Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004214.1 Hibiscus syriacus cultivar Beakdansim tig00009230_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: 290190
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:341 original size:20 final size:20
Alignment explanation
Indices: 316--354 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
306 TTCAAGTGAG
316 ATTATTAGTTGTCATGCAAA
1 ATTATTAGTTGTCATGCAAA
336 ATTATTAGTTGTCATGCAA
1 ATTATTAGTTGTCATGCAA
355 CTAATAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTATTAGTTGTCATGCAAA
Found at i:380 original size:21 final size:20
Alignment explanation
Indices: 356--397 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
346 GTCATGCAAC
*
356 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
377 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
397 T
1 T
398 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:7498 original size:5 final size:5
Alignment explanation
Indices: 7488--7590 Score: 206
Period size: 5 Copynumber: 20.6 Consensus size: 5
7478 AGACTAAATC
7488 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
7538 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
7588 TTA
1 TTA
7591 AACACCATAA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 98 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:8114 original size:2 final size:2
Alignment explanation
Indices: 8107--8133 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8097 AAGCTTAGAG
8107 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8134 CAAATTAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9390 original size:11 final size:11
Alignment explanation
Indices: 9376--9412 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
9366 TTTAAAAATT
9376 AAAAAAAATAA
1 AAAAAAAATAA
9387 AAAAAAAATAA
1 AAAAAAAATAA
*
9398 AAAAATAATGAA
1 AAAAAAAAT-AA
9410 AAA
1 AAA
9413 TATATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:9411 original size:12 final size:10
Alignment explanation
Indices: 9369--9412 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
9359 AAATTATTTT
*
9369 AAAAATTAAA
1 AAAAATAAAA
9379 AAAAATAAAAA
1 AAAAAT-AAAA
9390 AAAAATAAAA
1 AAAAATAAAA
9400 AAATAATGAAAA
1 AAA-AAT-AAAA
9412 A
1 A
9413 TATATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 13 0.43
11 12 0.40
12 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:10259 original size:2 final size:2
Alignment explanation
Indices: 10254--10278 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10244 AAATAAAAAT
10254 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10279 TAAAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12620 original size:21 final size:22
Alignment explanation
Indices: 12584--12624 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
12574 AATCATTAAA
*
12584 ATAATTGAATTTAAATTATTCG
1 ATAATTGAAATTAAATTATTCG
12606 ATAATT-AAATTAAATTATT
1 ATAATTGAAATTAAATTATT
12625 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
ATAATTGAAATTAAATTATTCG
Found at i:12665 original size:3 final size:3
Alignment explanation
Indices: 12657--12686 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12647 TTTGTTCTCT
12657 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12687 ACTGCAACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16188 original size:65 final size:65
Alignment explanation
Indices: 16058--16187 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
16048 AGTTGAACCC
16058 TGTATATCAGGGCCAAAGAGGTTTGTCTTTTCTGCCATTTTTTGTCTGGCAATTGGCTTCATTTT
1 TGTATATCAGGGCCAAAGAGGTTTGTCTTTTCTGCCATTTTTTGTCTGGCAATTGGCTTCATTTT
*
16123 TGTATATCAGGGCCAAAGAGGTTTGTCTTTTCTGCCA-TTTTTGTCTGGCAATTGGCTTCTTTTT
1 TGTATATCAGGGCCAAAGAGGTTTGTCTTTTCTGCCATTTTTTGTCTGGCAATTGGCTTCATTTT
16187 T
1 T
16188 TAATTTTAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 27 0.42
65 37 0.58
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (65 bp):
TGTATATCAGGGCCAAAGAGGTTTGTCTTTTCTGCCATTTTTTGTCTGGCAATTGGCTTCATTTT
Found at i:21178 original size:14 final size:14
Alignment explanation
Indices: 21161--21203 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
21151 ATTAATATAT
21161 ATATATTATCTTAA
1 ATATATTATCTTAA
*
21175 ATATATT-TTTTAAA
1 ATATATTATCTT-AA
*
21189 ATATATTAACTTAA
1 ATATATTATCTTAA
21203 A
1 A
21204 AAATACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.12
