Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold408
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: 300956
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 5214 characters in sequence are not A, C, G, or T
Found at i:2532 original size:7 final size:7
Alignment explanation
Indices: 2520--2549 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
2510 GGATGAAAAT
2520 TGTTAAA
1 TGTTAAA
2527 TGTTAAA
1 TGTTAAA
*
2534 TGTTAAT
1 TGTTAAA
2541 TGTTAAA
1 TGTTAAA
2548 TG
1 TG
2550 GATACACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (7 bp):
TGTTAAA
Found at i:6367 original size:30 final size:30
Alignment explanation
Indices: 6331--6387 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
6321 CGAGCTTTCA
*
6331 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATACAAAAGTTTAGG
* * *
6361 GGCAAAATTGTAATTTTACAAAAGTTT
1 GGCAAAAGTGTAAATATACAAAAGTTT
6388 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATACAAAAGTTTAGG
Found at i:6843 original size:43 final size:42
Alignment explanation
Indices: 6782--6992 Score: 259
Period size: 43 Copynumber: 5.0 Consensus size: 42
6772 CCTCAAATTA
* * *
6782 TTGATTCT-AAAGGTGGTTGTTAAGTGCTGATTCAACCGTATAT
1 TTGATTGTGAAAGG-GGTTGCTATGTGCTGATTC-ACCGTATAT
6825 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCAACCGTATAT
1 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTC-ACCGTATAT
6868 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTC-CCAGTATCA-
1 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACC-GTAT-AT
* * * * *
6910 CTGAATAT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
1 TTGATTGTGAAAGG-GGTTGCTATGTGCTGATT-CACCGTATAT
6953 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTAT
1 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTAT
6993 CACTGAATTT
Statistics
Matches: 148, Mismatches: 12, Indels: 17
0.84 0.07 0.10
Matches are distributed among these distances:
41 7 0.05
42 34 0.23
43 95 0.64
44 12 0.08
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (42 bp):
TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTATAT
Found at i:6928 original size:85 final size:84
Alignment explanation
Indices: 6782--7023 Score: 312
Period size: 85 Copynumber: 2.8 Consensus size: 84
6772 CCTCAAATTA
* * * * *
6782 TTGATTCT-AAAGGTGGTTGTTAAGTGCTGATTCAACCGTAT-ATTTGATTGTGAAAGG-GGTTG
1 TTGATTGTGAAAGG-GGTTGCTATGTGCTGATTC-ACCGTATCA-CTGAAT-T-AAAGGTGGTTG
*
6844 CTATGTGCTGATTCAACCGTATAT
61 CTAAGTGCTGATTCAACCGTATAT
6868 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTC-CCAGTATCACTGAATATAAAGGTGGTTGCTA
1 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACC-GTATCACTGAAT-TAAAGGTGGTTGCTA
* *
6932 AGTGCTGATTCCACCGTATCT
64 AGTGCTGATTCAACCGTATAT
*
6953 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTATCACTGAATTTAAGGTGGTTGCTAAG
1 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTATCACTGAATTAAAGGTGGTTGCTAAG
7018 TGCTGA
66 TGCTGA
7024 ATCCACCGAG
Statistics
Matches: 141, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
84 29 0.21
85 80 0.57
86 27 0.19
87 5 0.04
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.36
Consensus pattern (84 bp):
TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTATCACTGAATTAAAGGTGGTTGCTAAG
TGCTGATTCAACCGTATAT
Found at i:6982 original size:128 final size:127
Alignment explanation
Indices: 6754--6992 Score: 372
Period size: 128 Copynumber: 1.9 Consensus size: 127
6744 TTCCCCGAGA
* * * * *
6754 GGTTGCTAAGTGCTGATTCCTCAAATTATTGATTCTAAAGGTGGTTGTTAAGTGCTGATTCAACC
1 GGTTGCTAAGTGCTGATTCCTCAAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCAACC
6819 GTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCAACCGTATATTTGATTGTGAAAGG
66 GTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTC-ACCGTATATTTGATTGTGAAAGG
* * *
6882 GGTTGCTATGTGCTGATTCC-CAGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCAC
1 GGTTGCTAAGTGCTGATTCCTCA-AATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCAAC
*
6946 CGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTAT
65 CGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTAT
6993 CACTGAATTT
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
127 9 0.09
128 92 0.91
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.36
Consensus pattern (127 bp):
GGTTGCTAAGTGCTGATTCCTCAAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCAACC
GTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCACCGTATATTTGATTGTGAAAGG
Found at i:7031 original size:42 final size:41
Alignment explanation
Indices: 6835--7031 Score: 152
Period size: 43 Copynumber: 4.7 Consensus size: 41
6825 TTGATTGTGA
* * * *
6835 AAGGGGTTGCTATGTGCTGATTCAACCGTAT-ATTTG-ATTGT
1 AAGGGGTTGCTAAGTGCTGAATCCACCGTATCA-CTGAATT-T
* * * *
6876 GAAAGGGGTTGCTATGTGCTGATTCC-CAGTATCACTGAATATA
1 --AAGGGGTTGCTAAGTGCTGAATCCACCGTATCACTGAAT-TT
* **
6919 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTG-ATTGT
1 AAGG-GGTTGCTAAGTGCTGAATCCACCGTATCACTGAATT-T
* *
6961 GAAAGGGGTTGCTATGTGCTG-ATTCACCGTATCACTGAATTT
1 --AAGGGGTTGCTAAGTGCTGAATCCACCGTATCACTGAATTT
7003 AAGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGG-GGTTGCTAAGTGCTGAATCCACCG
7032 AGTAATGGAT
Statistics
Matches: 127, Mismatches: 16, Indels: 23
0.77 0.10 0.14
Matches are distributed among these distances:
40 4 0.03
41 19 0.15
42 48 0.38
43 51 0.40
44 5 0.04
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGAATCCACCGTATCACTGAATTT
Found at i:15516 original size:25 final size:24
Alignment explanation
Indices: 15488--15536 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
15478 AACATAATTC
15488 TATTTTTATTTTATTTTATTATATA
1 TATTTTTATTTTATTTTATT-TATA
15513 TATTTTTATTTTATTTTATTTATA
1 TATTTTTATTTTATTTTATTTATA
15537 AACTAATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (24 bp):
TATTTTTATTTTATTTTATTTATA
Found at i:15534 original size:4 final size:5
Alignment explanation
Indices: 15491--15533 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
15481 ATAATTCTAT
* *
15491 TTTTA TTTTA TTTTA TTATA -TATA TTTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTT
15534 ATAAACTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 27 0.79
6 3 0.09
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:29185 original size:38 final size:38
Alignment explanation
Indices: 29143--29219 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
29133 ATTTTGTTGC
*
29143 AAATTCTACTTTTT-CACTTTCAA-TCACTATTCAATTCA
1 AAATTC-A-TTTTTCCACTTTCAAGTCAATATTCAATTCA
*
29181 AAATTCATTTTTCCATTTTCAAGTCAATATTCAATTCA
1 AAATTCATTTTTCCACTTTCAAGTCAATATTCAATTCA
29219 A
1 A
29220 TTCCACACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 5 0.14
37 9 0.26
38 21 0.60
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.44
Consensus pattern (38 bp):
