Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 19 of 105
Found at i:3963792 original size:21 final size:21
Alignment explanation
Indices: 3963761--3963818 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
3963751 ATTGAGACTT
* *
3963761 AAAACTCAAAGACTCTTCTTC
1 AAAATTCAAAGACTCTTATTC
* * *
3963782 GAAATTCAAAGATTCTTATTT
1 AAAATTCAAAGACTCTTATTC
3963803 AAAATTCAAAGACTCT
1 AAAATTCAAAGACTCT
3963819 CATAAAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAATTCAAAGACTCTTATTC
Found at i:3963827 original size:21 final size:21
Alignment explanation
Indices: 3963783--3963827 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3963773 CTCTTCTTCG
* * **
3963783 AAATTCAAAGATTCTTATTTA
1 AAATTCAAAGACTCTCATAAA
3963804 AAATTCAAAGACTCTCATAAA
1 AAATTCAAAGACTCTCATAAA
3963825 AAA
1 AAA
3963828 AGTTCACAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (21 bp):
AAATTCAAAGACTCTCATAAA
Found at i:3965023 original size:10 final size:10
Alignment explanation
Indices: 3965016--3965044 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
3965006 TTCCTTTTTT
3965016 TTTTTTTTCA
1 TTTTTTTTCA
3965026 TTTTTTTTCA
1 TTTTTTTTCA
3965036 TTTTTTTTC
1 TTTTTTTTC
3965045 CTTCTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:3965057 original size:22 final size:20
Alignment explanation
Indices: 3965016--3965059 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3965006 TTCCTTTTTT
*
3965016 TTTTTTTTCATTTTTTTTCA
1 TTTTTTTTCATTTTTATTCA
*
3965036 TTTTTTTTCCTTCTTTCATTCA
1 TTTTTTTTCATT-TTT-ATTCA
3965058 TT
1 TT
3965060 CACCCATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 3 0.15
22 6 0.30
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTTTCATTTTTATTCA
Found at i:3969347 original size:8 final size:9
Alignment explanation
Indices: 3969310--3969348 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
3969300 AATTTCAAAA
3969310 TTTTTATA-
1 TTTTTATAT
3969318 TTTTTATAT
1 TTTTTATAT
*
3969327 TTTTTATGT
1 TTTTTATAT
*
3969336 TTTTTTTAT
1 TTTTTATAT
3969345 TTTT
1 TTTT
3969349 GTTTGTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (9 bp):
TTTTTATAT
Found at i:3971223 original size:25 final size:24
Alignment explanation
Indices: 3971195--3971274 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
3971185 TTATACAAAT
*
3971195 ATATTAATAAATCACACAAATAAA
1 ATATTAATAAATTACACAAATAAA
* **
3971219 CATATT-ATCAATTATGCAAAT---
1 -ATATTAATAAATTACACAAATAAA
*
3971240 ATATTAAAAAATTACACAAATAAA
1 ATATTAATAAATTACACAAATAAA
3971264 TATATTAATAA
1 -ATATTAATAA
3971275 TCATGCGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
20 5 0.12
21 11 0.27
24 11 0.27
25 14 0.34
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.31
Consensus pattern (24 bp):
ATATTAATAAATTACACAAATAAA
Found at i:3971233 original size:45 final size:45
Alignment explanation
Indices: 3971184--3971270 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
3971174 ATATCAGTAT
*
3971184 ATTATACAAATATATTAATAAATCACACAAATAAACATATTATCA
1 ATTATACAAATATATTAAAAAATCACACAAATAAACATATTATCA
* * *
3971229 ATTATGCAAATATATTAAAAAATTACACAAATAAATATATTA
1 ATTATACAAATATATTAAAAAATCACACAAATAAACATATTA
3971271 ATAATCATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.32
Consensus pattern (45 bp):
ATTATACAAATATATTAAAAAATCACACAAATAAACATATTATCA
Found at i:3976907 original size:27 final size:27
Alignment explanation
Indices: 3976874--3976929 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
3976864 TCCCTAACAC
3976874 GAAGAGAAACCCTAAGGAAACTCTAAG
1 GAAGAGAAACCCTAAGGAAACTCTAAG
* * *
3976901 GAAGAGAAACCTTGAGGAAACTTTAAG
1 GAAGAGAAACCCTAAGGAAACTCTAAG
3976928 GA
1 GA
3976930 GACTAAGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.25, T:0.14
Consensus pattern (27 bp):
GAAGAGAAACCCTAAGGAAACTCTAAG
Found at i:3977555 original size:7 final size:7
Alignment explanation
Indices: 3977543--3977568 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3977533 TCACCTGTAA
3977543 AATGGGC
1 AATGGGC
3977550 AATGGGC
1 AATGGGC
3977557 AATGGGC
1 AATGGGC
3977564 AATGG
1 AATGG
3977569 CCCGAGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.42, T:0.15
Consensus pattern (7 bp):
AATGGGC
Found at i:3980114 original size:14 final size:14
Alignment explanation
Indices: 3980066--3980121 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
3980056 TAATGTTGAT
3980066 TTAATTTT-AATAA
1 TTAATTTTAAATAA
3980079 TTAATATTTAAACTCAA
1 TTAAT-TTTAAA-T-AA
* *
3980096 ATAATTTTAAATAC
1 TTAATTTTAAATAA
3980110 TTAATTATTAAA
1 TTAATT-TTAAA
3980122 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.14
14 9 0.26
15 8 0.23
16 7 0.20
17 6 0.17
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATTTTAAATAA
Found at i:3982487 original size:19 final size:19
Alignment explanation
Indices: 3982449--3982494 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
3982439 ATTGAACTTT
*
3982449 TTATTTTAATATAATTTTA
1 TTATTTTAATATAATATTA
3982468 TTATTTTAACTATAA-ATTA
1 TTATTTTAA-TATAATATTA
*
3982487 TAATTTTA
1 TTATTTTA
3982495 CTCTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATTTTAATATAATATTA
Found at i:3984676 original size:13 final size:13
Alignment explanation
Indices: 3984660--3984694 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
3984650 AATTATTTTC
*
3984660 TAAAAAATGAAAA
1 TAAAAAATAAAAA
3984673 TAAAAAATAAAAA
1 TAAAAAATAAAAA
*
3984686 CAAAAAATA
1 TAAAAAATA
3984695 CTTTCTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:3989324 original size:18 final size:16
Alignment explanation
Indices: 3989301--3989334 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
3989291 ATACTCTTAA
3989301 AAATTGTATCAATAATTT
1 AAATTGTA-CAA-AATTT
3989319 AAATTGTACAAAATTT
1 AAATTGTACAAAATTT
3989335 GAGACGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTGTACAAAATTT
Found at i:3992602 original size:7 final size:7
Alignment explanation
Indices: 3992590--3992615 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3992580 TCACCTGTAA
3992590 AATGGGC
1 AATGGGC
3992597 AATGGGC
1 AATGGGC
3992604 AATGGGC
1 AATGGGC
3992611 AATGG
1 AATGG
3992616 CCCAAGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.42, T:0.15
Consensus pattern (7 bp):
AATGGGC
Found at i:3993905 original size:19 final size:19
Alignment explanation
Indices: 3993883--3993922 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3993873 CAAAATTGTT
3993883 ATTTTTGTCATTTCTT-TTC
1 ATTTTT-TCATTTCTTCTTC
*
3993902 ATTTTTTTATTTCTTCTTC
1 ATTTTTTCATTTCTTCTTC
3993921 AT
1 AT
3993923 CTTAATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.70
Consensus pattern (19 bp):
ATTTTTTCATTTCTTCTTC
Found at i:3993906 original size:18 final size:19
Alignment explanation
Indices: 3993885--3993922 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
3993875 AAATTGTTAT
3993885 TTTTGTCATTTCTT-TTCA
1 TTTTGTCATTTCTTCTTCA
* *
3993903 TTTTTTTATTTCTTCTTCA
1 TTTTGTCATTTCTTCTTCA
3993922 T
1 T
3993923 CTTAATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.11, C:0.16, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTTGTCATTTCTTCTTCA
Found at i:3995163 original size:14 final size:14
Alignment explanation
Indices: 3995115--3995170 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
3995105 TAATGTTGAT
3995115 TTAATTTT-AATAA
1 TTAATTTTAAATAA
3995128 TTAATATTTAAACTCAA
1 TTAAT-TTTAAA-T-AA
* *
3995145 ATAATTTTAAATAC
1 TTAATTTTAAATAA
3995159 TTAATTATTAAA
1 TTAATT-TTAAA
3995171 AAAAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.14
14 9 0.26
15 8 0.23
16 7 0.20
17 6 0.17
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATTTTAAATAA
Found at i:4004224 original size:2 final size:2
Alignment explanation
Indices: 4004219--4004252 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4004209 ATCCTTGATC
*
4004219 AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4004253 TTTCCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4005405 original size:24 final size:26
Alignment explanation
Indices: 4005377--4005441 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 26
4005367 ATTGATAAAA
*
4005377 TTAATAAATAATTATTAAAT-TA-TT
1 TTAATAAATAATTACTAAATATATTT
*
4005401 TTAATGGAA-AATTACTAAATGATATTT
1 TTAAT-AAATAATTACTAAAT-ATATTT
4005428 TTAATAAATAATTA
1 TTAATAAATAATTA
4005442 ATAATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 15 0.45
25 2 0.06
26 4 0.12
27 12 0.36
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (26 bp):
TTAATAAATAATTACTAAATATATTT
Found at i:4020086 original size:12 final size:12
Alignment explanation
Indices: 4020069--4020093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4020059 CCTCTAGATC
4020069 AATGGCTCTATT
1 AATGGCTCTATT
4020081 AATGGCTCTATT
1 AATGGCTCTATT
4020093 A
1 A
4020094 TATGTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
AATGGCTCTATT
Found at i:4023344 original size:38 final size:37
