3601104 TTTTAGATTT
3601114 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3601151 ATATGGTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3614348 original size:10 final size:10
Alignment explanation
Indices: 3614324--3614355 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3614314 AAATTTATCC
3614324 AATT-AAAAT
1 AATTAAAAAT
3614333 -ATTAAAAAT
1 AATTAAAAAT
3614342 AATTAAAAAT
1 AATTAAAAAT
3614352 AATT
1 AATT
3614356 CTACAATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 5 0.24
10 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AATTAAAAAT
Found at i:3615224 original size:13 final size:13
Alignment explanation
Indices: 3615206--3615231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3615196 GGAATTTTAC
3615206 AAATTTAAATTAT
1 AAATTTAAATTAT
3615219 AAATTTAAATTAT
1 AAATTTAAATTAT
3615232 GTCACTTATT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTTAAATTAT
Found at i:3615809 original size:17 final size:18
Alignment explanation
Indices: 3615767--3615809 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
3615757 AAATATATTT
*
3615767 AATAAATATATAAGAGTA
1 AATAAATATATAAGAATA
3615785 AA-AAATATATAA-AATA
1 AATAAATATATAAGAATA
*
3615801 AATATATAT
1 AATAAATAT
3615810 GTGCGGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AATAAATATATAAGAATA
Found at i:3616322 original size:10 final size:10
Alignment explanation
Indices: 3616307--3616348 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
3616297 TATATAAGCC
3616307 CATTTTTCTT
1 CATTTTTCTT
3616317 CATTTTTCTT
1 CATTTTTCTT
*
3616327 CA-CTTTCATCT
1 CATTTTTC-T-T
3616338 CATTTTTCTT
1 CATTTTTCTT
3616348 C
1 C
3616349 TTTCCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 4 0.15
10 15 0.56
11 4 0.15
12 4 0.15
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (10 bp):
CATTTTTCTT
Found at i:3618405 original size:20 final size:19
Alignment explanation
Indices: 3618382--3618421 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3618372 TGAATATATG
3618382 AAATGACATATGAATATGAA
1 AAATGACATATG-ATATGAA
**
3618402 AAATGTGATATGATATGAA
1 AAATGACATATGATATGAA
3618421 A
1 A
3618422 TACATGGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (19 bp):
AAATGACATATGATATGAA
Found at i:3618575 original size:15 final size:15
Alignment explanation
Indices: 3618557--3618591 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
3618547 CGAGGGTTCT
3618557 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
3618572 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
3618587 GTAGT
1 GTAGT
3618592 GGTCCTACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:3624416 original size:20 final size:19
Alignment explanation
Indices: 3624393--3624432 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3624383 TGAATATATG
3624393 AAATGACATATGAATATGAA
1 AAATGACATATG-ATATGAA
**
3624413 AAATGTGATATGATATGAA
1 AAATGACATATGATATGAA
3624432 A
1 A
3624433 TACATGGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (19 bp):
AAATGACATATGATATGAA
Found at i:3624586 original size:15 final size:15
Alignment explanation
Indices: 3624568--3624602 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
3624558 CGAGGGTTCT
3624568 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
3624583 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
3624598 GTAGT
1 GTAGT
3624603 GGTCCTACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:3626979 original size:3 final size:3
Alignment explanation
Indices: 3626971--3627021 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
3626961 GGAAAGATAC
*
3626971 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA- AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3627017 AAT AA
1 AAT AA
3627022 ACCTAAATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:3635563 original size:42 final size:42
Alignment explanation
Indices: 3635516--3635645 Score: 135
Period size: 42 Copynumber: 3.1 Consensus size: 42
3635506 TGATTTTAGA
3635516 AAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
1 AAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
** ** * * *
3635558 AAGGTG-GCTC-TCTTT-AGTGC-ATTTTGTTCTTGATTTTA-G
1 AAGGTGTAATCAT-TTTCA-TGCAAAGTTATTCTTAATTGTATG
3635597 AAAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
