Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4658001
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 23
Found at i:1406 original size:19 final size:19
Alignment explanation
Indices: 1342--1406 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
1332 AGTTTAATTG
*
1342 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
1361 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
1379 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
1399 ATTGATTT
1 ATTGATTT
1407 GTAAAGATGA
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:1417 original size:13 final size:14
Alignment explanation
Indices: 1401--1435 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1391 ATTGTTTAAT
1401 TGATTTGT-AAAGA
1 TGATTTGTAAAAGA
*
1414 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1428 TGATTTGT
1 TGATTTGT
1436 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1558 original size:19 final size:19
Alignment explanation
Indices: 1542--1643 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
1532 AAAAATGACT
1542 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1561 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1580 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1594 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1613 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1633 ATCGCAATGCG
1 ATCGCAATGCG
1644 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1696 original size:19 final size:19
Alignment explanation
Indices: 1672--1995 Score: 394
Period size: 19 Copynumber: 18.4 Consensus size: 19
1662 ATTATCTCGA
1672 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
1691 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
1710 TGCGA--TTC-TTTCG--T
1 TGCGATTTTCATTTCGCAT
1724 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
1743 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
*
1762 TGCGATTTTCATTTCGTAT
1 TGCGATTTTCATTTCGCAT
*
1781 TGCGATTTTAATTTCGCAT
1 TGCGATTTTCATTTCGCAT
1800 TGCGATTTTCA-TTCGCAT
1 TGCGATTTTCATTTCGCAT
*
1818 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCAT
1832 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
1851 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
*
1870 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCAT
1884 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
1903 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
*
1922 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCAT
1936 TGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTT-CGCAT
1956 TGCGATTTTCA--T-G--T
1 TGCGATTTTCATTTCGCAT
* *
1970 TGGGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCAT
1989 TGCGATT
1 TGCGATT
1996 GTATTTTCCG
Statistics
Matches: 266, Mismatches: 12, Indels: 54
0.80 0.04 0.16
Matches are distributed among these distances:
14 35 0.13
16 33 0.12
17 25 0.09
18 15 0.06
19 146 0.55
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCAT
Found at i:1711 original size:52 final size:52
Alignment explanation
Indices: 1650--1967 Score: 523
Period size: 52 Copynumber: 6.0 Consensus size: 52
1640 TGCGTTTATA
* *
1650 ATTT-GCATTGCGATTATCTCGATGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
1701 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
1753 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1810 A-TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1861 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1913 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
1966 AT
1 AT
1968 GTTGGGATTT
Statistics
Matches: 253, Mismatches: 6, Indels: 14
0.93 0.02 0.05
Matches are distributed among these distances:
51 34 0.13
52 145 0.57
53 21 0.08
54 6 0.02
55 5 0.02
56 12 0.05
57 30 0.12
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:1918 original size:160 final size:156
Alignment explanation
Indices: 1654--1967 Score: 531
Period size: 160 Copynumber: 2.0 Consensus size: 156
1644 TTTATAATTT
1654 GCATTGCGATTATCTCGATGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCT
1 GCATTGCGATTATCTCGATGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCT
* *
1719 TTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGC
66 CTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGC
1784 GATTTTAATTT-CGCATTGCGATTTTCATTC
126 GATTTTAATTTCCGCATTGCGATTTTCATTC
* *
1814 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCT
1 GCATTGCGATTATCTCGATGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCT
1879 CTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTT
66 CTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTT
*
1944 TCATTTCCGCATTGCGATTTTCAT
131 TAATTTCCGCATTGCGATTTTCAT
1968 GTTGGGATTT
Statistics
Matches: 148, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
155 14 0.09
156 17 0.11
157 4 0.03
158 3 0.02
160 110 0.74
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (156 bp):
GCATTGCGATTATCTCGATGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCT
CTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTT
TAATTTCCGCATTGCGATTTTCATTC
Found at i:1939 original size:33 final size:33
Alignment explanation
Indices: 1690--1995 Score: 271
Period size: 33 Copynumber: 8.8 Consensus size: 33
1680 TCATTTCGCA
*
1690 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1723 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
1759 CATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
1797 CATTGCGATTTTCA-TTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1831 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
1867 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
1902 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1935 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
1969 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
1996 GTATTTTCCG
Statistics
Matches: 233, Mismatches: 20, Indels: 40
0.80 0.07 0.14
Matches are distributed among these distances:
31 9 0.04
32 17 0.07
33 74 0.32
34 33 0.14
35 11 0.05
36 9 0.04
37 13 0.06
38 55 0.24
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:4507 original size:24 final size:24
Alignment explanation
Indices: 4473--4519 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4463 CTGAAACATC
4473 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
4497 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
4520 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:5215 original size:20 final size:20
Alignment explanation
Indices: 5187--5555 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
5177 AAATTTCAGT
* * * *
5187 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
5207 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
5227 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
5247 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
5267 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
5287 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
5307 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
5327 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
5347 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
5367 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
5387 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
5407 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
5427 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
5447 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
5467 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
5487 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
5507 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
5527 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
5547 GTTGCGATT
1 GTTGCGATT
5556 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:5810 original size:38 final size:37
Alignment explanation
Indices: 5763--5852 Score: 114
Period size: 38 Copynumber: 2.5 Consensus size: 37
5753 GATTTTCTCT
* *
5763 TATATATATTTCCAAAA-TGTTTTAAAAACTATA-ATA
1 TATATATATTTCAAAAATTATTTTAAAAACTATATA-A
*
5799 TATATATATATTCAAAAATTATTTTAAAAGCTATATAA
1 TATATATAT-TTCAAAAATTATTTTAAAAACTATATAA
5837 TATATATATTT-AAAAA
1 TATATATATTTCAAAAA
5853 CCGATTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
36 14 0.29
37 9 0.19
38 24 0.50
39 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (37 bp):
TATATATATTTCAAAAATTATTTTAAAAACTATATAA
Found at i:5866 original size:40 final size:38
Alignment explanation
Indices: 5782--5852 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 38
5772 TTCCAAAATG
*
5782 TTTTAAAAACTATAATATATATATATATTCAAAAATTA
1 TTTTAAAAACTATAATATATATATATATTAAAAAATTA
* *
5820 TTTTAAAAGCTAT-ATA-ATATATATATTTAAAAA
1 TTTTAAAAACTATAATATATATATATATTAAAAAA
5853 CCGATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 16 0.52
37 3 0.10
38 12 0.39
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (38 bp):
TTTTAAAAACTATAATATATATATATATTAAAAAATTA
Found at i:5942 original size:37 final size:35
Alignment explanation
Indices: 5876--5947 Score: 83
Period size: 37 Copynumber: 2.0 Consensus size: 35
5866 ACAATATACT
* *
5876 TTATGTATTATATTTTCAAAATCCGTTTTCTAAAAAA
1 TTATATATTATATTTTCAAAAT-CATTTTC-AAAAAA
5913 TTATATATTATAGTTTTCAAAAAT-ATTTTCAAAAA
1 TTATATATTATA-TTTTC-AAAATCATTTTCAAAAA
5948 GTACACTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 5 0.16
37 16 0.52
38 5 0.16
39 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (35 bp):
TTATATATTATATTTTCAAAATCATTTTCAAAAAA
Found at i:10703 original size:11 final size:10
Alignment explanation
Indices: 10680--10709 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
10670 ACCTGGTATC
10680 TTATTTTTTT
1 TTATTTTTTT
10690 TTATTTTATTT
1 TTATTTT-TTT
10701 TTATTTTTT
1 TTATTTTTT
10710 AACCATGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (10 bp):
TTATTTTTTT
Found at i:12955 original size:18 final size:18
Alignment explanation
Indices: 12932--12980 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
12922 GGTTAGTAAA
*