14 19 0.79
15 2 0.08
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTATCTTAA
Found at i:27256 original size:15 final size:15
Alignment explanation
Indices: 27236--27267 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27226 AACAAGGTTT
27236 CCTAGCATTGAGCAG
1 CCTAGCATTGAGCAG
27251 CCTAGCATTGAGCAG
1 CCTAGCATTGAGCAG
27266 CC
1 CC
27268 AGGAGAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (15 bp):
CCTAGCATTGAGCAG
Found at i:33890 original size:24 final size:24
Alignment explanation
Indices: 33863--33946 Score: 57
Period size: 24 Copynumber: 3.4 Consensus size: 24
33853 CAAAGCTGGG
*
33863 CTCATACTTTGAATTTCCATGAAT
1 CTCATAATTTGAATTTCCATGAAT
* * *
33887 CTCAAAAATTT-AA-TTCAAT-ATT
1 CTC-ATAATTTGAATTTCCATGAAT
*
33909 CGGCTCATAGTTTGAATTTCCATGAAT
1 ---CTCATAATTTGAATTTCCATGAAT
33936 CTCATATATTT
1 CTCATA-ATTT
33947 TTTTCTAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 15
0.64 0.13 0.22
Matches are distributed among these distances:
22 2 0.05
23 5 0.12
24 16 0.37
25 13 0.30
26 5 0.12
27 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (24 bp):
CTCATAATTTGAATTTCCATGAAT
Found at i:36036 original size:22 final size:23
Alignment explanation
Indices: 36006--36062 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
35996 GAATAAGTTT
* *
36006 GTTTTTTGTGTTTGTGT-TGTTC
1 GTTTATTGTGTTAGTGTATGTTC
*
36028 GTTTATTGTGTTAGTTTATGTTC
1 GTTTATTGTGTTAGTGTATGTTC
* *
36051 ATTTATTATGTT
1 GTTTATTGTGTT
36063 CGTTCGTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.11, C:0.04, G:0.21, T:0.65
Consensus pattern (23 bp):
GTTTATTGTGTTAGTGTATGTTC
Found at i:36079 original size:10 final size:10
Alignment explanation
Indices: 36064--36093 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
36054 TATTATGTTC
*
36064 GTTCGTTTGT
1 GTTCGTTTAT
36074 GTTCGTTTAT
1 GTTCGTTTAT
36084 GTTCGTTTAT
1 GTTCGTTTAT
36094 CATTTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.23, T:0.60
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:42018 original size:42 final size:42
Alignment explanation
Indices: 41959--42046 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
41949 AAACCTGTCC
* *
41959 CCGTCCCCGTCCTCGTTTAACATAAAC-AGTTTTTCCCCGTCT
1 CCGTCCCCATCCCCGTTTAACATAAACGA-TTTTTCCCCGTCT
*
42001 CCGTCCCCATCCCCGTTTAGCATAAACGATTTTTCCCCGTCT
1 CCGTCCCCATCCCCGTTTAACATAAACGATTTTTCCCCGTCT
42043 CCGT
1 CCGT
42047 TTAATTCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.16, C:0.40, G:0.12, T:0.32
Consensus pattern (42 bp):
CCGTCCCCATCCCCGTTTAACATAAACGATTTTTCCCCGTCT
Found at i:42136 original size:21 final size:21
Alignment explanation
Indices: 42110--42150 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
42100 CCATGAACAG
42110 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
42131 TGCTACAGTGCATCGATGCA
1 TGCTACAGTGCATCGATGCA
42151 CTAAAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:48122 original size:55 final size:55
Alignment explanation
Indices: 48056--48254 Score: 224
Period size: 55 Copynumber: 3.6 Consensus size: 55
48046 AATGACGAGC
* * *
48056 CTGCTCCCTATTCCTTAAG-GAAGTATAAGACTCGAACAATCTTCATAAAACGTGT
1 CTGCTCTCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTCATAAAACGGGT
* * *
48111 CTGCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGT
1 CTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATC-TTCATAAAACGGGT
* * *
48167 CCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAAAATCTTCA-ATAAACAGGT
1 CTGCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCATA-AAACGGGT
* * * *
48222 CCGCTCCCTATTCATTCAGAGAGTATAGGACTC
1 CTGCTCTCTATTCCTTCAGAGAGTATAAGACTC
48255 AATCTTCAAC
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
54 1 0.01
55 75 0.60
56 48 0.39
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (55 bp):
CTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAACGGGT
Found at i:48185 original size:56 final size:56
Alignment explanation
Indices: 48058--48611 Score: 250
Period size: 51 Copynumber: 10.6 Consensus size: 56
48048 TGACGAGCCT
* * * * *
48058 GCTCCCTATTCCTTAAG-GAAGTATAAGACTCGAACAATC-TTCATAAAACGTGTCT
1 GCTCCCTATTCATTCAGAG-AGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* *
48113 GCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * * * *
48169 GCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAAAAATCTTCAAT-AAACAGGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAG-ACTCGAACAATCTTTAATAAAACGGGTCC
* * ** **
48224 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * * ** **
48275 GCTCCCTATTCATTCAGAGAGTACAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * * ** **
48326 GCTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * * * ** **
48377 ACTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * * ** **
48428 GCTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * * ** **
48479 GCTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* * * ** **
48530 GCTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTCAA-CGAACTTGTCC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
* *
48581 GCTCCCTATTCTTTCAGAGAGTATAGGACTC
1 GCTCCCTATTCATTCAGAGAGTATAAGACTC
48612 ATTCTTCAAC
Statistics
Matches: 469, Mismatches: 24, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
51 347 0.74
55 69 0.15
56 53 0.11
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (56 bp):
GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGTCC
Found at i:48280 original size:51 final size:51
Alignment explanation
Indices: 48165--48626 Score: 780
Period size: 51 Copynumber: 9.0 Consensus size: 51
48155 AATAAAACGG
* * * ** **
48165 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAG
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTC----AATCTTCAACGAACTT
*
48220 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
* *
48271 GTCCGCTCCCTATTCATTCAGAGAGTACAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
48322 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
48373 GTCCACTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
48424 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
48475 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
48526 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
48577 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCATTCTTCAACGAACT
1 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACT
48627 AATTTGCTTC
Statistics
Matches: 394, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
51 362 0.92
55 32 0.08
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (51 bp):
GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
Found at i:49963 original size:9 final size:8
Alignment explanation
Indices: 49945--50022 Score: 61
Period size: 8 Copynumber: 9.6 Consensus size: 8
49935 CCTCCTTTTA
49945 TTTTTCTT
1 TTTTTCTT
49953 TTTTTCATT
1 TTTTTC-TT
*
49962 TTTCTCTT
1 TTTTTCTT
*
49970 TTTAT-TT
1 TTTTTCTT
* *
49977 TTTTCCAT
1 TTTTTCTT
*
49985 TTTTTCTC
1 TTTTTCTT
*
49993 TTCTT-TT
1 TTTTTCTT
50000 TTTTTCTTT
1 TTTTTC-TT
50009 TTTTTCGTT
1 TTTTTC-TT
50018 TTTTT
1 TTTTT
50023 TTTCGTTTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
7 10 0.19
8 22 0.41
9 22 0.41
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:49977 original size:23 final size:22
Alignment explanation
Indices: 49945--50025 Score: 90
Period size: 22 Copynumber: 3.5 Consensus size: 22
49935 CCTCCTTTTA
49945 TTTTTCTTTTTTTCATTTTTCTC
1 TTTTT-TTTTTTTCATTTTTCTC
49968 TTTTTATTTTTTTCCATTTTTTCTC
1 TTTTT-TTTTTTT-CA-TTTTTCTC
* * *
49993 TTCTTTTTTTTTCTTTTTTTTC
1 TTTTTTTTTTTTCATTTTTCTC
*
50015 GTTTTTTTTTT
1 TTTTTTTTTTT
50026 CGTTTTTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 16 0.32
23 13 0.26
24 9 0.18
25 12 0.24
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.81
Consensus pattern (22 bp):
TTTTTTTTTTTTCATTTTTCTC
Found at i:49978 original size:24 final size:22
Alignment explanation
Indices: 49940--50034 Score: 86
Period size: 23 Copynumber: 4.2 Consensus size: 22
49930 TGAACCCTCC
* *
49940 TTTTATTTTTCTTTTTTTCATT
1 TTTTCTTTTTTTTTTTTTCATT
*
49962 TTTCTCTTTTTATTTTTTTCCATT
1 TTT-TCTTTTT-TTTTTTTTCATT
*
49986 TTTTCTCTTCTTTTTTTTTC-TT
1 TTTTCT-TTTTTTTTTTTTCATT
* *
50008 TTTT-TTCGTTTTTTTTTTCGTT
1 TTTTCTT-TTTTTTTTTTTCATT
50030 TTTTC
1 TTTTC
50035 CATCATCATT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.02
21 11 0.18
22 15 0.25
23 17 0.28
24 16 0.27
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTCTTTTTTTTTTTTTCATT
Found at i:49979 original size:15 final size:14
Alignment explanation
Indices: 49940--49978 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
49930 TGAACCCTCC
*
49940 TTTTATTTTTCTTT
1 TTTTATTTTTCTCT
49954 TTTTCATTTTTCTCT
1 TTTT-ATTTTTCTCT
49969 TTTTATTTTT