AAATTCATTTTTCCACTTTCAAGTCAATATTCAATTCA
Found at i:29250 original size:23 final size:22
Alignment explanation
Indices: 29207--29250 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
29197 TTTCAAGTCA
29207 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
29230 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
29251 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:29483 original size:51 final size:51
Alignment explanation
Indices: 29424--29563 Score: 162
Period size: 50 Copynumber: 2.8 Consensus size: 51
29414 CAGGTTCACA
* *
29424 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATC-CG-ATACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTAGTATAC--G
* * *
29475 TAGTAGCCTGCACATAGTACTACACATGCGACC-T-ATCTTTCTAGTATGCG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTATCTAGTATACG
* *
29525 TAGTAGCCTGCACAAAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
29564 TTCACTTTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
49 1 0.01
50 36 0.47
51 35 0.46
52 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTAGTATACG
Found at i:35951 original size:26 final size:26
Alignment explanation
Indices: 35922--36010 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
35912 TAAAATTCTA
35922 ATTATTTAATATATTTAACTATATCC
1 ATTATTTAATATATTTAACTATATCC
* ** * * *
35948 ATTATTTATTGATAAATAATTGAATTTTC
1 ATTATTTAAT-ATATTTAACT--ATATCC
**
35977 ATTAAGTAATATATTTAACTATATCC
1 ATTATTTAATATATTTAACTATATCC
*
36003 ATAATTTA
1 ATTATTTA
36011 TTGATAAAAT
Statistics
Matches: 43, Mismatches: 17, Indels: 6
0.65 0.26 0.09
Matches are distributed among these distances:
26 18 0.42
27 7 0.16
28 7 0.16
29 11 0.26
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.48
Consensus pattern (26 bp):
ATTATTTAATATATTTAACTATATCC
Found at i:36939 original size:27 final size:27
Alignment explanation
Indices: 36888--36940 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
36878 AACTCATATG
* * *
36888 ATATTTTTTTTTATTTTTTTATTTTTC
1 ATATTTTCTATTATTTTTCTATTTTTC
*
36915 ATATTTTCTATTATTTTTCTCTTTTT
1 ATATTTTCTATTATTTTTCTATTTTT
36941 TGTTCACTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (27 bp):
ATATTTTCTATTATTTTTCTATTTTTC
Found at i:38830 original size:19 final size:19
Alignment explanation
Indices: 38780--38830 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
38770 TTTACTTTCC
38780 CCCTT-AAA-CTTTTACTT
1 CCCTTAAAACCTTTTACTT
**
38797 CCCTTAAAATATTTTACATT
1 CCCTTAAAACCTTTTAC-TT
38817 CCC-TAAAACCTTTT
1 CCCTTAAAACCTTTT
38831 TTCCTTTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 5 0.18
18 3 0.11
19 15 0.54
20 5 0.18
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.43
Consensus pattern (19 bp):
CCCTTAAAACCTTTTACTT
Found at i:38842 original size:66 final size:65
Alignment explanation
Indices: 38755--38878 Score: 221
Period size: 66 Copynumber: 1.9 Consensus size: 65
38745 CCCCAAACCT
* *
38755 TAAAACTTTTTTCCTTTTACTTTCCCCCTTAAACTTTTACTTCCCTTAAAATATTTTACATTCCC
1 TAAAACTTTTTTCCTTTTACTTTCCCCCTAAAACTTTTACTTCCCTTAAAAAATTTTACATTCCC
38820 TAAAACCTTTTTTCCTTTTACTTTCCCCCTAAAACTTTTACTTCCCTTAAAAAATTTTA
1 TAAAA-CTTTTTTCCTTTTACTTTCCCCCTAAAACTTTTACTTCCCTTAAAAAATTTTA
38879 TAATCCCCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 5 0.09
66 51 0.91
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (65 bp):
TAAAACTTTTTTCCTTTTACTTTCCCCCTAAAACTTTTACTTCCCTTAAAAAATTTTACATTCCC
Found at i:38916 original size:52 final size:53
Alignment explanation
Indices: 38854--38957 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
38844 CCCCCTAAAA
*
38854 CTTTTACTT-CCCTTAAAAAATTTTA-TAAT-CCCCAAACCCCAAAACCTTTTTG
1 CTTTTACTTCCCCCTAAAAAATTTTACT--TCCCCCAAACCCCAAAACCTTTTTG
* *
38906 CTTTTACTTCCCCCTCAAAAATTTTACTTCCCCCAAACCCCAAAACTTTTTT
1 CTTTTACTTCCCCCTAAAAAATTTTACTTCCCCCAAACCCCAAAACCTTTTT
38958 TCGTTTGCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
52 10 0.22
53 35 0.76
54 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.01, T:0.37
Consensus pattern (53 bp):
CTTTTACTTCCCCCTAAAAAATTTTACTTCCCCCAAACCCCAAAACCTTTTTG
Found at i:46106 original size:47 final size:49
Alignment explanation
Indices: 46052--46165 Score: 133
Period size: 47 Copynumber: 2.4 Consensus size: 49
46042 ATTATGAAAT
* *
46052 TTCCGTGTAAAACCATATCTAGAATATGGCATC-AT-TGTGATATGTGA
1 TTCCGTGTAAGACCATAGCTAGAATATGGCATCGATATGTGATATGTGA
* * ** *
46099 TTCCGTGTAAGACTATAGCTGGGCTATGGCATCGGTATGTGATATGTGA
1 TTCCGTGTAAGACCATAGCTAGAATATGGCATCGATATGTGATATGTGA
* *
46148 TTACATGTAAGACCATAG
1 TTCCGTGTAAGACCATAG
46166 TTGGACTATG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 27 0.49
48 1 0.02
49 27 0.49
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (49 bp):
TTCCGTGTAAGACCATAGCTAGAATATGGCATCGATATGTGATATGTGA
Found at i:51648 original size:5 final size:5
Alignment explanation
Indices: 51633--51665 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
51623 CTGTGACTAG
51633 TTATAT TTATT TTATT TTATT TTATT TTATT TT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TT
51666 TATGAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:52848 original size:22 final size:22
Alignment explanation
Indices: 52820--52867 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
52810 ATGCAGTCTT
52820 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTA-A
* *
52842 AGATATGATTTTGTAATCTTAA
1 AGATATGATTATGCAATCTTAA
52864 AGAT
1 AGAT
52868 TTAATTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATTATGCAATCTTAA
Found at i:52877 original size:21 final size:23
Alignment explanation
Indices: 52820--52877 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
52810 ATGCAGTCTT
* *
52820 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
52842 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
52864 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
52878 GATACCATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.27
22 12 0.40
23 10 0.33
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:57474 original size:31 final size:31
Alignment explanation
Indices: 57414--57481 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
57404 TTAGAATTGG
*
57414 TCACTGAACTATTTGAAAGTTTTCATTTAAA
1 TCACTGAACTATTTAAAAGTTTTCATTTAAA
* *
57445 TCACTGAAAC-ATTTAAAAGCTTTT-GTTTAAG
1 TCACTG-AACTATTTAAAAG-TTTTCATTTAAA
57476 TCACTG
1 TCACTG
57482 GGTTGTTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (31 bp):
TCACTGAACTATTTAAAAGTTTTCATTTAAA
Found at i:59346 original size:36 final size:36
Alignment explanation
Indices: 59305--59412 Score: 111
Period size: 36 Copynumber: 3.2 Consensus size: 36
59295 CTCTTGGACG
*
59305 AGATATCAGGTCTTCTCAATCCCAAGCTCCTGAACT
1 AGATATCAGGTCTTCTCAATCCCAAGCTCCTGAACA
* * *
59341 CGATATCAAG---TCT---TCCCAAGCTTCTGAACA