Alignment explanation
Indices: 4023302--4023398 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 37
4023292 TATCTTTATC
*
4023302 AAATAAAATCAAATTAATTGTA-TAAAAACTCAATTAAA
1 AAATAAAAT-AAAATAATTG-AGTAAAAACTCAATTAAA
* * **
4023340 AAATAAACTAAAATAATTGAGTTAATTCTCAATTAAA
1 AAATAAAATAAAATAATTGAGTAAAAACTCAATTAAA
* *
4023377 AAATAAACTAAAATAGTTGAGT
1 AAATAAAATAAAATAATTGAGT
4023399 TCATTTTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.02
37 43 0.83
38 8 0.15
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (37 bp):
AAATAAAATAAAATAATTGAGTAAAAACTCAATTAAA
Found at i:4023761 original size:20 final size:19
Alignment explanation
Indices: 4023724--4023766 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4023714 TAACTGTACG
*
4023724 AAAACTAAAATTCTTAAAT
1 AAAACTAAAATTCTTAAAC
* *
4023743 AAAACTTAAATTTTATAAAC
1 AAAACTAAAATTCT-TAAAC
4023763 AAAA
1 AAAA
4023767 TACCCCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAACTAAAATTCTTAAAC
Found at i:4025042 original size:30 final size:30
Alignment explanation
Indices: 4024985--4025042 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4024975 ATGATAACAA
* *
4024985 TAAAAAAAGAAAGAAAAAATAATAAAATAG
1 TAAAAAAACAAAGAAAAAATAAAAAAATAG
*
4025015 TAAAACAACAAAGAAATAAA-AAAAAAAT
1 TAAAAAAACAAAGAAA-AAATAAAAAAAT
4025043 CTCAAACCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (30 bp):
TAAAAAAACAAAGAAAAAATAAAAAAATAG
Found at i:4026045 original size:13 final size:13
Alignment explanation
Indices: 4026029--4026061 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4026019 TGAAAGAAAG
4026029 AAAAAATAATAAT
1 AAAAAATAATAAT
*
4026042 AAAAGATAATAAT
1 AAAAAATAATAAT
4026055 AAAAAAT
1 AAAAAAT
4026062 TTAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAAAATAATAAT
Found at i:4026441 original size:34 final size:35
Alignment explanation
Indices: 4026335--4026447 Score: 126
Period size: 34 Copynumber: 3.3 Consensus size: 35
4026325 CACTTTTAAG
* * *
4026335 TTTCAAGATTTACAAATCCAAAAACGTTTAAGAGT
1 TTTCAAGATTTACAAATCCAAAAGCTTTTAAAAGT
** *
4026370 TTT-AAGATTTACAAATCC-TGAGACTTTTAAAAAT
1 TTTCAAGATTTACAAATCCAAAAG-CTTTTAAAAGT
*
4026404 TTTCAA-ATTTACATATCCAAAAGCTTTTAAAAGT
1 TTTCAAGATTTACAAATCCAAAAGCTTTTAAAAGT
4026438 TTTCAA-ATTT
1 TTTCAAGATTT
4026448 GCATATCTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
33 1 0.02
34 57 0.88
35 7 0.11
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (35 bp):
TTTCAAGATTTACAAATCCAAAAGCTTTTAAAAGT
Found at i:4028382 original size:5 final size:5
Alignment explanation
Indices: 4028369--4028422 Score: 54
Period size: 5 Copynumber: 10.6 Consensus size: 5
4028359 TTTTAAAAAA
* * * * *
4028369 TTTTC TTTTT TTTTC ATTTC CTTTC CTTTC TTTTC TTTTCC TTTCC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT-C TTTTC TTTTC
4028420 TTT
1 TTT
4028423 ATTAATATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
5 37 0.90
6 4 0.10
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:4028393 original size:20 final size:20
Alignment explanation
Indices: 4028370--4028422 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4028360 TTTAAAAAAT
*
4028370 TTTCTTTTTTTTTCATTTCC
1 TTTCTTTTCTTTTCATTTCC
* *
4028390 TTTCCTTTCTTTTCTTTTCC
1 TTTCTTTTCTTTTCATTTCC
4028410 TTTCCTTTTCTTT
1 TTT-CTTTTCTTT
4028423 ATTAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCTTTTCTTTTCATTTCC
Found at i:4028398 original size:25 final size:25
Alignment explanation
Indices: 4028370--4028422 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
4028360 TTTAAAAAAT
*
4028370 TTTCTTTTTTTTTCATTTCCTTTCC
1 TTTCTTTTCTTTTCATTTCCTTTCC
* *
4028395 TTTCTTTTCTTTTCCTTTCCTTTTC
1 TTTCTTTTCTTTTCATTTCCTTTCC
4028420 TTT
1 TTT
4028423 ATTAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTCTTTTCTTTTCATTTCCTTTCC
Found at i:4038984 original size:22 final size:21
Alignment explanation
Indices: 4038941--4038984 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4038931 GATTTCAATT
* *
4038941 ACATTCCTTTTTTATCGTCTG
1 ACATTCCTTTTTTATAGCCTG
*
4038962 ACATTTCTTTTTATATAGCCTG
1 ACATTCCTTTTT-TATAGCCTG
4038984 A
1 A
4038985 GCTGATAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.50
Consensus pattern (21 bp):
ACATTCCTTTTTTATAGCCTG
Found at i:4047560 original size:19 final size:20
Alignment explanation
Indices: 4047533--4047582 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
4047523 ACTGGCCGGT
*
4047533 TTGGTGCCACT-TCAGATCG
1 TTGGGGCCACTGTCAGATCG
*
4047552 TTGGGGCCATTAGGTCAGATCG
1 TTGGGGCCACT--GTCAGATCG
4047574 TTGGGGCCA
1 TTGGGGCCA
4047583 TAGCAAATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.35
22 17 0.65
ACGTcount: A:0.16, C:0.22, G:0.34, T:0.28
Consensus pattern (20 bp):
TTGGGGCCACTGTCAGATCG
Found at i:4052193 original size:12 final size:12
Alignment explanation
Indices: 4052151--4052194 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
4052141 CATATATATA
* *
4052151 AATATAAAATTA
1 AATATATAATTT
*
4052163 AATAAATAATTT
1 AATATATAATTT
4052175 AATATATAATTT
1 AATATATAATTT
4052187 AATATATA
1 AATATATA
4052195 TAGTCAAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATATATAATTT
Found at i:4052655 original size:22 final size:20
Alignment explanation
Indices: 4052602--4052672 Score: 83
Period size: 22 Copynumber: 3.5 Consensus size: 20
4052592 TATATCACAT
4052602 ATTTATATTTTTT-TATTTTA
1 ATTTAT-TTTTTTATATTTTA
4052622 ATTTATTTTTTTATATTTTA
1 ATTTATTTTTTTATATTTTA
* *
4052642 TATATTCTTTTTTTATATTGTA
1 -AT-TTATTTTTTTATATTTTA
4052664 A-TTATTTTT
1 ATTTATTTTT
4052673 ACAGAGTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
19 13 0.29
20 13 0.29
21 3 0.07
22 16 0.36
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (20 bp):
ATTTATTTTTTTATATTTTA
Found at i:4052954 original size:19 final size:20
Alignment explanation
Indices: 4052932--4052975 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
4052922 AAAGGAAGCG
*
4052932 AAAATTTTAAGAAAA-AGAA
1 AAAATATTAAGAAAAGAGAA
*
4052951 AAAA-ATTAAGAAAAGTGAA
1 AAAATATTAAGAAAAGAGAA
4052970 AAAATA
1 AAAATA
4052976 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 11 0.52
20 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAATATTAAGAAAAGAGAA
Found at i:4054807 original size:10 final size:10
Alignment explanation
Indices: 4054773--4054806 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
4054763 AAAAGATTAC
4054773 ATAACCAAAT
1 ATAACCAAAT
4054783 ATAACCAAAT
1 ATAACCAAAT
*
4054793 ATAATCAAAT
1 ATAACCAAAT
4054803 ATAA
1 ATAA
4054807 TTTGCCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.24
Consensus pattern (10 bp):
ATAACCAAAT
Found at i:4056022 original size:27 final size:27
Alignment explanation
Indices: 4055982--4056038 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
4055972 ATTAAACATA
4055982 AATATTTTTAATATTTCAATAATAAAT
1 AATATTTTTAATATTTCAATAATAAAT
*
4056009 AATATTATTT-ATATTTTAATAATAAAT
1 AATATT-TTTAATATTTCAATAATAAAT
4056036 AAT
1 AAT
4056039 GTAAAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
AATATTTTTAATATTTCAATAATAAAT
Found at i:4056036 original size:24 final size:23
Alignment explanation
Indices: 4055959--4056036 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 23
4055949 TAAATATTTT
4055959 TATTTTGTATATTATTAA-ACATAAA
1 TATTTT-TATATT-TTAATA-ATAAA
*
4055984 TATTTTTAATATTTCAATAATAAATAA
1 TATTTTT-ATATTTTAATAAT--A-AA
4056011 TATTATTTATATTTTAATAATAAA
1 TATT-TTTATATTTTAATAATAAA
4056035 TA
1 TA
4056037 ATGTAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
24 10 0.22
25 13 0.29
26 1 0.02
27 18 0.40
28 3 0.07
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (23 bp):
TATTTTTATATTTTAATAATAAA
Found at i:4056073 original size:34 final size:35
Alignment explanation
Indices: 4056005--4056084 Score: 92
Period size: 37 Copynumber: 2.3 Consensus size: 35
4055995 TTTCAATAAT
4056005 AAATAATATTATTTATATTTTAATAATAAATAATGTA
1 AAATAATATTATTTATATTTTAATAAT--ATAATGTA
* *
4056042 AAATAGTATT-TTTATTATTTTAATAAT-TAATGTT
1 AAATAATATTATTTA-TATTTTAATAATATAATGTA
*
4056076 AAACAATAT
1 AAATAATAT
4056085 AATAATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
34 13 0.34
36 4 0.11
37 21 0.55
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (35 bp):
AAATAATATTATTTATATTTTAATAATATAATGTA
Found at i:4056267 original size:22 final size:22
Alignment explanation
Indices: 4056222--4056315 Score: 67
Period size: 21 Copynumber: 4.5 Consensus size: 22
4056212 TATTATTATT
*
4056222 TAATAATAA-AT-AC-TTTCAA
1 TAATAATAATATAACATTTTAA
4056241 T-ATAA-AATATAAACATTTTAA
1 TAATAATAATAT-AACATTTTAA
*
4056262 TAAT-A-AATATTACTATTTTAA
1 TAATAATAATATAAC-ATTTTAA
* * *
4056283 TATTAATAAAATAATATTTTAA
1 TAATAATAATATAACATTTTAA
*
4056305 GAATAATAATA
1 TAATAATAATA
4056316 CTATTTTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
17 2 0.03
18 6 0.10
19 1 0.02
20 4 0.07
