Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 48 of 64
Found at i:7614836 original size:20 final size:20
Alignment explanation
Indices: 7614813--7614850 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7614803 TTATTGTGTA
*
7614813 TTTTTATTTT-TATTTTATT
1 TTTTTCTTTTGTATTTTATT
7614832 TTTTTCTTTTGTATTTTAT
1 TTTTTCTTTTGTATTTTAT
7614851 GTATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTTGTATTTTATT
Found at i:7614865 original size:4 final size:4
Alignment explanation
Indices: 7614846--7615021 Score: 62
Period size: 4 Copynumber: 43.5 Consensus size: 4
7614836 TCTTTTGTAT
* * * * *
7614846 TTTA TGTA TTTA -TTA TTTA TTTA -TTA TTACTA TGTA TTAA TATA TGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA
* * * * *
7614894 TATC TTTA TTTA TTTA TTTA TTT- TTCTG TTAATA TCTA TATA TGTGT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT--TA TTTA TTTA T-T-TA
* * * * *
7614941 TTTA TTTA TCTA GTTA TATA TTTA -TTA TTAA TTTA TTTA -TTA TTTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
7614987 TTTA TTTA TCTT- GTTA TATT- TTTA TTTA TCTTA TT
1 TTTA TTTA T-TTA TTTA T-TTA TTTA TTTA T-TTA TT
7615022 ATTATTTTTA
Statistics
Matches: 126, Mismatches: 29, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
3 19 0.15
4 90 0.71
5 11 0.09
6 6 0.05
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:7614866 original size:20 final size:19
Alignment explanation
Indices: 7614815--7614867 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
7614805 ATTGTGTATT
* *
7614815 TTTATTTTTATTTTATTTT
1 TTTATTTTTATTTTATGTA
*
7614834 TTTCTTTTGTATTTTATGTA
1 TTTATTTT-TATTTTATGTA
7614854 TTTATTATTTATTT
1 TTTATT-TTTATTT
7614868 ATTATTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 19 0.68
21 2 0.07
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTATTTTTATTTTATGTA
Found at i:7614966 original size:20 final size:20
Alignment explanation
Indices: 7614940--7615036 Score: 70
Period size: 23 Copynumber: 4.5 Consensus size: 20
7614930 TATATATGTG
7614940 TTTTATTTATCTAGTTATATAT
1 TTTTATTTATCTAG-T-TATAT
* * *
7614962 TTATTATTAATTTATTTATTATTT
1 TT-TTATTTATCTAGTTA-TA--T
*
7614986 TTTTATTTATCTTGTTATAT
1 TTTTATTTATCTAGTTATAT
7615006 TTTTATTTATCTTA-TTATTAT
1 TTTTATTTATC-TAGTTA-TAT
*
7615027 TTTTAATTAT
1 TTTTATTTAT
7615037 ATTTTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 15 0.25
21 15 0.25
22 7 0.12
23 20 0.33
24 3 0.05
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTTATCTAGTTATAT
Found at i:7614968 original size:23 final size:23
Alignment explanation
Indices: 7614942--7615012 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
7614932 TATATGTGTT
7614942 TTATTTATCTAGTTATATATTTA
1 TTATTTATCTAGTTATATATTTA
* * * *
7614965 TTATTAATTTATTTAT-TATTTTT
1 TTATTTATCTAGTTATATA-TTTA
* *
7614988 TTATTTATCTTGTTATATTTTTA
1 TTATTTATCTAGTTATATATTTA
7615011 TT
1 TT
7615013 TATCTTATTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
22 2 0.06
23 33 0.92
24 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (23 bp):
TTATTTATCTAGTTATATATTTA
Found at i:7614972 original size:46 final size:45
Alignment explanation
Indices: 7614922--7615012 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 45
7614912 TATTTTTCTG
7614922 TTAA-TATCTATATATGTGTTTTATTTATCTAGTTATATATTTATTA
1 TTAATTATCTAT-TAT-TGTTTTATTTATCTAGTTATATATTTATTA
* * * *
7614968 TTAATTTATTTATTATTTTTTTATTTATCTTGTTATATTTTTATT
1 TTAA-TTATCTATTATTGTTTTATTTATCTAGTTATATATTTATT
7615013 TATCTTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 30 0.77
47 3 0.08
48 6 0.15
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.66
Consensus pattern (45 bp):
TTAATTATCTATTATTGTTTTATTTATCTAGTTATATATTTATTA
Found at i:7614976 original size:31 final size:30
Alignment explanation
Indices: 7614892--7614980 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 30
7614882 TTAATATATG
* * *
7614892 TATATCTTTATTTATTTATTTATTTTTCTGT
1 TATATATTTA-TTATTAATTTATTTATCTGT
* **
7614923 TA-ATATCTATATATGTGTTTTATTTATCTAGT
1 TATATATTTAT-TAT-TAATTTATTTATCT-GT
7614955 TATATATTTATTATTAATTTATTTAT
1 TATATATTTATTATTAATTTATTTAT
7614981 TATTTTTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
29 1 0.02
30 8 0.17
31 23 0.50
32 7 0.15
33 7 0.15
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (30 bp):
TATATATTTATTATTAATTTATTTATCTGT
Found at i:7615039 original size:12 final size:11
Alignment explanation
Indices: 7614957--7615042 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 11
7614947 TATCTAGTTA
7614957 TATATTTATTAT
1 TATATTT-TTAT
7614969 TA-ATTTATTTAT
1 TATA-TT-TTTAT
*
7614981 TATTTTTTTAT
1 TATATTTTTAT
* *
7614992 T-TA-TCTTGT
1 TATATTTTTAT
7615001 TATATTTTTAT
1 TATATTTTTAT
7615012 T-TATCTTATTAT
1 TATAT-TT-TTAT
*
7615024 TAT-TTTTAAT
1 TATATTTTTAT
7615034 TATATTTTT
1 TATATTTTT
7615043 TTTTTTTTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 19
0.68 0.10 0.23
Matches are distributed among these distances:
9 5 0.09
10 12 0.21
11 20 0.35
12 18 0.32
13 2 0.04
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (11 bp):
TATATTTTTAT
Found at i:7615064 original size:16 final size:16
Alignment explanation
Indices: 7615045--7615082 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7615035 ATATTTTTTT
*
7615045 TTTTTTCTTTATCTGA
1 TTTTTTCTTTATCAGA
7615061 TTTTTTCTTTATCAGA
1 TTTTTTCTTTATCAGA
7615077 TTTTTT
1 TTTTTT
7615083 TATTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.11, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTTCTTTATCAGA
Found at i:7615961 original size:7 final size:7
Alignment explanation
Indices: 7615912--7615964 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
7615902 CGCTCCAGGT
*
7615912 TTTTTTT
1 TTTTTTA
7615919 TTTTTTA
1 TTTTTTA
7615926 TTTTTTA
1 TTTTTTA
*
7615933 TTTATTTG
1 TTT-TTTA
7615941 TTTATTTA
1 TTT-TTTA
7615949 -TTTTTA
1 TTTTTTA
7615955 TTTTTTA
1 TTTTTTA
7615962 TTT
1 TTT
7615965 ATTAGATTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
6 4 0.10
7 27 0.66
8 10 0.24
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:7615983 original size:4 final size:4
Alignment explanation
Indices: 7615922--7615967 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
7615912 TTTTTTTTTT
*
7615922 TTTA TTT- TTTA TTTA TTTG TTTA TTTA -TT- TTTA TTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
7615966 TT
1 TT
7615968 AGATTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
3 10 0.28
4 26 0.72
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (4 bp):
TTTA
Found at i:7615983 original size:29 final size:28
Alignment explanation
Indices: 7615921--7615982 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
7615911 TTTTTTTTTT
* *
7615921 TTTTATTTTTTATTTATTTGTTTATTTA
1 TTTTATTTTTTATTTATTAGATTATTTA
7615949 TTTTTATTTTTTATTTATTAGATTAGGTTTA
1 -TTTTATTTTTTATTTATTAGATTA--TTTA
7615980 TTT
1 TTT
7615983 AATATTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 22 0.76
30 3 0.10
31 4 0.14
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (28 bp):
TTTTATTTTTTATTTATTAGATTATTTA
Found at i:7616008 original size:5 final size:5
Alignment explanation
Indices: 7615991--7616078 Score: 63
Period size: 5 Copynumber: 16.4 Consensus size: 5
7615981 TTAATATTCT
* *
7615991 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTTA TTTT-
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
*
7616038 TATTTA TTTTA TTTATA TTTTCA CTTTTA TTTTG TTTTA TT
1 T-TTTA TTTTA TTT-TA TTTT-A -TTTTA TTTTA TTTTA TT
7616079 ATTCTATTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
4 4 0.06
5 33 0.49
6 27 0.40
7 4 0.06
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:7616011 original size:6 final size:6
Alignment explanation
Indices: 7615990--7616070 Score: 53
Period size: 6 Copynumber: 13.7 Consensus size: 6
7615980 TTTAATATTC
* * *
7615990 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTG TTTTACTT TTCTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA TT-TTTA TTTTTA
* * *
7616040 --TTTA -TTTTA TTTATA TTTTCA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
7616071 GTTTTATTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
4 4 0.07
5 8 0.14
6 38 0.66
7 3 0.05
8 3 0.05
9 2 0.03
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:7616058 original size:11 final size:10
Alignment explanation
Indices: 7615991--7616078 Score: 63
Period size: 11 Copynumber: 8.2 Consensus size: 10
7615981 TTAATATTCT
7615991 TTTTATCTTTA
1 TTTTAT-TTTA
7616002 TTTTATTTTTA
1 TTTTA-TTTTA
*
7616013 TTTTTGTTTTA
1 -TTTTATTTTA
*
7616024 CTTTT-CTTTA
1 -TTTTATTTTA
7616034 TTTT-TATTTA
1 TTTTAT-TTTA
7616044 TTTTATTTATA
1 TTTTATTT-TA
7616055 TTTTCACTTTTA
1 TTTT-A-TTTTA
*
7616067 TTTTGTTTTA
1 TTTTATTTTA
7616077 TT
1 TT
7616079 ATTCTATTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.06
10 21 0.32
11 25 0.38
12 12 0.18
13 3 0.05
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:7616163 original size:56 final size:55
Alignment explanation
Indices: 7616103--7616472 Score: 631
Period size: 55 Copynumber: 6.7 Consensus size: 55