1 AGATATCAGGTCTTCTCAATCCCAAGCTCCTGAACA
* * *
59371 AAATATCAGGTCTTCTCAATCCCAAGATCTTGAACA
1 AGATATCAGGTCTTCTCAATCCCAAGCTCCTGAACA
59407 AGATAT
1 AGATAT
59413 TGAGTCTTCC
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
30 22 0.40
33 6 0.11
36 27 0.49
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (36 bp):
AGATATCAGGTCTTCTCAATCCCAAGCTCCTGAACA
Found at i:59377 original size:30 final size:30
Alignment explanation
Indices: 59324--59385 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
59314 GTCTTCTCAA
***
59324 TCCCAAGCTCCTGAACTCGATATCAAGTCT
1 TCCCAAGCTCCTGAACAAAATATCAAGTCT
* *
59354 TCCCAAGCTTCTGAACAAAATATCAGGTCT
1 TCCCAAGCTCCTGAACAAAATATCAAGTCT
59384 TC
1 TC
59386 TCAATCCCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (30 bp):
TCCCAAGCTCCTGAACAAAATATCAAGTCT
Found at i:59383 original size:66 final size:66
Alignment explanation
Indices: 59307--59452 Score: 184
Period size: 66 Copynumber: 2.2 Consensus size: 66
59297 CTTGGACGAG
* ** * * *
59307 ATATCAGGTCTTCTCAATCCCAAGCTCCTGAACTCGATATCAAGTCTTCCCAAGCTTCTGAACAA
1 ATATCAGGTCTTCTCAATCCCAAGATCCTGAACAAGATATCAAGTCTTCCAAAGCTCCTAAACAA
59372 A
66 A
* ** *
59373 ATATCAGGTCTTCTCAATCCCAAGATCTTGAACAAGATATTGAGTCTTCCAAAGCTCCTAAACGA
1 ATATCAGGTCTTCTCAATCCCAAGATCCTGAACAAGATATCAAGTCTTCCAAAGCTCCTAAACAA
*
59438 G
66 A
*
59439 ATATCGGGTCTTCT
1 ATATCAGGTCTTCT
59453 TAAGTTCTTG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (66 bp):
ATATCAGGTCTTCTCAATCCCAAGATCCTGAACAAGATATCAAGTCTTCCAAAGCTCCTAAACAA
A
Found at i:63648 original size:3 final size:3
Alignment explanation
Indices: 63640--63676 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
63630 AAACATTTAA
63640 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
63677 GTCCATGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:75124 original size:13 final size:13
Alignment explanation
Indices: 75106--75130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75096 TTGATTTGTT
75106 TTGATTATGTAAA
1 TTGATTATGTAAA
75119 TTGATTATGTAA
1 TTGATTATGTAA
75131 TCTTGTAAAT
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:80966 original size:21 final size:20
Alignment explanation
Indices: 80932--80970 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
80922 ATCAATTTAA
*
80932 TATTAAATAATAATATTTCC
1 TATTAAAGAATAATATTTCC
80952 TATTAGAAGAATAATATTT
1 TATTA-AAGAATAATATTT
80971 AAATATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TATTAAAGAATAATATTTCC
Found at i:90364 original size:13 final size:13
Alignment explanation
Indices: 90334--90435 Score: 125
Period size: 13 Copynumber: 7.8 Consensus size: 13
90324 ATTAAGGTGT
*
90334 AGTAT-TTATAAC
1 AGTATATTAAAAC
*
90346 AGTATACTAAAAC
1 AGTATATTAAAAC
*
90359 ATTATATTAAAAC
1 AGTATATTAAAAC
*
90372 AGTATATTTATAAC
1 AGTATA-TTAAAAC
*
90386 AGTATACTAAAAC
1 AGTATATTAAAAC
90399 AGTATATTAAAAC
1 AGTATATTAAAAC
*
90412 AATATATTAAAAC
1 AGTATATTAAAAC
*
90425 AGTATAATAAA
1 AGTATATTAAA
90436 CTAGTTATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
12 5 0.07
13 59 0.78
14 12 0.16
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (13 bp):
AGTATATTAAAAC
Found at i:90368 original size:40 final size:39
Alignment explanation
Indices: 90336--90435 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 39
90326 TAAGGTGTAG
90336 TATTTATAACAGTATACTAAAACATTATATTAAAACAGTA
1 TATTTATAACAGTATACTAAAACATTATATT-AAACAGTA
* *
90376 TATTTATAACAGTATACTAAAACAGTATATTAAAACAATA
1 TATTTATAACAGTATACTAAAACATTATATT-AAACAGTA
* *
90416 TA-TTAAAACAGTATAATAAA
1 TATTTATAACAGTATACTAAA
90436 CTAGTTATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 16 0.29
40 40 0.71
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (39 bp):
TATTTATAACAGTATACTAAAACATTATATTAAACAGTA
Found at i:90549 original size:40 final size:41
Alignment explanation
Indices: 90490--90571 Score: 157
Period size: 40 Copynumber: 2.0 Consensus size: 41
90480 ATAACAACAA
90490 AGCATGTACTTGGAACCTTCTTTTAATTTTCATGAATAAAC
1 AGCATGTACTTGGAACCTTCTTTTAATTTTCATGAATAAAC
90531 AGCATGTAC-TGGAACCTTCTTTTAATTTTCATGAATAAAC
1 AGCATGTACTTGGAACCTTCTTTTAATTTTCATGAATAAAC
90571 A
1 A
90572 TAACATAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 32 0.78
41 9 0.22
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (41 bp):
AGCATGTACTTGGAACCTTCTTTTAATTTTCATGAATAAAC
Found at i:103898 original size:17 final size:17
Alignment explanation
Indices: 103872--103909 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
103862 TTAAATGAAA
103872 ATTATCTCAATTAAAAT-
1 ATTATCTCAA-TAAAATG
*
103889 ATTATTTCAATAAAATG
1 ATTATCTCAATAAAATG
103906 ATTA
1 ATTA
103910 AATTTCACAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTATCTCAATAAAATG
Found at i:109673 original size:20 final size:21
Alignment explanation
Indices: 109648--109687 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
109638 AGGTGGATTT
109648 ACATAG-GTATAAATTAAAAG
1 ACATAGTGTATAAATTAAAAG
* *
109668 ACATAGTTTATGAATTAAAA
1 ACATAGTGTATAAATTAAAA
109688 TTGAAAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (21 bp):
ACATAGTGTATAAATTAAAAG
Found at i:110726 original size:11 final size:11
Alignment explanation
Indices: 110710--110736 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
110700 TAATATACAC
110710 AAATATATAAA
1 AAATATATAAA
110721 AAATATATAAA
1 AAATATATAAA
110732 AAATA
1 AAATA
110737 CACTCGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATATATAAA
Found at i:114525 original size:114 final size:114
Alignment explanation
Indices: 114325--114542 Score: 330
Period size: 114 Copynumber: 1.9 Consensus size: 114
114315 TTACACACTC
* *
114325 AATCATATAACTTGCTTAGCATATAAAATAATTTTTTGGTAATTCCCTAATTGACTTAGGACTCA
1 AATCATATAACTTACTTAGCATATAAAATAACTTTTTGGTAATTCCCTAATTGACTTAGGACTCA
114390 GTTGATGGGTGGCACCAACTTAGAAAAA-ATCTTAATAAAACGCCTACTT
66 GTTGATGGGTGGCACCAACTTAGAAAAATA-CTTAATAAAACGCCTACTT
* * * * * * *
114439 AATCATATAATTTACTTGGTATATAAATTAACTTTTTGGTAATTCCCTAATTGAGTTGGGACTCG
1 AATCATATAACTTACTTAGCATATAAAATAACTTTTTGGTAATTCCCTAATTGACTTAGGACTCA
*
114504 GTTGATGGGTGGCACCAACTTAGTAAAATACTTAATAAA
66 GTTGATGGGTGGCACCAACTTAGAAAAATACTTAATAAA
114543 TAATATAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
114 92 0.99
115 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (114 bp):
AATCATATAACTTACTTAGCATATAAAATAACTTTTTGGTAATTCCCTAATTGACTTAGGACTCA
GTTGATGGGTGGCACCAACTTAGAAAAATACTTAATAAAACGCCTACTT
Found at i:116796 original size:20 final size:20
Alignment explanation
Indices: 116771--116816 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
116761 TAGTAAAGCT
*
116771 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
116791 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
116811 TAACAA
1 TAACAA
116817 AATATTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:116822 original size:20 final size:20