12932 AATAAATAATAATAATAT
1 AATAAATAATAATAATAC
* *
12950 AATAAACAAAAATAATAC
1 AATAAATAATAATAATAC
*
12968 AAGAAAATAATAA
1 AA-TAAATAATAA
12981 AAGAAAATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (18 bp):
AATAAATAATAATAATAC
Found at i:12964 original size:13 final size:12
Alignment explanation
Indices: 12928--12990 Score: 56
Period size: 13 Copynumber: 5.0 Consensus size: 12
12918 TAAAGGTTAG
12928 TAAAAATAAATAA
1 TAAAAA-AAATAA
* *
12941 T-AATAATATAA
1 TAAAAAAAATAA
12952 TAAACAAAAATAA
1 TAAA-AAAAATAA
*
12965 TACAAGAAAATAA
1 TA-AAAAAAATAA
12978 TAAAAGAAAATAA
1 TAAAA-AAAATAA
12991 AATGAATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 6 0.15
12 7 0.17
13 25 0.62
14 2 0.05
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (12 bp):
TAAAAAAAATAA
Found at i:13000 original size:19 final size:18
Alignment explanation
Indices: 12971--13006 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12961 ATAATACAAG
*
12971 AAAATAATAAAAGAAAAT
1 AAAATAATAAAACAAAAT
12989 AAAATGAATAAAACAAAA
1 AAAAT-AATAAAACAAAA
13007 AGTAAAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAATAATAAAACAAAAT
Found at i:14322 original size:34 final size:35
Alignment explanation
Indices: 14284--14350 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
14274 AACCTACATA
*
14284 ATATA-ATTTCAAAAATATTTTAAAATTATATATT
1 ATATACATTTCAAAAATATTTCAAAATTATATATT
* * *
14318 ATATACTTTTTAAAAATGTTTCAAAATTATATA
1 ATATACATTTCAAAAATATTTCAAAATTATATA
14351 GTTTTCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 5 0.18
35 23 0.82
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (35 bp):
ATATACATTTCAAAAATATTTCAAAATTATATATT
Found at i:14460 original size:36 final size:36
Alignment explanation
Indices: 14419--14674 Score: 219
Period size: 36 Copynumber: 7.2 Consensus size: 36
14409 TATATAATAT
* *
14419 ATGTTTTTAAAACTATATATTATATATACTTTCAAA
1 ATGTTTTAAAAACTATATATTATATATATTTTCAAA
* *
14455 ATGTTTTAAAAACTATATAATATATAAATGTTTTCAAAA
1 ATGTTTTAAAAACTATAT-AT-TATATATATTTTC-AAA
*
14494 ATGTTTT----A-TATA-A-TATATGT-TTTT-AAA
1 ATGTTTTAAAAACTATATATTATATATATTTTCAAA
*
14521 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
1 ATGTTTTAAAAACTATATATTATATATATTTTCAAA
* * *
14557 ATGTTTTAAAAACTATATAATATAAATGTTTTCAAA
1 ATGTTTTAAAAACTATATATTATATATATTTTCAAA
* * * * * *
14593 ATATTTTTCAAAACCATATACTATATAGATTTTAAAA
1 AT-GTTTTAAAAACTATATATTATATATATTTTCAAA
*
14630 ACGTTTTCAAAAACTATATA-TATACT-TATTTTCGAAA
1 ATGTTTT-AAAAACTATATATTATA-TATATTTTC-AAA
14667 ATCGTTTT
1 AT-GTTTT
14675 TTCGAAAATT
Statistics
Matches: 176, Mismatches: 27, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
27 10 0.06
29 4 0.02
30 5 0.03
31 1 0.01
32 5 0.03
33 1 0.01
34 10 0.06
35 4 0.02
36 67 0.38
37 44 0.25
38 15 0.09
39 10 0.06
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (36 bp):
ATGTTTTAAAAACTATATATTATATATATTTTCAAA
Found at i:14504 original size:27 final size:27
Alignment explanation
Indices: 14453--14528 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
14443 TATACTTTCA
* * *
14453 AAATGTTTTAAAAACTATATAATAT-AT
1 AAATGTTTTAAAAA-TGTTTTATATAAT
14480 AAATGTTTTCAAAAATGTTTTATATAAT
1 AAATGTTTT-AAAAATGTTTTATATAAT
* *
14508 ATATGTTTTTAAAATGTTTTA
1 AAATGTTTTAAAAATGTTTTA
14529 AAAACTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 27 0.64
28 15 0.36
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (27 bp):
AAATGTTTTAAAAATGTTTTATATAAT
Found at i:14504 original size:122 final size:121
Alignment explanation
Indices: 14301--14521 Score: 261
Period size: 122 Copynumber: 1.8 Consensus size: 121
14291 TTCAAAAATA
* * * * * *
14301 TTTTAAAATTATATATTATATACTTTTTAAAAATGTTTCAAAATTATATAGTTTTCAAAAATGTT
1 TTTTAAAACTATATATTATATACTCTTTAAAAATGTTTAAAAACTATATAGATATCAAAAATGTT
*
14366 TTTAGAAAATTATATATATATATAAGTTTTCAAAAAAATGTTTTATATAATATATGT
66 TTCAGAAAATTATATATA-ATATAAGTTTTCAAAAAAATGTTTTATATAATATATGT
* *
14423 TTTTAAAACTATATATTATATA-TACTTTCAAAATGTTTTAAAAACTATATA-ATAT-ATAAATG
1 TTTTAAAACTATATATTATATACT-CTTTAAAAATG-TTTAAAAACTATATAGATATCAAAAATG
* * *
14485 TTTTCA-AAAATGTTTTATATAATATATGTTTTTAAAA
64 TTTTCAGAAAA--TTATATATAATATAAGTTTTCAAAA
14522 TGTTTTAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
120 4 0.05
121 26 0.31
122 40 0.48
123 13 0.16
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (121 bp):
TTTTAAAACTATATATTATATACTCTTTAAAAATGTTTAAAAACTATATAGATATCAAAAATGTT
TTCAGAAAATTATATATAATATAAGTTTTCAAAAAAATGTTTTATATAATATATGT
Found at i:14537 original size:27 final size:28
Alignment explanation
Indices: 14482--14538 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
14472 TAATATATAA
*
14482 ATGTTTTCAAAAATGTTTTATATAATAT
1 ATGTTTTCAAAAATGTTTTATAAAATAT
*
14510 ATGTTTT-TAAAATGTTTTA-AAAACTAT
1 ATGTTTTCAAAAATGTTTTATAAAA-TAT
14537 AT
1 AT
14539 ATTATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.12
27 16 0.62
28 7 0.27
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (28 bp):
ATGTTTTCAAAAATGTTTTATAAAATAT
Found at i:14662 original size:73 final size:74
Alignment explanation
Indices: 14524--14668 Score: 177
Period size: 73 Copynumber: 2.0 Consensus size: 74
14514 TTTTAAAATG
* * * * * *
14524 TTTTAAAAACTATATATTATATATACTTTCAAAATGTTTTAAAAACTATATAATATAAATGTTTT
1 TTTTAAAAACCATATACTATATAGACTTTAAAAACGTTTTAAAAACTATATAATATAAATATTTT
14589 C-AAAATAT
66 CGAAAATAT
* * **
14597 TTTTCAAAACCATATACTATATAGATTTTAAAAACGTTTTCAAAAACTATAT-ATATACTTATTT
1 TTTTAAAAACCATATACTATATAGACTTTAAAAACGTTTT-AAAAACTATATAATATAAATATTT
14661 TCGAAAAT
65 TCGAAAAT
14669 CGTTTTTTCG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
73 44 0.73
74 16 0.27
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (74 bp):
TTTTAAAAACCATATACTATATAGACTTTAAAAACGTTTTAAAAACTATATAATATAAATATTTT
CGAAAATAT
Found at i:15494 original size:84 final size:84
Alignment explanation
Indices: 15363--16252 Score: 694
Period size: 84 Copynumber: 10.8 Consensus size: 84
15353 GCTATGTTGT
* * * *
15363 AAATGATGTG-CCTCGCAGTTGAGCGTAGTCGAACTCGAAGGTCCTTTGGAGATAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGT-CTTTGGAGACAGATAACCCTT
* * * *
15427 CTAGCCTTGAGTTATATTGT
65 CTAGACTTAAGTTATACTGC
* * * ** * *
15447 AAATGATGTACCCTCGAAGCTGAGTGTAATCAAACTCGGGGGTCTTT-G-G-CAGCTAGCCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGAGACAGATAACCCTTC
* *
15509 TCGACTTAAGCTATACTGC
66 TAGACTTAAGTTATACTGC
* * * * ** * * *
15528 AAATGATGT-ACCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTCGTTGGCAAATAGCCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTT-GGAGACAGATAACCCTT
* * * * *
15592 CTTGCCTTGAGCTATATTGC
65 CTAGACTTAAGTTATACTGC
* * *
15612 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG-GGAGTCTTT-G-G-CAGATAGCCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAG-GTCTTTGGAGACAGATAACCCTT
* * * *
15673 ATCGACTTAAGCTATGCTGC
65 CTAGACTTAAGTTATACTGC
* * * ** * *
15693 AAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTC-AGAGGTCTTTTGTTGGCAGACAACCCT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGA-AGGTC-TTTGGAGACAGATAACCCT
* *
15756 TCTAGACTTAAGTTGTGCTGC
64 TCTAGACTTAAGTTATACTGC
* * * * * *
15777 AAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGATCTTTGGTGACAGATAACCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGAGACAGATAACCCTTC
* * *
15841 TAGCCTTGAGTTATGA-TGT
66 TAGACTTAAGTTAT-ACTGC
* * * *
15860 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGAGGTCTTT-G-G-CAGATAGCCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGAGACAGATAACCCTTC
* *
15922 TCGACTTAAGTTATGCTGC
66 TAGACTTAAGTTATACTGC
* * * * ** * *
15941 AAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGAGACAGATAACCCTT
*
16005 CTAGACTTAAGTTGTACTGC
65 CTAGACTTAAGTTATACTGC
* * * * *
16025 AAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGAGACAGATAACCCTTC
* * ** *
16089 TAGCCTTGAGTTATGTTGT
66 TAGACTTAAGTTATACTGC
* * * ** *
16108 AAATGATATGCCCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAGATAGCCCTTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGAGACAGATAACCCTTC
* * *
16170 TCGACTTAAGTTATGCTGT
66 TAGACTTAAGTTATACTGC
* * * *
16189 AAATGATATG-CCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTG-G-CAGATAGCCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTG-GAGACAGATAACCCTT
16251 CT
65 CT
16253 GGCCTTGAGC
Statistics
Matches: 656, Mismatches: 124, Indels: 54
0.79 0.15 0.06
Matches are distributed among these distances:
80 103 0.16
81 153 0.23
82 20 0.03
83 96 0.15
84 229 0.35
85 55 0.08
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (84 bp):
AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGAGACAGATAACCCTTC
TAGACTTAAGTTATACTGC
Found at i:15911 original size:164 final size:162
Alignment explanation
Indices: 15355--16277 Score: 691
Period size: 165 Copynumber: 5.6 Consensus size: 162
15345 TGCCTTGGGC
* * * * * * *
15355 TATGTTGTAAATGATGTGCCTCGCAGTTGAGCGTAGTCGAACTCGAAGGTCCTTTGGAGATAGAT
1 TATGATGTAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGT-CTTT-G-G-CAGAT
* * ** * * * * * * * *
15420 AACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTACCCTCGAAGCTGAGTGTAATCAAACTCG
62 AACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT-GCCTTGGAGCTGAGCGTAGTCGAACTCG
** * * * *
15485 GGGGTCTTT-G-GCAGCTAGCCCTTCTCGACTTAAGC
126 AAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGT
* * * * *
15520 TAT-ACTGCAAATGATGTACCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTCGTTGGCAAA
1 TATGA-TGTAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTC--T--TTGGCAGA
* * * * * ** * * * * *
15584 TAGCCCTTCTTGCCTTGAGCTATATTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
61 TAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTC
* * * * *
15649 G-GGAGTCTTT-G-GCAGATAGCCCTTATCGACTTAAGC
125 GAAG-GTCTTTGGTGCAGATAACCCTTCTAGACTTAAGT
* * * *
15685 TATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTC-AGAGGTCTTTTGTTGGCAG
1 TATGATGTAAATGATATGCC-TTGGAGCTGAGCGTAATCGAACTCGA-AGGTC---T-TTGGCAG
* *
15748 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