7616093 AAATAAAAAT
7616103 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTC
*
7616159 AAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 AAAAAATAT-TTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
7616216 AAAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
7616271 -AAAAA-ATTTTTGAGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTC
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
7616323 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTA
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
7616379 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTC
1 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
7616434 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTC
7616473 TCTGCACAAG
Statistics
Matches: 302, Mismatches: 5, Indels: 15
0.94 0.02 0.05
Matches are distributed among these distances:
52 16 0.05
53 35 0.12
54 36 0.12
55 93 0.31
56 67 0.22
57 21 0.07
58 34 0.11
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (55 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
Found at i:7616362 original size:163 final size:167
Alignment explanation
Indices: 7616103--7616473 Score: 655
Period size: 163 Copynumber: 2.2 Consensus size: 167
7616093 AAATAAAAAT
7616103 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAT
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAAATTTCAAAAAAAAT
7616168 ATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAA-ATTTTTG-G
65 ATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT-AAAAAAATATTTTTGAG
7616231 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
129 GAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTC
* *
7616271 -AAAAA-ATTTTTGAGAAAAGTTGAAAGTATCAATTTTCTTAAAAAT-AAATTTCAAAAAATAT-
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTCAAAAAAAATA
7616332 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAATATTTTTGAGGA
66 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAATATTTTTGAGGA
7616397 AAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTC
131 AAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTC
7616434 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCT
1 AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCT
7616474 CTGCACAAGA
Statistics
Matches: 196, Mismatches: 3, Indels: 11
0.93 0.01 0.05
Matches are distributed among these distances:
162 7 0.04
163 69 0.35
164 44 0.22
165 41 0.21
166 30 0.15
167 5 0.03
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (167 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTCAAAAAAAATA
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAATATTTTTGAGGA
AAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTC
Found at i:7620348 original size:10 final size:10
Alignment explanation
Indices: 7620335--7620377 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
7620325 GAAAAATGAG
7620335 AAAAAAGAAA
1 AAAAAAGAAA
7620345 AAAAAAGAAA
1 AAAAAAGAAA
7620355 AAAAGAATGAAA
1 AAAA-AA-GAAA
*
7620367 AAATAAGAAA
1 AAAAAAGAAA
7620377 A
1 A
7620378 TGAAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 19 0.63
11 4 0.13
12 7 0.23
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:7621705 original size:41 final size:41
Alignment explanation
Indices: 7621648--7621875 Score: 249
Period size: 41 Copynumber: 5.3 Consensus size: 41
7621638 TCAAAGTCGC
7621648 GTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT
1 GTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT
* *
7621689 GTTTATAGGAGCAATTTACTTCTTTACTTTTCAAAATCGTGGTGCCTCT
1 GTTTAGAGGAGC-A---A----TTTACTTTTCAAAGTCGTGGTGCCTCT
*
7621738 GTTTAGAGGAGTAATTTACTTTTCAAAGTCGTGTGTGCCTCT
1 GTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG-GTGCCTCT
* * *
7621780 GTTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCT
1 GTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT
* * * *
7621821 GTTTAGAGGAGCAATTTATGTTTCTCAAAGTCATTGAGCCTCT
1 GTTTAGAGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCT
**
7621864 GCCTAGAGGAGC
1 GTTTAGAGGAGC
7621876 TTTGATCAAA
Statistics
Matches: 163, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
41 54 0.33
42 42 0.26
43 28 0.17
45 2 0.01
48 1 0.01
49 36 0.22
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (41 bp):
GTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCT
Found at i:7621734 original size:49 final size:49
Alignment explanation
Indices: 7621662--7621797 Score: 171
Period size: 49 Copynumber: 2.9 Consensus size: 49
7621652 AGAGGAGCAA
* *
7621662 TTTACTTTTCAAAGTCGTGGTGCCTCTGTTTATAGGAGCAATTTACTTC
1 TTTACTTTTCAAAATCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTC
*
7621711 TTTACTTTTCAAAATCGTGGTGCCTCTGTTTAGAGGAG-----TA---A
1 TTTACTTTTCAAAATCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTC
*
7621752 TTTACTTTTCAAAGTCGTGTGTGCCTCTGTTTAGAGGAGCAATTTA
1 TTTACTTTTCAAAATCGTG-GTGCCTCTGTTTAGAGGAGCAATTTA
7621798 TTTTTCAAAG
Statistics
Matches: 77, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
41 18 0.23
42 19 0.25
44 2 0.03
47 2 0.03
49 36 0.47
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (49 bp):
TTTACTTTTCAAAATCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTC
Found at i:7622076 original size:19 final size:19
Alignment explanation
Indices: 7622049--7622101 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
7622039 CCAATTGGTT
*
7622049 TTTTA-TTTTTTTATTTTA
1 TTTTATTTTTTTTATTTGA
7622067 TTTTATTTTTTTCT-TTTGA
1 TTTTATTTTTTT-TATTTGA
* *
7622086 TTTTATGTATTTTATT
1 TTTTATTTTTTTTATT
7622102 ATTTATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.21
19 22 0.76
20 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTATTTTTTTTATTTGA
Found at i:7622138 original size:4 final size:4
Alignment explanation
Indices: 7622129--7622278 Score: 83
Period size: 4 Copynumber: 36.8 Consensus size: 4
7622119 ATTATATATC
* * * * *
7622129 TTTA TTTA TTTA TTTA TTTA TTT- TCTG TTAA TATTA TATA TGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA -TTTA
* * * *
7622178 TTTA TCTA GTTA TATA TTTA -TTA TTATAA TTTA TTTA -TTA TTTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA -TTTA TTTA
* * * * *
7622227 TTTA TCTTG TATA TTT- TTTA TTTA TCTTA TTTA TTTT TTTA ATTA TCTA
1 TTTA T-TTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
7622276 TTT
1 TTT
7622279 TTTCTTTTTT
Statistics
Matches: 109, Mismatches: 26, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
3 11 0.10
4 78 0.72
5 17 0.16
6 3 0.03
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:7622211 original size:33 final size:30
Alignment explanation
Indices: 7622101--7622215 Score: 89
Period size: 29 Copynumber: 3.8 Consensus size: 30
7622091 TGTATTTTAT
* * *
7622101 TATTTATTATTACTATGTATTATATATCTT--
1 TATTTATTATTA-TATTTATT-TATCTGTTAA
7622131 TATTTATTTATT-TATTTATTT-TCTGTTAA
1 TATTTA-TTATTATATTTATTTATCTGTTAA
7622160 TA-TTATATATGTAT-TTTATTTATCTAGTTATA
1 TATTTAT-TAT-TATATTTATTTATCT-GTTA-A
7622192 TATTTATTATTATAATTTATTTAT
1 TATTTATTATTAT-ATTTATTTAT
7622216 TATTTTTTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 21
0.74 0.03 0.22
Matches are distributed among these distances:
27 5 0.07
28 7 0.10
29 17 0.24
30 10 0.14
31 12 0.17
32 6 0.09
33 13 0.19
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (30 bp):
TATTTATTATTATATTTATTTATCTGTTAA
Found at i:7622215 original size:14 final size:15
Alignment explanation
Indices: 7622130--7622261 Score: 59
Period size: 13 Copynumber: 9.1 Consensus size: 15
7622120 TTATATATCT
*
7622130 TTATTTATTTATTTA
1 TTATATATTTATTTA
*
7622145 TT-TAT-TTTCTGTTA
1 TTATATATTTAT-TTA
* * *
7622159 ATAT-TATATATGTA
1 TTATATATTTATTTA
*
7622173 TT-T-TATTTATCTA
1 TTATATATTTATTTA
7622186 GTTATATATTTA-TTA
1 -TTATATATTTATTTA
7622201 TTATA-ATTTATTTA
1 TTATATATTTATTTA
* *
7622215 TTATTTTTTTTATTTA
1 TTA-TATATTTATTTA
*
7622231 TCTTGTATATTT-TTTA
1 --TTATATATTTATTTA
*
7622247 TT-TAT-CTTATTTA
1 TTATATATTTATTTA
7622260 TT
1 TT
7622262 TTTTTAATTA
Statistics
Matches: 89, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
12 2 0.02
13 27 0.30
14 25 0.28
15 10 0.11
16 18 0.20
17 5 0.06
18 2 0.02
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATATATTTATTTA
Found at i:7622229 original size:20 final size:20
Alignment explanation
Indices: 7622047--7622292 Score: 85
Period size: 20 Copynumber: 11.6 Consensus size: 20
7622037 AGCCAATTGG
7622047 TTTTTTA-TT-TTT-TTATT
1 TTTTTTATTTATTTATTATT
* *
7622064 TTATTTTATTTTTTTCTT-TT
1 TT-TTTTATTTATTTATTATT
** *
7622084 GATTTTATGTATTTTATTATT
1 TTTTTTATTTA-TTTATTATT
*
7622105 TATTATTACTATGTA-TTATATATCT
1 T-TT-TT--TATTTATTTAT-TAT-T
*
7622130 TTATTTATTTATTTATTTATT
1 TTTTTTATTTATTTA-TTATT
* *
7622151 TTCTGTTAATATTATATATGTATT
1 TT-T-TTTAT-TTATTTAT-TATT
* * *
7622175 TTATTTATCTAGTTATATATT
1 TTTTTTATTTATTTAT-TATT
7622196 TATTATTATAATTTATTTATTATT
1 T-TT-TT-T-ATTTATTTATTATT
* *
7622220 TTTTTTATTTATCTT-GTATA
1 TTTTTTATTTAT-TTATTATT
7622240 TTTTTTATTTATCTTATT-TAT
1 TTTTTTATTTAT-TTATTAT-T
* *
7622261 TTTTTTAATTATCTATT-TT