Alignment explanation
Indices: 116779--116822 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
116769 CTTAACAACC
* **
116779 TATTTAAATAAGTAACAACC
1 TATTTAAATAAATAACAAAA
*
116799 TATTTGAATAAATAACAAAA
1 TATTTAAATAAATAACAAAA
116819 TATT
1 TATT
116823 AACAGATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (20 bp):
TATTTAAATAAATAACAAAA
Found at i:121218 original size:27 final size:27
Alignment explanation
Indices: 121187--121243 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
121177 ATTTTAGATC
121187 AAGAAGAATGAAACTCGAGGTTAGACA
1 AAGAAGAATGAAACTCGAGGTTAGACA
121214 AAGAAGAATGAAACTCGAGGTTAGACA
1 AAGAAGAATGAAACTCGAGGTTAGACA
121241 AAG
1 AAG
121244 GAAAGAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.11, G:0.26, T:0.14
Consensus pattern (27 bp):
AAGAAGAATGAAACTCGAGGTTAGACA
Found at i:121532 original size:22 final size:22
Alignment explanation
Indices: 121507--121556 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
121497 CATGTAAGAC
121507 CATGTCTGGGACATGGCATTGG
1 CATGTCTGGGACATGGCATTGG
*
121529 CATGTCTGGGACATGGCTTTGG
1 CATGTCTGGGACATGGCATTGG
121551 CATGTC
1 CATGTC
121557 ATTATCAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.20, G:0.34, T:0.30
Consensus pattern (22 bp):
CATGTCTGGGACATGGCATTGG
Found at i:124821 original size:20 final size:20
Alignment explanation
Indices: 124796--124841 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
124786 TAGTAAAGCT
*
124796 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
124816 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
124836 TAACAA
1 TAACAA
124842 AATATTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:124847 original size:20 final size:20
Alignment explanation
Indices: 124804--124847 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
124794 CTTAACAACC
* **
124804 TATTTAAATAAGTAACAACC
1 TATTTAAATAAATAACAAAA
*
124824 TATTTGAATAAATAACAAAA
1 TATTTAAATAAATAACAAAA
124844 TATT
1 TATT
124848 AACATATTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (20 bp):
TATTTAAATAAATAACAAAA
Found at i:128625 original size:4 final size:4
Alignment explanation
Indices: 128618--128643 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
128608 TTACACACAC
128618 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
128644 CTCCCAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:132470 original size:33 final size:32
Alignment explanation
Indices: 132407--132481 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
132397 ATAATACATA
**
132407 TTTTAAAAAAATATATGTTATTTAGTTTAATT
1 TTTTAAAAAAATATATGTTATTTAAATTAATT
*
132439 TTTTAAAAAAATTTAT-TTATCTTTAAATTAATT
1 TTTTAAAAAAATATATGTTA--TTTAAATTAATT
*
132472 TATTTTAAAA
1 T-TTTAAAAA
132482 TTTCCCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 3 0.08
32 15 0.42
33 11 0.31
34 7 0.19
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (32 bp):
TTTTAAAAAAATATATGTTATTTAAATTAATT
Found at i:132482 original size:16 final size:17
Alignment explanation
Indices: 132446--132483 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
132436 ATTTTTTAAA
*
132446 AAAATTTATTTATCTTT
1 AAAATTAATTTATCTTT
132463 -AAATTAATTTAT-TTT
1 AAAATTAATTTATCTTT
132478 AAAATT
1 AAAATT
132484 TCCCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
AAAATTAATTTATCTTT
Found at i:132592 original size:27 final size:26
Alignment explanation
Indices: 132518--132606 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
132508 TCATTATGTG
* *
132518 TTATTTTAACTTGTTTTGTAAATTAT
1 TTATTTTAAATTGTTTTGTATATTAT
**
132544 TTATTTTAAATTACTTTGTATATTATT
1 TTATTTTAAATTGTTTTGTATATTA-T
* * * *
132571 TTATTTTTAGTTGTTTTATATATTAA
1 TTATTTTAAATTGTTTTGTATATTAT
132597 TTATTTTAAA
1 TTATTTTAAA
132607 ATTATTCTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 29 0.58
27 21 0.42
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (26 bp):
TTATTTTAAATTGTTTTGTATATTAT
Found at i:143154 original size:51 final size:51
Alignment explanation
Indices: 143082--143199 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
143072 GAAATAAACC
* * *
143082 AATATTATAACAATATTTGGTAGTAAAAAATTAGTCGAAAGCTCCAAAAGA
1 AATAATATATCAATATTTGGTAATAAAAAATTAGTCGAAAGCTCCAAAAGA
* * * *
143133 AATAATATATTAATATTTGGTAATACAAAATTAGTTGAAAGCTCCAGAAGA
1 AATAATATATCAATATTTGGTAATAAAAAATTAGTCGAAAGCTCCAAAAGA
**
143184 GCTAATATATCAATAT
1 AATAATATATCAATAT
143200 ATAAAAAGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (51 bp):
AATAATATATCAATATTTGGTAATAAAAAATTAGTCGAAAGCTCCAAAAGA
Found at i:162757 original size:29 final size:28
Alignment explanation
Indices: 162708--162763 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
162698 TTTTCTTCCA
*
162708 AATTTCTCTCAAATCCATATTTAATTTT
1 AATTTCTCTCAAATCCATATTAAATTTT
*
162736 AATTTGCTCTCAATTTCC-TATTAAATTT
1 AATTT-CTCTCAA-ATCCATATTAAATTT
162764 CTCTTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 16 0.67
30 3 0.12
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (28 bp):
AATTTCTCTCAAATCCATATTAAATTTT
Found at i:163942 original size:7 final size:7
Alignment explanation
Indices: 163930--163955 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
163920 TAGTCGATTG
163930 GTATTTA
1 GTATTTA
163937 GTATTTA
1 GTATTTA
163944 GTATTTA
1 GTATTTA
163951 GTATT
1 GTATT
163956 ATGCATATAA
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:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:165202 original size:22 final size:21
Alignment explanation
Indices: 165186--165390 Score: 158
Period size: 22 Copynumber: 9.6 Consensus size: 21
165176 TTTAATTGAC
165186 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
165208 AAATCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
* *
165229 AAACCATAA-AC-T--C-T--
1 AAACCCTAACCCTTAACTTAA
165243 AAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
* **
165264 AAACCTTAAACTTTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
165286 AAACCCTAAACCCTTAACTTAACTTAA
1 AAACCCT-AA-CC----CTTAACTTAA
*
165313 AAACCCCCTAACCCTAAAACTT--
1 AAA--CCCTAACCCT-TAACTTAA
* *
165335 AAACCTTAACCCTTAACTTAG
1 AAACCCTAACCCTTAACTTAA
165356 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
165378 AAACCCTAACCCT
1 AAACCCTAACCCT
165391 AACCCTAACC
Statistics
Matches: 147, Mismatches: 17, Indels: 39
0.72 0.08 0.19
Matches are distributed among these distances:
14 8 0.05
15 1 0.01
16 2 0.01
17 1 0.01
18 1 0.01
19 7 0.05
20 10 0.07
21 39 0.27
22 50 0.34
23 3 0.02
24 5 0.03
27 14 0.10
28 2 0.01
29 4 0.03
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.25
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:165321 original size:29 final size:27
Alignment explanation
Indices: 165277--165336 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 27