1 -AAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
3635640 AAGGTG
1 AAGGTG
3635646 GCTCTCTTTA
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
39 1 0.02
40 21 0.32
41 16 0.24
42 27 0.41
43 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (42 bp):
AAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
Found at i:3635602 original size:40 final size:41
Alignment explanation
Indices: 3635493--3635619 Score: 127
Period size: 40 Copynumber: 3.1 Consensus size: 41
3635483 ATGACACTGC
3635493 TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCA
1 TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCA
** * * * **
3635534 TGCAAAGTTATTCTTAATTGTATG-AAGGTG-GCTC-TCTTT-A
1 TGC-ATTTTGTTCTTGATTTTA-GAAAGGTGTAATCAT-TTTCA
3635574 GTGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCA
1 -TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCA
3635616 TGCA
1 TGCA
3635620 AAGTTATTCT
Statistics
Matches: 64, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
39 1 0.02
40 21 0.33
41 20 0.31
42 21 0.33
43 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.46
Consensus pattern (41 bp):
TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCA
Found at i:3635630 original size:82 final size:82
Alignment explanation
Indices: 3635493--3635657 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
3635483 ATGACACTGC
3635493 TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
1 TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
3635558 AAGGTGGCTCTCTTTAG
66 AAGGTGGCTCTCTTTAG
3635575 TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
1 TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
3635640 AAGGTGGCTCTCTTTAG
66 AAGGTGGCTCTCTTTAG
3635657 T
1 T
3635658 CAGGACTATC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.45
Consensus pattern (82 bp):
TGCATTTTGTTCTTGATTTTAGAAAGGTGTAATCATTTTCATGCAAAGTTATTCTTAATTGTATG
AAGGTGGCTCTCTTTAG
Found at i:3638762 original size:7 final size:7
Alignment explanation
Indices: 3638750--3638778 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
3638740 TTGTGTAGAA
3638750 CCATCTC
1 CCATCTC
3638757 CCATCTC
1 CCATCTC
3638764 CCATCTC
1 CCATCTC
3638771 CCATCTC
1 CCATCTC
3638778 C
1 C
3638779 AATCGATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.59, G:0.00, T:0.28
Consensus pattern (7 bp):
CCATCTC
Found at i:3643369 original size:20 final size:20
Alignment explanation
Indices: 3643340--3643382 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
3643330 GACTTATATG
3643340 GCCTTCCATTGAATTAATTA
1 GCCTTCCATTGAATTAATTA
*
3643360 GCCTTTCATTGAATTAATTA
1 GCCTTCCATTGAATTAATTA
3643380 GCC
1 GCC
3643383 AAGCCATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (20 bp):
GCCTTCCATTGAATTAATTA
Found at i:3653944 original size:30 final size:30
Alignment explanation
Indices: 3653903--3653961 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
3653893 GTTTAGACTT
3653903 GTCAAACTCAACAATCAACGGGTTGACTCG
1 GTCAAACTCAACAATCAACGGGTTGACTCG
* **
3653933 GTCAAATTCAACGGTCAACGGGTTGACTC
1 GTCAAACTCAACAATCAACGGGTTGACTC
3653962 AGTAAAGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
GTCAAACTCAACAATCAACGGGTTGACTCG
Found at i:3656798 original size:28 final size:27
Alignment explanation
Indices: 3656749--3656803 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
3656739 CGTGGCGGCA
3656749 TGTGCGACAACAACAAGCGTCGGCGGTG
1 TGTGCGACAACAACAAGCGTCGG-GGTG
*
3656777 TGTGCGACAGCAACAAAG-GTCGGGGTG
1 TGTGCGACAACAAC-AAGCGTCGGGGTG
3656804 GTCGGCCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 4 0.16
28 18 0.72
29 3 0.12
ACGTcount: A:0.25, C:0.22, G:0.38, T:0.15
Consensus pattern (27 bp):
TGTGCGACAACAACAAGCGTCGGGGTG
Found at i:3657673 original size:26 final size:26
Alignment explanation
Indices: 3657643--3657712 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
3657633 TCCAAGCTGA
3657643 AGTCAAATTCATACGAATTGAGCTCG
1 AGTCAAATTCATACGAATTGAGCTCG
3657669 AGTCAAATTCATACGAATTGAGCTCG
1 AGTCAAATTCATACGAATTGAGCTCG
*
3657695 AGTCAAATTCATATGAAT
1 AGTCAAATTCATACGAAT
3657713 CATGCTTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (26 bp):
AGTCAAATTCATACGAATTGAGCTCG
Found at i:3664679 original size:22 final size:22
Alignment explanation
Indices: 3664639--3664686 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