1 TTTTTTATTTATTTATTATT
*
7622280 TTCTTTTTTTTAT
1 TT-TTTTATTTAT
7622293 CTGATTTTTT
Statistics
Matches: 174, Mismatches: 29, Indels: 49
0.69 0.12 0.19
Matches are distributed among these distances:
17 2 0.01
18 5 0.03
19 12 0.07
20 48 0.28
21 37 0.21
22 14 0.08
23 18 0.10
24 22 0.13
25 16 0.09
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTTTATTTATTTATTATT
Found at i:7622278 original size:49 final size:49
Alignment explanation
Indices: 7622173--7622266 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
7622163 TATATATGTA
7622173 TTTTATTTATCTAGTTATATATTTATTATTATAATTTATTTATTATTTT
1 TTTTATTTATCTAGTTATATATTTATTATTATAATTTATTTATTATTTT
*
7622222 TTTTATTTATCTTG-TATAT-TTT-TTATT-T-ATCTTATTTATT-TTTT
1 TTTTATTTATCTAGTTATATATTTATTATTATAAT-TTATTTATTATTTT
7622266 T
1 T
7622267 AATTATCTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
44 7 0.16
45 10 0.23
46 5 0.12
47 3 0.07
48 5 0.12
49 13 0.30
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.71
Consensus pattern (49 bp):
TTTTATTTATCTAGTTATATATTTATTATTATAATTTATTTATTATTTT
Found at i:7622286 original size:21 final size:20
Alignment explanation
Indices: 7622206--7622303 Score: 92
Period size: 20 Copynumber: 4.8 Consensus size: 20
7622196 TATTATTATA
* *
7622206 ATTTATTTATTATTTTTTTT
1 ATTTATCTATTTTTTTTTTT
* *
7622226 ATTTATCT-TGTATATTTTTT
1 ATTTATCTAT-TTTTTTTTTT
*
7622246 ATTTATCTTATTTATTTTTTT
1 ATTTATC-TATTTTTTTTTTT
*
7622267 AATTATCTATTTTTTCTTTTT
1 ATTTATCTATTTTTT-TTTTT
7622288 -TTTATCTGATTTTTTT
1 ATTTATCT-ATTTTTTT
7622304 CTCGTTTATC
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
20 37 0.57
21 26 0.40
22 1 0.02
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.74
Consensus pattern (20 bp):
ATTTATCTATTTTTTTTTTT
Found at i:7623251 original size:4 final size:4
Alignment explanation
Indices: 7623186--7623235 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
7623176 TTTTTTTTTA
* *
7623186 ATTT ATTT ATTT ATTT ATTT GTTT ATTT A-TT -TTT ATTCT TTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT ATTT
7623233 ATT
1 ATT
7623236 AGATTAGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 4 0.10
4 32 0.82
5 3 0.08
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:7623289 original size:11 final size:10
Alignment explanation
Indices: 7623265--7623312 Score: 60
Period size: 11 Copynumber: 4.5 Consensus size: 10
7623255 TTCTTTTATC
7623265 TTTATTTTATT
1 TTTATTTT-TT
7623276 TTTATTTTTGT
1 TTTATTTTT-T
7623287 TTTACTTTTTT
1 TTTA-TTTTTT
*
7623298 TTAATTTTTT
1 TTTATTTTTT
7623308 TTTAT
1 TTTAT
7623313 CTATTTTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
10 11 0.33
11 17 0.52
12 5 0.15
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:7623290 original size:22 final size:21
Alignment explanation
Indices: 7623265--7623349 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 21
7623255 TTCTTTTATC
7623265 TTTATTTTATTTTTATTTTTGT
1 TTTATTTTATTTTTATTTTT-T
*
7623287 TTTACTTTT-TTTTAATTTTTT
1 TTTA-TTTTATTTTTATTTTTT
* * *
7623308 TTTA-TCTATTTTCACTTTTAT
1 TTTATTTTATTTTTA-TTTTTT
*
7623329 TTTGTTTTATTATTCTATTTT
1 TTTATTTTATT-TT-TATTTT
7623350 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
19 2 0.04
20 5 0.10
21 13 0.26
22 19 0.38
23 10 0.20
24 1 0.02
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTATTTTATTTTTATTTTTT
Found at i:7623319 original size:21 final size:21
Alignment explanation
Indices: 7623271--7623319 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
7623261 TATCTTTATT
7623271 TTATTTTTATTTTTGTTTTAC
1 TTATTTTTATTTTTGTTTTAC
*
7623292 TTTTTTTTAATTTTT-TTTTA-
1 TTATTTTT-ATTTTTGTTTTAC
7623312 TCTATTTT
1 T-TATTTT
7623320 CACTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 17 0.71
22 6 0.25
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (21 bp):
TTATTTTTATTTTTGTTTTAC
Found at i:7623348 original size:30 final size:27
Alignment explanation
Indices: 7623296--7623350 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
7623286 TTTTACTTTT
7623296 TTTTAATTTTTTTTTATCTATTTTCAC
1 TTTTAATTTTTTTTTATCTATTTTCAC
*
7623323 TTTTATTTTGTTTTATTATTCTATTTTC
1 TTTTAATTT-TTTT-TTA-TCTATTTTC
7623351 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 4 0.17
29 3 0.12
30 9 0.38
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (27 bp):
TTTTAATTTTTTTTTATCTATTTTCAC
Found at i:7623491 original size:61 final size:60
Alignment explanation
Indices: 7623365--7623586 Score: 295
Period size: 60 Copynumber: 3.7 Consensus size: 60
7623355 AATAAAAATC
*
7623365 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* **
7623425 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAAAT-AATTTTTT
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
* * * ** * *
7623484 TAAAAAAATCAATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCA
1 AAAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
*
7623546 AAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATTAATTTT
1 AAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
7623587 CTCTGCACAA
Statistics
Matches: 142, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
59 17 0.12
60 75 0.53
61 37 0.26
62 13 0.09
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.37
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCA
Found at i:7623514 original size:121 final size:119
Alignment explanation
Indices: 7623366--7623586 Score: 336
Period size: 121 Copynumber: 1.8 Consensus size: 119
7623356 ATAAAAATCA
* * * * *
7623366 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCAAAAAAA
7623431 AATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTTAAAATAATTTTTTT
66 AATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAATTTTTTT
* *
7623485 AAAAAAATCAATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAA
1 AAAAAAAT--ATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCAAAAA
*
7623550 AAAATATTTTTAGGAAAAAGTTGAAAGTATTAATTTT
64 AAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTT
7623587 CTCTGCACAA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 8 0.09
120 3 0.03
121 80 0.88
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (119 bp):
AAAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCAAAAAAA
AATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAATTTTTTT
Found at i:7628163 original size:57 final size:55
Alignment explanation
Indices: 7628102--7628209 Score: 128
Period size: 55 Copynumber: 1.9 Consensus size: 55
7628092 TTTTAATATG
* * * * *
7628102 TTATTTTAATAAAGATTTTAATATATTTA-AATAAATTTATATATAAAATAATTATTT
1 TTATTTT-ATAAA-ATTTAAAAATATATATAA-AAATTAAAATATAAAATAATTATTT
*
7628159 TTATTTTATAAAATTTAAAAATATATATAAAAATTAAAATATAATATAATT
1 TTATTTTATAAAATTTAAAAATATATATAAAAATTAAAATATAAAATAATT
7628210 TACTTCAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
55 30 0.68
56 7 0.16
57 7 0.16
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (55 bp):
TTATTTTATAAAATTTAAAAATATATATAAAAATTAAAATATAAAATAATTATTT
Found at i:7628187 original size:19 final size:19
Alignment explanation
Indices: 7628165--7628211 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
7628155 ATTTTTATTT
7628165 TATAAAATTTAAAAATATA
1 TATAAAATTTAAAAATATA
*
7628184 TATAAAAATT-AAAATATA
1 TATAAAATTTAAAAATATA
*
7628202 -ATATAATTTA
1 TATAAAATTTA
7628212 CTTCAGTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.29
18 8 0.33
19 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATAAAATTTAAAAATATA
Found at i:7634564 original size:20 final size:20
Alignment explanation
Indices: 7634541--7634579 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7634531 TGGAATTTTC
7634541 AATTTGGCAGTTAGG-AATTT
1 AATTT-GCAGTTAGGCAATTT
*
7634561 AATTTGTAGTTAGGCAATT
1 AATTTGCAGTTAGGCAATT
7634580 ATTGTTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (20 bp):
AATTTGCAGTTAGGCAATTT
Found at i:7639584 original size:15 final size:18
Alignment explanation
Indices: 7639548--7639583 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7639538 TTTAATAAAA
7639548 TTTATTAAATATAATTTT
1 TTTATTAAATATAATTTT
7639566 TTTATTAAA-AT-ATTTT
1 TTTATTAAATATAATTTT
7639582 TT
1 TT
7639584 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTAAATATAATTTT
Found at i:7639842 original size:23 final size:22
Alignment explanation
Indices: 7639786--7639842 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
7639776 ATATAATTTA
**
7639786 AAATTTTA-ATAATAATTATAT
1 AAATTTTATATAATAAAAATAT
7639807 ATAATTTTAATATAACTAAAAATAT
1 A-AATTTT-ATATAA-TAAAAATAT
7639832 AAATTTTATAT
1 AAATTTTATAT
7639843 TTTTATATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 6 0.20
23 5 0.17
24 10 0.33
25 8 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTTTATATAATAAAAATAT
Found at i:7639978 original size:34 final size:34
Alignment explanation
Indices: 7639939--7640003 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
7639929 CATTAAATCT
* *
7639939 AAATAAAATGGTATAAAAATTATATAAAAATATA
1 AAATAAAATAGTATAAAAATTAAATAAAAATATA
* * *
7639973 AAATAATATAGTTTAAAATTTAAATAAAAAT
1 AAATAAAATAGTATAAAAATTAAATAAAAAT