165267 CCTTAAACTT
*
165277 TTAACTTAAAAACCCTAAACCCT-TAAC
1 TTAACTTAAAAACCCT-AACCCTAAAAC
165304 TTAACTTAAAAACCCCCTAACCCTAAAAC
1 TTAACTTAAAAA--CCCTAACCCTAAAAC
165333 TTAA
1 TTAA
165337 ACCTTAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 12 0.41
28 6 0.21
29 11 0.38
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (27 bp):
TTAACTTAAAAACCCTAACCCTAAAAC
Found at i:167622 original size:43 final size:43
Alignment explanation
Indices: 167561--167691 Score: 262
Period size: 43 Copynumber: 3.0 Consensus size: 43
167551 GTAGTTAACG
167561 CCGTTTTTGATGCTATGTTGTTTCAAAGCACCAATAAAACCAT
1 CCGTTTTTGATGCTATGTTGTTTCAAAGCACCAATAAAACCAT
167604 CCGTTTTTGATGCTATGTTGTTTCAAAGCACCAATAAAACCAT
1 CCGTTTTTGATGCTATGTTGTTTCAAAGCACCAATAAAACCAT
167647 CCGTTTTTGATGCTATGTTGTTTCAAAGCACCAATAAAACCAT
1 CCGTTTTTGATGCTATGTTGTTTCAAAGCACCAATAAAACCAT
167690 CC
1 CC
167692 TTGTTGGAAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (43 bp):
CCGTTTTTGATGCTATGTTGTTTCAAAGCACCAATAAAACCAT
Found at i:178691 original size:125 final size:125
Alignment explanation
Indices: 178469--178906 Score: 680
Period size: 125 Copynumber: 3.5 Consensus size: 125
178459 CCCAAACATG
* * * * * *
178469 CTACTGTAGCAAAAGCGTGTTCACGAGGGAGCGATTTCATAAATTCTTCTGATAAAACATTCTGC
1 CTACTGTAGCAAAAGCGTGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
178534 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
178594 CTACTATAACAAAAGCGTGTCCACGTGGGCGCGACTTT-AGAAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGTGTCCACGTGGGCGCGA-TTTCAGAAATTCTTCTGATAAAGCATCCTG
178658 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * ** * * * *
178719 CTATTGTAGTAAAAGCGCATCGACATGAGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGTGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
178784 TTGAAGCGTTTTTTATACTATTTTCTCAGAAACGTCAACTCAAAATTATTTTTTCAGTAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
178844 CTACTGTAGCAAAAGCGAGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCT
1 CTACTGTAGCAAAAGCGTGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCT
178907 ACTTTGATTT
Statistics
Matches: 282, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
124 3 0.01
125 276 0.98
126 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGTGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:179075 original size:16 final size:16
Alignment explanation
Indices: 179054--179084 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
179044 TAAAAACCTT
*
179054 AAACCCTAACCCTAAA
1 AAACCCTAAACCTAAA
179070 AAACCCTAAACCTAA
1 AAACCCTAAACCTAA
179085 TGTGGGAGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (16 bp):
AAACCCTAAACCTAAA
Found at i:190101 original size:21 final size:21
Alignment explanation
Indices: 190062--190109 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
190052 TTCACCCAAA
*
190062 CATAAAAAAGTATTAATTTTT
1 CATAAAAAAGTAGTAATTTTT
*
190083 C-TAAAAAAGTAAGTCATTTTT
1 CATAAAAAAGT-AGTAATTTTT
190104 CATAAA
1 CATAAA
190110 TAATTTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 10 0.43
22 4 0.17
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (21 bp):
CATAAAAAAGTAGTAATTTTT
Found at i:190907 original size:9 final size:9
Alignment explanation
Indices: 190864--190888 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
190854 CTTTGAGCCC
190864 TTTCTTTTA
1 TTTCTTTTA
190873 TTTCTTTTA
1 TTTCTTTTA
190882 TTTCTTT
1 TTTCTTT
190889 GAACCCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:199282 original size:19 final size:19
Alignment explanation
Indices: 199258--199304 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
199248 TTTACGCCTT
*
199258 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
199277 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
199296 TATGCATTA
1 TTTGCATTA
199305 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:206643 original size:45 final size:46
Alignment explanation
Indices: 206574--206694 Score: 145
Period size: 45 Copynumber: 2.6 Consensus size: 46
206564 AAAGAGAAGG
* *
206574 GACCAAGGTGAAAACTCGCAAAGGGTGCTTTGAGTCCT-AAAAAGA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAGA
**
206619 GACCAAGGTGAAAACCCGTGAAGGGCGCTTTGAGTCCTAAAAAAGAGA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCT-AAAAA-AGA
* *
206667 GAGGCCAAGGCGAAAACCAGCAAAGGGC
1 GA--CCAAGGTGAAAACCCGCAAAGGGC
206695 ACCTTTAGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
45 34 0.54
47 4 0.06
48 5 0.08
50 20 0.32
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (46 bp):
GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAGA
Found at i:208038 original size:45 final size:45
Alignment explanation
Indices: 207951--208038 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
207941 AGCTGAAGGC
* ** *
207951 AGCGAATCTTATTTCTCTGGCGTTGCAGTGGAGCAGACTGAAGAT
1 AGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTGAAGAT
* *
207996 AGCGAATCTTATTTCCCTGAAGTT-CTAGTGGAACGGATTGAAG
1 AGCGAATCTTATTTCCCTGAAGTTGC-AGTGGAACAGACTGAAG
208039 CTATAAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (45 bp):
AGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTGAAGAT
Found at i:208358 original size:143 final size:143
Alignment explanation
Indices: 208139--208450 Score: 364
Period size: 143 Copynumber: 2.2 Consensus size: 143
208129 AGTGACAAGT
* * ** *
208139 CTTATCTCCCTAAAGTTCCAGTAGAGCAGACTGAAGATAGCGAATCTTACTTCCCTGGCGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGACAGCGAATCTTACTTCCCTAACGTTACA
* * *
208204 GTGGAACAGATTAAAGCTACAAATTAT-GCCA-GAGCTTATCTTTCTGAAGTTACAGTGGAGCAT
66 ATGGAACAGATTAAAGCTACAAATTATAG--AGGAGCTTATCTTTCTGAAGTTACA-TGAAGCAG
208267 ATTGAAGCCACCAA-C
128 ATTGAAGCCACCAATC
* * * *
208282 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGACCA-CGAATCTTATTTCTCTAATGTTAC
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGA-CAGCGAATCTTACTTCCCTAACGTTAC
* * * ** *
208346 AATGGAATAGATTAAAGCTACAAATTATAGAGGATCTTATCTTTCTGAATTTGTATGAAGTAGAT
65 AATGGAACAGATTAAAGCTACAAATTATAGAGGAGCTTATCTTTCTGAAGTTACATGAAGCAGAT
208411 TGAAGCCACCAATC
130 TGAAGCCACCAATC
* * *
208425 C-TATCTCCTTAAAGTTGTAGTTGAGC
1 CTTATCTCCCTAAAGTTGCAGTAGAGC
208451 GAATTAAAAC
Statistics
Matches: 144, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
142 42 0.29
143 100 0.69
144 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (143 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGACAGCGAATCTTACTTCCCTAACGTTACA
ATGGAACAGATTAAAGCTACAAATTATAGAGGAGCTTATCTTTCTGAAGTTACATGAAGCAGATT
GAAGCCACCAATC
Found at i:208688 original size:45 final size:44
Alignment explanation
Indices: 208514--208948 Score: 213
Period size: 45 Copynumber: 9.7 Consensus size: 44
208504 TCACCAAAGC
* * * **
208514 CAAATCTTATTCCCCTGAAGTTGTAGTGGGGCAGATTGAAGCCA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