3664629 GAACTGACCG
* *
3664639 TTGACTTTGGCCAGAGTTGAGT
1 TTGACTTTGACCAGAGTTGACT
* *
3664661 TTGACTTTGACTAGTGTTGACT
1 TTGACTTTGACCAGAGTTGACT
3664683 TTGA
1 TTGA
3664687 TAAAAAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.42
Consensus pattern (22 bp):
TTGACTTTGACCAGAGTTGACT
Found at i:3665499 original size:2 final size:2
Alignment explanation
Indices: 3665492--3665530 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3665482 TTATAAAAAG
3665492 AT AT AT AT 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 AT AT AT AT A
3665531 ATACAGAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3666737 original size:19 final size:19
Alignment explanation
Indices: 3666698--3666738 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3666688 TTTTGTCTCT
*
3666698 AATTAATTAATTTGAAGTA
1 AATTAATTAATTTCAAGTA
3666717 AATTAATTATATTTCAA-TA
1 AATTAATTA-ATTTCAAGTA
3666736 AAT
1 AAT
3666739 GGATCGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
AATTAATTAATTTCAAGTA
Found at i:3667262 original size:30 final size:31
Alignment explanation
Indices: 3667194--3667279 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 31
3667184 TGGCTTTGAA
*
3667194 TTAT-TTTTT-TCTATTTTA-ACCCTTTAAGT
1 TTATGTTTTTATCTATTTTAGTCCC-TTAAGT
*
3667223 TTTTG-TTTTATCTATTTTAGTCCC-TAAGT
1 TTATGTTTTTATCTATTTTAGTCCCTTAAGT
* *
3667252 TTATGTTTTTA-CTATTTCAGTCCTTTAA
1 TTATGTTTTTATCTATTTTAGTCCCTTAA
3667280 ATTCTTGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
29 27 0.57
30 17 0.36
31 3 0.06
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (31 bp):
TTATGTTTTTATCTATTTTAGTCCCTTAAGT
Found at i:3667942 original size:19 final size:19
Alignment explanation
Indices: 3667903--3667943 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3667893 TTTTTTTTGT
*
3667903 AATTAATTAATTTGAAGTA
1 AATTAATTAATTTCAAGTA
3667922 AATTAATTATATTTCAA-TA
1 AATTAATTA-ATTTCAAGTA
3667941 AAT
1 AAT
3667944 AGATCGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
AATTAATTAATTTCAAGTA
Found at i:3669997 original size:18 final size:19
Alignment explanation
Indices: 3669962--3669999 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
3669952 CACGGAATGT
3669962 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
3669982 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
3670000 GATTACTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:3670178 original size:36 final size:35
Alignment explanation
Indices: 3670145--3670211 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
3670135 TACAAATTGT
3670145 AAAATATTTATATATTTTCT-TTA-AAAATTAAATTC
1 AAAATATTTATA-ATTTT-TATTACAAAATTAAATTC
*
3670180 ATAATATTTATAATTTTTATTACAAAATTAAA
1 AAAATATTTATAATTTTTATTACAAAATTAAA
3670212 AATATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 1 0.03
34 8 0.28
35 20 0.69
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (35 bp):
AAAATATTTATAATTTTTATTACAAAATTAAATTC
Found at i:3675436 original size:21 final size:20
Alignment explanation
Indices: 3675389--3675436 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3675379 TTTCAATTGG
* *
3675389 ATTAAATTAAATTTTAAAAT
1 ATTAAATTAAATTTGAAAAC
*
3675409 ATTAAATTAAGTTTGAAAAC
1 ATTAAATTAAATTTGAAAAC
3675429 ATTTAAAT
1 A-TTAAAT
3675437 CAATTAAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
ATTAAATTAAATTTGAAAAC
Found at i:3685432 original size:15 final size:15
Alignment explanation
Indices: 3685414--3685458 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
3685404 TTTTTAGCAT
3685414 ATTTATTTCATTTTA
1 ATTTATTTCATTTTA
*
3685429 ATTTATTTCATTTCA
1 ATTTATTTCATTTTA
* *
3685444 TTTTATTTTATTTTA
1 ATTTATTTCATTTTA
3685459 TCAGATGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTATTTCATTTTA
Found at i:3685441 original size:20 final size:19
Alignment explanation
Indices: 3685413--3685456 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
3685403 ATTTTTAGCA
3685413 TATTTATTTCATTTTAATT
1 TATTTATTTCATTTTAATT
*
3685432 TATTTCATTTCATTTTATTT
1 TATTT-ATTTCATTTTAATT
3685452 TATTT
1 TATTT
3685457 TATCAGATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTATTTCATTTTAATT
Found at i:3685478 original size:5 final size:5
Alignment explanation
Indices: 3685415--3685459 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
3685405 TTTTAGCATA
* * * *