7640004 TATATCTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (34 bp):
AAATAAAATAGTATAAAAATTAAATAAAAATATA
Found at i:7641813 original size:14 final size:14
Alignment explanation
Indices: 7641796--7641826 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7641786 TTTTAATAAA
*
7641796 TTTTGATATATATT
1 TTTTGATAGATATT
7641810 TTTTGATAGATATT
1 TTTTGATAGATATT
7641824 TTT
1 TTT
7641827 AATAAATATA
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:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTTGATAGATATT
Found at i:7641866 original size:29 final size:31
Alignment explanation
Indices: 7641834--7641917 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 31
7641824 TTTAATAAAT
7641834 ATATTAATAAAATTTTTATTATTAAAT-A-A
1 ATATTAATAAAATTTTTATTATTAAATAATA
* **
7641863 ATATTAATCAAATTTGAATTA-TAAATAATA
1 ATATTAATAAAATTTTTATTATTAAATAATA
* **
7641893 ATTTTAATAATTTTTTTATATATTA
1 ATATTAATAAAATTTTTAT-TATTA
7641918 TTAATTTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 5 0.12
29 19 0.45
30 14 0.33
31 2 0.05
32 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (31 bp):
ATATTAATAAAATTTTTATTATTAAATAATA
Found at i:7650217 original size:139 final size:139
Alignment explanation
Indices: 7650012--7650288 Score: 373
Period size: 139 Copynumber: 2.0 Consensus size: 139
7650002 TTGTTGTTAC
* * *** *
7650012 TATGTATTGCATATATGTATTTGTTTAAACATTTTTATCCATGTAAACATTTTTATGTGTACATT
1 TATGCATTACATATATGTATTTACATAAACATTTTTATCCATGTAAACATTTTTATATGTACATT
*
7650077 ATTT-TATTTGTTTAGGG-GTAATCTTTAC-CTTTTCAGTTTTGTAAATAGTTTTGAATATGAAT
66 ATTTAT-TTTGTTT-GGGAG-AATCTTTACTCTTTTCAGTTTTGTAAATAGTTTTAAATATGAAT
7650139 TCTTATATTTAT
128 TCTTATATTTAT
* *
7650151 TATGCATTACATATATGTATTTACATATACATTTTTATCTATGTAAACATTTTT-TAATGTACAT
1 TATGCATTACATATATGTATTTACATAAACATTTTTATCCATGTAAACATTTTTAT-ATGTACAT
* * *
7650215 TATTTATTTTGTTTGGGAGAATCTTTACTTTTTTTAGTTTTGTACATAGTTTTAAATATGAATTC
65 TATTTATTTTGTTTGGGAGAATCTTTACTCTTTTCAGTTTTGTAAATAGTTTTAAATATGAATTC
*
7650280 TTATTTTTA
130 TTATATTTA
7650289 CTATATATTG
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
138 13 0.11
139 107 0.88
140 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (139 bp):
TATGCATTACATATATGTATTTACATAAACATTTTTATCCATGTAAACATTTTTATATGTACATT
ATTTATTTTGTTTGGGAGAATCTTTACTCTTTTCAGTTTTGTAAATAGTTTTAAATATGAATTCT
TATATTTAT
Found at i:7650320 original size:126 final size:127
Alignment explanation
Indices: 7650182--7650414 Score: 321
Period size: 126 Copynumber: 1.8 Consensus size: 127
7650172 TACATATACA
*
7650182 TTTTTATCTATGTAAACATTTTT-TAATGTACATTATTT-ATTTTGTTTGGGAGAATCTTTACTT
1 TTTTTATCTATGTAAACATTTTTGT-ATGTACATTATTTCA-TTTGTTTAGGAGAAT-TTTACTT
* *
7650245 TTTTT-AGTTTT-GTACATAGTTTTAAATATGAATTCTTATTTTTACTATATATTGCATGTGCAT
63 TTTTTCAATTTTGGTACATAATTTTAAATATGAATTCTTATTTTTACTATATATTGCATGTGCAT
* * * **
7650308 TTTTTATGTATGTAAATATTTTTGTATGTACATTATTTCATTTGTTTAGGATAATTTTTGTTTTT
1 TTTTTATCTATGTAAACATTTTTGTATGTACATTATTTCATTTGTTTAGGAGAATTTTACTTTTT
* *
7650373 TTCAATTTTGGTACATAATTTTGAATATGAATTCTTGTTTTT
66 TTCAATTTTGGTACATAATTTTAAATATGAATTCTTATTTTT
7650415 TGTTATGTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
125 10 0.11
126 52 0.56
127 31 0.33
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.57
Consensus pattern (127 bp):
TTTTTATCTATGTAAACATTTTTGTATGTACATTATTTCATTTGTTTAGGAGAATTTTACTTTTT
TTCAATTTTGGTACATAATTTTAAATATGAATTCTTATTTTTACTATATATTGCATGTGCAT
Found at i:7650344 original size:17 final size:18
Alignment explanation
Indices: 7650300--7650345 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
7650290 TATATATTGC
*
7650300 ATGTGCATT-TTTTATGT
1 ATGTACATTATTTTATGT
*
7650317 ATGTA-AATATTTT-TGT
1 ATGTACATTATTTTATGT
7650333 ATGTACATTATTT
1 ATGTACATTATTT
7650346 CATTTGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (18 bp):
ATGTACATTATTTTATGT
Found at i:7651639 original size:21 final size:21
Alignment explanation
Indices: 7651590--7651640 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
7651580 AAATGAAAAA
* *
7651590 AAAATGAAGATGAAAAAAATG
1 AAAATGCATATGAAAAAAATG
7651611 AAAA--CATATGAAAAAAATG
1 AAAATGCATATGAAAAAAATG
7651630 AAAATGCATAT
1 AAAATGCATAT
7651641 TCTAAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 17 0.65
21 9 0.35
ACGTcount: A:0.65, C:0.04, G:0.14, T:0.18
Consensus pattern (21 bp):
AAAATGCATATGAAAAAAATG
Found at i:7662859 original size:33 final size:33
Alignment explanation
Indices: 7662822--7662899 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
7662812 CTGTTTTAAA
7662822 AAATCGTTCAAATA-TCGTAGCCTCTATTTAGAG
1 AAATCGTTCAAATACT-GTAGCCTCTATTTAGAG
*
7662855 AAATCGTTCAAATACTGTAGCCTCTGTTTAGAG
1 AAATCGTTCAAATACTGTAGCCTCTATTTAGAG
*
7662888 AAATCATTCAAA
1 AAATCGTTCAAA
7662900 CTTTATGGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
33 41 0.98
34 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (33 bp):
AAATCGTTCAAATACTGTAGCCTCTATTTAGAG
Found at i:7663220 original size:34 final size:34
Alignment explanation
Indices: 7663157--7663223 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
7663147 CAAATTTTTA
* * * *
7663157 ATTTAAAGTTTCATTGCCTTTGGTTAGAAGAGCC
1 ATTTAAAGTTTCACTACCTCTGGTCAGAAGAGCC
*
7663191 ATTTAAAGTTTTACTACCTCTGGTCAGAAGAGC
1 ATTTAAAGTTTCACTACCTCTGGTCAGAAGAGC
7663224 TTTTTTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (34 bp):
ATTTAAAGTTTCACTACCTCTGGTCAGAAGAGCC
Found at i:7663264 original size:40 final size:40
Alignment explanation
Indices: 7663191--7663269 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
7663181 TAGAAGAGCC
* *
7663191 ATTTAAAGTTTTACTACCTCTGGTCAGAAGAGCTTTTTTA
1 ATTTAAAGTTTCACTACCTCTAGTCAGAAGAGCTTTTTTA
*
7663231 ATTTAAAGTTTCACTATCTCTAGTCA-AATGAGCTTTTTT
1 ATTTAAAGTTTCACTACCTCTAGTCAGAA-GAGCTTTTTT
7663270 TAAAATGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 33 0.94
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (40 bp):
ATTTAAAGTTTCACTACCTCTAGTCAGAAGAGCTTTTTTA
Found at i:7663288 original size:36 final size:36
Alignment explanation
Indices: 7663248--7663339 Score: 85
Period size: 36 Copynumber: 2.6 Consensus size: 36
7663238 GTTTCACTAT
*
7663248 CTCTAGTCAAATGAGCTTTTTTTAAAATGCCATAGC
1 CTCTAGTCAAATGAGCTTTTTTCAAAATGCCATAGC
* * * * * * **
7663284 CTCTAATTAGATAAGCTCTTTTCAAAGTTTCATAGC
1 CTCTAGTCAAATGAGCTTTTTTCAAAATGCCATAGC
* *
7663320 TTCTAGTCAAAGGAGCTTTT
1 CTCTAGTCAAATGAGCTTTT
7663340 AATTTTAGAA
Statistics
Matches: 40, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (36 bp):
CTCTAGTCAAATGAGCTTTTTTCAAAATGCCATAGC
Found at i:7663442 original size:276 final size:274
Alignment explanation
Indices: 7662949--7663517 Score: 793
Period size: 276 Copynumber: 2.1 Consensus size: 274
7662939 TGTTCTCATA
* * * ** * **
7662949 TTTTTAATTTAAAATTTCATTATCTCTAGTCAAATGAGTTTTCCTTAAAGTGTTATAGCTTCTGG
1 TTTTTAATTTAAAGTTTCACTATCTCTAGTCAAATGAGTTTTCCTTAAAATGCCATAGCCTCTAA
* *
7663014 TTAGAGAAGCTTTTTTCAAAGTTTCATAGCCTCTAGTCAGAGGAGATTTTAATTTTAAAAGCCTC
66 TTAGAGAAGCTCTTTTCAAAGTTTCATAGCCTCTAGTCAAAGGAGATTTTAATTTTAAAAGCCTC
* * * * * *
7663079 TGGTTAGAGGACTCTTTCAAACTTAGGTATGATTTGTAAGACCAAAGGGTATAATCTATAAGTCC
131 TGGTTAGAAGACTATTCCAAACTTAGGCATGATTTGTAAAACCAAAGGGCATAATCTATAAGTCC
* * *
7663144 TCTCAAATTTTTAATTTAAAGTTTCATTGCCTTTGGTTAGAA-GAGCCATTTAAAGTTTTACTAC
196 TCTCAAAATTTTAATTTAAAGTTTCATTGCCTTTGGTCA-AATGAGCCATTTAAAGTTTCACTA-
7663208 CTCTGGTCAGAAGAG-C
259 -TCTGGTCAGAAGAGTC
*
7663224 TTTTTTAATTTAAAGTTTCACTATCTCTAGTCAAATGAGCTTTT-TTTAAAATGCCATAGCCTCT
1 -TTTTTAATTTAAAGTTTCACTATCTCTAGTCAAATGAG-TTTTCCTTAAAATGCCATAGCCTCT
* * * *
7663288 AATTAGATAAGCTCTTTTCAAAGTTTCATAGCTTCTAGTCAAAGGAGCTTTTAATTTTAGAAGCC
64 AATTAGAGAAGCTCTTTTCAAAGTTTCATAGCCTCTAGTCAAAGGAGATTTTAATTTTAAAAGCC
*
7663353 TCTGGTTAGAAGACTATTCCAAACTTAGGCATGATTTGTAAAACCAAAGGGCATAATTTATAAGT
129 TCTGGTTAGAAGACTATTCCAAACTTAGGCATGATTTGTAAAACCAAAGGGCATAATCTATAAGT
* * *
7663418 CCTCTCAAAATTTTAATTTAAAGTTTCATTGTCTTTGGTCAAATGAGCCATTTCAAGTTTCATTA
194 CCTCTCAAAATTTTAATTTAAAGTTTCATTGCCTTTGGTCAAATGAGCCATTTAAAGTTTCACTA
* *
7663483 TTTGGTCAGATGAGTC
259 TCTGGTCAGAAGAGTC
*
7663499 TTTTAAATTTAAAGTTTCA
1 TTTTTAATTTAAAGTTTCA
7663518 TTGCCTCTGA
Statistics
Matches: 259, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
274 30 0.12
275 3 0.01
276 222 0.86
277 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (274 bp):
TTTTTAATTTAAAGTTTCACTATCTCTAGTCAAATGAGTTTTCCTTAAAATGCCATAGCCTCTAA
TTAGAGAAGCTCTTTTCAAAGTTTCATAGCCTCTAGTCAAAGGAGATTTTAATTTTAAAAGCCTC
TGGTTAGAAGACTATTCCAAACTTAGGCATGATTTGTAAAACCAAAGGGCATAATCTATAAGTCC
TCTCAAAATTTTAATTTAAAGTTTCATTGCCTTTGGTCAAATGAGCCATTTAAAGTTTCACTATC
TGGTCAGAAGAGTC
Found at i:7663496 original size:32 final size:34
Alignment explanation
Indices: 7663433--7663505 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 34
7663423 CAAAATTTTA
*
7663433 ATTTAAAGTTTCATTGTCTTTGGTCAAATGAGCC
1 ATTTAAAGTTTCATTGTATTTGGTCAAATGAGCC
* * *
7663467 ATTTCAAGTTTCA-T-TATTTGGTCAGATGAGTC
1 ATTTAAAGTTTCATTGTATTTGGTCAAATGAGCC
*
7663499 TTTTAAA
1 ATTTAAA
7663506 TTTAAAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 20 0.61