208558 CAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAAACT-AAGGATA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GATA
* * *
208602 AAGAATCTCATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
1 CA-AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
**
208647 GCAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGTTATAAATTA
1 -CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TA
* * * * *
208699 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
208739 CAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAAATA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * **
208783 GCAAATCTCATTTCCCTGAAGTTGTAGTAGAATAGATTGAAGCTATAAATTA
1 -CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TA
* * * * * *
208835 CAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGA-T-CATAT-
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
208876 CAAACCTTATCTCCCTGAAGTTACAGTGAAGTAGATTGAA-ATTA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * ** *
208920 CTATTCTTATACCCCTGAAGATGCAGTGG
1 CAAATCTTATTTCCCTGAAGTTGCAGTGG
208949 GTTAAAATGA
Statistics
Matches: 295, Mismatches: 69, Indels: 54
0.71 0.17 0.13
Matches are distributed among these distances:
40 33 0.11
41 29 0.10
42 3 0.01
43 5 0.02
44 55 0.19
45 101 0.34
46 3 0.01
49 1 0.00
50 2 0.01
51 59 0.20
52 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:208796 original size:136 final size:137
Alignment explanation
Indices: 208614--208902 Score: 463
Period size: 136 Copynumber: 2.1 Consensus size: 137
208604 GAATCTCATT
* * * * *
208614 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAA
1 TCCCTGAAGTTGCAGTAGAGCAAACTGAAAATAGCAAATCTCATTTCCCTGAAGTTGCAGTAGAA
* * *
208679 TAGATTGAAGTTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATA-CAAG
66 TAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATATCAAA
*
208743 TCTTATC
131 CCTTATC
* *
208750 TCCCTGAAGTTGCAGTAGAGCAAATTGAAAATAGCAAATCTCATTTCCCTGAAGTTGTAGTAGAA
1 TCCCTGAAGTTGCAGTAGAGCAAACTGAAAATAGCAAATCTCATTTCCCTGAAGTTGCAGTAGAA
208815 TAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATATCAAA
66 TAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATATCAAA
208880 CCTTATC
131 CCTTATC
*
208887 TCCCTGAAGTTACAGT
1 TCCCTGAAGTTGCAGT
208903 GAAGTAGATT
Statistics
Matches: 140, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
136 116 0.83
137 24 0.17
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (137 bp):
TCCCTGAAGTTGCAGTAGAGCAAACTGAAAATAGCAAATCTCATTTCCCTGAAGTTGCAGTAGAA
TAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATATCAAA
CCTTATC
Found at i:208936 original size:136 final size:136
Alignment explanation
Indices: 208614--208946 Score: 418
Period size: 136 Copynumber: 2.4 Consensus size: 136
208604 GAATCTCATT
* * * * * * ** *
208614 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAA
1 TCCCTGAAGTTACAGTAGAGCAAATTGAAAATAGCAAATCTCATACCCCTGAAGTTGCAGTAGAA
* * **
208679 TAGATTGAAGTTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATACAAGT
66 TAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATACAAAC
208744 CTTATC
131 CTTATC
* ** *
208750 TCCCTGAAGTTGCAGTAGAGCAAATTGAAAATAGCAAATCTCATTTCCCTGAAGTTGTAGTAGAA
1 TCCCTGAAGTTACAGTAGAGCAAATTGAAAATAGCAAATCTCATACCCCTGAAGTTGCAGTAGAA
208815 TAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATATCAAA
66 TAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATA-CAAA
208880 CCTTATC
130 CCTTATC
* * * * * * *
208887 TCCCTGAAGTTACAGT-GAAGTAGATTGAAATTA-CTATTCTTATACCCCTGAAGATGCAGT
1 TCCCTGAAGTTACAGTAG-AGCAAATTGAAAATAGCAAATCTCATACCCCTGAAGTTGCAGT
208947 GGGTTAAAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
136 137 0.79
137 36 0.21
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (136 bp):
TCCCTGAAGTTACAGTAGAGCAAATTGAAAATAGCAAATCTCATACCCCTGAAGTTGCAGTAGAA
TAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATCATACAAAC
CTTATC
Found at i:216254 original size:50 final size:50
Alignment explanation
Indices: 216188--216367 Score: 157
Period size: 50 Copynumber: 3.5 Consensus size: 50
216178 CAATGTCATA
* * * *
216188 TCCCAGATATGATCTTACATGGGA-ATTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACATT-TCATATCGGTGCCAATACCATG
* * *
216238 TCCCAGACATGGTCTTAC-GGAGGACCTTTCATCTCGGTGCCAATACCATG
1 TCCCAGACATGGTCTTACATG-GGACATTTCATATCGGTGCCAATACCATG
* * * * *
216288 TCCCAGACATGGTCTTACATGGGACCTATCATAGTCTCAATGATGCCAATGCTATG
1 TCCCAGACATGGTCTTACATGGGACATTTCATA---TC---GGTGCCAATACCATG
*
216344 TCTCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
216368 TCTCTTTACT
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
49 1 0.01
50 66 0.62
51 3 0.03
53 2 0.02
56 35 0.33
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACATTTCATATCGGTGCCAATACCATG
Found at i:220730 original size:19 final size:19
Alignment explanation
Indices: 220708--220767 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
220698 AAAGATGCGT
220708 AACAGAGGCACTGATGTGC
1 AACAGAGGCACTGATGTGC
* * *
220727 AACAAAGGCAATAATGTGC
1 AACAGAGGCACTGATGTGC
* *
220746 AATCAGAGGCACCGAAGTGC
1 AA-CAGAGGCACTGATGTGC
220766 AA
1 AA
220768 TCCCGTACAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (19 bp):
AACAGAGGCACTGATGTGC
Found at i:227134 original size:17 final size:18
Alignment explanation
Indices: 227101--227135 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
227091 GCTTGCCAAG
*
227101 GAAAATAAATGGAAGAAA
1 GAAAAAAAATGGAAGAAA
227119 GAAAAAAAAT-GAAGAAA
1 GAAAAAAAATGGAAGAAA
227136 TGTAGAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
GAAAAAAAATGGAAGAAA
Found at i:236491 original size:2 final size:2
Alignment explanation
Indices: 236484--236509 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
236474 GTGTTAGTTC
236484 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
236510 AGCTGTGAGC
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:237307 original size:48 final size:48
Alignment explanation
Indices: 237236--237332 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
237226 AAGGAATGAT
* *
237236 TTGAAAAGAGTAAGTTAATATGACTTTGTATGTGATGTATATTATGTA
1 TTGAAAAGAGTAAATTAATATGACTTTGTATGTGATATATATTATGTA
* *
237284 TTGAAAAGAGTAAATTAATATGACTTTGTATGTGTTATATGTTATGTA
1 TTGAAAAGAGTAAATTAATATGACTTTGTATGTGATATATATTATGTA
237332 T
1 T
237333 AATTGCTTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (48 bp):
TTGAAAAGAGTAAATTAATATGACTTTGTATGTGATATATATTATGTA
Found at i:244681 original size:23 final size:22
Alignment explanation
Indices: 244646--244696 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
244636 GTTTTTTACT
*
244646 AAAATAATACAAAAAAAGATAA
1 AAAAAAATACAAAAAAAGATAA
* * *
244668 AAAAAAATACCAAAATAATATAC
1 AAAAAAATA-CAAAAAAAGATAA
244691 AAAAAA
1 AAAAAA