3685415 TTTAT TTCAT TTTAA TTTAT TTCAT TTCAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
3685460 CAGATGCTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (5 bp):
TTTAT
Found at i:3688635 original size:16 final size:17
Alignment explanation
Indices: 3688604--3688636 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3688594 CTCAAATTAC
*
3688604 TATTTTATTCTATTTAT
1 TATTTTATTATATTTAT
3688621 TATTTT-TTATATTTAT
1 TATTTTATTATATTTAT
3688637 CTTATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTATTATATTTAT
Found at i:3691696 original size:17 final size:17
Alignment explanation
Indices: 3691661--3691696 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3691651 AAATCGATTG
*
3691661 AAAAATAAGAACAACAA
1 AAAAATAAGAAAAACAA
*
3691678 AAAAATAAGAAAAAGAA
1 AAAAATAAGAAAAACAA
3691695 AA
1 AA
3691697 TAAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.06
Consensus pattern (17 bp):
AAAAATAAGAAAAACAA
Found at i:3693006 original size:220 final size:224
Alignment explanation
Indices: 3692736--3693242 Score: 557
Period size: 219 Copynumber: 2.3 Consensus size: 224
3692726 CTGAATTGGC
** * * * * * *
3692736 TTTCGAACTCAATATCATCCGTTGTCGAGTTGAAATCGACTTCGAAAAGATTTAATTGGAAGATT
1 TTTCGAACTCAATGCCCTCCGTTGTGGAGTTGAAATTGACTTCAAAAAGATTTAACTAGAAGATT
* *** * ** *
3692801 GGCTCATCGCCGTTGAGTTAAGCCAAAATGCAATCAATTCTGGTTG-TGTTTTCAGGTCAATG-A
66 GGCTCATCACCACCGAGTTAAGCCAAAATACAATCAATTCTGAATGTTCTTTTCA-GTCAA-GAA
* *
3692864 TACTCCACCATGAAGTTGAAACTTGGCCTGAAAACTTTGATTGGAAACTAGCTCCTCG-T-T-GT
129 TACTCCACCATGAAGTTGAAACTTGGCCTGAAAACTTTGACTAGAAACTAGCTCCTCGCTCTAGT
* *
3692926 TAAACTAGATTGCAGTAGATTCTGAGGTT-A
194 TAAACTAGATTGCAGTAGATACCGAGGTTCA
* *
3692956 TTTCGAACTCAATGCCCTCCGTTGTGGAGTTGAAATTGACGTCAAAAAGATTTGACTAGAAGA-T
1 TTTCGAACTCAATGCCCTCCGTTGTGGAGTTGAAATTGACTTCAAAAAGATTTAACTAGAAGATT
* * ** * *
3693020 GGCTCTTCACTACCGAGTTAAGCCAAAATACAATCGGTTCTGAATGTTCTTTTGAGTCAAGAATC
66 GGCTCATCACCACCGAGTTAAGCCAAAATACAATCAATTCTGAATGTTCTTTTCAGTCAAGAATA
* ** *
3693085 CTTCGTCGTGAAGTTGAAACTTGGCCTGAAAACTTTGACTAGAAACTAGCTCCTCGCCTCTGAGT
131 CTCCACCATGAAGTTGAAACTTGGCCTGAAAACTTTGACTAGAAACTAGCTCCTCG-CTCT-AGT
* * *
3693150 TAAGCTAGATTGCAGTAGATACCGAGTTTCT
194 TAAACTAGATTGCAGTAGATACCGAGGTTCA
* * *
3693181 TTTTGAACT-TA-GCCCTTC-TTCGTGGAGTTGAAATTGACTTCAAAAAGATTTAACTAGAAGAT
1 TTTCGAACTCAATGCCCTCCGTT-GTGGAGTTGAAATTGACTTCAAAAAGATTTAACTAGAAGAT
3693243 GAATCTTCAG
Statistics
Matches: 237, Mismatches: 40, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
218 1 0.00
219 93 0.39
220 59 0.25
221 1 0.00
222 3 0.01
223 44 0.19
224 28 0.12
225 8 0.03
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (224 bp):
TTTCGAACTCAATGCCCTCCGTTGTGGAGTTGAAATTGACTTCAAAAAGATTTAACTAGAAGATT
GGCTCATCACCACCGAGTTAAGCCAAAATACAATCAATTCTGAATGTTCTTTTCAGTCAAGAATA
CTCCACCATGAAGTTGAAACTTGGCCTGAAAACTTTGACTAGAAACTAGCTCCTCGCTCTAGTTA
AACTAGATTGCAGTAGATACCGAGGTTCA
Found at i:3693311 original size:223 final size:219
Alignment explanation
Indices: 3692872--3693340 Score: 534
Period size: 223 Copynumber: 2.1 Consensus size: 219
3692862 GATACTCCAC
* *
3692872 CATGAAGTTGAAACTTGGCCTGAAAACTTTGATTGGAAACTAGCTCCTCGTTGTTAAACTAGATT
1 CATGAAGTTGAAACTTGGCCTGAAAACTTTGACTAGAAACTAGCTCCTCGTTGTTAAACTAGATT
* *
3692937 GCAGTAGATTCTGAGGTTATTTCGAACTCAATGCCCTCCGTTGTGGAGTTGAAATTGACGTCAAA
66 GCAGTAGATACCGAGGTTATTTCGAACTCAATGCCCTCCGTTGTGGAGTTGAAATTGACGTCAAA
* ** * * *
3693002 AAGATTTGACTAGAAGATGGCTCTTCACTACCGAGTTAAGCCAAAATACAATCGGTTCTGAATGT
131 AAGATTTAACTAGAAGATGAATCTTCACTACCAAGTTAAGCAAAAATACAATCGGTTCTGAATGC
* * *
3693067 TCTTTTGAGTCAAGAATCCTTCGT
196 ACTTCTGAGTCAAGAATCCTTCAT
* *
3693091 CGTGAAGTTGAAACTTGGCCTGAAAACTTTGACTAGAAACTAGCTCCTCGCCTCTGAGTTAAGCT
1 CATGAAGTTGAAACTTGGCCTGAAAACTTTGACTAGAAACTAGCTCCTCG--T-T--GTTAAACT
* * * * *
3693156 AGATTGCAGTAGATACCGAGTTTCTTTTTGAACT-TA-GCCCTTC-TTCGTGGAGTTGAAATTGA
61 AGATTGCAGTAGATACCGAGGTT-ATTTCGAACTCAATGCCCTCCGTT-GTGGAGTTGAAATTGA
* * * * ** *
3693218 CTTCAAAAAGATTTAACTAGAAGATGAATCTTCAGTGCTAAGTTAAGCAAAAATGTAGT-GAGTT
124 CGTCAAAAAGATTTAACTAGAAGATGAATCTTCACTACCAAGTTAAGCAAAAATACAATCG-GTT
*
3693282 CTGAATGCACTTCCTG-GTCAAGTATCCTTCAT
188 CTGAATGCACTT-CTGAGTCAAGAATCCTTCAT
* * * *
3693314 TATAAAGTTGAAACCTGGCCTAAAAAC
1 CATGAAGTTGAAACTTGGCCTGAAAAC
3693341 ATCAACTGGA
Statistics