33 1 0.03
34 12 0.36
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (34 bp):
ATTTAAAGTTTCATTGTATTTGGTCAAATGAGCC
Found at i:7663542 original size:40 final size:40
Alignment explanation
Indices: 7663488--7663673 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 40
7663478 CATTATTTGG
* *
7663488 TCAGATGAGTCTTTTAAATTTAAAGTTTCATTGCCTCTGA
1 TCAGAGGAGCCTTTTAAATTTAAAGTTTCATTGCCTCTGA
* *
7663528 TCAGAGGAGCCTTTTAAATTTAAAGTTTTATAT-CCTCTGG
1 TCAGAGGAGCCTTTTAAATTTAAAGTTTCAT-TGCCTCTGA
* * *
7663568 TTAGAGGAGTCTTTTAAATTCTAAAGTTTCATTGCATCTCG-
1 TCAGAGGAGCCTTTTAAATT-TAAAGTTTCATTGCCTCT-GA
* * * *
7663609 TCAGAGGAGCC------ATTTAAAGTTTCATAGCTTTTAA
1 TCAGAGGAGCCTTTTAAATTTAAAGTTTCATTGCCTCTGA
*
7663643 TCAGAGGAGCCTTTTAAATTTTAAAATTTCA
1 TCAGAGGAGCCTTTTAAA-TTTAAAGTTTCA
7663674 CAGTCTCTAG
Statistics
Matches: 119, Mismatches: 15, Indels: 23
0.76 0.10 0.15
Matches are distributed among these distances:
34 26 0.22
35 3 0.03
40 54 0.45
41 35 0.29
42 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (40 bp):
TCAGAGGAGCCTTTTAAATTTAAAGTTTCATTGCCTCTGA
Found at i:7663632 original size:34 final size:34
Alignment explanation
Indices: 7663589--7663660 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
7663579 TTTTAAATTC
* **
7663589 TAAAGTTTCATTGCATCTCGTCAGAGGAGCCATT
1 TAAAGTTTCATAGCATCTAATCAGAGGAGCCATT
* * *
7663623 TAAAGTTTCATAGCTTTTAATCAGAGGAGCCTTT
1 TAAAGTTTCATAGCATCTAATCAGAGGAGCCATT
7663657 TAAA
1 TAAA
7663661 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (34 bp):
TAAAGTTTCATAGCATCTAATCAGAGGAGCCATT
Found at i:7663949 original size:3 final size:3
Alignment explanation
Indices: 7663941--7663979 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
7663931 CAATCTATAT
7663941 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7663980 GATTTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7678308 original size:12 final size:12
Alignment explanation
Indices: 7678291--7678319 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7678281 ATACACTGGT
7678291 ATTTACCTGTCC
1 ATTTACCTGTCC
7678303 ATTTACCTGTCC
1 ATTTACCTGTCC
7678315 ATTTA
1 ATTTA
7678320 ACGGATTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (12 bp):
ATTTACCTGTCC
Found at i:7680950 original size:13 final size:13
Alignment explanation
Indices: 7680932--7680958 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7680922 AATGGTACAT
7680932 TTACCTTACAAAA
1 TTACCTTACAAAA
7680945 TTACCTTACAAAA
1 TTACCTTACAAAA
7680958 T
1 T
7680959 GATGGGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (13 bp):
TTACCTTACAAAA
Found at i:7682773 original size:75 final size:75
Alignment explanation
Indices: 7682650--7682805 Score: 258
Period size: 75 Copynumber: 2.1 Consensus size: 75
7682640 AGAAGATCAT
*
7682650 CTAAGTACTCACTATAACCAGAGACAAGTTCATAAGTGGGCATATCTCAGAGAAATAAATATAAA
1 CTAAGTACTCACTATAACCAGAGACAAGTTCATAAGTGGGAATATCTCAGAGAAATAAATATAAA
7682715 TTCTTTTGCA
66 TTCTTTTGCA
** * * *
7682725 CTAAGTACTCACTATAACTGGGGACAAGTTCATAAGTGGGAATATCTCAGAGAGATAAATATGAA
1 CTAAGTACTCACTATAACCAGAGACAAGTTCATAAGTGGGAATATCTCAGAGAAATAAATATAAA
7682790 TTCTTTTGCA
66 TTCTTTTGCA
7682800 CTAAGT
1 CTAAGT
7682806 TTAGAACAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (75 bp):
CTAAGTACTCACTATAACCAGAGACAAGTTCATAAGTGGGAATATCTCAGAGAAATAAATATAAA
TTCTTTTGCA
Found at i:7685730 original size:33 final size:33
Alignment explanation
Indices: 7685693--7685758 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
7685683 TTCAACAATT
7685693 CTAATGACATCCTTTATATCACAAATTCAATGA
1 CTAATGACATCCTTTATATCACAAATTCAATGA
*
7685726 CTAATGACATCCTTTATATCATAAATTCAATGA
1 CTAATGACATCCTTTATATCACAAATTCAATGA
7685759 TTCCAAACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (33 bp):
CTAATGACATCCTTTATATCACAAATTCAATGA
Found at i:7687961 original size:21 final size:22
Alignment explanation
Indices: 7687929--7687969 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7687919 ATATATAATA
7687929 TATTTTTAA-TTTTATTAAATT
1 TATTTTTAATTTTTATTAAATT
7687950 TATTTATT-ATTTTTATTAAA
1 TATTT-TTAATTTTTATTAAA
7687970 ATTTTAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTTTTAATTTTTATTAAATT
Found at i:7689874 original size:14 final size:14
Alignment explanation
Indices: 7689855--7689897 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
7689845 AAAACTCAAC
7689855 TCTTTTTCTTTTTT
1 TCTTTTTCTTTTTT
7689869 TCTTTTT-TTTTTT
1 TCTTTTTCTTTTTT
7689882 TGCTTTTGTCTTTTTT
1 T-CTTTT-TCTTTTTT
7689898 ATTAGATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.27
14 12 0.46
15 1 0.04
16 6 0.23
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.84
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:7691498 original size:21 final size:19
Alignment explanation
Indices: 7691472--7691515 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
7691462 TCTCTATTTG
7691472 TTTTTCTTTTCTTTTTGTTTA
1 TTTTTCTTTT-TTTTT-TTTA
7691493 TTTTTCTTTTTTTTTTTT-
1 TTTTTCTTTTTTTTTTTTA
7691511 TTTTT
1 TTTTT
7691516 TATTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.22
19 3 0.13
20 5 0.22
21 10 0.43
ACGTcount: A:0.02, C:0.07, G:0.02, T:0.89
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTTTA
Found at i:7704500 original size:21 final size:20
Alignment explanation
Indices: 7704454--7704502 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
7704444 TAATATTATT
**
7704454 TTTTATTCTTTCCTTTTCTC
1 TTTTATTCTTTCCTTTTCAA
*
7704474 TATTTATTCTTTTCTTTTCAAA
1 T-TTTATTCTTTCCTTTTC-AA
7704496 TTTTATT
1 TTTTATT
7704503 TATTGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATTCTTTCCTTTTCAA
Found at i:7707448 original size:31 final size:29
Alignment explanation
Indices: 7707393--7707448 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
7707383 CGTAAAATAT
* *
7707393 TAAAATTTATATATTTATATTATATTTTA
1 TAAAAATTATATATTTATATTATATATTA
7707422 TAAAAATTATATA-TTATAATTATATAT
1 TAAAAATTATATATTTAT-ATTATATAT
7707449 ATTATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TAAAAATTATATATTTATATTATATATTA
Found at i:7713667 original size:16 final size:18
Alignment explanation
Indices: 7713628--7713671 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
7713618 AAAATTAAAA
7713628 TTAATTAATTTCTATAATT
1 TTAA-TAATTTCTATAATT
*
7713647 ATAATAATTT-TA-AATT
1 TTAATAATTTCTATAATT
7713663 TTAATAATT
1 TTAATAATT
7713672 ATAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 12 0.52
17 2 0.09
18 6 0.26
19 3 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAATAATTTCTATAATT
Found at i:7717720 original size:19 final size:19
Alignment explanation
Indices: 7717696--7717761 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 19
7717686 AAAACCTAAT
7717696 TATTTATTAAATTTTATTA
1 TATTTATTAAATTTTATTA
*
7717715 TATTTA-TAAAATTTATTA
1 TATTTATTAAATTTTATTA
* * * *
7717733 TCTATAAT-AATTTTA-CA
1 TATTTATTAAATTTTATTA
7717750 TATTTATTAAAT
1 TATTTATTAAAT
7717762 AAATAATATG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
17 6 0.16
18 24 0.65
19 7 0.19
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTTATTAAATTTTATTA
Found at i:7718194 original size:16 final size:16
Alignment explanation
Indices: 7718173--7718205 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7718163 TTTCAAATAT
7718173 AATAATATAATATAAA
1 AATAATATAATATAAA
*
7718189 AATAATATAATTTAAA
1 AATAATATAATATAAA
7718205 A
1 A
7718206 TTTTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATATAATATAAA
Found at i:7718235 original size:22 final size:22
Alignment explanation
Indices: 7718207--7718278 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 22
7718197 AATTTAAAAT
7718207 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATTATAAATAAA
7718229 TTTAATAAAATAAAATTATAAATAAA
1 TTTAAT---A-AAAATTATAAATAAA
*
7718255 TTTAAT-AAAATTA-AAATATA
1 TTTAATAAAAATTATAAATAAA
7718275 TTTA
1 TTTA
7718279 TATATTTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
20 10 0.22
21 7 0.16
22 6 0.13
25 1 0.02
26 21 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAATAAAAATTATAAATAAA
Found at i:7718241 original size:14 final size:14
Alignment explanation
Indices: 7718222--7718265 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
7718212 TAAAAATTAT
7718222 AAATAAATTTAATA
1 AAATAAATTTAATA
*
7718236 AAATAAAATT-AT-
1 AAATAAATTTAATA
7718248 AAATAAATTTAATA
1 AAATAAATTTAATA
7718262 AAAT
1 AAAT
7718266 TAAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 9 0.35
13 4 0.15
14 13 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATAAATTTAATA
Found at i:7718246 original size:26 final size:27
Alignment explanation
Indices: 7718214--7718271 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 27
7718204 AATTTTAATA
7718214 AAAATTATAAATAAATTTAATAAAA-T
1 AAAATTATAAATAAATTTAATAAAATT
7718240 AAAATTATAAATAAATTTAATAAAATT
1 AAAATTATAAATAAATTTAATAAAATT
7718267 AAAAT
1 AAAAT
7718272 ATATTTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAATTATAAATAAATTTAATAAAATT
Found at i:7718338 original size:20 final size:20
Alignment explanation