60 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* * *
15813 GAAGATCTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
125 GAAGGTCTTTGGTG-CAGATAACCCTTCTAGACTTAAGT
* * * * *
15852 TATGATGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGAGGTCTTTGGCAGATAGC
1 TATGATGTAAATGATATG-CCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAAC
* * *
15917 CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAG
65 CCTTCTAGACTTAAGTTATGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAG
* *
15981 GTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
129 GTC-TTTGGT-GCAGATAACCCTTCTAGACTTAAGT
* * *
16017 TGT-ACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGAT
1 TATGA-TGTAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTT-G-G-CAGAT
* * * * * * * * *
16081 AACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGTTGAGTGTAATCGAACTCG
62 AACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCG
** * *
16146 GGGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGT
126 AAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGT
* *
16181 TATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGTGGCAGATAG
1 TATGATGTAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTC-TT-TGGCAGATAA
* * * * *
16246 CCCTTCTGGCCTTGAGCTAAGCTGCAAATGAT
64 CCCTTCTAGACTTAAGTTATGCTGCAAATGAT
16278 TTGTTTAAAA
Statistics
Matches: 629, Mismatches: 99, Indels: 62
0.80 0.13 0.08
Matches are distributed among these distances:
163 33 0.05
164 202 0.32
165 259 0.41
166 11 0.02
167 74 0.12
168 50 0.08
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (162 bp):
TATGATGTAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACC
CTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
CTTTGGTGCAGATAACCCTTCTAGACTTAAGT
Found at i:15931 original size:248 final size:247
Alignment explanation
Indices: 15503--16252 Score: 1159
Period size: 248 Copynumber: 3.0 Consensus size: 247
15493 TGGCAGCTAG
* * * * * * *
15503 CCCTTCTCGACTTAAGCTATACTGCAAATGATGTACCTTGGAGCTGAGCGTAATCGAACTCAAAG
1 CCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* * * * * * * *
15568 GTCTTTCGTTGGCAAATAGCCCTTCTTGCCTTGAGCTAT-ATTGCAAATGATGTGCCCTCGAAGC
66 GTCTTT-GGTGACAGATAACCCTTCTAGCCTTGAGTTATGA-TGTAAATGATATGCCCTCGAAGC
* *
15632 TGAGTGTAATCGAACTCGGGAGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAAT
129 TGAGTGTAATCGAACTCGGG-GTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAAT
15697 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACAA
193 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACAA
*
15752 CCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
*
15817 ATCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTG
66 GTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTG
15882 AGTGTAATCGAACTCGGAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGA
131 AGTGTAATCGAACTCGG-GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGA
*
15947 TGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAA
195 TGTGCCGTTGAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACAA
16000 CCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* *
16065 GTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGTTG
66 GTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTG
*
16130 AGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGTAAATGA
131 AGTGTAATCGAACTC-GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * * *
16195 TATGCC-TTGGAGCTGAGCGTAATCGAACTC-GAAGGTC-TTTG-TGGCAGATAG
195 TGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAG-AGGTCTTTTGTTGGCAGACAA
16246 CCCTTCT
1 CCCTTCT
16253 GGCCTTGAGC
Statistics
Matches: 466, Mismatches: 30, Indels: 13
0.92 0.06 0.03
Matches are distributed among these distances:
246 15 0.03
247 6 0.01
248 379 0.81
249 66 0.14
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (247 bp):
CCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATATGCCCTCGAAGCTG
AGTGTAATCGAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGAT
GTGCCGTTGAGCTGAGCGTAGTCGAACTCAGAGGTCTTTTGTTGGCAGACAA
Found at i:21468 original size:13 final size:12
Alignment explanation
Indices: 21426--21482 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 12
21416 AAGGTTAGTA
*
21426 AAAATAA-AAAT
1 AAAATAATAAAG
*
21437 AATAATAATAAAC
1 AA-AATAATAAAG
21450 AAAATAATACAAG
1 AAAATAATA-AAG
21463 AAAATAATAAAAG
1 AAAATAAT-AAAG
21476 AAAATAA
1 AAAATAA
21483 AATGAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 2 0.05
12 12 0.30
13 25 0.62
14 1 0.03
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (12 bp):
AAAATAATAAAG
Found at i:21492 original size:19 final size:18
Alignment explanation
Indices: 21463--21498 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21453 ATAATACAAG
*
21463 AAAATAATAAAAGAAAAT
1 AAAATAATAAAACAAAAT
21481 AAAATGAATAAAACAAAA
1 AAAAT-AATAAAACAAAA
21499 AGTAAAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAATAATAAAACAAAAT
Found at i:22852 original size:30 final size:31
Alignment explanation
Indices: 22816--22884 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
22806 GAAATTATAT
*
22816 ATTATATACTTTTTAAAAGATG-TTTT-CAAA
1 ATTATATACTTTTCAAAA-ATGTTTTTACAAA
* *
22846 ATTATATAGTTTTCAAAAATGTTTTTAGAAA
1 ATTATATACTTTTCAAAAATGTTTTTACAAA
22877 ATTATATA
1 ATTATATA
22885 TTATATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 20 0.59
31 11 0.32
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (31 bp):
ATTATATACTTTTCAAAAATGTTTTTACAAA
Found at i:22964 original size:36 final size:36
Alignment explanation
Indices: 22923--23165 Score: 193
Period size: 36 Copynumber: 6.9 Consensus size: 36
22913 TATATAATAT
*
22923 ATGTTTTTAAAACTATATATTATATATACTTTCAAA
1 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
* **
22959 ATGTTTTAAAAACTATATAATATATAAATGTTTTCAAAA
1 ATGTTTTAAAAACTATAT-AT-TATATATACTTTC-AAA
* *
22998 ATGTTTT----A-TATA-A-TATATGT--TTTTAAA
1 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
23025 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
1 ATGTTTTAAAAACTATATATTATATATACTTTCAAA
* **
23061 ATGTTTTAAAAACTATATAATATATAAATGTTTTCAAA
1 ATGTTTTAAAAACTATAT-AT-TATATATACTTTCAAA
* * * * * * *
23099 ATATTTTTCAAAACCATATACTATATAGATTTTAAAA
1 AT-GTTTTAAAAACTATATATTATATATACTTTCAAA
*
23136 ACGTTTTCAAAAACTATATA--ATATATACTT
1 ATGTTTT-AAAAACTATATATTATATATACTT
23166 ATTTTCGAAA
Statistics
Matches: 165, Mismatches: 26, Indels: 33
0.74 0.12 0.15
Matches are distributed among these distances:
27 10 0.06
28 3 0.02
30 5 0.03
31 1 0.01
32 5 0.03
33 1 0.01
34 10 0.06
35 9 0.05
36 45 0.27
37 27 0.16
38 26 0.16
39 23 0.14
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
ATGTTTTAAAAACTATATATTATATATACTTTCAAA
Found at i:23008 original size:27 final size:27
Alignment explanation
Indices: 22957--23032 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
22947 TATACTTTCA
* * *
22957 AAATGTTTTAAAAACTATATAATAT-AT
1 AAATGTTTTAAAAA-TGTTTTATATAAT
22984 AAATGTTTTCAAAAATGTTTTATATAAT
1 AAATGTTTT-AAAAATGTTTTATATAAT
* *
23012 ATATGTTTTTAAAATGTTTTA
1 AAATGTTTTAAAAATGTTTTA
23033 AAAACTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 27 0.64
28 15 0.36
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (27 bp):
AAATGTTTTAAAAATGTTTTATATAAT
Found at i:23041 original size:27 final size:28
Alignment explanation
Indices: 22986--23042 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
22976 TAATATATAA
*
22986 ATGTTTTCAAAAATGTTTTATATAATAT
1 ATGTTTTCAAAAATGTTTTATAAAATAT
*
23014 ATGTTTT-TAAAATGTTTTA-AAAACTAT
1 ATGTTTTCAAAAATGTTTTATAAAA-TAT
23041 AT
1 AT
23043 ATTATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.12
27 16 0.62
28 7 0.27
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (28 bp):
ATGTTTTCAAAAATGTTTTATAAAATAT
Found at i:23051 original size:75 final size:75
Alignment explanation
Indices: 22972--23162 Score: 199
Period size: 75 Copynumber: 2.5 Consensus size: 75
22962 TTTTAAAAAC
* * * * * *
22972 TATATAATATATAAATGTTTTCAAAAA-TGTTTTATATAATATATGTTTTTAAAAT-GTTTTAAA
1 TATATAATTTA-AAATGTTTTCAAAAACTATATAATAT-ATAAATGTTTTCAAAATAGTTTTAAA
* *
23035 AACTATATATTA
64 AACCATATACTA
* * *
23047 TATATACTTTCAAAATGTTTT-AAAAACTATATAATATATAAATGTTTTCAAAATATTTTTCAAA
1 TATATAATTT-AAAATGTTTTCAAAAACTATATAATATATAAATGTTTTCAAAATAGTTTTAAAA
23111 ACCATATACTA
65 ACCATATACTA
* * *
23122 TATAGATTTTAAAAACGTTTTCAAAAACTATATAATATATA
1 TATATAATTT-AAAATGTTTTCAAAAACTATATAATATATA
23163 CTTATTTTCG
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
74 20 0.21
75 57 0.59
76 20 0.21
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (75 bp):
TATATAATTTAAAATGTTTTCAAAAACTATATAATATATAAATGTTTTCAAAATAGTTTTAAAAA
CCATATACTA
Found at i:23207 original size:76 final size:76
Alignment explanation
Indices: 23028--23246 Score: 203
Period size: 75 Copynumber: 2.9 Consensus size: 76
23018 TTTTAAAATG
* * * * * *
23028 TTTTAAAAACTATATATTATATATACTTTCAAAATGTTTT-AAAAACTATATAATATATAAATGT
1 TTTTCAAAACCATATACTATATATATTTTCAAAACGTTTTCAAAAACTATATAATATATAAATAT
23092 TTTCAAAATAT
66 TTTCAAAATAT
* * **
23103 TTTTCAAAACCATATACTATATAGATTTTAAAAACGTTTTCAAAAACTATATAATATATACTTAT
1 TTTTCAAAACCATATACTATATATATTTTCAAAACGTTTTCAAAAACTATATAATATATAAATAT
*
23168 TTTCGAAAATCGT
66 TTTC-AAAAT-AT
* * * * * *
23181 TTTTCTGAAA-CTTATAC-AT-TATATTTTGTCAAAACATTTTCAAAAACTGTATTACTATATAT
1 TTTTC-AAAACCATATACTATATATA-TTT-TCAAAACGTTTTCAAAAACTATA-TAATATATAA
23243 ATAT
62 ATAT
23247 ATAAACAAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
75 33 0.28
76 28 0.24
77 10 0.09
78 32 0.27
79 14 0.12
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (76 bp):
TTTTCAAAACCATATACTATATATATTTTCAAAACGTTTTCAAAAACTATATAATATATAAATAT
TTTCAAAATAT
Found at i:40500 original size:17 final size:18
Alignment explanation
Indices: 40467--40502 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40457 ATATATACAT
*
40467 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
40485 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
40502 A
1 A