21 22 0.38
22 18 0.31
23 5 0.09
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (22 bp):
TAATAATAATATAACATTTTAA
Found at i:4056269 original size:21 final size:21
Alignment explanation
Indices: 4056245--4056324 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
4056235 TTTCAATATA
4056245 AAATATAAAC-ATTTTAATAAT
1 AAATAT-AACTATTTTAATAAT
*
4056266 AAATATTACTATTTTAATATTAAT
1 AAATATAACTATTTT-A-A-TAAT
*
4056290 AAA-ATAA-TATTTTAAGAAT
1 AAATATAACTATTTTAATAAT
4056309 -AATA-ATACTATTTTAA
1 AAATATA-ACTATTTTAA
4056325 ATATTTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
18 3 0.06
19 5 0.10
20 11 0.22
21 12 0.24
22 7 0.14
23 4 0.08
24 7 0.14
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (21 bp):
AAATATAACTATTTTAATAAT
Found at i:4056319 original size:42 final size:43
Alignment explanation
Indices: 4056255--4056337 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
4056245 AAATATAAAC
* *
4056255 ATTTTAATAATAAATATTACTATTTT-AATATTAATAAAATAAT
1 ATTTTAAGAATAAATAATACTATTTTAAATATT-ATAAAATAAT
*
4056298 ATTTTAAGAAT-AATAATACTATTTTAAATATTTTAAAATA
1 ATTTTAAGAATAAATAATACTATTTTAAATATTATAAAATA
4056338 TTAATATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 20 0.56
43 16 0.44
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (43 bp):
ATTTTAAGAATAAATAATACTATTTTAAATATTATAAAATAAT
Found at i:4056355 original size:28 final size:30
Alignment explanation
Indices: 4056279--4056355 Score: 70
Period size: 28 Copynumber: 2.6 Consensus size: 30
4056269 TATTACTATT
*
4056279 TTAATATTAATAAAATAATATTTTAAGAATA
1 TTAATACTAA-AAAATAATATTTTAAGAATA
* ****
4056310 ATAATACTATTTTA-AATATTTTAA-AATA
1 TTAATACTAAAAAATAATATTTTAAGAATA
4056338 TTAATA-TAAAAAATAATA
1 TTAATACTAAAAAATAATA
4056356 AATAGTTTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 5
0.68 0.22 0.10
Matches are distributed among these distances:
27 3 0.09
28 13 0.38
29 10 0.29
30 1 0.03
31 7 0.21
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (30 bp):
TTAATACTAAAAAATAATATTTTAAGAATA
Found at i:4056418 original size:19 final size:19
Alignment explanation
Indices: 4056373--4056418 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4056363 TTATTTTAAG
*
4056373 TATTTTTATATTAATATAA
1 TATTTTAATATTAATATAA
*
4056392 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAATATAA
4056410 TATTATTAA
1 TATT-TTAA
4056419 AATATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTAATATTAATATAA
Found at i:4056469 original size:25 final size:26
Alignment explanation
Indices: 4056441--4056504 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
4056431 CTTGAATATT
4056441 AATAATTTTAATAATAAATA-ATGTC
1 AATAATTTTAATAATAAATACATGTC
* * *
4056466 AATATACTTTAATAATAAATACATTTT
1 AATA-ATTTTAATAATAAATACATGTC
4056493 AAT-ATTTTAATA
1 AATAATTTTAATA
4056505 GTTATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.36
26 15 0.45
27 6 0.18
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (26 bp):
AATAATTTTAATAATAAATACATGTC
Found at i:4061990 original size:598 final size:598
Alignment explanation
Indices: 4060855--4062057 Score: 2334
Period size: 598 Copynumber: 2.0 Consensus size: 598
4060845 ATACCAATAT
4060855 AATGTGCCCTAATTGCAGAAGTATATGTAGTTTGTGAAGTTTCGATTTTCACCAAAAAAAGTAAG
1 AATGTGCCCTAATTGCAGAAGTATATGTAGTTTGTGAAGTTTCGATTTTCACCAAAAAAAGTAAG
4060920 TAAAAAGAAAAAGATAAACCAAGTTTAATTAGCTAATAAGTTAATATGCCACAACCAACTAAAAA
66 TAAAAAGAAAAAGATAAACCAAGTTTAATTAGCTAATAAGTTAATATGCCACAACCAACTAAAAA
*
4060985 AAGGTGATTCGTCACACTTTTAGAGAAAGAAAGAAGAGTGATAAGAATTTGGGGTTATTCACTAC
131 AAGGTGATTCGTCACACTTTTAGAGAAAAAAAGAAGAGTGATAAGAATTTGGGGTTATTCACTAC
* *
4061050 AAAACAAAAGCTTGTTTTGATAAGAATAAGAAAGAATACAAGAGAATGCAATTCTGGAATCTCTA
196 AAAACAAAAGCTTGTTTTGATAAGAATAAAAAAGAATACAAGAGAATGCAATTCTGAAATCTCTA
*
4061115 ATCAATAATTCATTAGATGGTTCAATTATCACAAGTTATTGGCCTTTATATAATAAGACTAAATA
261 ATCAATAATTCATTAGATGGTTCAATTATCACAAGTTATTGGCCTTTAGATAATAAGACTAAATA
4061180 ATAATAGCTAGAAACTAAGAGATATCATCATAAAGAAGAAAGAGAAAATATCTAAGATACTCGTA
326 ATAATAGCTAGAAACTAAGAGATATCATCATAAAGAAGAAAGAGAAAATATCTAAGATACTCGTA
4061245 AGATATTCTACTAGATTTGGTAATTTGAAAGATTACAAAATCTATCCAAAAATAGAAAAGGTTAT
391 AGATATTCTACTAGATTTGGTAATTTGAAAGATTACAAAATCTATCCAAAAATAGAAAAGGTTAT
*
4061310 ATAATCAAATAAAATCAAATATAATATGTCTAAATATGCTAAAATAACCACACAATTAATATTTA
456 ATAATCAAATAAAATCAAATATAATATGTCTAAATATGCTAAAATAACCACACAATTAATATTAA
4061375 TAAGGCCAAATACACACGCATGGCCCAATTAATAAGGCCTAGTTTATGCATTAAGTCCAAATAGC
521 TAAGGCCAAATACACACGCATGGCCCAATTAATAAGGCCTAGTTTATGCATTAAGTCCAAATAGC
4061440 ATGCAACAACTAA
586 ATGCAACAACTAA
*
4061453 AATGTGCCCTAATTGCAGAAGTATATGTAGTTTGTGAAGTTTCGATTTTCACCAAGAAAAGTAAG
1 AATGTGCCCTAATTGCAGAAGTATATGTAGTTTGTGAAGTTTCGATTTTCACCAAAAAAAGTAAG
4061518 TAAAAAGAAAAAGATAAACCAAGTTTAATTAGCTAATAAGTTAATATGCCACAACCAACTAAAAA
66 TAAAAAGAAAAAGATAAACCAAGTTTAATTAGCTAATAAGTTAATATGCCACAACCAACTAAAAA
*
4061583 AAGGTGATTCGTCACACTTTTAGAGAAAAAAAGAAGAGTGATAAGAATTTGGGGTTATTCATTAC
131 AAGGTGATTCGTCACACTTTTAGAGAAAAAAAGAAGAGTGATAAGAATTTGGGGTTATTCACTAC
4061648 AAAACAAAAGCTTGTTTTGATAAGAATAAAAAAGAATACAAGAGAATGCAATTCTGAAATCTCTA
196 AAAACAAAAGCTTGTTTTGATAAGAATAAAAAAGAATACAAGAGAATGCAATTCTGAAATCTCTA
4061713 ATCAATAATTCATTAGATGGTTCAATTATCACAAGTTATTGGCCTTTAGATAATAAGACTAAATA
261 ATCAATAATTCATTAGATGGTTCAATTATCACAAGTTATTGGCCTTTAGATAATAAGACTAAATA
4061778 ATAATAGCTAGAAACTAAGAGATATCATCATAAAGAAGAAAGAGAAAATATCTAAGATACTCGTA
326 ATAATAGCTAGAAACTAAGAGATATCATCATAAAGAAGAAAGAGAAAATATCTAAGATACTCGTA
4061843 AGATATTCTACTAGATTTGGTAATTTGAAAGATTACAAAATCTATCCAAAAATAGAAAAGGTTAT
391 AGATATTCTACTAGATTTGGTAATTTGAAAGATTACAAAATCTATCCAAAAATAGAAAAGGTTAT
4061908 ATAATCAAATAAAATCAAATATAATATGTCTAAATATGCTAAAATAACCACACAATTAATATTAA
456 ATAATCAAATAAAATCAAATATAATATGTCTAAATATGCTAAAATAACCACACAATTAATATTAA
4061973 TAAGGCCAAATACACACGCATGGCCCAATTAATAAGGCCTAGTTTATGCATTAAGTCCAAATAGC
521 TAAGGCCAAATACACACGCATGGCCCAATTAATAAGGCCTAGTTTATGCATTAAGTCCAAATAGC
*
4062038 ATGCAACAGCTAA
586 ATGCAACAACTAA
4062051 AATGTGC
1 AATGTGC
4062058 TCAAACACCT
Statistics
Matches: 597, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
598 597 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (598 bp):
AATGTGCCCTAATTGCAGAAGTATATGTAGTTTGTGAAGTTTCGATTTTCACCAAAAAAAGTAAG
TAAAAAGAAAAAGATAAACCAAGTTTAATTAGCTAATAAGTTAATATGCCACAACCAACTAAAAA
AAGGTGATTCGTCACACTTTTAGAGAAAAAAAGAAGAGTGATAAGAATTTGGGGTTATTCACTAC
AAAACAAAAGCTTGTTTTGATAAGAATAAAAAAGAATACAAGAGAATGCAATTCTGAAATCTCTA
ATCAATAATTCATTAGATGGTTCAATTATCACAAGTTATTGGCCTTTAGATAATAAGACTAAATA
ATAATAGCTAGAAACTAAGAGATATCATCATAAAGAAGAAAGAGAAAATATCTAAGATACTCGTA
AGATATTCTACTAGATTTGGTAATTTGAAAGATTACAAAATCTATCCAAAAATAGAAAAGGTTAT
ATAATCAAATAAAATCAAATATAATATGTCTAAATATGCTAAAATAACCACACAATTAATATTAA
TAAGGCCAAATACACACGCATGGCCCAATTAATAAGGCCTAGTTTATGCATTAAGTCCAAATAGC
ATGCAACAACTAA
Found at i:4063598 original size:2 final size:2
Alignment explanation
Indices: 4063593--4063617 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4063583 CCCAAAAAAC
4063593 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4063618 GAGAAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4064140 original size:21 final size:20
Alignment explanation
Indices: 4064116--4064159 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4064106 ATCAATTTCC
* *
4064116 ATTAAAATAACATTTATTTTT
1 ATTAAAATAA-AATTACTTTT
*
4064137 ATTAGAATAAAATTACTTTT
1 ATTAAAATAAAATTACTTTT
4064157 ATT
1 ATT
4064160 TCATCTCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTAAAATAAAATTACTTTT
Found at i:4076812 original size:2 final size:2
Alignment explanation
Indices: 4076805--4076830 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4076795 TTTAAAGGTG
4076805 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
4076831 GATTTTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4079325 original size:18 final size:18
Alignment explanation
Indices: 4079302--4079337 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
4079292 GTAAATAATT
4079302 TTATATATTATCA-ATAAA
1 TTATATA-TATCACATAAA
4079320 TTATATATATCACATAAA
1 TTATATATATCACATAAA
4079338 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATATATATCACATAAA
Found at i:4079423 original size:3 final size:3
Alignment explanation
Indices: 4079415--4079444 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4079405 TCAAATATAA
4079415 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4079445 TGTATTGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4081611 original size:2 final size:2
Alignment explanation
Indices: 4081604--4081635 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4081594 AAGACAAATG
4081604 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4081636 TGTGCTATAT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4088889 original size:19 final size:18
Alignment explanation
Indices: 4088844--4088890 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 18