Matches: 208, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
219 47 0.23
221 1 0.00
222 4 0.02
223 118 0.57
224 30 0.14
225 8 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (219 bp):
CATGAAGTTGAAACTTGGCCTGAAAACTTTGACTAGAAACTAGCTCCTCGTTGTTAAACTAGATT
GCAGTAGATACCGAGGTTATTTCGAACTCAATGCCCTCCGTTGTGGAGTTGAAATTGACGTCAAA
AAGATTTAACTAGAAGATGAATCTTCACTACCAAGTTAAGCAAAAATACAATCGGTTCTGAATGC
ACTTCTGAGTCAAGAATCCTTCAT
Found at i:3695535 original size:20 final size:20
Alignment explanation
Indices: 3695510--3695558 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
3695500 TCAAGGAGTA
3695510 TCGATACTCAGATCCCTGTT
1 TCGATACTCAGATCCCTGTT
3695530 TCGATACTCAGATCCCTGTT
1 TCGATACTCAGATCCCTGTT
3695550 TCGATACTC
1 TCGATACTC
3695559 TTCAAGTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (20 bp):
TCGATACTCAGATCCCTGTT
Found at i:3702467 original size:18 final size:21
Alignment explanation
Indices: 3702440--3702490 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
3702430 CCTAAATTTG
*
3702440 GTATCAATACTTAG-GC-A-A
1 GTATCGATACTTAGTGCTAGA
*
3702458 GTATCGATACCCTAGTGCTAGA
1 GTATCGATA-CTTAGTGCTAGA
3702480 GTATCGATACT
1 GTATCGATACT
3702491 CAACTAGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 2 0.08
21 2 0.08
22 10 0.38
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (21 bp):
GTATCGATACTTAGTGCTAGA
Found at i:3708103 original size:322 final size:322
Alignment explanation
Indices: 3707515--3708150 Score: 1200
Period size: 322 Copynumber: 2.0 Consensus size: 322
3707505 TTAAAAGGGA
3707515 CAACTCGGGTATAGGGCTTATGTTATGCAAATGCAGTGAGTGTGTGTAAGGAGAAATCTACCAAA
1 CAACTCGGGTATAGGGCTTATGTTATGCAAATGCAGTGAGTGTGTGTAAGGAGAAATCTACCAAA
3707580 ATAATCATGCATTCTTTACCAGAATTCAACTCATTCTATCTAAAAATCTTAAATCCATGTATACA
66 ATAATCATGCATTCTTTACCAGAATTCAACTCATTCTATCTAAAAATCTTAAATCCATGTATACA
* *
3707645 CACATCAGTAAGAACAATCACAAGTATGCATAGGTCACTAGTGTTTTCTAAAGATGAATACAAAT
131 CACATCAGCAAGAACAATCACAAGTATGCATAGGTCACTAGTGTTTTCTAAAGATGAATACAAAC
*
3707710 AAACAAGCACAACCAAGGGATCAAAAATTAATTTAAGTTGAATCCGTAATTTCCATTGCAAAGAA
196 AAACAAGCACAACCAAGGGATCAAAAATCAATTTAAGTTGAATCCGTAATTTCCATTGCAAAGAA
*
3707775 AATAATTAATCAACTAATGACATGACTCTCTAAAGTCCCCAGCGGAGTTTCCAAATTGAATT
261 AATAATTAATCAACTAATGACATAACTCTCTAAAGTCCCCAGCGGAGTTTCCAAATTGAATT
*
3707837 CAACTCGGGTATAGGGCTTATGTTATGCAAATGCAGTGAGTGTGTGTAAGGATAAATCTACCAAA
1 CAACTCGGGTATAGGGCTTATGTTATGCAAATGCAGTGAGTGTGTGTAAGGAGAAATCTACCAAA
3707902 ATAATCATGCATTCTTTACCAGAATTCAACTCATTCTATCTAAAAATCTTAAATCCATGTATACA
66 ATAATCATGCATTCTTTACCAGAATTCAACTCATTCTATCTAAAAATCTTAAATCCATGTATACA
*
3707967 CACATCAGCAAGAACAATCACAAGTATGCATAGGTCACTAGTGTTTTTTAAAGATGAATACAAAC
131 CACATCAGCAAGAACAATCACAAGTATGCATAGGTCACTAGTGTTTTCTAAAGATGAATACAAAC
*
3708032 AAACAAGCACAACCAAGGGATCAAAAATCAATTTAAGTTGAATCCGTAATTTCCATTGCAAAGAC
196 AAACAAGCACAACCAAGGGATCAAAAATCAATTTAAGTTGAATCCGTAATTTCCATTGCAAAGAA
*
3708097 AATAATTAATCAACTAATGACCTAACTCTCTAAAGTCCCCAGCGGAGTTTCCAA
261 AATAATTAATCAACTAATGACATAACTCTCTAAAGTCCCCAGCGGAGTTTCCAA
3708151 GTTGTCGCAA
Statistics
Matches: 306, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
322 306 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (322 bp):
CAACTCGGGTATAGGGCTTATGTTATGCAAATGCAGTGAGTGTGTGTAAGGAGAAATCTACCAAA
ATAATCATGCATTCTTTACCAGAATTCAACTCATTCTATCTAAAAATCTTAAATCCATGTATACA
CACATCAGCAAGAACAATCACAAGTATGCATAGGTCACTAGTGTTTTCTAAAGATGAATACAAAC
AAACAAGCACAACCAAGGGATCAAAAATCAATTTAAGTTGAATCCGTAATTTCCATTGCAAAGAA
AATAATTAATCAACTAATGACATAACTCTCTAAAGTCCCCAGCGGAGTTTCCAAATTGAATT
Found at i:3711192 original size:30 final size:30
Alignment explanation
Indices: 3711134--3711195 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
3711124 TAAACGGATA
* *
3711134 AAATTAATACAATTAAATGATTTCAAAAAT
1 AAATTAATACAATTAAAAGATATCAAAAAT
*
3711164 AAATTAATACAATTAAAAGTATATAAAAAAT
1 AAATTAATACAATTAAAAG-ATATCAAAAAT
3711195 A
1 A
3711196 GAATGTTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATTAATACAATTAAAAGATATCAAAAAT
Found at i:3711763 original size:20 final size:18
Alignment explanation
Indices: 3711723--3711764 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
3711713 CTAGGTGTAA
*
3711723 GTGGATCCTAATGTTTAT
1 GTGGATCCTAATGTATAT
3711741 GTGGATCCTAACTCGTATAT
1 GTGGATCCTAA-T-GTATAT
3711761 GTGG
1 GTGG