40503 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:40940 original size:37 final size:36
Alignment explanation
Indices: 40897--40998 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
40887 ATAGTATAAC
40897 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
*
40934 TTTATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
40968 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
40999 TAGGACGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
34 33 0.54
37 28 0.46
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:41832 original size:105 final size:105
Alignment explanation
Indices: 41533--42298 Score: 1078
Period size: 105 Copynumber: 7.3 Consensus size: 105
41523 CATTGTTCCA
* * * * * ** * * *
41533 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTGTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
41598 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
41639 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
41699 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
41739 AATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
41804 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
41844 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
41909 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
41949 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
42014 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
42054 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
42119 AGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
42159 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * *
42224 CAGTC-GTCCCTTCGTTGTGAAGTTTAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
42265 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
42299 CGCAGATGGC
Statistics
Matches: 603, Mismatches: 46, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
99 1 0.00
100 80 0.13
101 1 0.00
102 4 0.01
103 4 0.01
104 3 0.00
105 406 0.67
106 79 0.13
107 4 0.01
109 21 0.03
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:42992 original size:68 final size:65
Alignment explanation
Indices: 42902--43059 Score: 208
Period size: 68 Copynumber: 2.4 Consensus size: 65
42892 AAGATATCAG
* * **
42902 TTGTTTCATGAGAAATGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAATTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
42967 TT
64 TT
* * *
42969 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAATTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
43034 T
65 T
* *
43035 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAATTGTCTCAAG
43060 ATAGACGAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 21 0.26
66 3 0.04
67 24 0.30
68 32 0.40
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (65 bp):
TTGTTTCAAGAGAAATTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:43035 original size:67 final size:65
Alignment explanation
Indices: 42902--43295 Score: 233
Period size: 65 Copynumber: 5.8 Consensus size: 65
42892 AAGATATCAG
* * * **
42902 TTGTTTCATGAGAAATGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
42967 TT
64 TT
* *
42969 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
43034 T
65 T
* * ** * * *
43035 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACT--GTCTCAAGA
1 TTGTTTCAAGAGAAATTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA-TAAAT-TC-A-A
43097 GAGATAAAACT
61 -AGAT-----T
* * * * * * * * * * *
43108 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * * * *
43173 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGA-T-
1 TTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T-AA-ATTC
* *
43236 AGACGAAAT
59 A-AAG-ATT
*
43245 TTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTT-TTTTCAAGGGAAA
1 TTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTT-AAGGGAAA
43296 CTGTCTCAAG
Statistics
Matches: 256, Mismatches: 46, Indels: 45
0.74 0.13 0.13
Matches are distributed among these distances:
64 1 0.00
65 82 0.32
66 9 0.04
67 25 0.10
68 36 0.14
70 4 0.02
71 7 0.03
72 51 0.20
73 40 0.16
74 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (65 bp):
TTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:43086 original size:36 final size:35
Alignment explanation
Indices: 43035--43315 Score: 254
Period size: 36 Copynumber: 8.0 Consensus size: 35
43025 TTCAAAGATT
* *
43035 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
*
43071 TTGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
43106 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAAT
1 -TT-GTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
* * **
43144 TTGTTTCAA-AGAAAACATAT-TC---A-A-A-TATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
43173 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
43208 TTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
*
43245 TTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
43280 TTTTTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
43316 CTCTTCTAGT
Statistics
Matches: 200, Mismatches: 29, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.01
29 17 0.09
30 1 0.00
31 1 0.00
32 2 0.01
33 1 0.00
34 1 0.00
35 10 0.05
36 130 0.65
37 32 0.16
38 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:43144 original size:138 final size:137
Alignment explanation
Indices: 42986--43296 Score: 410
Period size: 138 Copynumber: 2.3 Consensus size: 137
42976 CAAGAGTAAT
* *
42986 TGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAAC
* * *
43051 TGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTAGTTCC
66 TGTCTCAAGAGAGAC-AAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTAGTTCC
43115 AAAAGAAAC
129 AAAAGAAAC
* * * * * *
43124 TGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAAC
* * * * *
43189 TGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTCAA
66 TGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAA
* *
43254 GAGAAAT
131 AAGAAAC
*
43261 TGTCTCAAGAGAGACAAAATTT-TTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACAAAATTTGTTTT-AAGGGAAAC
43297 TGTCTCAAGA
Statistics
Matches: 148, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
136 3 0.02
137 44 0.30
138 101 0.68
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (137 bp):
TGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAAC
TGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAA
AAGAAAC
Found at i:43250 original size:101 final size:103
Alignment explanation
Indices: 43071--43259 Score: 292
Period size: 102 Copynumber: 1.9 Consensus size: 103
43061 TAGACGAAAA
* *
43071 TTGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
43136 GACGAAATTTGTTTCAA-AGAAAACATATTCAAATATT
66 GACGAAATTTGTTTCAAGAGAAAACATATTCAAATATT
* * * ** *
43173 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA-TTTCAAGGGAAACTGTCTCAAGATA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
43237 GACGAAATTTGTTTCAAGAGAAA
66 GACGAAATTTGTTTCAAGAGAAA
43260 TTGTCTCAAG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 37 0.47
102 41 0.53
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (103 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGA
GACGAAATTTGTTTCAAGAGAAAACATATTCAAATATT
Found at i:43268 original size:15 final size:16
Alignment explanation
Indices: 43240--43272 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
43230 CAAGATAGAC
*
43240 GAAATTTGTTTCAAGA
1 GAAATTTGTCTCAAGA
43256 GAAA-TTGTCTCAAGA
1 GAAATTTGTCTCAAGA
43271 GA
1 GA
43273 GACAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (16 bp):
GAAATTTGTCTCAAGA
Found at i:43337 original size:35 final size:35
Alignment explanation
Indices: 43177--43349 Score: 125
Period size: 36 Copynumber: 4.9 Consensus size: 35
43167 AATATTTTGT
* * * *
43177 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTAT
1 TTCAAGGAAAACGGTCTCAAGAGAGACAAAATCT-C
* * * * * *
43213 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGT
1 TTCAAGGAAAACGGTCTCAAGAGAGACAAAATCT-C
** * *
43249 TTCAA-GAGAAATTGTCTCAAGAGAGACAAAATTTTT
1 TTCAAGGA-AAACGGTCTCAAGAGAGACAAAA-TCTC
* *
43285 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-CTC
1 TTCAAGGAAAACGGTCTCAAGAGAGACAAAATCTC
* *
43319 TTCTAGTGAAAACGGTCTCAAGCGAGACAAA
1 TTCAAG-GAAAACGGTCTCAAGAGAGACAAA
43350 TCTTGTTTTA
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
34 6 0.05
35 22 0.19
36 86 0.73
37 4 0.03
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (35 bp):
TTCAAGGAAAACGGTCTCAAGAGAGACAAAATCTC
Found at i:43822 original size:18 final size:18
Alignment explanation
Indices: 43795--43830 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
43785 TGTTGAATCC
* *
43795 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
43813 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
43831 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:44272 original size:22 final size:22
Alignment explanation
Indices: 44246--44300 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
44236 TTGTGTTTGG
44246 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
44268 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
44290 TCAAAGGTTTG
1 TCAAAGGTTTG
44301 ATGGGATAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:44972 original size:46 final size:46
Alignment explanation
Indices: 44922--45011 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
44912 TGCATGTGCT
*
44922 TTTTGTTCCTCTTTCT-TTTTGATTC-TTGTTTTTTTTTCTTTTTTCC
1 TTTTGTTCCTCTTTCTCTTTT--TTCTTTGTTTTTCTTTCTTTTTTCC
* * *
44968 TTTTGTTCGTGTTTCTCTTTTTTCTTTGTTTTTCTTTGTTTTTT
1 TTTTGTTCCTCTTTCTCTTTTTTCTTTGTTTTTCTTTCTTTTTT
45012 TTGCTTCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 3 0.08
46 31 0.82
47 4 0.11
ACGTcount: A:0.01, C:0.14, G:0.09, T:0.76
Consensus pattern (46 bp):
TTTTGTTCCTCTTTCTCTTTTTTCTTTGTTTTTCTTTCTTTTTTCC
Found at i:44973 original size:23 final size:22
Alignment explanation
Indices: 44933--45030 Score: 65
Period size: 23 Copynumber: 4.3 Consensus size: 22
44923 TTTGTTCCTC