4088834 TTTTTTTAAA
4088844 TTTATTTATAATATAATTT
1 TTTATTT-TAATATAATTT
4088863 TTTGATTTTAATAT-ATTAGT
1 TTT-ATTTTAATATAATT--T
4088883 TTTATTTT
1 TTTATTTT
4088891 CTAATTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 14 0.56
20 8 0.32
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
TTTATTTTAATATAATTT
Found at i:4092085 original size:17 final size:19
Alignment explanation
Indices: 4092054--4092088 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
4092044 ATAAATATAT
4092054 ATTTATATTATTTTAATAA
1 ATTTATATTATTTTAATAA
4092073 ATTTAT-TTA-TTTAATA
1 ATTTATATTATTTTAATA
4092089 TTAGTTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATATTATTTTAATAA
Found at i:4097243 original size:17 final size:15
Alignment explanation
Indices: 4097195--4097239 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
4097185 TCGATGCATA
*
4097195 AAAATATATTTATAT
1 AAAATAAATTTATAT
4097210 ATAAATAAATCTTATAT
1 A-AAATAAAT-TTATAT
4097227 AAATATAAATTTA
1 AAA-ATAAATTTA
4097240 ATATGCTGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 13 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATAAATTTATAT
Found at i:4098593 original size:23 final size:26
Alignment explanation
Indices: 4098553--4098602 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
4098543 TATATAAACC
4098553 TAATTTAGTACAATAAA-C-TACAAA
1 TAATTTAGTACAATAAACCATACAAA
*
4098577 TAATTTATTA-AATAAACCATACAAA
1 TAATTTAGTACAATAAACCATACAAA
4098602 T
1 T
4098603 CCAACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 10 0.43
25 7 0.30
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (26 bp):
TAATTTAGTACAATAAACCATACAAA
Found at i:4099362 original size:12 final size:12
Alignment explanation
Indices: 4099341--4099370 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4099331 TTTATATATT
4099341 TACA-CATGAAA
1 TACATCATGAAA
4099352 TACATCATGAAA
1 TACATCATGAAA
4099364 TACATCA
1 TACATCA
4099371 ATTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (12 bp):
TACATCATGAAA
Found at i:4099747 original size:275 final size:279
Alignment explanation
Indices: 4099357--4099891 Score: 821
Period size: 275 Copynumber: 1.9 Consensus size: 279
4099347 TGAAATACAT
*
4099357 CATGAAATACATCAATTACTCAAATCGATATTATATTTAATCAAATATAAGTAAAAATGTATCAA
1 CATGAAATACATCAATTACTCAAATCGATACTATATTTAATCAAATATAAGT-AAAATGTATCAA
* *
4099422 ATAATTAATTAGAGAATCAATTATTTTATAATTGTAATTGTTGTATTTATTAATTTATTAATTAT
65 ATAATTAATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTATTAATTTATTAATTAT
* * *
4099487 ATATTGATTGATTTAATTTGTCAAATGAATAAATTTTTAAAATTTTAATACTTTTAACATGAATT
130 ATATTGATTGATTTAATTTGTCAAATGAAGAAAATTTTAAAAATTTAATACTTTTAACATGAATT
*
4099552 AAATTAAGAGTAATTT-AAGATTAATAATAAAAACATAAATATAATCAATTTAGTTTTTTGAATT
195 AAATTAAGAGTAATTTAAAG-TTAATAATAAAAACATAAATATAATCAATTTA-ATTTTTGAATT
4099616 ATGTTTGCTTTATATATTTGCA
258 ATGTTTGCTTTATATATTTGCA
* * * * *
4099638 CATGAAATACATTAATTATTTAAGTGGATACTATATTTAATC-AA-AT-A-T-AAATGTATCAAA
1 CATGAAATACATCAATTACTCAAATCGATACTATATTTAATCAAATATAAGTAAAATGTATCAAA
*
4099698 TAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTATTAATTTATTAATTATA
66 TAATTAATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTATTAATTTATTAATTATA
* * * *
4099763 TCTTGATTGATTTAATTTGTCAAATTAAGAAAATTTTAAAAATTTAATACTTTTAATATGAATTG
131 TATTGATTGATTTAATTTGTCAAATGAAGAAAATTTTAAAAATTTAATACTTTTAACATGAATTA
* * *
4099828 AATTGAGAGTGATTTAAAGTTAATAATTAAAACATAAATATAATCAATTTAATTTTTGAATTAT
196 AATTAAGAGTAATTTAAAGTTAATAATAAAAACATAAATATAATCAATTTAATTTTTGAATTAT
4099892 TTTAAAATTA
Statistics
Matches: 233, Mismatches: 20, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
274 12 0.05
275 176 0.76
276 3 0.01
277 1 0.00
278 1 0.00
279 2 0.01
280 2 0.01
281 36 0.15
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (279 bp):
CATGAAATACATCAATTACTCAAATCGATACTATATTTAATCAAATATAAGTAAAATGTATCAAA
TAATTAATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTATTAATTTATTAATTATA
TATTGATTGATTTAATTTGTCAAATGAAGAAAATTTTAAAAATTTAATACTTTTAACATGAATTA
AATTAAGAGTAATTTAAAGTTAATAATAAAAACATAAATATAATCAATTTAATTTTTGAATTATG
TTTGCTTTATATATTTGCA
Found at i:4100228 original size:7 final size:7
Alignment explanation
Indices: 4100218--4100271 Score: 67
Period size: 7 Copynumber: 7.6 Consensus size: 7
4100208 TAATTTTTTT
4100218 AATAAAA
1 AATAAAA
4100225 AATAAAA
1 AATAAAA
4100232 AATAAAA
1 AATAAAA
4100239 AATGAAAA
1 AAT-AAAA
4100247 AACTAAAA
1 AA-TAAAA
4100255 AA-AAAA
1 AATAAAA
4100261 ACA-AAAA
1 A-ATAAAA
4100268 AATA
1 AATA
4100272 GGTAGTTGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.14
7 24 0.56
8 12 0.28
9 1 0.02
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (7 bp):
AATAAAA
Found at i:4100636 original size:31 final size:31
Alignment explanation
Indices: 4100573--4100641 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
4100563 GAAAATTTTC
* *
4100573 AATTTTTTGGTGAATTTTCTAACATCGATTG
1 AATTTTTTAGTGAATTTTCTAACACCGATTG
* ** *
4100604 AATTTTTTAGTGAATTTTTTGGCACCGGTTG
1 AATTTTTTAGTGAATTTTCTAACACCGATTG
4100635 AATTTTT
1 AATTTTT
4100642 CAACAAGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (31 bp):
AATTTTTTAGTGAATTTTCTAACACCGATTG
Found at i:4103826 original size:15 final size:17
Alignment explanation
Indices: 4103790--4103832 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
4103780 CCTTTGTTCT
4103790 TGATATATTTGAGATGGA
1 TGATATATTTGAGA-GGA
4103808 TGATATATTTGA-A-GA
1 TGATATATTTGAGAGGA
*
4103823 TGATACATTT
1 TGATATATTT
4103833 ATGGTGTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 11 0.46
17 1 0.04
18 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (17 bp):
TGATATATTTGAGAGGA
Found at i:4103887 original size:18 final size:18
Alignment explanation
Indices: 4103824--4103887 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
4103814 ATTTGAAGAT
*
4103824 GATACATTT-ATGGTGTAG
1 GATACATTTGA-GGTGGAG
* ** *
4103842 GATACATTTGTGGTAAAA
1 GATACATTTGAGGTGGAG
4103860 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
*
4103878 GATATATTTG
1 GATACATTTG
4103888 TAGTGAATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:4112544 original size:54 final size:55
Alignment explanation
Indices: 4112447--4112552 Score: 160
Period size: 54 Copynumber: 1.9 Consensus size: 55
4112437 ATCCTTATGG
* * * *
4112447 GTGTGTATGTTTGAGTGGATTAGAGGAGAATGAGATGATCCACATAGGTATGATA
1 GTGTATATGTTTGAGTGGACTAGAAGAGAATAAGATGATCCACATAGGTATGATA
*
4112502 GTGTATATGTTTGAGT-GACTAGAAGAGACTAAGATGATCCACATAGGTATG
1 GTGTATATGTTTGAGTGGACTAGAAGAGAATAAGATGATCCACATAGGTATG
4112553 GTACATAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 31 0.67
55 15 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (55 bp):
GTGTATATGTTTGAGTGGACTAGAAGAGAATAAGATGATCCACATAGGTATGATA
Found at i:4114227 original size:27 final size:26
Alignment explanation
Indices: 4114180--4114245 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 26
4114170 GTGGAAAAGA
4114180 ATCTTATAAGTCACAATATGAAGATG
1 ATCTTATAAGTCACAATATGAAGATG
4114206 ATCTTATAATGTCACAGA-ATGAAGATG
1 ATCTTATAA-GTCACA-ATATGAAGATG
4114233 ATCTTATAAGTCA
1 ATCTTATAAGTCA
4114246 TGAATATTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 13 0.34
27 24 0.63
28 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (26 bp):
ATCTTATAAGTCACAATATGAAGATG
Found at i:4116169 original size:12 final size:12
Alignment explanation
Indices: 4116152--4116177 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4116142 AGCAACTTCA
4116152 CCATCACCAAGT
1 CCATCACCAAGT
4116164 CCATCACCAAGT
1 CCATCACCAAGT
4116176 CC
1 CC
4116178 TTAACTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.46, G:0.08, T:0.15
Consensus pattern (12 bp):
CCATCACCAAGT
Found at i:4126165 original size:5 final size:5
Alignment explanation
Indices: 4126157--4126287 Score: 76
Period size: 5 Copynumber: 26.2 Consensus size: 5
4126147 ATTATTATAG
* * * * *
4126157 TATTA TATTA TGTT- TTTTT TATTA TATTG TGTTA TATTA TATTA TTATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
* * *
4126207 TATTA TCATTC TA-T- TATTA TTATTA TAGTA TATTA GTA-TA GTGTTA
1 TATTA T-ATTA TATTA TATTA -TATTA TATTA TATTA -TATTA -TATTA
* *
4126253 TATTA TGTTA TATTT TA-T- TATTA TAGTTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TA-TTA TATTA T
4126288 TATTTTTTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
3 4 0.04
4 7 0.07
5 65 0.66
6 23 0.23
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:4126204 original size:3 final size:3
Alignment explanation
Indices: 4126191--4126314 Score: 55
Period size: 3 Copynumber: 46.3 Consensus size: 3
4126181 TATTGTGTTA
* * *
4126191 TAT TA- TAT TAT TAT TA- TAT TAT CAT T-C TAT TAT TAT TAT TA- TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4126235 TA- TAT TAG TA- TAG TGT TA- TAT TA- TGT TA- TAT T-T TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4126276 TAGT TA- TAT TAT TAT T-T TTT TAT T-T TAT T-T TAT T-T TAT T