244697 TTTTATTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAAAAATACAAAAAAAGATAA
Found at i:244682 original size:12 final size:11
Alignment explanation
Indices: 244646--244696 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
244636 GTTTTTTACT
*
244646 AAAATAATACA
1 AAAAAAATACA
244657 AAAAAAGATA-A
1 AAAAAA-ATACA
244668 AAAAAAATACCA
1 AAAAAAATA-CA
*
244680 AAATAATATACA
1 AAA-AAAATACA
244692 AAAAA
1 AAAAA
244697 TTTTATTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
10 3 0.09
11 14 0.41
12 12 0.35
13 5 0.15
ACGTcount: A:0.76, C:0.08, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAAAATACA
Found at i:245935 original size:36 final size:38
Alignment explanation
Indices: 245895--245966 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 38
245885 TAAAAATAAA
245895 TAAA-TTATAATT-ATAAACTATTCTCATCAAATTTAG
1 TAAATTTATAATTAATAAACTATTCTCATCAAATTTAG
* *
245931 TAAATTTTTTATTTAATAAACTATTCTCATCAAATT
1 TAAA-TTTATAATTAATAAACTATTCTCATCAAATT
245967 ACCAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 4 0.13
38 6 0.19
39 21 0.68
ACGTcount: A:0.42, C:0.11, G:0.01, T:0.46
Consensus pattern (38 bp):
TAAATTTATAATTAATAAACTATTCTCATCAAATTTAG
Found at i:246354 original size:27 final size:27
Alignment explanation
Indices: 246316--246378 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
246306 TTTTAGTCCT
* * *
246316 GTGCCTCCAATGGGAATGGCACCACCG
1 GTGCCGCCAATGAGAAAGGCACCACCG
246343 GTGCCGCCAATGAGAAAGGCACCACCG
1 GTGCCGCCAATGAGAAAGGCACCACCG
246370 GTGCCGCCA
1 GTGCCGCCA
246379 TTCCATTACC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.35, G:0.30, T:0.11
Consensus pattern (27 bp):
GTGCCGCCAATGAGAAAGGCACCACCG
Found at i:247679 original size:8 final size:8
Alignment explanation
Indices: 247668--247701 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
247658 TAAATAAATT
247668 ATTAAAAA
1 ATTAAAAA
247676 ATTATAAAA
1 ATTA-AAAA
247685 TATTAAAAA
1 -ATTAAAAA
247694 ATTAAAAA
1 ATTAAAAA
247702 CCTCGTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 12 0.50
9 8 0.33
10 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
ATTAAAAA
Found at i:247688 original size:18 final size:18
Alignment explanation
Indices: 247661--247701 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
247651 ATTTAATTAA
*
247661 ATAAATTATTAAAAAATT
1 ATAAAATATTAAAAAATT
247679 ATAAAATATTAAAAAATT
1 ATAAAATATTAAAAAATT
247697 A-AAAA
1 ATAAAA
247702 CCTCGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAATATTAAAAAATT
Found at i:248157 original size:20 final size:21
Alignment explanation
Indices: 248113--248158 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
248103 GTATAAATAC
*
248113 CCCCTTTTTATGTGTAATTTG
1 CCCCTTTTTATGTGTAATTTA
* *
248134 CCCCTTTTTTTG-GTATTTTA
1 CCCCTTTTTATGTGTAATTTA
248154 CCCCT
1 CCCCT
248159 AATAATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.11, C:0.26, G:0.11, T:0.52
Consensus pattern (21 bp):
CCCCTTTTTATGTGTAATTTA
Found at i:249109 original size:27 final size:27
Alignment explanation
Indices: 249061--249117 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
249051 TAATAATTAA
* * *
249061 ATTAATTTATATTTTATGTATC-TTTAT
1 ATTAATTTAAATATCATGTATCATTT-T
*
249088 ATTAATTTAAATATCATTTATCATTTT
1 ATTAATTTAAATATCATGTATCATTTT
249115 ATT
1 ATT
249118 TATATTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
ATTAATTTAAATATCATGTATCATTTT
Found at i:249124 original size:11 final size:12
Alignment explanation
Indices: 249103--249135 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
249093 TTTAAATATC
249103 ATTTATCATTTT
1 ATTTATCATTTT
249115 ATTTAT-ATTTT
1 ATTTATCATTTT
*
249126 ATGTATCATT
1 ATTTATCATT
249136 AATTTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (12 bp):
ATTTATCATTTT
Found at i:249132 original size:23 final size:23
Alignment explanation
Indices: 249062--249140 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
249052 AATAATTAAA
249062 TTAATTTATATTTTATGTATCTTTAT
1 TTAATTTATATTTTATGTATC---AT
* * * *
249088 ATTAATTTAAATATCATTTATCAT
1 -TTAATTTATATTTTATGTATCAT
*
249112 TTTATTTATATTTTATGTATCA-
1 TTAATTTATATTTTATGTATCAT
249134 TTAATTT
1 TTAATTT
249141 TACAAATAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
22 6 0.14
23 17 0.40
24 2 0.05
27 17 0.40
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (23 bp):
TTAATTTATATTTTATGTATCAT
Found at i:249447 original size:8 final size:8
Alignment explanation
Indices: 249434--249488 Score: 56
Period size: 8 Copynumber: 6.4 Consensus size: 8
249424 ATAATAAATA
249434 TTTTTTAT
1 TTTTTTAT
249442 TTTTTTAT
1 TTTTTTAT
*
249450 TTTTTAAAT
1 TTTTT-TAT
*
249459 TTTTTAAAAT
1 TTTTT--TAT
249469 ATTTTTTAT
1 -TTTTTTAT
249478 TTTTTTAT
1 TTTTTTAT
249486 TTT
1 TTT
249489 AAAAATAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
8 24 0.57
9 9 0.21
10 4 0.10
11 5 0.12
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAT
Found at i:249501 original size:26 final size:28
Alignment explanation
Indices: 249444--249501 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
249434 TTTTTTATTT
* **
249444 TTTTATTTTTTAAATTTTTTAAAATATT
1 TTTTATTTTTTAAATTTTTAAAAATAAA
*
249472 TTTTATTTTTT-TA-TTTTAAAAATAAA
1 TTTTATTTTTTAAATTTTTAAAAATAAA
249498 TTTT
1 TTTT
249502 TGGTGTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 14 0.54
27 1 0.04
28 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTATTTTTTAAATTTTTAAAAATAAA
Found at i:249501 original size:27 final size:28
Alignment explanation
Indices: 249443--249502 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
249433 ATTTTTTATT
* *
249443 TTTTTATTTTTTAAATTTTTTAAAATAT
1 TTTTTATTTTTTAAATTTTTAAAAATAA
*
249471 TTTTTATTTTTT-TA-TTTTAAAAATAAA
1 TTTTTATTTTTTAAATTTTTAAAAAT-AA
249498 TTTTT
1 TTTTT
249503 GGTGTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.32
27 7 0.25
28 12 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTTATTTTTTAAATTTTTAAAAATAA
Found at i:249502 original size:28 final size:28
Alignment explanation
Indices: 249442--249495 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
249432 TATTTTTTAT
*
249442 TTTTTTATTTTTTAAATTTTTTAAAATA
1 TTTTTTATTTTTTAAATTTTTAAAAATA
*
249470 TTTTTTATTTTTT-TA-TTTTAAAAATA
1 TTTTTTATTTTTTAAATTTTTAAAAATA
249496 AATTTTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.42
27 1 0.04
28 13 0.54
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTTATTTTTTAAATTTTTAAAAATA
Found at i:251996 original size:21 final size:22
Alignment explanation
Indices: 251963--252005 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
251953 TCAAAAAATA
* *
251963 TTTTACATAATTT-TAGTTTTT
1 TTTTAAATAATTTATAATTTTT
*
251984 TTTTAAATTATTTATAATTTTT
1 TTTTAAATAATTTATAATTTTT
252006 ACAAATCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTAAATAATTTATAATTTTT
Found at i:253682 original size:54 final size:54
Alignment explanation
Indices: 253615--253745 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 54
253605 CAGACTGTGC
* * * *
253615 AACTCTTTGACTTGAGTCGCACGGGCGTATGTTAGGCCAG-GTGCCAGACCATGT
1 AACTCTCTAACTTGAGTCACACGGGCATATGTTAGGCC-GCGTGCCAGACCATGT
* * * * * *
253669 AACTCTCTAACTTGAGTCACACAGGCATGTGTTAGGTCGCGTGTCAGCCCGTGT
1 AACTCTCTAACTTGAGTCACACGGGCATATGTTAGGCCGCGTGCCAGACCATGT
253723 AACTCTCTAACTTGAGTCACACG
1 AACTCTCTAACTTGAGTCACACG
253746 ACCATGTGAC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (54 bp):
AACTCTCTAACTTGAGTCACACGGGCATATGTTAGGCCGCGTGCCAGACCATGT
Found at i:256358 original size:20 final size:20
Alignment explanation
Indices: 256326--256365 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
256316 AATTTAGGTT
256326 TTATTTTTTGTT-AATTTGG
1 TTATTTTTTGTTAAATTTGG
256345 TTATTTTTTAGTTAAATTTGG
1 TTATTTTTT-GTTAAATTTGG
256366 CCATTAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.65
Consensus pattern (20 bp):
TTATTTTTTGTTAAATTTGG
Found at i:257971 original size:53 final size:53
Alignment explanation
Indices: 257905--258018 Score: 192
Period size: 53 Copynumber: 2.1 Consensus size: 53
257895 TTAACAGTAT
*
257905 TTTTTAAAACTATTATTTAAAGAATTTCAATTAACTATTTAAATTATTATATTA
1 TTTTT-AAACTATTATTTAAAGAATCTCAATTAACTATTTAAATTATTATATTA
* *
257959 TTTTTAAACTATTATTTAAAGAATCTCAATTAACTATTTAAATTTTTATTTTA
1 TTTTTAAACTATTATTTAAAGAATCTCAATTAACTATTTAAATTATTATATTA
258012 TTTTTAA
1 TTTTTAA
258019 TATTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 52 0.91
54 5 0.09
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (53 bp):
TTTTTAAACTATTATTTAAAGAATCTCAATTAACTATTTAAATTATTATATTA
Found at i:262130 original size:20 final size:19
Alignment explanation
Indices: 262087--262130 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
262077 TTGTTGGGTT
*
262087 TTTAT-AAAATTTTAGAAT
1 TTTATGAAAATTTTAGAAA
*
262105 TTTATGAAAATTTTAATAAA
1 TTTATGAAAATTTT-AGAAA
262125 TTTATG
1 TTTATG
262131 GTATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTATGAAAATTTTAGAAA
Found at i:264168 original size:2 final size:2
Alignment explanation
Indices: 264161--264186 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
264151 ATGTAAAAAC
264161 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
264187 TATTATCATT
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:276057 original size:9 final size:9
Alignment explanation
Indices: 276043--276080 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
276033 TACTTTATAC
276043 TTTTATATT
1 TTTTATATT
276052 TTTTATATT
1 TTTTATATT
*
276061 TTTATATTTT
1 TTT-TATATT
276071 TTTTATATT
1 TTTTATATT
276080 T
1 T
276081 GTTGAGGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATATT
Found at i:276058 original size:17 final size:17
Alignment explanation
Indices: 276036--276072 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
276026 TACTTTATAC
276036 TTTATACTTTTATATTT
1 TTTATACTTTTATATTT
*
276053 TTTATATTTTTATATTT
1 TTTATACTTTTATATTT
276070 TTT
1 TTT
276073 TTATATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATACTTTTATATTT
Found at i:276071 original size:8 final size:8
Alignment explanation
Indices: 276036--276071 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
276026 TACTTTATAC
*
276036 TTTATACT
1 TTTATATT
276044 TTTATATTT
1 TTTATA-TT
276053 TTTATATT
1 TTTATATT
276061 TTTATATT
1 TTTATATT
276069 TTT
1 TTT
276072 TTTATATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTATATT
Found at i:277915 original size:9 final size:9
Alignment explanation
Indices: 277895--277952 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
277885 GTAGTGATTC
*
277895 AATTTGGTT
1 AATTCGGTT
*
277904 AATTCGGGT
1 AATTCGGTT
*
277913 AATCCGGTT
1 AATTCGGTT
277922 AATTCGGTT
1 AATTCGGTT
277931 AATTCAGG-T
1 AATTC-GGTT
*
277940 AATCCGGTT
1 AATTCGGTT
277949 AATT
1 AATT
277953 TTTAACCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 2 0.05
9 36 0.90
10 2 0.05
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:277930 original size:27 final size:27
Alignment explanation
Indices: 277895--277952 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
277885 GTAGTGATTC
* *
277895 AATTTGGTTAATTCGGGTAATCCGGTT
1 AATTCGGTTAATTCAGGTAATCCGGTT
277922 AATTCGGTTAATTCAGGTAATCCGGTT
1 AATTCGGTTAATTCAGGTAATCCGGTT
277949 AATT
1 AATT
277953 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (27 bp):
AATTCGGTTAATTCAGGTAATCCGGTT
Found at i:284226 original size:40 final size:40
Alignment explanation
Indices: 284171--284250 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
284161 ACCATTTTAC
*
284171 GTGTTTTCCTGCATGAA-CTCTTACTTCTTGCATGGAAATT
1 GTGTTTTCCTGCATGAATCCCTTACTTCTTGCAT-GAAATT
* **
284211 GTGTTTTCTTGCATGAATCCCTTGTTTCTTGCATGAAATT
1 GTGTTTTCCTGCATGAATCCCTTACTTCTTGCATGAAATT
284251 CGTACTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 22 0.63
41 13 0.37
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.45
Consensus pattern (40 bp):
GTGTTTTCCTGCATGAATCCCTTACTTCTTGCATGAAATT
Found at i:286244 original size:17 final size:16
Alignment explanation
Indices: 286218--286251 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
286208 TTGGTTGTCA
286218 TATAAATTAAATTAAT
1 TATAAATTAAATTAAT
*
286234 TATAGAATTAATTTAAT
1 TATA-AATTAAATTAAT
286251 T
1 T
286252 GGGTAGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TATAAATTAAATTAAT
Found at i:300595 original size:23 final size:22
Alignment explanation
Indices: 300552--300609 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
300542 AAAGGGTATC
* *
300552 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
300573 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
300596 TGCATATCATATCT
1 TACAAATCATATCT
300610 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:300625 original size:21 final size:20
Alignment explanation
Indices: 300565--300639 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 20
300555 AAATTAAATC
* *
300565 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
300585 TCTTCTAAGATTGC-ATATCATA
1 ---TCTAAGATTGCAATATCATA
300607 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
300628 TCTAAGATTGCA
1 TCTAAGATTGCA
300640 CATCCTTGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
19 11 0.23
21 20 0.42
22 7 0.15
23 10 0.21
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:300883 original size:15 final size:16
Alignment explanation
Indices: 300856--300888 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
300846 AATATTTATA
300856 TTTTTATTAATTTAAG
1 TTTTTATTAATTTAAG
300872 TTTTTATT-ATTTAAG
1 TTTTTATTAATTTAAG
300887 TT
1 TT
300889 ACACTACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTTATTAATTTAAG
Done.