3711765 GGGGATTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 1 0.05
20 9 0.43
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (18 bp):
GTGGATCCTAATGTATAT
Found at i:3713022 original size:20 final size:20
Alignment explanation
Indices: 3712973--3713023 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
3712963 AATACCTAAC
*
3712973 TAAATTTTTAATATTTGTTT
1 TAAAATTTTAATATTTGTTT
3712993 TATAAA-TTTAATATTT-TTAT
1 TA-AAATTTTAATATTTGTT-T
3713013 TAAAATTTTAA
1 TAAAATTTTAA
3713024 CTTTGTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.19
20 20 0.74
21 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TAAAATTTTAATATTTGTTT
Found at i:3713646 original size:48 final size:48
Alignment explanation
Indices: 3713590--3713681 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
3713580 TCATTTCGAA
* * *
3713590 TTACTTTCGATTCTGATTAATTTCTATTTGGGTTAAATTTGATTCGGT
1 TTACTTTCGATTCTGACTAATTTCTATTCGGATTAAATTTGATTCGGT
* * *
3713638 TTACTTTCGATTCTGACTATTTTTTATTCGGATTAATTTTGATT
1 TTACTTTCGATTCTGACTAATTTCTATTCGGATTAAATTTGATT
3713682 TGAATTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (48 bp):
TTACTTTCGATTCTGACTAATTTCTATTCGGATTAAATTTGATTCGGT
Found at i:3713700 original size:17 final size:16
Alignment explanation
Indices: 3713655--3713706 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
3713645 CGATTCTGAC
* * *
3713655 TATTTTTTATTCGGAT
1 TATTTTTGATTTGAAT
*
3713671 TAATTTTGATTTGAAT
1 TATTTTTGATTTGAAT
3713687 TATTTTTCGATTTGAAT
1 TATTTTT-GATTTGAAT
3713704 TAT
1 TAT
3713707 CAATCCGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 18 0.60
17 12 0.40
ACGTcount: A:0.25, C:0.04, G:0.12, T:0.60
Consensus pattern (16 bp):
TATTTTTGATTTGAAT
Found at i:3715968 original size:16 final size:17
Alignment explanation
Indices: 3715947--3715979 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
3715937 TAACGGTAAA
3715947 TTAAGAAT-CTCACGCT
1 TTAAGAATCCTCACGCT
3715963 TTAAGAATCCTCACGCT
1 TTAAGAATCCTCACGCT
3715980 GGGCTCTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (17 bp):
TTAAGAATCCTCACGCT
Found at i:3718606 original size:25 final size:25
Alignment explanation
Indices: 3718578--3718653 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
3718568 TTATCTATAA
3718578 TTATTCCATAAATGTATGAATTAAG
1 TTATTCCATAAATGTATGAATTAAG
* *
3718603 TTA-T-C-T-TA-GTAATTAATATAA-
1 TTATTCCATAAATGT-ATGAAT-TAAG
*
3718624 TTATTCCATAAATGCATGAATTAAG
1 TTATTCCATAAATGTATGAATTAAG
3718649 TTATT
1 TTATT
3718654 TTAGTGATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 16
0.64 0.08 0.27
Matches are distributed among these distances:
20 2 0.05
21 9 0.24
22 5 0.13
23 2 0.05
24 5 0.13
25 14 0.37
26 1 0.03
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (25 bp):
TTATTCCATAAATGTATGAATTAAG
Found at i:3718626 original size:46 final size:46
Alignment explanation
Indices: 3718573--3718664 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
3718563 AAGTCTTATC
*
3718573 TATAATTATTCCATAAATGTATGAATTAAGTTATCTTAGTAATTAA
1 TATAATTATTCCATAAATGCATGAATTAAGTTATCTTAGTAATTAA
* *
3718619 TATAATTATTCCATAAATGCATGAATTAAGTTATTTTAGTGATTAA
1 TATAATTATTCCATAAATGCATGAATTAAGTTATCTTAGTAATTAA
3718665 ATTAATAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (46 bp):
TATAATTATTCCATAAATGCATGAATTAAGTTATCTTAGTAATTAA
Found at i:3718989 original size:39 final size:39
Alignment explanation
Indices: 3718940--3719018 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
3718930 ATCAAATTTC
3718940 ACATTATTTAAATCGAGTGATTAAAAATAAAATTTATAT
1 ACATTATTTAAATCGAGTGATTAAAAATAAAATTTATAT
*
3718979 ACATTGTTTAAATCGAGTGATTAAAAATAAAATTTATAT
1 ACATTATTTAAATCGAGTGATTAAAAATAAAATTTATAT
3719018 A
1 A
3719019 TTTTTATCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (39 bp):
ACATTATTTAAATCGAGTGATTAAAAATAAAATTTATAT
Found at i:3719510 original size:14 final size:14
Alignment explanation
Indices: 3719491--3719521 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3719481 TTGAAATTCT
3719491 AAATATTTAAATAA
1 AAATATTTAAATAA
*
3719505 AAATATTTATATAA
1 AAATATTTAAATAA
3719519 AAA
1 AAA
3719522 ATCATCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATATTTAAATAA
Found at i:3719590 original size:23 final size:23
Alignment explanation
Indices: 3719557--3719602 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3719547 CTTTTAAATT