Indices: 7718315--7718354 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7718305 AAATTATTTT
*
7718315 TATATAAAATATTATATAAA
1 TATATAAAATATTAGATAAA
*
7718335 TATATAAATTATTAGATAAA
1 TATATAAAATATTAGATAAA
7718355 AAATACTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
TATATAAAATATTAGATAAA
Found at i:7719764 original size:6 final size:6
Alignment explanation
Indices: 7719720--7719781 Score: 61
Period size: 6 Copynumber: 9.7 Consensus size: 6
7719710 ATATTATTAT
* *
7719720 TAAATA TAATATAA TAACATA TGAATA TAATATA AAAATA TAAATA TAAATA
1 TAAATA TAA-AT-A TAA-ATA TAAATA TAA-ATA TAAATA TAAATA TAAATA
*
7719772 TAAAAA TAAA
1 TAAATA TAAA
7719782 ATATTTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 31 0.66
7 10 0.21
8 6 0.13
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:7719765 original size:19 final size:19
Alignment explanation
Indices: 7719720--7719785 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
7719710 ATATTATTAT
7719720 TAAATATAATATAATAACATA
1 TAAATATAATATAA-AA-ATA
*
7719741 TGAATATAATATAAAAATA
1 TAAATATAATATAAAAATA
7719760 TAAATATAAATATAAAAATA
1 TAAATAT-AATATAAAAATA
7719780 -AAATAT
1 TAAATAT
7719786 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.36
20 14 0.33
21 13 0.31
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAATATAATATAAAAATA
Found at i:7719767 original size:14 final size:14
Alignment explanation
Indices: 7719748--7719785 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7719738 ATATGAATAT
* *
7719748 AATATAAAAATATA
1 AATATAAATATAAA
7719762 AATATAAATATAAA
1 AATATAAATATAAA
7719776 AATA-AAATAT
1 AATATAAATAT
7719786 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATATAAATATAAA
Found at i:7719856 original size:38 final size:39
Alignment explanation
Indices: 7719805--7719885 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 39
7719795 TTAATAATAT
*
7719805 TATATATAAATTTA-ATAAAATTTTAA-AAATAAATTTTA
1 TATATATAAATTTATA-AAAATTATAATAAATAAATTTTA
* * * *
7719843 TATATTTATATTTATAAAAATTATAATATATAATTTTTA
1 TATATATAAATTTATAAAAATTATAATAAATAAATTTTA
7719882 TATA
1 TATA
7719886 AAATATAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 21 0.58
39 15 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
TATATATAAATTTATAAAAATTATAATAAATAAATTTTA
Found at i:7719904 original size:13 final size:12
Alignment explanation
Indices: 7719745--7719916 Score: 53
Period size: 12 Copynumber: 14.7 Consensus size: 12
7719735 AACATATGAA
*
7719745 TATAATATAAAAA
1 TATAATAT-AAAT
7719758 TATAAATATAAA-
1 TAT-AATATAAAT
* *
7719770 TATAAAAATAAAA
1 TAT-AATATAAAT
**
7719783 TATTTTA-AAAT
1 TATAATATAAAT
* *
7719794 TTTAATA-ATAT
1 TATAATATAAAT
7719805 TAT-ATATAAAT
1 TATAATATAAAT
7719816 T-TAATA-AAAT
1 TATAATATAAAT
* *
7719826 TTTAAAAATAAAT
1 TAT-AATATAAAT
* *
7719839 T-TTATAT-ATT
1 TATAATATAAAT
*
7719849 TATATTTATAAAAAT
1 TATA---ATATAAAT
7719864 TATAATATATAAT
1 TATAATATA-AAT
* * *
7719877 TTTTATATAAAA
1 TATAATATAAAT
7719889 TATAATAT-AA-
1 TATAATATAAAT
7719899 -AT-ATATAAAT
1 TATAATATAAAT
7719909 TATAATAT
1 TATAATAT
7719917 TTACATTATA
Statistics
Matches: 118, Mismatches: 24, Indels: 35
0.67 0.14 0.20
Matches are distributed among these distances:
8 4 0.03
9 4 0.03
10 12 0.10
11 28 0.24
12 32 0.27
13 24 0.20
14 8 0.07
15 6 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAATATAAAT
Found at i:7719931 original size:23 final size:23
Alignment explanation
Indices: 7719833--7719931 Score: 80
Period size: 25 Copynumber: 4.3 Consensus size: 23
7719823 AATTTTAAAA
*
7719833 ATAAATTTTATATATTTATATTTAT
1 ATAAATTATA-ATATTTA-ATTTAT
* *
7719858 AAAAATTATAATATATAATTTTTAT
1 ATAAATTATAATATTTAA--TTTAT
* *
7719883 ATAAAATATAATA--TAA-ATAT
1 ATAAATTATAATATTTAATTTAT
7719903 ATAAATTATAATATTTACA-TTAT
1 ATAAATTATAATATTTA-ATTTAT
7719926 ATAAAT
1 ATAAAT
7719932 ACATAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
20 15 0.25
22 2 0.03
23 14 0.23
24 6 0.10
25 24 0.39
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAAATTATAATATTTAATTTAT
Found at i:7727004 original size:18 final size:17
Alignment explanation
Indices: 7726981--7727020 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
7726971 TTATTTTATT
7726981 AAAAAAAC-AAAAATACGA
1 AAAAAAACTAAAAA-AC-A
7726999 AAAAAAACTAAAAAACA
1 AAAAAAACTAAAAAACA
7727016 AAAAA
1 AAAAA
7727021 GCCGGTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (17 bp):
AAAAAAACTAAAAAACA
Found at i:7727997 original size:12 final size:12
Alignment explanation
Indices: 7727978--7728020 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
7727968 TGTTCAGGTA
7727978 AAAT-TTTTTAT
1 AAATATTTTTAT
7727989 AAATATTTTTAT
1 AAATATTTTTAT
*
7728001 ATATTATTTTTAT
1 A-AATATTTTTAT
7728014 -AATATTT
1 AAATATTT
7728021 ATGCATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.36
12 8 0.29
13 10 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AAATATTTTTAT
Found at i:7728018 original size:14 final size:14
Alignment explanation
Indices: 7727982--7728019 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
7727972 CAGGTAAAAT
7727982 TTTTTATAA-A-TA
1 TTTTTATAATATTA
7727994 TTTTTAT-ATATTA
1 TTTTTATAATATTA
7728007 TTTTTATAATATT
1 TTTTTATAATATT
7728020 TATGCATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 8 0.35
13 9 0.39
14 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTATAATATTA
Found at i:7728028 original size:24 final size:25
Alignment explanation
Indices: 7727982--7728030 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
7727972 CAGGTAAAAT
* *
7727982 TTTTTATAAATATTTTTATATATTA
1 TTTTTATAAATATTTATACATATTA
*
7728007 TTTTTAT-AATATTTATGCATATTA
1 TTTTTATAAATATTTATACATATTA
7728031 ACATATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTATAAATATTTATACATATTA
Found at i:7734272 original size:3 final size:3
Alignment explanation
Indices: 7734266--7734294 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7734256 AATAATAATA
7734266 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7734295 AATATGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7736416 original size:34 final size:33
Alignment explanation
Indices: 7736351--7736436 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 33
7736341 ATGATTATCC
**
7736351 AAAATTATTTAAAGGATTTCGAAAATAAATTT-T
1 AAAATT-TTTAAATAATTTCGAAAATAAATTTAT
* * *
7736384 CAAAAATTTTTAAATAATTTGGAACATCAATTTAT
1 --AAAATTTTTAAATAATTTCGAAAATAAATTTAT
*
7736419 AAAATTTTTTAATAATTT
1 AAAATTTTTAAATAATTT
7736437 TAAAAAATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
33 17 0.39
34 20 0.45
35 7 0.16
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (33 bp):
AAAATTTTTAAATAATTTCGAAAATAAATTTAT
Found at i:7741968 original size:13 final size:14
Alignment explanation
Indices: 7741945--7741978 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
7741935 TTTTCTCAAA
7741945 TATTGTTATTTGG-T
1 TATT-TTATTTGGTT
7741959 TATTTTATTTGGTT
1 TATTTTATTTGGTT
7741973 TATTTT
1 TATTTT
7741979 TGTGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (14 bp):
TATTTTATTTGGTT
Found at i:7744984 original size:21 final size:22
Alignment explanation
Indices: 7744949--7744989 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7744939 TTGACTGATG
7744949 AACAAAAAATGATTTATTAATT
1 AACAAAAAATGATTTATTAATT
*
7744971 AACAAAAAAT-ATTTTTTAA
1 AACAAAAAATGATTTATTAA
7744990 AAAAGGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
AACAAAAAATGATTTATTAATT
Found at i:7745282 original size:18 final size:19
Alignment explanation
Indices: 7745239--7745297 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
7745229 TTAGTTTGAC
7745239 TTAAAATATTATTATATTAA
1 TTAAAATATTA-TATATTAA
* *
7745259 TAAAAATATTA-ATTTTAA
1 TTAAAATATTATATATTAA
*
7745277 TTAAAATATTTAAATATTAA
1 TTAAAATA-TTATATATTAA
7745297 T
1 T
7745298 ATTAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 13 0.39
19 3 0.09
20 17 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAAATATTATATATTAA
Found at i:7745333 original size:22 final size:24
Alignment explanation
Indices: 7745308--7745351 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
7745298 ATTAAAATTT
7745308 TTTTATATTTTA-ATT-TTAAATA
1 TTTTATATTTTATATTATTAAATA
*
7745330 TTTTATTTTTTATATTATTAAA
1 TTTTATATTTTATATTATTAAA
7745352 AATAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 3 0.16
24 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTATATTTTATATTATTAAATA
Found at i:7745338 original size:30 final size:30
Alignment explanation
Indices: 7745306--7745364 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7745296 ATATTAAAAT
***
7745306 TTTTTTATATT-TTAATTTTAAATATTTTA
1 TTTTTTATATTATTAAAAATAAATATTTTA
7745335 TTTTTTATATTATTAAAAATAAATATTTTA
1 TTTTTTATATTATTAAAAATAAATATTTTA
7745365 AATATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTTATATTATTAAAAATAAATATTTTA
Found at i:7745363 original size:24 final size:24
Alignment explanation
Indices: 7745336--7745397 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
7745326 AATATTTTAT
7745336 TTTTTATATTATTAAAAATAAATA