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4126315 TTCATTCTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 34
0.67 0.08 0.25
Matches are distributed among these distances:
2 30 0.32
3 61 0.66
4 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4126204 original size:8 final size:8
Alignment explanation
Indices: 4126188--4126313 Score: 50
Period size: 8 Copynumber: 15.5 Consensus size: 8
4126178 TTATATTGTG
4126188 TTATATTA
1 TTATATTA
4126196 -TATTATTA
1 TTA-TATTA
4126204 TTATATTA
1 TTATATTA
*
4126212 TCAT-TCTA
1 TTATAT-TA
4126220 TTATTATTA
1 TTA-TATTA
4126229 TTATAGTATA
1 TTATA-T-TA
*
4126239 TTAGTATAGTG
1 TTA-TAT--TA
4126250 TTATATTA
1 TTATATTA
4126258 TGT-TA-TA
1 T-TATATTA
*
4126265 TTTTATTA
1 TTATATTA
*
4126273 TTATA--G
1 TTATATTA
4126279 TTATATTA
1 TTATATTA
* *
4126287 TTATTTTT
1 TTATATTA
*
4126295 TTATTTTA
1 TTATATTA
*
4126303 TTTTATT-
1 TTATATTA
4126310 TTAT
1 TTAT
4126314 TTTCATTCTT
Statistics
Matches: 90, Mismatches: 14, Indels: 29
0.68 0.11 0.22
Matches are distributed among these distances:
6 6 0.07
7 11 0.12
8 47 0.52
9 10 0.11
10 10 0.11
11 6 0.07
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (8 bp):
TTATATTA
Found at i:4126224 original size:22 final size:21
Alignment explanation
Indices: 4126188--4126313 Score: 91
Period size: 21 Copynumber: 6.0 Consensus size: 21
4126178 TTATATTGTG
4126188 TTATATTATATTATTATTATA
1 TTATATTATATTATTATTATA
4126209 TTATCATTCTATTATTATTATTATA
1 TTAT-A-T-TA-TATTATTATTATA
* * *
4126234 GTATATTAGTA-TAGTGTTATA
1 TTATATTA-TATTATTATTATA
*
4126255 TTATGTTATATT-TTA-T-TA
1 TTATATTATATTATTATTATA
* *
4126273 TTATAGTTATATTATTATTTTT
1 TTATA-TTATATTATTATTATA
* *
4126295 TTATTTTATTTTATT-TTAT
1 TTATATTATATTATTATTAT
4126314 TTTCATTCTT
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
18 6 0.07
19 8 0.10
20 9 0.11
21 29 0.35
22 10 0.12
23 2 0.02
24 3 0.04
25 16 0.19
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (21 bp):
TTATATTATATTATTATTATA
Found at i:4126299 original size:14 final size:14
Alignment explanation
Indices: 4126265--4126306 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4126255 TTATGTTATA
**
4126265 TTTTATTATTATAG
1 TTTTATTATTATTT
*
4126279 TTATATTATTATTT
1 TTTTATTATTATTT
4126293 TTTTATT-TTATTT
1 TTTTATTATTATTT
4126306 T
1 T
4126307 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTATTATTATTT
Found at i:4126301 original size:5 final size:5
Alignment explanation
Indices: 4126263--4126316 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
4126253 TATTATGTTA
* * *
4126263 TATTT TATTAT TATAGT TATAT TATTAT TTTTT TATTT TATTT TATTT
1 TATTT TATT-T TAT-TT TATTT TATT-T TATTT TATTT TATTT TATTT
4126311 TATTT T
1 TATTT T
4126317 CATTCTTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 29 0.71
6 12 0.29
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:4127088 original size:18 final size:18
Alignment explanation
Indices: 4127065--4127135 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
4127055 ATCATAGGTT
4127065 TTTTTTTTTCTATTTTAA
1 TTTTTTTTTCTATTTTAA
* * *
4127083 TTTTTTTTTATATCTTGA
1 TTTTTTTTTCTATTTTAA
*
4127101 TTTTTTATTT-TATTTTTAG
1 TTTTTT-TTTCTA-TTTTAA
*
4127120 TTATTTTTTC-ATTTTA
1 TTTTTTTTTCTATTTTA
4127136 CTCATTTACT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
17 5 0.12
18 27 0.63
19 11 0.26
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTCTATTTTAA
Found at i:4128069 original size:14 final size:15
Alignment explanation
Indices: 4128036--4128070 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4128026 TTGAGATTAT
4128036 TTTCTTTCTTTCCTA
1 TTTCTTTCTTTCCTA
*
4128051 TTTCTTTCTTTTC-A
1 TTTCTTTCTTTCCTA
4128065 TTTCTT
1 TTTCTT
4128071 ATATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCTTTCTTTCCTA
Found at i:4129244 original size:21 final size:21
Alignment explanation
Indices: 4129230--4129278 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
4129220 TTCATGCATT
4129230 TTGTTTTTACATTCATAAACA
1 TTGTTTTTACATTCATAAACA
4129251 TTGTTTTTACATTCATAAACA
1 TTGTTTTTACATTCATAAACA
4129272 TTGTTTT
1 TTGTTTT
4129279 AAATTTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (21 bp):
TTGTTTTTACATTCATAAACA
Found at i:4132934 original size:55 final size:55
Alignment explanation
Indices: 4132875--4133091 Score: 157
Period size: 55 Copynumber: 3.8 Consensus size: 55
4132865 TCCCTGTTAT
* * * * *
4132875 CGATCTTGGCTCAATCCATATCATTTTTCATACTTGTGATTTCGTCTCGGTCAAC
1 CGATCTTGGCTCAATCCAAATCATTTTTCAGACTTGTGATTTCATCCCAGTCAAC
* * * * *
4132930 CGATCTTGGCTCAGTCTAAATCATTTTTTAGACTTGTGGTTTCATCCCAGTCATC
1 CGATCTTGGCTCAATCCAAATCATTTTTCAGACTTGTGATTTCATCCCAGTCAAC
* * * * * * *
4132985 CGATCTTGGCTTAATTCAGATCATTTCAGACTTCGGACTTGTGGTTTCATCTCGAATCAAC
1 CGATCTTGGCTCAATCCAAATCATTT-----TTCAGACTTGTGATTTCATC-CCAGTCAAC
* * * * * *
4133046 CTATCTTGACTTAGTCCATATCA-TTTTCTAGACTTGTGTTTTCATC
1 CGATCTTGGCTCAATCCAAATCATTTTTC-AGACTTGTGATTTCATC
4133092 TCGATCATTC
Statistics
Matches: 128, Mismatches: 27, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
55 69 0.54
56 15 0.12
60 20 0.16
61 24 0.19
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (55 bp):
CGATCTTGGCTCAATCCAAATCATTTTTCAGACTTGTGATTTCATCCCAGTCAAC
Found at i:4133070 original size:116 final size:115
Alignment explanation
Indices: 4132906--4133113 Score: 274
Period size: 116 Copynumber: 1.8 Consensus size: 115
4132896 CATTTTTCAT
* * * * *
4132906 ACTTGTGATTTCGTCTCGGTCAACCGATCTTGGCTCAGTCTAAATCATTTTTTAGACTTGTGGTT
1 ACTTGTGATTTCATCTCGATCAACCGATCTTGACTCAGTCCAAATCATTTTCTAGACTTGTGGTT
*
4132971 TCATCCC-AGTCATCCGATCTTGGCTTAATTCAGATCATTTCAGACTTCGG
66 TCATCCCGA-TCATCCGATCTCGGCTTAATTCAGATCATTTCAGACTTCGG
* * * * *
4133021 ACTTGTGGTTTCATCTCGAATCAACCTATCTTGACTTAGTCCATATCATTTTCTAGACTTGTGTT
1 ACTTGTGATTTCATCTCG-ATCAACCGATCTTGACTCAGTCCAAATCATTTTCTAGACTTGTGGT
* *
4133086 TTCATCTCGATCATTCGATCTCGGCTTA
65 TTCATCCCGATCATCCGATCTCGGCTTA
4133114 GTCTAGATAA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
115 16 0.21
116 61 0.78
117 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (115 bp):
ACTTGTGATTTCATCTCGATCAACCGATCTTGACTCAGTCCAAATCATTTTCTAGACTTGTGGTT
TCATCCCGATCATCCGATCTCGGCTTAATTCAGATCATTTCAGACTTCGG
Found at i:4133568 original size:5 final size:5
Alignment explanation
Indices: 4133560--4133729 Score: 109
Period size: 5 Copynumber: 33.2 Consensus size: 5
4133550 ATTACTATAG
* * *
4133560 TATTA TATTT TATTT TA-T- TATTA TATTA TGTTA TATTA TATTA TTATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
* ** *
4133609 CATTA TCATTA TATTA TTATTA T-TTA TTATTA TAGCA TAGTA TATTA
1 TATTA T-ATTA TATTA -TATTA TATTA -TATTA TATTA TATTA TATTA
* *
4133656 GTA-TA GTATTA TATTA TGTTA TATTT TA-T- TATTA TAATTA TATTA
1 -TATTA -TATTA TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA
* *
4133701 TTATTA TTATTA TTATTA TTTTA TTTTA T
1 -TATTA -TATTA -TATTA TATTA TATTA T
4133730 TTAATTTTCA
Statistics
Matches: 139, Mismatches: 13, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
3 4 0.03
4 7 0.05
5 84 0.60
6 44 0.32
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:4133579 original size:26 final size:25
Alignment explanation
Indices: 4133550--4133731 Score: 97
Period size: 26 Copynumber: 7.0 Consensus size: 25
4133540 TTAGTATTAC
*
4133550 ATTACTATAGTATTATATTTTATTTT
1 ATTATTATA-TATTATATTTTATTTT
*
4133576 ATTATTATATTATGTTATATTATATTATT
1 ATTATTATA-TA--TTATATTTTATT-TT
*
4133605 ATTACATTAT-CATTATATTATTATTATTT
1 ATT--ATTATATATTATATT-TTAT--TTT
* * * *
4133634 ATTATTATAGCA-TAGTATATTAGTAT
1 ATTATTATA-TATTA-TATTTTATTTT
* * *
4133660 AGTA-T-TATATTATGTTATATTTT
1 ATTATTATATATTATATTTTATTTT
4133683 ATTATTATA-ATTATATTATTATTATT
1 ATTATTATATATTATATT-TTATT-TT
*
4133709 ATTATTAT-TATTTTATTTTATTT
1 ATTATTATATATTATATTTTATTT
4133732 AATTTTCATT
Statistics
Matches: 120, Mismatches: 19, Indels: 36
0.69 0.11 0.21
Matches are distributed among these distances:
23 10 0.08
24 13 0.11
25 12 0.10
26 32 0.27
27 12 0.10
28 19 0.16
29 16 0.13
30 1 0.01
31 5 0.04
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
ATTATTATATATTATATTTTATTTT
Found at i:4133582 original size:3 final size:3
Alignment explanation
Indices: 4133560--4133730 Score: 103
Period size: 3 Copynumber: 63.3 Consensus size: 3
4133550 ATTACTATAG
*
4133560 TAT TA- TAT T-T TAT T-T TAT TAT TA- TAT TA- TGT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4133601 TAT TAT TA- CAT TAT CAT TA- TAT TAT TAT TATT TAT TAT TA- TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * *
4133644 CA- TAG TA- TAT TAG TA- TAG TAT TA- TAT TA- TGT TA- TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4133685 TAT TAT AAT TA- TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4133730 T
1 T