**
44933 TTTCTTTTTGATTCTTGTTTTTT
1 TTTCTTTTTTCTT-TTGTTTTTT
*
44956 TTTCTTTTTTCCTTTTGTTCGTGTT
1 TTTCTTTTTT-CTTTTGTT--TTTT
* *
44981 TCTCTTTTTTC-TTTGTTTTTC
1 TTTCTTTTTTCTTTTGTTTTTT
* *
45002 TTTGTTTTTT-TTGCTTCTTTTTT
1 TTTCTTTTTTCTT--TTGTTTTTT
45025 TTTCTT
1 TTTCTT
45031 CTTGATTGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
21 11 0.19
23 32 0.55
24 3 0.05
25 12 0.21
ACGTcount: A:0.01, C:0.13, G:0.08, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTCTTTTGTTTTTT
Found at i:44997 original size:17 final size:17
Alignment explanation
Indices: 44953--45004 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
44943 ATTCTTGTTT
44953 TTTTTTCTTT-TTTC-C
1 TTTTTTCTTTGTTTCTC
*
44968 TTTTGTTC-GTGTTTCTC
1 TTTT-TTCTTTGTTTCTC
*
44985 TTTTTTCTTTGTTTTTC
1 TTTTTTCTTTGTTTCTC
45002 TTT
1 TTT
45005 GTTTTTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.17
16 10 0.33
17 15 0.50
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (17 bp):
TTTTTTCTTTGTTTCTC
Found at i:45001 original size:10 final size:10
Alignment explanation
Indices: 44986--45014 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44976 GTGTTTCTCT
44986 TTTTTCTTTG
1 TTTTTCTTTG
44996 TTTTTCTTTG
1 TTTTTCTTTG
45006 TTTTT-TTTG
1 TTTTTCTTTG
45015 CTTCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTG
Found at i:46150 original size:8 final size:8
Alignment explanation
Indices: 46134--46172 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
46124 AATGTAGATG
46134 AAAATGCA
1 AAAATGCA
*
46142 AAAAGGCA
1 AAAATGCA
46150 AAAATGC-
1 AAAATGCA
46157 AAAATGCA
1 AAAATGCA
*
46165 AGAATGCA
1 AAAATGCA
46173 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:46160 original size:15 final size:15
Alignment explanation
Indices: 46134--46172 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
46124 AATGTAGATG
46134 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
46150 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
46165 AGAATGCA
1 AAAATGCA
46173 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:48704 original size:2 final size:2
Alignment explanation
Indices: 48694--48730 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
48684 AAAAGGAAAA
48694 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48731 CAAAGTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:49154 original size:2 final size:2
Alignment explanation
Indices: 49147--49179 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
49137 ATATAAAGAA
49147 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49180 ATAGTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49257 original size:18 final size:17
Alignment explanation
Indices: 49234--49276 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
49224 ATATATACAT
49234 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
49252 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
49269 ATAA-AATA
1 ATAATAATA
49277 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:49711 original size:37 final size:35
Alignment explanation
Indices: 49668--49768 Score: 150
Period size: 34 Copynumber: 2.9 Consensus size: 35
49658 ATAGTATAAC
*
49668 TCTATCCTACTTTTAGGAGTTTGAATCCTAACAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCT-A-AAAAT
*
49705 TTTATCCTATTTTTAGGAGTTTGAATCCT-AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAAAT
*
49739 TCTATCATATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
49769 GTAGGACGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 32 0.54
37 27 0.46
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAAAT
Found at i:50482 original size:36 final size:36
Alignment explanation
Indices: 50434--50517 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
50424 ATCTAATACG
* *
50434 ATATATATTTTTTGGATTGAATT-AAATCGA-ATAAAA
1 ATATATAATTTTTAGATT-AATTCAAATC-ATATAAAA
*
50470 ATATATAATTTTTAGATTAATTCAATTCATATAAAA
1 ATATATAATTTTTAGATTAATTCAAATCATATAAAA
50506 ATATAT-ATTTTT
1 ATATATAATTTTT
50518 CAAACCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 11 0.26
36 32 0.74
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATATAATTTTTAGATTAATTCAAATCATATAAAA
Found at i:55415 original size:154 final size:150
Alignment explanation
Indices: 55138--55441 Score: 572
Period size: 154 Copynumber: 2.0 Consensus size: 150
55128 ACATTTTCCG
55138 ACATGATTTAGTTCTCATATTGCATGCAATACTTGGGGAAATCTTTTTCAAATCCTTGCAGGAGA
1 ACATGATTTAGTTCTCATATTGCATGCAATACTTGGGGAAATCTTTTTCAAATCCTTGCAGGAGA
55203 AACATTGTTGAGAAAGTGAAGAGCATTTCACCAAGGTTTCAAGATGGTCTGAAATCCTTTTCGGA
66 AACATTGTTGAGAAAGTGAAGAGCATTTCACCAAGGTTTCAAGATGGTCTGAAATCC-TTTCGGA
55268 CAGTCCTATTGTTGGAGAGGT
130 CAGTCCTATTGTTGGAGAGGT
55289 ACATGATTTAGTTCTCATATTGCATGCAATACTTGGGGAAATCTTTTTCAAATCCTTGCAGGGAG
1 ACATGATTTAGTTCTCATATTGCATGCAATACTTGGGGAAATCTTTTTCAAATCCTTGCA--G-G
55354 AGAAACATTGTTGAGAAAGTGAAGAGCATTTCACCAAGGTTTCAAGATGGTCTGAAATCCTTTCG
63 AGAAACATTGTTGAGAAAGTGAAGAGCATTTCACCAAGGTTTCAAGATGGTCTGAAATCCTTTCG
55419 GACAGTCCTATTGTTGGAGAGGT
128 GACAGTCCTATTGTTGGAGAGGT
55442 GTGTTTTGCA
Statistics
Matches: 150, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
151 60 0.40
153 29 0.19
154 61 0.41
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (150 bp):
ACATGATTTAGTTCTCATATTGCATGCAATACTTGGGGAAATCTTTTTCAAATCCTTGCAGGAGA
AACATTGTTGAGAAAGTGAAGAGCATTTCACCAAGGTTTCAAGATGGTCTGAAATCCTTTCGGAC
AGTCCTATTGTTGGAGAGGT
Found at i:64567 original size:15 final size:15
Alignment explanation
Indices: 64549--64579 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
64539 TAAAATTTAA
*
64549 ATTTTAAAAATGTAT
1 ATTTTAAAAATATAT
64564 ATTTTAAAAATATAT
1 ATTTTAAAAATATAT
64579 A
1 A
64580 AATGATTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTTTAAAAATATAT
Found at i:66055 original size:6 final size:6
Alignment explanation
Indices: 66044--66070 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
66034 ATACATACAT
66044 ACATCA ACATCA ACATCA ACATCA ACA
1 ACATCA ACATCA ACATCA ACATCA ACA
66071 ATATACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (6 bp):
ACATCA
Found at i:66558 original size:15 final size:15
Alignment explanation
Indices: 66540--66570 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66530 TAAAATTTAA
*
66540 ATTTTAAAAATGTAT
1 ATTTTAAAAATATAT
66555 ATTTTAAAAATATAT
1 ATTTTAAAAATATAT
66570 A
1 A
66571 AATGATTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTTTAAAAATATAT
Found at i:66802 original size:21 final size:21
Alignment explanation
Indices: 66776--66825 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
66766 TCCAGATTCA
66776 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
66797 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
*
66818 CAATGCGA
1 CAACGCGA
66826 TTTTCCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (21 bp):
CAACGCGAACTTCGACTATCG
Found at i:66864 original size:21 final size:21
Alignment explanation
Indices: 66838--67016 Score: 172
Period size: 21 Copynumber: 8.7 Consensus size: 21
66828 TTCCAAATTT
66838 GTTGCGATAGTCCAAGTTCGC
1 GTTGCGATAGTCCAAGTTCGC
*
66859 GTTGCGATAGTCGAAGTTCGC
1 GTTGCGATAGTCCAAGTTCGC
** *
66880 GTTGCGATTTTCCAAATT--C
1 GTTGCGATAGTCCAAGTTCGC
*
66899 GTTGCTATAGTCCAAGTTCGC
1 GTTGCGATAGTCCAAGTTCGC
* * *
66920 GTTGCGATTTATTCCAAATT--T
1 GTTGCGA--TAGTCCAAGTTCGC
* *
66941 GTTGCGATAGCCCAAGTTCGT
1 GTTGCGATAGTCCAAGTTCGC
*
66962 GTTGCGATAGTCGAAGTTCGC
1 GTTGCGATAGTCCAAGTTCGC
** *
66983 GTTGCGATTTTCCAAATT--C
1 GTTGCGATAGTCCAAGTTCGC
67002 GTTGCGATAGTCCAA
1 GTTGCGATAGTCCAA
67017 AATCGCAACG
Statistics
Matches: 127, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
19 37 0.29
21 81 0.64
23 9 0.07
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (21 bp):
GTTGCGATAGTCCAAGTTCGC
Found at i:67010 original size:61 final size:60
Alignment explanation
Indices: 66829--67017 Score: 220
Period size: 61 Copynumber: 3.1 Consensus size: 60
66819 AATGCGATTT
** * * **
66829 TCCAAATT-TGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
1 TCCAAATTCTGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATT--CGTTGCGATAG
* *
66890 TCCAAATTC-GTTGCTATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTTGTTGCGATAG
1 TCCAAATTCTGTTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAG
* * *
66951 CCCAAGTTCGTGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAG
1 TCCAAATTC-TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAG
67012 TCCAAA
1 TCCAAA
67018 ATCGCAACGA
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
61 73 0.68
62 3 0.03
63 32 0.30
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (60 bp):
TCCAAATTCTGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAG
Found at i:67012 original size:103 final size:101
Alignment explanation
Indices: 66821--67016 Score: 347
Period size: 103 Copynumber: 1.9 Consensus size: 101
66811 ACTATCGCAA
*
66821 TGCGATTTTCCAAATTTGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCG
1 TGCGATTTTCCAAATTTGTTGCGATAGCCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCG
*
66886 ATTTTCCAAATTCGTTGCTATAGTCCAAGTTCGCGT
66 ATTTTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
*
66922 TGCGATTTATTCCAAATTTGTTGCGATAGCCCAAGTTCGTGTTGCGATAGTCGAAGTTCGCGTTG
1 TGCGA-TT-TTCCAAATTTGTTGCGATAGCCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTG
66987 CGATTTTCCAAATTCGTTGCGATAGTCCAA
64 CGATTTTCCAAATTCGTTGCGATAGTCCAA
67017 AATCGCAACG
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
101 5 0.06
102 2 0.02
103 83 0.92
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (101 bp):
TGCGATTTTCCAAATTTGTTGCGATAGCCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCG
ATTTTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
Found at i:67937 original size:42 final size:42
Alignment explanation
Indices: 67870--68123 Score: 368
Period size: 42 Copynumber: 6.0 Consensus size: 42
67860 TGGACTATCA
* *
67870 CAACGCGAACTTGGAATAAATCGCAACGAACTTGGAATAAATCG
1 CAACGCGAACTTCGACT--ATCGCAACGAACTTGGAATAAATCG
* *
67914 CAACGCGAACTTCGACTGTCGCAACGAATTTGGAATAAATCG