1 TTTTTATATTATTAAAAATAAATA
* *
7745360 TTTTAAATATT-TTAATAATAAATA
1 TTTT-TATATTATTAAAAATAAATA
* *
7745384 GTATTATATTATTA
1 TTTTTATATTATTA
7745398 TTTTAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 5 0.16
24 21 0.68
25 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTTTATATTATTAAAAATAAATA
Found at i:7745514 original size:23 final size:23
Alignment explanation
Indices: 7745466--7745529 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
7745456 ACATTTGCAG
* * *
7745466 TTAAATTAAAGATTAAAAATTTAT
1 TTAAA-TAAAAATTAAAAACTAAT
*
7745490 TTGAATAAAAATTAAAAACTAAT
1 TTAAATAAAAATTAAAAACTAAT
**
7745513 TTAAATGTAAATTAAAA
1 TTAAATAAAAATTAAAA
7745530 TTTAAAGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
23 29 0.88
24 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (23 bp):
TTAAATAAAAATTAAAAACTAAT
Found at i:7746679 original size:25 final size:20
Alignment explanation
Indices: 7746629--7746672 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
7746619 TTTAAAATTA
7746629 ATAAAATATTATTTTTATAT
1 ATAAAATATTATTTTTATAT
7746649 ATAAAATATTATTTTTA-AT
1 ATAAAATATTATTTTTATAT
7746668 ATAAA
1 ATAAA
7746673 TATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTATTTTTATAT
Found at i:7747432 original size:40 final size:39
Alignment explanation
Indices: 7747386--7747471 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
7747376 TTATATAATC
* * *
7747386 AATTAAATAGTTAATTATTATATTATAA-TTAAGTTATAAT
1 AATTAAATAATTAATTAATAAATTATAATTTAA-TTA-AAT
*
7747426 TATTAAATAATTAATTAATAAATTATAATTTAATTAAAT
1 AATTAAATAATTAATTAATAAATTATAATTTAATTAAAT
7747465 AATTAAA
1 AATTAAA
7747472 ACCGACTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 9 0.22
40 27 0.68
41 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (39 bp):
AATTAAATAATTAATTAATAAATTATAATTTAATTAAAT
Found at i:7747469 original size:19 final size:18
Alignment explanation
Indices: 7747396--7747462 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 18
7747386 AATTAAATAG
* *
7747396 TTAATTATTATATTATAA
1 TTAATTAATAAATTATAA
7747414 TTAAGTT-ATAATTATTAAATAA
1 TTAA-TTAATAA--ATT--ATAA
7747436 TTAATTAATAAATTATAA
1 TTAATTAATAAATTATAA
7747454 TTTAATTAA
1 -TTAATTAA
7747463 ATAATTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
18 10 0.25
19 10 0.25
20 6 0.15
21 2 0.05
22 12 0.30
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (18 bp):
TTAATTAATAAATTATAA
Found at i:7748241 original size:34 final size:35
Alignment explanation
Indices: 7748158--7748263 Score: 118
Period size: 34 Copynumber: 3.2 Consensus size: 35
7748148 AATTTATACT
* *
7748158 TTAATATTATATTAAATATTTAATTTAAA-AT-TAA
1 TTAATAATA-ATTAAATATTTAATTTAAATATAAAA
*
7748192 TTAATAATAAATAAATTATTTAATTTAAATATAAAA
1 TTAATAATAATTAAA-TATTTAATTTAAATATAAAA
7748228 TTAA-AA-AATTAAATATTT-A-TTAAATATAAAA
1 TTAATAATAATTAAATATTTAATTTAAATATAAAA
7748259 -TAATA
1 TTAATA
7748264 CCAGTTCCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
30 3 0.05
31 13 0.20
32 1 0.02
33 10 0.16
34 27 0.42
35 4 0.06
36 6 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (35 bp):
TTAATAATAATTAAATATTTAATTTAAATATAAAA
Found at i:7764922 original size:32 final size:32
Alignment explanation
Indices: 7764886--7764951 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
7764876 CTACATGGCT
* *
7764886 CTGAATATAAACTGATTTGTGCACGCCTAAAG
1 CTGAATATAAACTGATATGTGCACGCATAAAG
7764918 CTGAATATAAACTGATATGTGCACGCATAAAG
1 CTGAATATAAACTGATATGTGCACGCATAAAG
7764950 CT
1 CT
7764952 TAAAAAGAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (32 bp):
CTGAATATAAACTGATATGTGCACGCATAAAG
Found at i:7765785 original size:26 final size:27
Alignment explanation
Indices: 7765736--7765786 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7765726 TAATAGATTT
* *
7765736 TTTAAAAATAAAGCAAACCATTCTATA
1 TTTAAAAAGAAAGAAAACCATTCTATA
7765763 TTTAAAAAGAAAGAAAACC-TTCTA
1 TTTAAAAAGAAAGAAAACCATTCTA
7765787 AGAAACCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (27 bp):
TTTAAAAAGAAAGAAAACCATTCTATA
Found at i:7771206 original size:160 final size:160
Alignment explanation
Indices: 7770770--7771247 Score: 761
Period size: 156 Copynumber: 3.0 Consensus size: 160
7770760 TTAAAATTTT
* * * *
7770770 ACCAAGTAGTTAGTTGTTGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
*
7770835 AAATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
* *
7770900 GATTATTTAAAG----AAAAATCAAGATCA
131 GATTAATTAAAGAAAAAAAAATCAAAATCA
*
7770926 ACCAATTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
7770991 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
7771056 GATTAATTAAAGAAAAAAAAATCAAAATCA
131 GATTAATTAAAGAAAAAAAAATCAAAATCA
* *
7771086 GCCAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAG-
1 ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
* * *
7771150 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTATTGTTTTTACTTGTAGAGGCTCCGTCGTC
66 AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTC
*
7771215 GGATTAATTAAAGAATAAAGAAAA-AAAAATCA
130 GGATTAATTAAAGAA-AAA-AAAATCAAAATCA
7771247 A
1 A
7771248 GATCAAAATC
Statistics
Matches: 299, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
156 135 0.45
159 38 0.13
160 112 0.37
161 10 0.03
162 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (160 bp):
ACCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGA
AAATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCG
GATTAATTAAAGAAAAAAAAATCAAAATCA
Found at i:7771348 original size:15 final size:16
Alignment explanation
Indices: 7771317--7771371 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 16
7771307 AAACCTGGAG
*
7771317 CGGCTCGGATCGCGGCT
1 CGGCTCGGCT-GCGGCT
*
7771334 CGGCTTGG-TGCGGCT
1 CGGCTCGGCTGCGGCT
7771349 CGGCTCGGCT-CGGCT
1 CGGCTCGGCTGCGGCT
7771364 CGGCTCGG
1 CGGCTCGG
7771372 AGGGGCTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 26 0.74
16 2 0.06
17 7 0.20
ACGTcount: A:0.02, C:0.35, G:0.44, T:0.20
Consensus pattern (16 bp):
CGGCTCGGCTGCGGCT
Found at i:7771352 original size:5 final size:5
Alignment explanation
Indices: 7771329--7771371 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
7771319 GCTCGGATCG
*
7771329 CGGCT CGGCT TGG-T GCGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT -CGGCT CGGCT CGGCT CGGCT CGGCT CGG
7771372 AGGGGCTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.00, C:0.35, G:0.44, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:7771378 original size:15 final size:15
Alignment explanation
Indices: 7771317--7771378 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
7771307 AAACCTGGAG
7771317 CGGCTCGGATCGCGGCT
1 CGGCTCGGA--GCGGCT
* *
7771334 CGGCTTGGTGCGGCT
1 CGGCTCGGAGCGGCT
**
7771349 CGGCTCGGCTCGGCT
1 CGGCTCGGAGCGGCT
*
7771364 CGGCTCGGAGGGGCT
1 CGGCTCGGAGCGGCT
7771379 GAAACGCGCG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
15 30 0.81
17 7 0.19
ACGTcount: A:0.03, C:0.32, G:0.45, T:0.19
Consensus pattern (15 bp):
CGGCTCGGAGCGGCT
Found at i:7771616 original size:19 final size:19
Alignment explanation
Indices: 7771592--7771636 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
7771582 GAACGTCGGT
*
7771592 GCCGGATTCTGGAAAATTC
1 GCCGGAATCTGGAAAATTC
* *
7771611 GCCGGAATCTGGGAATTTC
1 GCCGGAATCTGGAAAATTC
7771630 GCCGGAA
1 GCCGGAA
7771637 ATTGGCCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (19 bp):
GCCGGAATCTGGAAAATTC
Found at i:7771725 original size:31 final size:31
Alignment explanation
Indices: 7771687--7771759 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
7771677 AAACTGGGTC
*
7771687 TGTCGCCGGAAACTTC-AAAGTTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAG-TCGCCGGAAT
7771718 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
1 TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
*
7771749 TTTCGCCGGAA
1 TGTCGCCGGAA
7771760 TCTGGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (31 bp):
TGTCGCCGGAAAATTCAAAAGTCGCCGGAAT
Found at i:7772187 original size:3 final size:3
Alignment explanation
Indices: 7772179--7772348 Score: 75
Period size: 3 Copynumber: 53.7 Consensus size: 3
7772169 GATAATTAAA
* **
7772179 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AA- GAT AA- ACCC AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AA-T
* *
7772225 ATAT ATT ACAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT ATAT AACT
1 A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AA-T
* * *
7772275 ATAT ACAT -AT AA- ATCT AAT -CT AAT AA- AAA AAT AAAT AAAT ATAT
1 A-AT A-AT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT -AAT A-AT
7772319 ACAT AAT AAT AAT AAT AAT AA- AAT ACAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AA
7772349 ATACAAAAGA
Statistics
Matches: 131, Mismatches: 16, Indels: 40
0.70 0.09 0.21
Matches are distributed among these distances:
2 10 0.08
3 82 0.63
4 37 0.28
5 2 0.02
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7772199 original size:48 final size:45
Alignment explanation
Indices: 7772080--7772199 Score: 107
Period size: 48 Copynumber: 2.5 Consensus size: 45