*
3719557 TATATACTTTTTAATAAAATTTA
1 TATATAATTTTTAATAAAATTTA
*
3719580 TATATAATTTTTTATAAAATTTA
1 TATATAATTTTTAATAAAATTTA
3719603 AAAGATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TATATAATTTTTAATAAAATTTA
Found at i:3719610 original size:24 final size:23
Alignment explanation
Indices: 3719564--3719610 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3719554 ATTTATATAC
* *
3719564 TTTTTAATAAAATTTATATATAA
1 TTTTTAATAAAATTTAAAGATAA
*
3719587 TTTTTTATAAAATTTAAAAGATAA
1 TTTTTAATAAAATTT-AAAGATAA
3719611 ATGGATAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTTTAATAAAATTTAAAGATAA
Found at i:3720220 original size:21 final size:21
Alignment explanation
Indices: 3720194--3720233 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3720184 TTTTTAAAGG
3720194 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
**
3720215 CATGCATTGATGCATCAAT
1 CATGCACCGATGCATCAAT
3720234 GAATAAATTG
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:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:3720283 original size:19 final size:19
Alignment explanation
Indices: 3720259--3720297 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3720249 TCGAATGCAT
3720259 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
* *
3720278 TCCATGCATCGTTGCACTC
1 TCCATGCACCGATGCACTC
3720297 T
1 T
3720298 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.38, G:0.15, T:0.28
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:3720339 original size:45 final size:44
Alignment explanation
Indices: 3720270--3720387 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 44
3720260 CCATGCACCG
*
3720270 ATGCACTCTCCATGCATCGTTGCACTCTG-ATTTAATTAAAACATAGA
1 ATGCACT-T-CATGCATCGATGCACTCTGCATTT--TTAAAACATAGA
* * * * *
3720317 ATGCATTTGATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGA
1 ATGCACTTCATGCATCGATGCACTC-TGC-ATTTTTAAAACATAGA
3720362 ATGCACTTCATGCATCGATGCACTCT
1 ATGCACTTCATGCATCGATGCACTCT
3720388 TAGTGCACCG
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.02
45 45 0.78
46 2 0.03
47 10 0.17
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
ATGCACTTCATGCATCGATGCACTCTGCATTTTTAAAACATAGA
Found at i:3720384 original size:17 final size:19
Alignment explanation
Indices: 3720356--3720404 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3720346 ATTTTTCAAA
3720356 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
3720374 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
3720393 CACCGATGCACT
1 CATCGATGCACT
3720405 AGGAGTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:3726231 original size:24 final size:23
Alignment explanation
Indices: 3726203--3726284 Score: 98
Period size: 24 Copynumber: 3.6 Consensus size: 23
3726193 CACTTAACAA
3726203 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCATCCC-TTGAATG
*
3726227 TGCATCGATGCATCCC---CATG
1 TGCATCGATGCATCCCTTGAATG
* *
3726247 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCATCCCTTGAATG
3726271 TGCATCGATGCATC
1 TGCATCGATGCATC
3726285 GATCGGGTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.06
21 14 0.29
23 12 0.25
24 19 0.40
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCATCCCTTGAATG
Found at i:3728752 original size:21 final size:21
Alignment explanation
Indices: 3728728--3728767 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3728718 TTTTTAAAGG
3728728 CATGCACCAATGCATCAATAC
1 CATGCACCAATGCATCAATAC
* *
3728749 CATGCATCGATGCATCAAT
1 CATGCACCAATGCATCAAT
3728768 GAATAAATTG
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:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (21 bp):
CATGCACCAATGCATCAATAC
Found at i:3728789 original size:28 final size:28
Alignment explanation
Indices: 3728752--3728820 Score: 120
Period size: 28 Copynumber: 2.4 Consensus size: 28
3728742 TCAATACCAT
3728752 GCATCGATGCATCAATGAATAAATTGAA
1 GCATCGATGCATCAATGAATAAATTGAA
3728780 GCATCGATGCATCAATGAATAAATTGAA
1 GCATCGATGCATCAATGAATAAATTGAA
*
3728808 ACATCGAATGCAT
1 GCATCG-ATGCAT
3728821 TCCATGCACC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 33 0.85
29 6 0.15
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (28 bp):
GCATCGATGCATCAATGAATAAATTGAA
Found at i:3728845 original size:19 final size:19
Alignment explanation