1 CAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
*
67956 CAACGAGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
1 CAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
67998 CAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
1 CAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
* * * *
68040 CAACGCGAACTTGGACTATCGCAATGAATTTGGAATAAATCA
1 CAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
* * *
68082 CAACACGAACTTGGACTATCGCAACGAATTTGG-A-AAATCG
1 CAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
68122 CA
1 CA
68124 TTGCGATAGT
Statistics
Matches: 195, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 7 0.04
41 1 0.01
42 172 0.88
44 15 0.08
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (42 bp):
CAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
Found at i:68202 original size:19 final size:19
Alignment explanation
Indices: 68178--68214 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68168 CGATACCGGA
*
68178 GATCGCGTTGCGAATTATC
1 GATCGCATTGCGAATTATC
*
68197 GATCGCATTGCGATTTAT
1 GATCGCATTGCGAATTAT
68215 TTGGTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (19 bp):
GATCGCATTGCGAATTATC
Found at i:69288 original size:14 final size:15
Alignment explanation
Indices: 69255--69291 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
69245 AATTGGATAG
*
69255 AAAATAAATTTAATT
1 AAAAAAAATTTAATT
69270 AAAAAAAATTTAA-T
1 AAAAAAAATTTAATT
69284 AAAAAAAA
1 AAAAAAAA
69292 CTTCCTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAAAAATTTAATT
Found at i:69898 original size:26 final size:26
Alignment explanation
Indices: 69860--69909 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
69850 TTGAACCTCT
**
69860 TATTAAAGTAATAATTGATTTTATTA
1 TATTAAAAAAATAATTGATTTTATTA
*
69886 TATTAAAAAAATAGTTGATTTTAT
1 TATTAAAAAAATAATTGATTTTAT
69910 CATTATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (26 bp):
TATTAAAAAAATAATTGATTTTATTA
Found at i:71619 original size:18 final size:18
Alignment explanation
Indices: 71596--71640 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
71586 TGCATTCCCA
*
71596 GTAATCTTATTCCCGCCG
1 GTAATCTTATTCCCACCG
*
71614 GTAATCCTATTCCCACCG
1 GTAATCTTATTCCCACCG
71632 GTAATCTTA
1 GTAATCTTA
71641 CATTCCGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.33
Consensus pattern (18 bp):
GTAATCTTATTCCCACCG
Found at i:72054 original size:19 final size:19
Alignment explanation
Indices: 72027--72063 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
72017 TCTTCTTTTT
72027 TGTGCTTCTTTCAATGATC
1 TGTGCTTCTTTCAATGATC
*
72046 TGTGTTTCTTTCAATGAT
1 TGTGCTTCTTTCAATGAT
72064 TTAATGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (19 bp):
TGTGCTTCTTTCAATGATC
Found at i:79480 original size:10 final size:10
Alignment explanation
Indices: 79467--79512 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
79457 GTCGGGTCAG
*
79467 ACCGGTTCGA
1 ACCGGTTCAA
79477 ACCGG-TCAA
1 ACCGGTTCAA
*
79486 ACCGGTTAAAA
1 ACCGGTT-CAA
79497 ACCGG-TCAA
1 ACCGGTTCAA
79506 ACCGGTT
1 ACCGGTT
79513 TTCCAGCAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 15 0.50
10 8 0.27
11 7 0.23
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.17
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:89731 original size:28 final size:28
Alignment explanation
Indices: 89699--89752 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
89689 ATAAGAATTC
89699 TATTACTATCAATAAATTATTTTCATTT
1 TATTACTATCAATAAATTATTTTCATTT
* *
89727 TATTACTATTAGTAAATTATTTTCAT
1 TATTACTATCAATAAATTATTTTCAT
89753 GACTAACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (28 bp):
TATTACTATCAATAAATTATTTTCATTT
Found at i:94026 original size:20 final size:21
Alignment explanation
Indices: 94001--94052 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
93991 TTTTCCCAAT
*
94001 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
94021 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
94042 TCGCAATGCGA
1 TCGCAATGCGA
94053 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:94066 original size:20 final size:20
Alignment explanation
Indices: 94041--94175 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
94031 AATTGGGAAA
94041 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
94061 ATCGCAATGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
94081 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
94102 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * * *
94122 TTCACAATGTGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
94142 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
94162 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
94176 TTTCAAAGCG
Statistics
Matches: 89, Mismatches: 21, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
19 4 0.04
20 59 0.66
21 24 0.27
22 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:94085 original size:61 final size:61
Alignment explanation
Indices: 94038--94169 Score: 174
Period size: 61 Copynumber: 2.2 Consensus size: 61
94028 GCGAATTGGG
* * * * *
94038 AAAATCGCAATGCGATACTGACTATCGCAATGAGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCACAATGAGATACTGACTATCGCAACGCGATAATAC
* * * *
94099 AAAATCGCAACGAGATACTGACTTTCACAATGTGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCACAATGAGATACTGACTATCGCAACGCGATAATAC
*
94160 ATAATCGCAA
1 AAAATCGCAA
94170 TGCGATTTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCACAATGAGATACTGACTATCGCAACGCGATAATAC
Found at i:94371 original size:22 final size:22
Alignment explanation
Indices: 94343--94386 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
94333 CACTCTCTCA
94343 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
94365 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
94387 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:94688 original size:20 final size:20
Alignment explanation
Indices: 94649--94707 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
94639 GCGATTCTCT
**
94649 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
94669 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* * **
94689 TGTTGTGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
94708 AGAAACTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:94898 original size:25 final size:24
Alignment explanation
Indices: 94844--94898 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
94834 TGTTTATTAT
* *
94844 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
94868 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
94894 TGTTT
1 TGTTT
94899 AATGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:96048 original size:18 final size:18
Alignment explanation
Indices: 96027--96071 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
96017 TCCACTTCGG
*
96027 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
96045 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
96063 GAGCCATCA
1 GAGCCATCA
96072 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:96578 original size:20 final size:20
Alignment explanation
Indices: 96553--96598 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
96543 TAGTTTACTT
*
96553 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
96573 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
96593 TCGCAA
1 TCGCAA
96599 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:96607 original size:19 final size:20
Alignment explanation
Indices: 96564--96619 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
96554 CGCAACATGA
96564 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
96584 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
96603 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
96620 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:96646 original size:19 final size:19
Alignment explanation
Indices: 96592--96688 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
96582 GGAAATGGCT
96592 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
96611 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
96625 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
96644 ATCGCAAT--G--A-CAAA
1 ATCGCAATGCGAAATGAAA
96658 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
96677 GTCGCAATGCGA
1 ATCGCAATGCGA
96689 TTTGTGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 21 0.33
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.51
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:96665 original size:14 final size:14
Alignment explanation
Indices: 96608--96666 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
96598 ATGCGAAATG
*
96608 AAAATCGCAACGAC
1 AAAATCGCAATGAC
*
96622 AAAATCGCAATGCGAAATG
1 AAAATCGCAAT--G--A-C
96641 AAAATCGCAATGAC
1 AAAATCGCAATGAC
96655 AAAATCGCAATG
1 AAAATCGCAATG
96667 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.30
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.14
Consensus pattern (14 bp):
AAAATCGCAATGAC
Found at i:96684 original size:33 final size:33
Alignment explanation
Indices: 96592--96685 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
96582 GGAAATGGCT
*
96592 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
96625 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
*
96658 ATCGCAATGCGAAATGAAAGTCGCAATG
1 ATCGCAATGCGAAATGAAAATCGCAATG
96686 CGATTTGTGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAATGACAAA
Found at i:96719 original size:14 final size:14
Alignment explanation
Indices: 96700--96789 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 14
96690 TTGTGTTTCG
96700 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
96714 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
96730 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
96746 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
*
96763 CACATTGCGATTTTGT
1 --CGTTGCGATTTTGT
96779 CGTTGCGATTT
1 CGTTGCGATTT
96790 GCATTTCGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 27 0.44