4133731 TAATTTTCAT
Statistics
Matches: 133, Mismatches: 14, Indels: 42
0.70 0.07 0.22
Matches are distributed among these distances:
2 36 0.27
3 94 0.71
4 3 0.02
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4133695 original size:29 final size:29
Alignment explanation
Indices: 4133569--4133719 Score: 109
Period size: 26 Copynumber: 5.8 Consensus size: 29
4133559 GTATTATATT
*
4133569 TTATT-TTATTATTA-TATTAT-GTTATA
1 TTATTATTATTATTATTATTATAATTATA
* *
4133595 TTA-TATTATTATTA-CATTATCATTATA
1 TTATTATTATTATTATTATTATAATTATA
**
4133622 TTATTATTA-T-TTATTATTAT-AGCATA
1 TTATTATTATTATTATTATTATAATTATA
* * * *
4133648 GTA-TATTAGTA-TAGTATTAT-ATTATG
1 TTATTATTATTATTATTATTATAATTATA
4133674 TTA-TATT-TTATT---ATTATAATTATA
1 TTATTATTATTATTATTATTATAATTATA
4133698 TTATTATTATTATTATTATTAT
1 TTATTATTATTATTATTATTAT
4133720 TTTATTTTAT
Statistics
Matches: 99, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
23 5 0.05
24 8 0.08
25 12 0.12
26 50 0.51
27 14 0.14
28 5 0.05
29 5 0.05
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (29 bp):
TTATTATTATTATTATTATTATAATTATA
Found at i:4133732 original size:9 final size:8
Alignment explanation
Indices: 4133560--4133725 Score: 65
Period size: 8 Copynumber: 20.5 Consensus size: 8
4133550 ATTACTATAG
*
4133560 TATTATAT
1 TATTATTT
4133568 T-TTATTT
1 TATTATTT
*
4133575 TATTATTA
1 TATTATTT
4133583 TATTATGTT
1 TATTAT-TT
*
4133592 ATATTATAT
1 -TATTATTT
*
4133601 TATTATTA
1 TATTATTT
* *
4133609 CATTATCAT
1 TATTAT-TT
4133618 TA-TATTAT
1 TATTATT-T
4133626 TATTA-TT
1 TATTATTT
*
4133633 TATTATTA
1 TATTATTT
* * *
4133641 TAGCATAGTA
1 TA--TTATTT
* *
4133651 TATTAGTA
1 TATTATTT
* *
4133659 TAGTATTA
1 TATTATTT
*
4133667 TATTATGT
1 TATTATTT
4133675 TA-TATTT
1 TATTATTT
4133682 TATTA--T
1 TATTATTT
* *
4133688 TATAATTA
1 TATTATTT
4133696 TATTATTAT
1 TATTATT-T
4133705 TATTATTAT
1 TATTATT-T
4133714 TATTATTT
1 TATTATTT
4133722 TATT
1 TATT
4133726 TTATTTAATT
Statistics
Matches: 120, Mismatches: 25, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
6 5 0.04
7 18 0.15
8 64 0.53
9 21 0.17
10 12 0.10
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (8 bp):
TATTATTT
Found at i:4134544 original size:21 final size:21
Alignment explanation
Indices: 4134511--4134553 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4134501 CATATCGTTG
*
4134511 TTTTTTTATTTTAATTT-ATT
1 TTTTTTTAATTTAATTTGATT
4134531 TTTTATTTAATTTAATTTGATT
1 TTTT-TTTAATTTAATTTGATT
4134553 T
1 T
4134554 GATTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTTAATTTAATTTGATT
Found at i:4134548 original size:17 final size:17
Alignment explanation
Indices: 4134512--4134544 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4134502 ATATCGTTGT
4134512 TTTTTTATTTTAATTTA
1 TTTTTTATTTTAATTTA
4134529 TTTTTTA-TTTAATTTA
1 TTTTTTATTTTAATTTA
4134545 ATTTGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTATTTTAATTTA
Found at i:4134733 original size:24 final size:26
Alignment explanation
Indices: 4134706--4134762 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
4134696 TCCAAAAACA
*
4134706 AAAAAATA-TAAAAA-CAAAATCTTT
1 AAAAAATATTAAAAATAAAAATCTTT
*
4134730 AAAAAA-ATTAAAAATAAAAATTTTT
1 AAAAAATATTAAAAATAAAAATCTTT
*
4134755 ACAAAATA
1 AAAAAATA
4134763 AATTCATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 12 0.44
25 13 0.48
26 1 0.04
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAAAATATTAAAAATAAAAATCTTT
Found at i:4137720 original size:24 final size:24
Alignment explanation
Indices: 4137680--4137726 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4137670 AAATAATATC
* *
4137680 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
4137703 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
4137727 CGAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:4139752 original size:137 final size:137
Alignment explanation
Indices: 4139506--4139780 Score: 532
Period size: 137 Copynumber: 2.0 Consensus size: 137
4139496 CTCTAATTTC
*
4139506 TTGGGTTGTGTAGTAATTTTTCTAGTGGGGTCTTTAGAGTTGAACATTTTGCATCCCAGTCTTTT
1 TTGGGTTGTGTAGTAATTTTTCTAGTGGGGTCTTTAGAGTTGAACATTTTGCATCCCAATCTTTT
4139571 GCTTTATAGCTTGTTTGGTAAGGCCAATTTCAATGATGAAATCTTTATCAATGGCTTTATTTGGT
66 GCTTTATAGCTTGTTTGGTAAGGCCAATTTCAATGATGAAATCTTTATCAATGGCTTTATTTGGT
4139636 CATTATT
131 CATTATT
*
4139643 TTGGGTTGTGTAGTAATTTTTCTAGTGGGTTCTTTAGAGTTGAACATTTTGCATCCCAATCTTTT
1 TTGGGTTGTGTAGTAATTTTTCTAGTGGGGTCTTTAGAGTTGAACATTTTGCATCCCAATCTTTT
4139708 GCTTTATAGCTTGTTTGGTAAGGCCAATTTCAATGATGAAATCTTTATCAATGGCTTTATTTGGT
66 GCTTTATAGCTTGTTTGGTAAGGCCAATTTCAATGATGAAATCTTTATCAATGGCTTTATTTGGT
4139773 CATTATT
131 CATTATT
4139780 T
1 T
4139781 CATAATGAAT
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 136 1.00
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.46
Consensus pattern (137 bp):
TTGGGTTGTGTAGTAATTTTTCTAGTGGGGTCTTTAGAGTTGAACATTTTGCATCCCAATCTTTT
GCTTTATAGCTTGTTTGGTAAGGCCAATTTCAATGATGAAATCTTTATCAATGGCTTTATTTGGT
CATTATT
Found at i:4143548 original size:23 final size:23
Alignment explanation
Indices: 4143516--4143559 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4143506 AAAATAATAA
4143516 TATATCGTATTAATATTATTATT
1 TATATCGTATTAATATTATTATT
* *
4143539 TATATTGTATTTATATTATTA
1 TATATCGTATTAATATTATTA
4143560 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (23 bp):
TATATCGTATTAATATTATTATT
Found at i:4146480 original size:3 final size:3
Alignment explanation
Indices: 4146466--4146523 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
4146456 AAGGGATAGT
*
4146466 TAA TAA TCA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4146514 TAA TAA TAA T
1 TAA TAA TAA T
4146524 GCATTACAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4146736 original size:5 final size:5
Alignment explanation
Indices: 4146726--4146751 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4146716 CACTTAAATT
4146726 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
4146752 TTTTTGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:4147253 original size:21 final size:21
Alignment explanation
Indices: 4147229--4147268 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4147219 ATAAAATATA
*
4147229 TATTTTTAATTTTATTAAATT
1 TATTTATAATTTTATTAAATT
*
4147250 TATTTATAATTTTTTTAAA
1 TATTTATAATTTTATTAAA
4147269 ATTTTAAGTT
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:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTATAATTTTATTAAATT
Found at i:4152948 original size:22 final size:21
Alignment explanation
Indices: 4152923--4152971 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
4152913 AAAATGGTAT
* *
4152923 TTTATTTAACTTTGTGCTTCCA
1 TTTAATTAACTTTATGCTT-CA
4152945 TTTAAATTAACTTTATGCTTCA
1 TTT-AATTAACTTTATGCTTCA
4152967 TTTAA
1 TTTAA
4152972 AGAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 8 0.33
23 14 0.58
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (21 bp):
TTTAATTAACTTTATGCTTCA
Found at i:4152972 original size:22 final size:23
Alignment explanation
Indices: 4152928--4152972 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4152918 GGTATTTTAT
*
4152928 TTAACTTTGTGCTTCCATTTAAA
1 TTAACTTTATGCTTCCATTTAAA
4152951 TTAACTTTATGCTT-CATTTAAA
1 TTAACTTTATGCTTCCATTTAAA
4152973 GAAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.49
Consensus pattern (23 bp):
TTAACTTTATGCTTCCATTTAAA
Found at i:4154435 original size:24 final size:24
Alignment explanation
Indices: 4154408--4154460 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4154398 CCTGCACCAA
* * *
4154408 CTCCAAGAACCTTGCCACCTCCGC
1 CTCCAAAAACCATGCCACCTCCAC
**
4154432 CTCCAAAAACCATGCTGCCTCCAC
1 CTCCAAAAACCATGCCACCTCCAC
4154456 CTCCA
1 CTCCA
4154461 CCCAAGTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.49, G:0.09, T:0.17
Consensus pattern (24 bp):
CTCCAAAAACCATGCCACCTCCAC
Found at i:4155530 original size:13 final size:13
Alignment explanation
Indices: 4155509--4155544 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4155499 AAATTTGATC
4155509 TAAATTTAATATA
1 TAAATTTAATATA
* *
4155522 TATATTTAATATC
1 TAAATTTAATATA
4155535 TAAATTTAAT
1 TAAATTTAAT
4155545 TTGAATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:4155542 original size:44 final size:43
Alignment explanation
Indices: 4155457--4155543 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 43
4155447 GAAAATATAT
* * * * **
4155457 AATTTGAACAAATTTAATTTTTATTTTTTATATCTCGATTTAA
1 AATTTGAACAAATTTAATATATATATTTAATATCTAAATTTAA
*
4155500 AATTTGATCTAAATTTAATATATATATTTAATATCTAAATTTAA
1 AATTTGAAC-AAATTTAATATATATATTTAATATCTAAATTTAA
4155544 TTTGAATCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 8 0.22
44 28 0.78
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (43 bp):
AATTTGAACAAATTTAATATATATATTTAATATCTAAATTTAA
Found at i:4155882 original size:2 final size:2