Indices: 3728821--3728859 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3728811 TCGAATGCAT
3728821 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
3728840 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
3728859 T
1 T
3728860 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:3728885 original size:64 final size:64
Alignment explanation
Indices: 3728801--3728920 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
3728791 TCAATGAATA
* * **
3728801 AATTGAAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGATTT
1 AATTAAAACATCAAATGCATTCCATGCACCGATGCACAATCCATGCATCGATGCACTCTGATTT
** * *
3728865 AATTAAAACATCAAATGCATTTGATGCATCGTTGCACAATCCATGCATCGATGCAC
1 AATTAAAACATCAAATGCATTCCATGCACCGATGCACAATCCATGCATCGATGCAC
3728921 CAGGCTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (64 bp):
AATTAAAACATCAAATGCATTCCATGCACCGATGCACAATCCATGCATCGATGCACTCTGATTT
Found at i:3728965 original size:64 final size:62
Alignment explanation
Indices: 3728806--3728965 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 62
3728796 GAATAAATTG
* ** *
3728806 AAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGATTTAATTA
1 AAACATCGAATGCATT-CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTT-ATTA
* * *
3728870 AAACATCAAATGCATTTGATGCATCGTTGCACAATCCATGCATCGATGCACCAGGCT-ATTT-TT
1 AAACATCGAATGCA-TTCATGCATCGATGCACAATCCATGCATCGATGCA-C--GCTGATTTATT
*
3728933 C
62 A
*
3728934 AAACATCGAATGCACTTCATGCATCAATGCAC
1 AAACATCGAATGCA-TTCATGCATCGATGCAC
3728966 TCTTAGTGCA
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
64 70 0.89
65 3 0.04
66 4 0.05
67 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (62 bp):
AAACATCGAATGCATTCATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTTATTA
Found at i:3732051 original size:23 final size:23
Alignment explanation
Indices: 3732019--3732070 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
3732009 AGCTTGAGGC
*
3732019 CAAAGCTTTCTTGGTTAAAAAAA
1 CAAAGCTTTCTTGGCTAAAAAAA
*
3732042 CAAAGTTTTCTTGGCTAAAAAAA
1 CAAAGCTTTCTTGGCTAAAAAAA
3732065 CAAAGC
1 CAAAGC
3732071 ATAGGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (23 bp):
CAAAGCTTTCTTGGCTAAAAAAA
Found at i:3733494 original size:24 final size:24
Alignment explanation
Indices: 3733460--3733508 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
3733450 TCTCTCTAAC
* *
3733460 CAGGCGTTTTCAAATTTCAAATTT
1 CAGGCGATTTCAAACTTCAAATTT
3733484 CAGGCGATTTCAAACTTCAAATTT
1 CAGGCGATTTCAAACTTCAAATTT
3733508 C
1 C
3733509 CATTCCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (24 bp):
CAGGCGATTTCAAACTTCAAATTT
Found at i:3736924 original size:23 final size:23
Alignment explanation
Indices: 3736894--3736942 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
3736884 ATTGGTGTGA
3736894 GGACTAAGATAATAAAAGTTTGC
1 GGACTAAGATAATAAAAGTTTGC
**
3736917 GGACTAAGATAATAATGGTTTGC
1 GGACTAAGATAATAAAAGTTTGC
3736940 GGA
1 GGA
3736943 GAAGATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (23 bp):
GGACTAAGATAATAAAAGTTTGC
Found at i:3740321 original size:2 final size:2
Alignment explanation
Indices: 3740316--3740347 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3740306 AAAAAAAAAA
3740316 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
3740348 TTGTAAAAAA
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:3743287 original size:20 final size:20
Alignment explanation
Indices: 3743262--3743315 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
3743252 TGATCAGCTG
* *
3743262 GGGTATCGATACATTAGGT-A
1 GGGTATCGATAC-TGAAGTAA
*
3743282 GGGTATAGATACTGAAGTAA
1 GGGTATCGATACTGAAGTAA
3743302 GGGTATCGATACTG
1 GGGTATCGATACTG
3743316 CAAGGTCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACTGAAGTAA
Found at i:3744796 original size:30 final size:30
Alignment explanation
Indices: 3744733--3744825 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
3744723 GAAGGACCTA
* * *
3744733 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
3744762 TCCAGAGGTCATAAAGATCCTCGATAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
3744792 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
3744822 TCCA
1 TCCA
3744826 TAAGGACCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 16 0.28
30 42 0.72
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Done.