15 3 0.05
16 10 0.16
17 2 0.03
18 12 0.20
19 7 0.11
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:96769 original size:33 final size:33
Alignment explanation
Indices: 96695--96806 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
96685 GCGATTTGTG
*
96695 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
96727 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
* *
96760 TTTCACATTGCGATTTTGTCGTTGCGATTTGCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
96793 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
96807 AGCCATTTCC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 26 0.35
33 49 0.65
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:96805 original size:19 final size:18
Alignment explanation
Indices: 96716--96848 Score: 84
Period size: 20 Copynumber: 7.5 Consensus size: 18
96706 GATTTTGTCG
96716 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
*
96734 TTGCGATTT--TGTCG--
1 TTGCGATTTCATTTCGCA
*
96748 TTGCGATTTTCATTTCACA
1 TTGCGA-TTTCATTTCGCA
*
96767 TTGCGATTT--TGTCG--
1 TTGCGATTTCATTTCGCA
96781 TTGCGATTTGCATTTCGCA
1 TTGCGATTT-CATTTCGCA
** *
96800 TTGCGATAGCCATTTCCGCG
1 TTGCGAT-TTCATTT-CGCA
* *
96820 TTGCGATAGTCATTTTCGCG
1 TTGCGAT-TTCA-TTTCGCA
96840 TTGCGATTT
1 TTGCGATTT
96849 TAAGTTTCGT
Statistics
Matches: 91, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 15 0.16
15 3 0.03
16 7 0.08
17 7 0.08
18 12 0.13
19 19 0.21
20 25 0.27
21 3 0.03
ACGTcount: A:0.14, C:0.20, G:0.22, T:0.44
Consensus pattern (18 bp):
TTGCGATTTCATTTCGCA
Found at i:97308 original size:41 final size:41
Alignment explanation
Indices: 97212--97299 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
97202 GACTCACCTG
* * * *
97212 TCATCCCTTAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
97254 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
97295 TCATC
1 TCATC
97300 GTTGAAGAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 22 0.56
42 17 0.44
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.22
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:98735 original size:14 final size:14
Alignment explanation
Indices: 98701--98739 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
98691 TTGATTGTTT
98701 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
98715 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
98729 TGTTGATTTGT
1 AATTGATTTGT
98740 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:98900 original size:19 final size:19
Alignment explanation
Indices: 98876--98943 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
98866 ATCGCAACGA
98876 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
98895 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
98914 GAAAATTGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
98928 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
98944 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 29 0.66
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:98987 original size:20 final size:20
Alignment explanation
Indices: 98962--99017 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
98952 TCGCATTGCG
*
98962 ATTTTCTCATTGCGATAGCC
1 ATTTTCGCATTGCGATAGCC
*
98982 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCATTGCGATAGCC
* *
99002 ATTTTTGCGTTGCGAT
1 ATTTTCGCATTGCGAT
99018 TTCCCCGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
ATTTTCGCATTGCGATAGCC
Found at i:99256 original size:20 final size:20
Alignment explanation
Indices: 99230--99280 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
99220 TTTGAAGATG
99230 ATTGCGATTTTCAGAATCTC
1 ATTGCGATTTTCAGAATCTC
* ***
99250 GTTGCGAAAGTCAGAATCTC
1 ATTGCGATTTTCAGAATCTC
99270 ATTGCGATTTT
1 ATTGCGATTTT
99281 GTATTATCTC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (20 bp):
ATTGCGATTTTCAGAATCTC
Found at i:100955 original size:19 final size:19
Alignment explanation
Indices: 100933--101063 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
100923 GAAAATTACT
100933 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
100952 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
100966 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
100985 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
100999 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
101018 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
101032 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
101051 ATCACAACGCGAA
1 ATCGCAATGCGAA
101064 TTTAATTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 28 0.33
15 5 0.06
16 4 0.05
17 4 0.05
18 5 0.06
19 39 0.46
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:100975 original size:33 final size:33
Alignment explanation
Indices: 100933--101059 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
100923 GAAAATTACT
100933 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
100966 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
100998 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
101032 ATCGCAATGCGAAATGAAAATCACAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
101060 CGAATTTAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
32 1 0.01
33 84 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:101040 original size:66 final size:66
Alignment explanation
Indices: 100934--101066 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
100924 AAAATTACTA
*
100934 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACGCGAAT
100999 T
66 T
*
101000 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCACAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACGCGAAT
101065 T
66 T
101066 T
1 T
101067 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACGCGAAT
T
Found at i:101091 original size:14 final size:14
Alignment explanation
Indices: 101074--101130 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
101064 TTTAATTTCG
101074 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
101088 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
101107 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
101121 CGTTGCGATT
1 CGTTGCGATT
101131 TTCATTTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:101110 original size:33 final size:33
Alignment explanation
Indices: 101059--101148 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
101049 AAATCACAAC
* *
101059 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
101092 GCGATTTTCATTTCGCGTTGTGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
* *
101125 GCGATTTTCATTTCACATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
101149 AGTACTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.44
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:101274 original size:14 final size:14
Alignment explanation
Indices: 101255--101291 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
101245 CATCAATTAA
101255 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
101269 ACAAATCACCTTTT
1 ACAAATCAACTTTT
101283 ACAAATCAA
1 ACAAATCAA
101292 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:102732 original size:42 final size:42
Alignment explanation
Indices: 102686--102765 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
102676 CGATGACAAT
* * *
102686 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
102728 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
102766 CATGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:103162 original size:91 final size:90
Alignment explanation
Indices: 102987--103171 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
102977 ATTTCAAACT
* *
102987 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
103052 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
103080 TTCAACCAAAAGAAAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGAAAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
103144 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
103171 T
1 T
103172 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 42 0.48
93 18 0.21
95 27 0.31
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:104889 original size:20 final size:19
Alignment explanation
Indices: 104858--104979 Score: 93
Period size: 20 Copynumber: 6.8 Consensus size: 19
104848 TCTTTTGGTT
104858 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* * *
104877 GATAATGAGAATCACAACGCG
1 GA-AATGAAAATCGCAACG-A
**
104898 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
104917 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
104931 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
104950 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
104964 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
104980 TGTGATTTTG
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
14 21 0.26
16 4 0.05
17 4 0.05
19 22 0.28
20 27 0.34
21 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:104902 original size:40 final size:36
Alignment explanation
Indices: 104858--104979 Score: 130
Period size: 33 Copynumber: 3.4 Consensus size: 36
104848 TCTTTTGGTT
104858 GAAATGAAAATCGCAACGAGATAATGAGAATCACAACGC
1 GAAATGAAAATCGCAACGAG--AA-GAGAATCACAACGC
** *
104897 GGAAATGACTATCGCAAC--G-AGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAAGAGAATCACAACGC
*
104931 GAAATGAAAATCGCAAC--G-AGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAAGAGAATCACAACGC
104964 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
104980 TGTGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
33 47 0.61
34 13 0.17
35 1 0.01
38 1 0.01
40 15 0.19
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (36 bp):
GAAATGAAAATCGCAACGAGAAGAGAATCACAACGC
Found at i:104926 original size:14 final size:14
Alignment explanation
Indices: 104907--104962 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
104897 GGAAATGACT
104907 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
104921 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