Alignment explanation
Indices: 4155875--4155901 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4155865 TGCATTTTCC
4155875 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
4155902 AGAACTTTCG
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:4159711 original size:18 final size:18
Alignment explanation
Indices: 4159676--4159733 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
4159666 AAATTATTTT
*
4159676 TTTAATTT--TATATATA
1 TTTAATTTAATATTTATA
4159692 TTTAATTTAATATTTATA
1 TTTAATTTAATATTTATA
**
4159710 TTTAAAATAATATTT-TA
1 TTTAATTTAATATTTATA
4159727 -TTAATTT
1 TTTAATTT
4159734 CGGATCGGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 13 0.37
17 2 0.06
18 20 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTTAATATTTATA
Found at i:4165412 original size:16 final size:17
Alignment explanation
Indices: 4165374--4165412 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4165364 AATTAATATA
4165374 ATAAATTTTATTGAAAT
1 ATAAATTTTATTGAAAT
* *
4165391 AGAAATTTTATT-TAAT
1 ATAAATTTTATTGAAAT
4165407 ATAAAT
1 ATAAAT
4165413 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
ATAAATTTTATTGAAAT
Found at i:4167563 original size:29 final size:27
Alignment explanation
Indices: 4167531--4167584 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
4167521 TAATTGATCT
*
4167531 AAATTAATTTGATAATCAATCGATTAACC
1 AAATTAAATTGAT--TCAATCGATTAACC
*
4167560 AAATTAAATTGATTCAATTGATTAA
1 AAATTAAATTGATTCAATCGATTAA
4167585 TTCAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
29 12 0.52
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.37
Consensus pattern (27 bp):
AAATTAAATTGATTCAATCGATTAACC
Found at i:4167714 original size:24 final size:24
Alignment explanation
Indices: 4167683--4167728 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4167673 CTGGGTGCAT
*
4167683 AAAAATAA-ATTATATAATATTTTA
1 AAAAATAACATTAAATAA-ATTTTA
4167707 AAAAATAACATTAAATAAATTT
1 AAAAATAACATTAAATAAATTT
4167729 AGAATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAAATAACATTAAATAAATTTTA
Found at i:4167910 original size:2 final size:2
Alignment explanation
Indices: 4167903--4167945 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
4167893 TAAAGTAAGT
* * * *
4167903 TA TA TA TA TA CA TA TA TA TA TA TA GA TA TA TG TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4167945 T
1 T
4167946 GACATTAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (2 bp):
TA
Found at i:4167931 original size:12 final size:12
Alignment explanation
Indices: 4167904--4167945 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
4167894 AAAGTAAGTT
* *
4167904 ATATATATACAT
1 ATATATATATAG
4167916 ATATATATATAG
1 ATATATATATAG
*
4167928 ATATATGTATAG
1 ATATATATATAG
4167940 ATATAT
1 ATATAT
4167946 GACATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (12 bp):
ATATATATATAG
Found at i:4168524 original size:29 final size:28
Alignment explanation
Indices: 4168454--4168522 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
4168444 ATGGAATTAA
* * *
4168454 AAATTTTTAAAATAATAGTATAAGAAGT
1 AAATTTTTAAAATAATAGTAGAAAAACT
*
4168482 AAATTCATTT-AAATAATATTAGAAAAACT
1 AAATT--TTTAAAATAATAGTAGAAAAACT
4168511 AAATTTTTAAAA
1 AAATTTTTAAAA
4168523 ATTGAAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.09
28 8 0.24
29 20 0.59
30 3 0.09
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (28 bp):
AAATTTTTAAAATAATAGTAGAAAAACT
Found at i:4169702 original size:29 final size:30
Alignment explanation
Indices: 4169670--4169756 Score: 97
Period size: 29 Copynumber: 2.9 Consensus size: 30
4169660 GATTTAGATT
* * *
4169670 TATTTTAAATTTAATTTTTTTA-ATTTGGA
1 TATTTTAAATTCAATTTTTTAATATTTGAA
4169699 TATTTTAAATTCAATTTTTTAATATTTGAA
1 TATTTTAAATTCAATTTTTTAATATTTGAA
* *
4169729 TCATTTTAAATAACAATTATTTAA-ATTT
1 T-ATTTTAAAT-TCAATTTTTTAATATTT
4169757 ATCTAAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 20 0.40
30 7 0.14
31 13 0.26
32 10 0.20
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (30 bp):
TATTTTAAATTCAATTTTTTAATATTTGAA
Found at i:4172975 original size:22 final size:21
Alignment explanation
Indices: 4172950--4172994 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
4172940 TATTAAATTT
4172950 TAAAT-ACAAAATCATAAATTAA
1 TAAATAACAAAATCA-AAA-TAA
4172972 TAAATAACAAAATCAAAATAA
1 TAAATAACAAAATCAAAATAA
4172993 TA
1 TA
4172995 TTTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.23
22 8 0.36
23 9 0.41
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAATAACAAAATCAAAATAA
Found at i:4174670 original size:37 final size:39
Alignment explanation
Indices: 4174629--4174702 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
4174619 CCAAATTAAT
*
4174629 TTTTTTTATTG-AAAAT-ACTAATGACTCGAACCCAATA
1 TTTTTTTATTGAAAAATGACTAATGACTCGAAACCAATA
4174666 TTTTTTTATTGAAAAATGACTAATGACTCGAAACCAA
1 TTTTTTTATTGAAAAATGACTAATGACTCGAAACCAA
4174703 AAACTATCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 11 0.32
38 5 0.15
39 18 0.53
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (39 bp):
TTTTTTTATTGAAAAATGACTAATGACTCGAAACCAATA
Found at i:4177914 original size:54 final size:55
Alignment explanation
Indices: 4177850--4177954 Score: 176
Period size: 54 Copynumber: 1.9 Consensus size: 55
4177840 TCCTTATAAA
*
4177850 TGTGTATGTTTGAGTGGACTAGAGGAGAATGAGATGATCCACAT-GGTATGATAG
1 TGTGTATGTTTGAGTGGACTAGAAGAGAATGAGATGATCCACATAGGTATGATAG
* *
4177904 TGTGTATGTTTGAGTGGACTAGAAGAGACTGAGATGATCCATATAGGTATG
1 TGTGTATGTTTGAGTGGACTAGAAGAGAATGAGATGATCCACATAGGTATG
4177955 GTACATAAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 41 0.87
55 6 0.13
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (55 bp):
TGTGTATGTTTGAGTGGACTAGAAGAGAATGAGATGATCCACATAGGTATGATAG
Found at i:4179594 original size:20 final size:21
Alignment explanation
Indices: 4179569--4179610 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4179559 ATGGAAAAGA
*
4179569 ATCTTATAA-GTCACAATATG
1 ATCTTATAATGTCACAAAATG
4179589 ATCTTATAATGTCACAAAATG
1 ATCTTATAATGTCACAAAATG
4179610 A
1 A
4179611 AGATGATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
ATCTTATAATGTCACAAAATG
Found at i:4192532 original size:18 final size:20
Alignment explanation
Indices: 4192489--4192537 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
4192479 TCTTCTCATT
*
4192489 TTTATTACTTATATTTTTAA
1 TTTATTAATTATATTTTTAA
*
4192509 TATATTAATTA-ATTTTT-A
1 TTTATTAATTATATTTTTAA
4192527 TTTATT-ATTAT
1 TTTATTAATTAT
4192538 TTTATAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 6 0.24
20 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATTAATTATATTTTTAA
Found at i:4193950 original size:17 final size:17
Alignment explanation
Indices: 4193928--4193965 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
4193918 TTTCGATTTT
*
4193928 TTTTTTGGTATTTTGTA
1 TTTTTTGGTATTTTATA
4193945 TTTTTTGGTATTTTATA
1 TTTTTTGGTATTTTATA
4193962 TTTT
1 TTTT
4193966 GGTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (17 bp):
TTTTTTGGTATTTTATA
Found at i:4193971 original size:23 final size:24
Alignment explanation
Indices: 4193936--4193987 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
4193926 TTTTTTTTGG
4193936 TATTTTGTATTTTTTGGTATTTTA
1 TATTTTGTATTTTTTGGTATTTTA
* *
4193960 TATTTTGGT-TTTTTT-TTATTTTG
1 TATTTT-GTATTTTTTGGTATTTTA
4193983 TATTT
1 TATTT
4193988 AATAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 12 0.48
25 2 0.08
ACGTcount: A:0.13, C:0.00, G:0.12, T:0.75
Consensus pattern (24 bp):
TATTTTGTATTTTTTGGTATTTTA
Found at i:4194391 original size:48 final size:49
Alignment explanation
Indices: 4194222--4194786 Score: 611
Period size: 48 Copynumber: 11.7 Consensus size: 49
4194212 GACTCCTTGT
* *
4194222 AGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAACAGTTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAA-AGCTCCTCTC
* ** * *
4194272 AGCAGAGGCTTAATGATTTTAAAAA--TCATCTTG-AAAAGCTCCTATC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTC
** * *
4194318 AGCAGAGGCTCAACAA-TTTTGAAATCT-ATCTTGAAAAGGGCTCATCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAA-AGCTCCTCTC
* * *
4194366 AGCAGAGGCTCAATAACTTT-AAAATCTCATCTTGAAAAAGAGTTCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAG-CTCCTCTC
** *
4194415 AGCAGAGGCTCAATGACTTTAAAAA--TCATCTTGAAAAGGGCTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAA-AGCTCCTCTC
* *
4194463 AACAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTCATCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTC
* * * * *
4194511 AGCAAAGGCTTAACGATTTTAAAAATTTCATCTTGAAAAAAGCTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG-AAAAAGCTCCTCTC
*
4194561 AGTAGAGGCTCAACAACTTT-AAAATC-CATCTTGAAAAAAGCTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG-AAAAAGCTCCTCTC
* * *
4194609 AGTAGAGGCTCAATAACTTT-AAAATCTCATCTTGAAAAAGTTCCTCTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTC
* * * *
4194657 AACAAAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAGGGCTCCTCTT
1 AGCAGAGGCTCAACAACTTTAAAAA-TCTCATCTTGAAAA-AGCTCCTCTC
* * * *
4194708 AGCAGAAGCTCAACAACTTTAAAAAT-TTATCTTG-AAAAGCTCTTTTC
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTC
* *
4194755 AGCAGAAGCTCAACCACTTT-AAAATCTCATCT
1 AGCAGAGGCTCAACAACTTTAAAAATCTCATCT
4194787 ATTCTCAAAA
Statistics
Matches: 436, Mismatches: 61, Indels: 39
0.81 0.11 0.07
Matches are distributed among these distances:
45 6 0.01
46 32 0.07
47 41 0.09
48 174 0.40
49 86 0.20
50 68 0.16
51 29 0.07
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (49 bp):
AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTC
Found at i:4194448 original size:97 final size:96
Alignment explanation
Indices: 4194222--4194786 Score: 599
Period size: 97 Copynumber: 5.8 Consensus size: 96
4194212 GACTCCTTGT
* * **
4194222 AGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAACAGTTCCTCTCAGCAGAGGCTTAATG
1 AGCAGAGGCTCAACAACTTTAAAAA-TTCATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACA
* * * *
4194287 ATTTTAAAA-ATCATCTTGAAAAG-CTCCTATC
64 ACTTTAAAATCTCATCTTGAAAAGAGTCCTCTC
** * * *
4194318 AGCAGAGGCTCAACAA-TTTTGAAA-TCTATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCAATA
1 AGCAGAGGCTCAACAACTTTAAAAATTC-ATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACA
*
4194381 ACTTTAAAATCTCATCTTGAAAAAGAGTTCTCTC
64 ACTTTAAAATCTCATCTTG-AAAAGAGTCCTCTC
** * *
4194415 AGCAGAGGCTCAATGACTTTAAAAA-TCATCTTGAAAAGGGCTCCTCTCAACAGAGGCTCAACAA
1 AGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAA
*
4194479 CTTTAAAATCTCATCTTGAAAA-AGCTCATCTC
65 CTTTAAAATCTCATCTTGAAAAGAG-TCCTCTC
* * * * *
4194511 AGCAAAGGCTTAACGATTTTAAAAATTTCATCTTGAAAAAAGCTCCTCTCAGTAGAGGCTCAACA
1 AGCAGAGGCTCAACAACTTTAAAAA-TTCATCTTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACA
*
4194576 ACTTTAAAATC-CATCTTGAAAAAAGCTCCTCTC
64 ACTTTAAAATCTCATCTTGAAAAGAG-TCCTCTC
* * * * *
4194609 AGTAGAGGCTCAATAACTTT-AAAATCTCATCTTGAAAAAGTTCCTCTCAACAAAGGCTCAACAA
1 AGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* *
4194673 CTTTAAAAATTCTCATCTTGAAAAGGGCTCCTCTT
65 CTTT-AAAA-TCTCATCTTGAAAAGAG-TCCTCTC
* * * * * *
4194708 AGCAGAAGCTCAACAACTTTAAAAATTTATCTTG-AAAAGCTCTTTTCAGCAGAAGCTCAACCAC
1 AGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAAC
4194772 TTTAAAATCTCATCT
66 TTTAAAATCTCATCT
4194787 ATTCTCAAAA
Statistics
Matches: 400, Mismatches: 54, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
93 2 0.00
94 38 0.09
95 16 0.04
96 90 0.22
97 102 0.25
98 100 0.25
99 47 0.12
100 5 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (96 bp):
AGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAAC
TTTAAAATCTCATCTTGAAAAGAGTCCTCTC
Found at i:4194581 original size:146 final size:144
Alignment explanation
Indices: 4194222--4194786 Score: 697
Period size: 146 Copynumber: 3.9 Consensus size: 144
4194212 GACTCCTTGT
* * * * **
4194222 AGCAGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAACAGTTCCTCTCAGCAGAGGCTTAATG
1 AGCAAAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* * * *
4194287 ATTTTAAAAATCATCTTGAAAAGCTCCTATCAGCAGAGGCTCAACAATTTTGAAATCT-ATCTTG
66 ACTTTAAAAATCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
*
4194351 AAAAGGGCTCATCTC
131 AAAA-AGCTCATCTC
* * * * *
4194366 AGCAGAGGCTCAATAACTTT-AAAATCTCATCTTGAAAAAGAG-TTCTCTCAGCAGAGGCTCAAT
1 AGCAAAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAA-AGCTCCTCTCAGCAGAGGCTCAAC
* *
4194429 GACTTTAAAAATCATCTTGAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATC
65 AACTTTAAAAATCATCTTGAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC
4194494 TTGAAAAAGCTCATCTC
128 TTGAAAAAGCTCATCTC
* * * *
4194511 AGCAAAGGCTTAACGATTTTAAAAATTTCATCTTGAAAAAAGCTCCTCTCAGTAGAGGCTCAACA
1 AGCAAAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* *
4194576 ACTTT-AAAATCCATCTTGAAAAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATCTCATC
66 ACTTTAAAAAT-CATCTTG--AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* *
4194640 TTGAAAAAGTTCCTCTC
128 TTGAAAAAGCTCATCTC
* ** * *
4194657 AACAAAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAGGGCTCCTCTTAGCAGAAGCTCAAC
1 AGCAAAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAAC
* * * * *
4194722 AACTTTAAAAATTTATCTTGAAAAGCTCTTTTCAGCAGAAGCTCAACCACTTTAAAATCTCATCT
65 AACTTTAAAAA-TCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
4194787 ATTCTCAAAA
Statistics
Matches: 367, Mismatches: 42, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
143 58 0.16
144 21 0.06
145 63 0.17
146 172 0.47
147 38 0.10
148 14 0.04
149 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (144 bp):
AGCAAAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACA
ACTTTAAAAATCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
AAAAAGCTCATCTC
Found at i:4198781 original size:18 final size:18
Alignment explanation
Indices: 4198740--4198781 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4198730 ATAGAAAGCA
*
4198740 AAAAATGAAAAGCAAAAT
1 AAAAATGAAAAGCAAAAC
*
4198758 AAAAATGAAAA-CAATAC
1 AAAAATGAAAAGCAAAAC
4198775 AAGAAAT
1 AA-AAAT
4198782 ACGGACACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.71, C:0.07, G:0.10, T:0.12
Consensus pattern (18 bp):
AAAAATGAAAAGCAAAAC
Found at i:4209195 original size:22 final size:21
Alignment explanation
Indices: 4209170--4209218 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
4209160 AAAATGGTAT
* *
4209170 TTTATTTAACTTTGTGCTTCCA
1 TTTAATTAACTTTATGCTT-CA
4209192 TTTAAATTAACTTTATGCTTCA
1 TTT-AATTAACTTTATGCTTCA
4209214 TTTAA
1 TTTAA
4209219 AGAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 8 0.33
23 14 0.58
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (21 bp):
TTTAATTAACTTTATGCTTCA
Found at i:4209219 original size:22 final size:23
Alignment explanation
Indices: 4209175--4209219 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4209165 GGTATTTTAT
*
4209175 TTAACTTTGTGCTTCCATTTAAA
1 TTAACTTTATGCTTCCATTTAAA
4209198 TTAACTTTATGCTT-CATTTAAA
1 TTAACTTTATGCTTCCATTTAAA
4209220 GAAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.49
Consensus pattern (23 bp):
TTAACTTTATGCTTCCATTTAAA
Found at i:4211780 original size:13 final size:13
Alignment explanation
Indices: 4211759--4211794 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4211749 AAATTTGATC
4211759 TAAATTTAATATA
1 TAAATTTAATATA
* *
4211772 TACATTTAATATT
1 TAAATTTAATATA
4211785 TAAATTTAAT
1 TAAATTTAAT
4211795 TTGAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:4215930 original size:18 final size:18
Alignment explanation
Indices: 4215895--4215952 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
4215885 AAATTATTTT
*
4215895 TTTAATTT--TATATATA
1 TTTAATTTAATATTTATA
4215911 TTTAATTTAATATTTATA
1 TTTAATTTAATATTTATA
**
4215929 TTTAAAATAATATTT-TA
1 TTTAATTTAATATTTATA
4215946 -TTAATTT
1 TTTAATTT
4215953 CGGATCGGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 13 0.37
17 2 0.06
18 20 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTTAATATTTATA
Found at i:4216171 original size:30 final size:30
Alignment explanation
Indices: 4216128--4216194 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
4216118 AAAAGGGATA
* *
4216128 TATAGTTAAATATT-TGTA-ATGCATCAATTT
1 TATA-TTAAATATTGTGAAGATCCAT-AATTT
4216158 TATATTAAGATATTGTGAAGATCCATAATTT
1 TATATTAA-ATATTGTGAAGATCCATAATTT
4216189 TATATT
1 TATATT
4216195 TGTAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 4 0.12
30 9 0.28
31 14 0.44
32 5 0.16
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.46
Consensus pattern (30 bp):
TATATTAAATATTGTGAAGATCCATAATTT
Found at i:4220370 original size:24 final size:23
Alignment explanation
Indices: 4220322--4220371 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
4220312 GTTTCTACAC
*
4220322 AAATTATACAGTTTACAGTGTAA
1 AAATTATACAGTTTACAATGTAA
*
4220345 AAATTTTACAGTTTTACACATG-AA
1 AAATTATACAG-TTTACA-ATGTAA
4220369 AAA
1 AAA
4220372 GCCTCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 10 0.43
24 11 0.48
25 2 0.09
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (23 bp):
AAATTATACAGTTTACAATGTAA
Found at i:4224158 original size:32 final size:31
Alignment explanation
Indices: 4224079--4224159 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 31
4224069 AATATTATTG
* * *
4224079 AAAAGAATTTAATCTTTGTAATATTATTTTTT
1 AAAAAAATTTAATC-CTATAATATTATTTTTT
* *
4224111 --AAAAGTTTAGTTCCTATAATATTATTTTTTT
1 AAAAAAATTTA-ATCCTATAATATTA-TTTTTT
4224142 AAAAAAATTTAATCCTAT
1 AAAAAAATTTAATCCTAT
4224160 GTACTTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
30 16 0.42
31 8 0.21
32 6 0.16
33 8 0.21
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (31 bp):
AAAAAAATTTAATCCTATAATATTATTTTTT
Done.