7772070 CTCCAAAATC
* * *
7772080 AAAAATAAAAAAATACTAGATAATAATCAGATAAATCAAAAGATATTT
1 AAAAA-AAAAAAA-A-TATATAATAATCAGAAAAATCAAAAGATAATT
* *
7772128 AAAAAAAAAAAAATATCTGATAATCAGGAAAAATCAGAACAGATAATT
1 AAAAAAAAAAAAATATATAATAATCA-GAAAAATCA-AA-AGATAATT
* *
7772176 AAAAATAATAATAATA-ATAATAAT
1 AAAAA-AAAAAAAATATATAATAAT
7772200 AATAATAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
45 10 0.17
46 9 0.15
47 9 0.15
48 23 0.39
49 8 0.14
ACGTcount: A:0.64, C:0.06, G:0.07, T:0.23
Consensus pattern (45 bp):
AAAAAAAAAAAAATATATAATAATCAGAAAAATCAAAAGATAATT
Found at i:7772874 original size:2 final size:2
Alignment explanation
Indices: 7772867--7772896 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7772857 GCAAAACCAA
7772867 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
7772897 TCTTCCAGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7775828 original size:28 final size:28
Alignment explanation
Indices: 7775763--7775831 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
7775753 TTTTTTTATT
* *
7775763 AAATATATATGATAATTTAAAATATGAAA
1 AAATA-ATATGATAATTGAAAATATAAAA
* *
7775792 TAATGATATGATAATATGAAAATA-AAAA
1 AAATAATATGATAAT-TGAAAATATAAAA
7775820 AAATAATATGAT
1 AAATAATATGAT
7775832 TTAAAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (28 bp):
AAATAATATGATAATTGAAAATATAAAA
Found at i:7783167 original size:22 final size:23
Alignment explanation
Indices: 7783142--7783192 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
7783132 ATAATTATAG
7783142 TTTTATA-TTTTAAAAAATAATA
1 TTTTATATTTTTAAAAAATAATA
7783164 TTTTATATTTTTAAAAAATAATA
1 TTTTATATTTTTAAAAAATAATA
*
7783187 TCTTAT
1 TTTTAT
7783193 TAATTTCGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTATATTTTTAAAAAATAATA
Found at i:7783881 original size:93 final size:93
Alignment explanation
Indices: 7783722--7783899 Score: 320
Period size: 93 Copynumber: 1.9 Consensus size: 93
7783712 CAGAACAATG
7783722 CTGACAATTAAAGCTAGCTTGCAATCCAACCTATGCAATAGTTGTTTCTATGTGATGGTTACACA
1 CTGACAATTAAAGCTAGCTTGCAATCCAACCTATGCAATAGTTGTTTCTATGTGATGGTTACACA
7783787 AGGTTAATGTGGCCTCACATCAAAGTTT
66 AGGTTAATGTGGCCTCACATCAAAGTTT
* * * *
7783815 CTGACAATTAAAGCTAGTTTGGAATCCAACCTATGCAATAGTTGTTTCTATTTGATGGTTATACA
1 CTGACAATTAAAGCTAGCTTGCAATCCAACCTATGCAATAGTTGTTTCTATGTGATGGTTACACA
7783880 AGGTTAATGTGGCCTCACAT
66 AGGTTAATGTGGCCTCACAT
7783900 TGAAGCAAGT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 81 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (93 bp):
CTGACAATTAAAGCTAGCTTGCAATCCAACCTATGCAATAGTTGTTTCTATGTGATGGTTACACA
AGGTTAATGTGGCCTCACATCAAAGTTT
Found at i:7790461 original size:20 final size:20
Alignment explanation
Indices: 7790423--7790461 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7790413 AGATTGTCCA
*
7790423 AAATTAAATTTTGATTATTG
1 AAATTAAATTTTGAATATTG
7790443 AAATTAAAATTTT-AATATT
1 AAATT-AAATTTTGAATATT
7790462 TTAACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
AAATTAAATTTTGAATATTG
Found at i:7796854 original size:27 final size:27
Alignment explanation
Indices: 7796824--7796876 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
7796814 ATTTACTTAA
7796824 TTTTGTTTTATAACACAG-CAATTAATC
1 TTTTGTTTTATAA-ACAGTCAATTAATC
* * *
7796851 TTTTTTTTTTTAAATAGTCAATTAAT
1 TTTTGTTTTATAAACAGTCAATTAAT
7796877 ACATTTATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (27 bp):
TTTTGTTTTATAAACAGTCAATTAATC
Found at i:7809429 original size:18 final size:18
Alignment explanation
Indices: 7809406--7809445 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
7809396 AATTGAAGTA
*
7809406 TATATATATTTTAATTTT
1 TATATATATTTTAAATTT
7809424 TATATATATTTTAAATTT
1 TATATATATTTTAAATTT
7809442 TATA
1 TATA
7809446 AAATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATATTTTAAATTT
Found at i:7809739 original size:29 final size:30
Alignment explanation
Indices: 7809702--7809763 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
7809692 TTACAAACAA
* * *
7809702 ATTTTATAAAATATT-TTTTAATTTTTATT
1 ATTTAATAAAATATTATTATAATTATTATT
*
7809731 ATTTAATAAAATATTATTATCATTATTATT
1 ATTTAATAAAATATTATTATAATTATTATT
7809761 ATT
1 ATT
7809764 ATTATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTAATAAAATATTATTATAATTATTATT
Found at i:7809748 original size:3 final size:3
Alignment explanation
Indices: 7809742--7809777 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
7809732 TTTAATAAAA
*
7809742 TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7809778 TGGTGAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7810862 original size:26 final size:25
Alignment explanation
Indices: 7810807--7810861 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
7810797 AAATAATAAT
*
7810807 AAAATTTATTATAATTACGATTGAA
1 AAAAATTATTATAATTACGATTGAA
*
7810832 AAAAATTATTGTAATT-CTGATTGAA
1 AAAAATTATTATAATTAC-GATTGAA
7810857 AAAAA
1 AAAAA
7810862 AAATACAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (25 bp):
AAAAATTATTATAATTACGATTGAA
Found at i:7812628 original size:8 final size:7
Alignment explanation
Indices: 7812615--7812655 Score: 52
Period size: 6 Copynumber: 6.1 Consensus size: 7
7812605 AGTTCAAAGA
7812615 TTTCTTT
1 TTTCTTT
7812622 CTTTCTTT
1 -TTTCTTT
7812630 TTT-TTT
1 TTTCTTT
7812636 TTT-TTT
1 TTTCTTT
7812642 TTT-TTT
1 TTTCTTT
7812648 TTTCTTT
1 TTTCTTT
7812655 T
1 T
7812656 AAAGTTACGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.56
7 7 0.22
8 7 0.22
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTCTTT
Found at i:7812711 original size:16 final size:15
Alignment explanation
Indices: 7812690--7812723 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
7812680 CCTTGCTATG
7812690 TTTTGTATTTTTGTTT
1 TTTTGTATTTTT-TTT
7812706 TTTTGTATTTTTTTT
1 TTTTGTATTTTTTTT
7812721 TTT
1 TTT
7812724 ATAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (15 bp):
TTTTGTATTTTTTTT
Found at i:7813354 original size:19 final size:19
Alignment explanation
Indices: 7813319--7813357 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7813309 TTTGAATTAG
7813319 AAAATAAAATTAATATATT
1 AAAATAAAATTAATATATT
*
7813338 AAAATCAAAA-TATTATATT
1 AAAAT-AAAATTAATATATT
7813357 A
1 A
7813358 TATATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAAAATTAATATATT
Found at i:7816746 original size:13 final size:13
Alignment explanation
Indices: 7816728--7816752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7816718 TTTAAATCTA
7816728 TAAATAAAAAATT
1 TAAATAAAAAATT
7816741 TAAATAAAAAAT
1 TAAATAAAAAAT
7816753 CACATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAATAAAAAATT
Found at i:7816934 original size:210 final size:216
Alignment explanation
Indices: 7816513--7816978 Score: 504
Period size: 210 Copynumber: 2.1 Consensus size: 216
7816503 AATCTATATT
* * * * *
7816513 TTTAAATAAAAATTCATATTTTTTGTTATTTATTATTGAGGGCAAATGAAAGTAGTTTTTAAAGC
1 TTTAAATAAAAAATCACATTTTTTGTTATTTAATATTGAAGGCAAATGAAAG-A----TCAAAGC
*
7816578 AAACAATCATTTTCAATCTCAATTCAAATCTTATTACAAAATAATTGATCATCTCATTTGAAAAA
61 AAACAATCATTTTCAATCTCAATTCAAATCTTAGTACAAAATAATTGATCATCTCATTTGAAAAA
* * * *
7816643 TTTGTTTGAGATACTTTTTGAAAAAGAAAAATATATGTTGATCTTCTTATTTTAATAAGTTTAGA
126 CTTGTTTGAGATACTTTTTGAAAAAGAAAAACATATGTTGA--TAC-T-TTTT-ATAAGTTCAGA
*
7816708 TGATGTTTACTTTAAATCTATAAATAAAAAA
186 TGATGTTTACTTTAAATCTACAAATAAAAAA
* *
7816739 TTTAAATAAAAAATCACATTTTTTGTTATTTAATATTGAAGGCAGATGAAA-A-CAAGGCAAA-A
1 TTTAAATAAAAAATCACATTTTTTGTTATTTAATATTGAAGGCAAATGAAAGATCAAAGCAAACA
* * * *
7816801 ATTATTTTCAATGTCAA-TCTAATCTTAGTAGAAAATAATTGATATTGACATCTCATTTGAAAAA
66 ATCATTTTCAATCTCAATTCAAATCTTAGTACAAAATAATTG--A-T--CATCTCATTTGAAAAA
*
7816865 CTTGTTTGAGATACTTTTT-AAAAA-AAGAACATATGTTGA-AC-TTTT-T-A-TTCAGATGATG
126 CTTGTTTGAGATACTTTTTGAAAAAGAAAAACATATGTTGATACTTTTTATAAGTTCAGATGATG
* * ** **
7816923 TTTAGTTTAAATTTACAAATTTAATT
191 TTTACTTTAAATCTACAAATAAAAAA
7816949 TTTAAATAAAAAATCACATTTTTTGTTATT
1 TTTAAATAAAAAATCACATTTTTTGTTATT
7816979 GAGGGCAGAT
Statistics
Matches: 211, Mismatches: 24, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
210 59 0.28
211 1 0.00
212 1 0.00
214 4 0.02
217 22 0.10
218 16 0.08
219 8 0.04
220 14 0.07
221 5 0.02
222 34 0.16
224 1 0.00
226 46 0.22
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (216 bp):
TTTAAATAAAAAATCACATTTTTTGTTATTTAATATTGAAGGCAAATGAAAGATCAAAGCAAACA
ATCATTTTCAATCTCAATTCAAATCTTAGTACAAAATAATTGATCATCTCATTTGAAAAACTTGT
TTGAGATACTTTTTGAAAAAGAAAAACATATGTTGATACTTTTTATAAGTTCAGATGATGTTTAC
TTTAAATCTACAAATAAAAAA
Found at i:7843503 original size:34 final size:34
Alignment explanation
Indices: 7843460--7843530 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
7843450 GGTAGAAACA
7843460 CAACAAATCAGAC-AAGAAGTTTAAGAATTTGACC
1 CAACAAATCAGACTAA-AAGTTTAAGAATTTGACC
*
7843494 CAACAAATCAGACTAAAAGTTTAAGGATTTGACC
1 CAACAAATCAGACTAAAAGTTTAAGAATTTGACC
7843528 CAA
1 CAA
7843531 AATGCAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 33 0.94
35 2 0.06
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (34 bp):
CAACAAATCAGACTAAAAGTTTAAGAATTTGACC
Done.