104940 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
104954 ATCGCAACG
1 ATCGCAACG
104963 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:104944 original size:33 final size:33
Alignment explanation
Indices: 104883--104979 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
104873 ACGAGATAAT
* **
104883 GAGAATCACAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
104917 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
104950 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
104980 TGTGATTTTG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 47 0.78
34 13 0.22
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:105013 original size:19 final size:19
Alignment explanation
Indices: 104980--105024 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
104970 AAAATCGCAA
*
104980 TGTGATTTTGGTTTCGCGT
1 TGTGATTTTGATTTCGCGT
*
104999 TGTGATTTTTATTTCGCGT
1 TGTGATTTTGATTTCGCGT
*
105018 TGCGATT
1 TGTGATT
105025 CTCTCGTTGC
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:0.09, C:0.11, G:0.27, T:0.53
Consensus pattern (19 bp):
TGTGATTTTGATTTCGCGT
Found at i:105621 original size:20 final size:21
Alignment explanation
Indices: 105598--105651 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
105588 CGATAGTAAG
* *
105598 ATTCGCATTGTGATTTACGT-
1 ATTCGCATTGCGATTTACCTA
* *
105618 ATTCGCGTTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACCTA
105639 ATTCGCATTGCGA
1 ATTCGCATTGCGA
105652 ATTATGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACCTA
Found at i:105665 original size:21 final size:21
Alignment explanation
Indices: 105641--105713 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
105631 TTTTCCTAAT
* *
105641 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
105662 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
105682 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
105703 TTGCATTGCGA
1 TCGCAATGCGA
105714 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:105752 original size:21 final size:21
Alignment explanation
Indices: 105726--105778 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
105716 GTCAGTATCG
105726 CATTGCGATTTTCCAAATTCA
1 CATTGCGATTTTCCAAATTCA
*
105747 CATTGCGATTTTCCAAATTCG
1 CATTGCGATTTTCCAAATTCA
105768 CATTGCGATTT
1 CATTGCGATTT
105779 ACTTATTCGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.40
Consensus pattern (21 bp):
CATTGCGATTTTCCAAATTCA
Found at i:105837 original size:21 final size:22
Alignment explanation
Indices: 105785--105837 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
105775 ATTTACTTAT
105785 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
105806 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
105827 TCGCATTGCGA
1 TCGCATTGCGA
105838 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:107270 original size:20 final size:21
Alignment explanation
Indices: 107233--107271 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
107223 TGCAGAGATT
*
107233 TCATCCCCAAATGGCTAGAAA
1 TCATCCCCAAACGGCTAGAAA
107254 TCATCCCC-AACGGCTAGA
1 TCATCCCCAAACGGCTAGA
107272 TACATCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.18
Consensus pattern (21 bp):
TCATCCCCAAACGGCTAGAAA
Found at i:107283 original size:19 final size:20
Alignment explanation
Indices: 107245--107283 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
107235 ATCCCCAAAT
*
107245 GGCTAGAAATCATCCCCAAC
1 GGCTAGAAATCATCCACAAC
*
107265 GGCTAGATA-CATCCACAAC
1 GGCTAGAAATCATCCACAAC
107284 TTTATTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (20 bp):
GGCTAGAAATCATCCACAAC
Found at i:112395 original size:42 final size:41
Alignment explanation
Indices: 112326--112474 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 41
112316 ACATACTCAA
* * *
112326 TAGCGGCGTTTGGGTGAAAATGTCACTATATATCAAGACTAT
1 TAGCGGCGTTT-GGTAAAAACGCCACTATATATCAAGACTAT
*
112368 TAGCGGTGTTTAGGTAAAAACGCCACTATATATCATA-ACTATTT
1 TAGCGGCGTTT-GGTAAAAACGCCACTATATATCA-AGACTA--T
* * * *
112412 TAGCGGCGTTTGTATGAAAAACGCCACTGTATATCATGACTTT
1 TAGCGGCGTTTG-GT-AAAAACGCCACTATATATCAAGACTAT
*
112455 TAGCGACGTTTGTGTAAAAA
1 TAGCGGCGTTTG-GTAAAAA
112475 ATGTCGTAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
42 39 0.44
43 16 0.18
44 12 0.13
45 22 0.25
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (41 bp):
TAGCGGCGTTTGGTAAAAACGCCACTATATATCAAGACTAT
Found at i:112445 original size:45 final size:43
Alignment explanation
Indices: 112383--112467 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 43
112373 GTGTTTAGGT
*
112383 AAAAACGCCACTATATATCATAACTATTTTAGCGGCGTTTGTATG
1 AAAAACGCCACTATATATCATAAC--TTTTAGCGACGTTTGTATG
* *
112428 AAAAACGCCACTGTATATCATGACTTTTAGCGACGTTTGT
1 AAAAACGCCACTATATATCATAACTTTTAGCGACGTTTGT
112468 GTAAAAAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 15 0.41
45 22 0.59
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (43 bp):
AAAAACGCCACTATATATCATAACTTTTAGCGACGTTTGTATG
Found at i:114533 original size:42 final size:42
Alignment explanation
Indices: 114469--114549 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
114459 TTCAATTCAA
* * *
114469 TAGTGATAAAAATTATTGTCGTCACAAATCACCAACTAAAAC
1 TAGTGACAAAAATAATTATCGTCACAAATCACCAACTAAAAC
114511 TAGTGACAAAAATAATTATCGTCACAAATCACCAACTAA
1 TAGTGACAAAAATAATTATCGTCACAAATCACCAACTAA
114550 GGATAGTGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.25
Consensus pattern (42 bp):
TAGTGACAAAAATAATTATCGTCACAAATCACCAACTAAAAC
Found at i:114557 original size:42 final size:41
Alignment explanation
Indices: 114467--114563 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 41
114457 TATTCAATTC
* * *
114467 AATAGTGATAAAAATTATTGTCGTCACAAATCACCAACTAA
1 AATAGTGACAAAAATAATTATCGTCACAAATCACCAACTAA
114508 AACTAGTGACAAAAATAATTATCGTCACAAATCACCAACTAA
1 AA-TAGTGACAAAAATAATTATCGTCACAAATCACCAACTAA
* *
114550 GGATAGTGAGAAAA
1 -AATAGTGACAAAA
114564 TGTTTTCATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.04
42 46 0.94
43 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.23
Consensus pattern (41 bp):
AATAGTGACAAAAATAATTATCGTCACAAATCACCAACTAA
Found at i:115072 original size:45 final size:45
Alignment explanation
Indices: 114805--115105 Score: 243
Period size: 45 Copynumber: 6.7 Consensus size: 45
114795 AATTACTCAT
* *
114805 TTAATTTC-TTTTGATTATTGTGTTGCCAAAAGTAAAATCAAATTA
1 TTAA-TTCATTTTGATTATTGTGTTGCTAAAAGTAAAATCAAATGA
* * * * *
114850 TTAATTTC-TTTTAATCATTGAGTTACTAAAAGTAAAGTCAAATGA
1 TTAA-TTCATTTTGATTATTGTGTTGCTAAAAGTAAAATCAAATGA
* * * *
114895 TTAGTTCATTTTAATTATTGTGTTGCTCAAAGTAAAATCAAATTA
1 TTAATTCATTTTGATTATTGTGTTGCTAAAAGTAAAATCAAATGA
* * * * *
114940 TTAGTTCCTTTTAATTATTAG-GTTGTTAAAA-TCAAAACCAAATGA
1 TTAATTCATTTTGATTATT-GTGTTGCTAAAAGT-AAAATCAAATGA
* ** * *
114985 TTAATTCATTTTGATTA-GGTGGTTGCGGAAATTAAAATCAAAGGA
1 TTAATTCATTTTGATTATTGT-GTTGCTAAAAGTAAAATCAAATGA
*** * *
115030 TTAATTCATTTTGATTATTGTGTTAAGAAAATTAAAATCAAAGGA
1 TTAATTCATTTTGATTATTGTGTTGCTAAAAGTAAAATCAAATGA
* * * * *
115075 TTAGTTCCTTTTGATTGTTGAGTTACTAAAA
1 TTAATTCATTTTGATTATTGTGTTGCTAAAA
115106 TCAAAGGATT
Statistics
Matches: 211, Mismatches: 38, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
43 1 0.00
44 4 0.02
45 202 0.96
46 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (45 bp):
TTAATTCATTTTGATTATTGTGTTGCTAAAAGTAAAATCAAATGA
Found at i:115409 original size:58 final size:58
Alignment explanation
Indices: 115288--115445 Score: 151
Period size: 58 Copynumber: 2.7 Consensus size: 58
115278 CTGTTTAAGA
* * * *** *
115288 AAAATAAATCGTTAAATTTATTTTCCCGAGAATCTTAAATGATTATATTTATTACAAG
1 AAAATAAATTGTAAAATTTATATTATAGAGAATCTTAAATGATTATATTTATTAAAAG
* *
115346 AAAATAAATT-TAACAATTTATTTTATAGAGAATCTTAAATGATTCTATTT-TATAAAATG
1 AAAATAAATTGTAA-AATTTATATTATAGAGAATCTTAAATGATTATATTTAT-TAAAA-G
* * * *
115405 -AAATAAATTGTTAAATTTATATTCTTGAGAATCTTGAATGA
1 AAAATAAATTGTAAAATTTATATTATAGAGAATCTTAAATGA
115446 ATCAATAAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
57 3 0.04
58 78 0.93
59 3 0.04
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (58 bp):
AAAATAAATTGTAAAATTTATATTATAGAGAATCTTAAATGATTATATTTATTAAAAG
Found at i:115679 original size:111 final size:111
Alignment explanation
Indices: 115477--115679 Score: 252
Period size: 111 Copynumber: 1.8 Consensus size: 111
115467 ATTTTCTTAG
** *
115477 GAATCTTGAATGATTCTATCTTATAAAAGAAAATTAATCGATGAATTTATTTTCCTATGAATCTT
1 GAATCTTGAATGATTCTATCTTATAAAAGAAAACAAATCGATGAATTTATTTTCCTATAAATCTT
*
115542 ATATGAGTTTGGTTTGTAAAAGGAAATAAATCGTCAAATTTATTAA
66 ATATGAGTTTGGTTTGTAAAAAGAAATAAATCGTCAAATTTATTAA
* * * * *
115588 GAATTTTGAATGATTCTATTTTGTAAAAGGAAACAAATC-ATTGCATTTATTTT-CTGA-AATAT
1 GAATCTTGAATGATTCTATCTTATAAAAGAAAACAAATCGA-TGAATTTATTTTCCT-ATAA-AT
*
115650 CTTATATGA-TTCTGTTTTGTAAAAAGAAAT
63 CTTATATGAGTT-TGGTTTGTAAAAAGAAAT
115680 GAATTGTCTT
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
110 6 0.08
111 72 0.92
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (111 bp):
GAATCTTGAATGATTCTATCTTATAAAAGAAAACAAATCGATGAATTTATTTTCCTATAAATCTT
ATATGAGTTTGGTTTGTAAAAAGAAATAAATCGTCAAATTTATTAA
Found at i:116525 original size:39 final size:39
Alignment explanation
Indices: 116471--116556 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
116461 ATCTTGTGTA
116471 TGAATCAATGAACTCTGAGATTCACAAGAACACGATAAT
1 TGAATCAATGAACTCTGAGATTCACAAGAACACGATAAT
116510 TGAATCAATGAACTCTGAGATTCACAAGAACACGATAAT
1 TGAATCAATGAACTCTGAGATTCACAAGAACACGATAAT
*
116549 AGAATCAA
1 TGAATCAA
116557 AGAATGCTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.22
Consensus pattern (39 bp):
TGAATCAATGAACTCTGAGATTCACAAGAACACGATAAT
Found at i:126540 original size:21 final size:21
Alignment explanation
Indices: 126514--126556 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
126504 TATATTATAA
* *
126514 TTAAATATTTAAAGTATTTTT
1 TTAAATATTTAAAATAATTTT
*
126535 TTAAATTTTTAAAATAATTTT
1 TTAAATATTTAAAATAATTTT
126556 T
1 T
126557 GTCAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTAAATATTTAAAATAATTTT
Done.