1 TTTTATTTTT
49979 TTCCATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTATTTTTCTCT
Found at i:59794 original size:44 final size:47
Alignment explanation
Indices: 59730--59826 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 47
59720 TGTTATCCAT
59730 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTATTC-
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
*
59775 AAAAATAAA-CCTAACCGCATGATATCTAATTCGCATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTCG
59822 AAAAA
1 AAAAA
59827 ACGAAAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
44 29 0.60
45 8 0.17
46 6 0.12
47 5 0.10
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:66228 original size:20 final size:20
Alignment explanation
Indices: 66193--66256 Score: 119
Period size: 20 Copynumber: 3.1 Consensus size: 20
66183 AAGCAAAATT
66193 GTGCATCGATGCACTGCTACA
1 GTGCATCGA-GCACTGCTACA
66214 GTGCATCGAGCACTGCTACA
1 GTGCATCGAGCACTGCTACA
66234 GTGCATCGAGCACTGCTACA
1 GTGCATCGAGCACTGCTACA
66254 GTG
1 GTG
66257 ATTTTTGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
20 34 0.79
21 9 0.21
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.22
Consensus pattern (20 bp):
GTGCATCGAGCACTGCTACA
Found at i:68146 original size:20 final size:21
Alignment explanation
Indices: 68107--68150 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
68097 AAGCAAAATT
*
68107 GTGCATCTATGCACTACTACA
1 GTGCATCGATGCACTACTACA
*
68128 GTGCATCGA-GCACTGCTACA
1 GTGCATCGATGCACTACTACA
68148 GTG
1 GTG
68151 ATTTTCGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (21 bp):
GTGCATCGATGCACTACTACA
Found at i:73479 original size:14 final size:14
Alignment explanation
Indices: 73460--73486 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73450 GGTTGGAATC
73460 TGATTTAGTTGATA
1 TGATTTAGTTGATA
73474 TGATTTAGTTGAT
1 TGATTTAGTTGAT
73487 TGTAATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (14 bp):
TGATTTAGTTGATA
Found at i:77420 original size:125 final size:125
Alignment explanation
Indices: 77198--77447 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
77188 TTTGTAGAAG
77198 CTGCTATATCTGTAATTACACTATCATTTTCTTCTAAGCATATTAAAATGAATATGATATCCTTG
1 CTGCTATATCTGTAATTACACTATCATTTTCTTCTAAGCATATTAAAATGAATATGATATCCTTG
77263 ATGTGTTGAATATGTTTTCTATCACCTCAGGGATTTGGATTAGAATTCAGTGAACTGCGT
66 ATGTGTTGAATATGTTTTCTATCACCTCAGGGATTTGGATTAGAATTCAGTGAACTGCGT
77323 CTGCTATATCTGTAATTACACTATCATTTTCTTCTAAGCATATTAAAATGAATATGATATCCTTG
1 CTGCTATATCTGTAATTACACTATCATTTTCTTCTAAGCATATTAAAATGAATATGATATCCTTG
77388 ATGTGTTGAATATGTTTTCTATCACCTCAGGGATTTGGATTAGAATTCAGTGAACTGCGT
66 ATGTGTTGAATATGTTTTCTATCACCTCAGGGATTTGGATTAGAATTCAGTGAACTGCGT
77448 GAGTACACTC
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (125 bp):
CTGCTATATCTGTAATTACACTATCATTTTCTTCTAAGCATATTAAAATGAATATGATATCCTTG
ATGTGTTGAATATGTTTTCTATCACCTCAGGGATTTGGATTAGAATTCAGTGAACTGCGT
Found at i:82476 original size:14 final size:15
Alignment explanation
Indices: 82459--82496 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
82449 AATATTCAAA
82459 AAAAAATTAAGTA-T
1 AAAAAATTAAGTATT
* *
82473 AAAAAATAAATTATT
1 AAAAAATTAAGTATT
82488 AAAAAATTA
1 AAAAAATTA
82497 GAAATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAAAATTAAGTATT
Found at i:82770 original size:14 final size:16
Alignment explanation
Indices: 82748--82789 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
82738 ATTATCATGA
82748 AATTATATAATTAAA-
1 AATTATATAATTAAAT
82763 AA-TATATAA--AAAT
1 AATTATATAATTAAAT
82776 AATTATATAATTAA
1 AATTATATAATTAA
82790 GAAGAACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.13
13 2 0.09
14 14 0.61
15 2 0.09
16 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTATATAATTAAAT
Found at i:83840 original size:11 final size:11
Alignment explanation
Indices: 83824--83849 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
83814 ATTGGTTAAT
83824 AAATTTAGGGG
1 AAATTTAGGGG
83835 AAATTTAGGGG
1 AAATTTAGGGG
83846 AAAT
1 AAAT
83850 CAAGGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (11 bp):
AAATTTAGGGG
Found at i:84044 original size:59 final size:59
Alignment explanation
Indices: 83972--84090 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
83962 ATCATATGGG
83972 AATAAAGGGAGGAAAACTTAGGTTTGAGTGATTAAGAGCAAAGGAACAAGTTTATTCTT
1 AATAAAGGGAGGAAAACTTAGGTTTGAGTGATTAAGAGCAAAGGAACAAGTTTATTCTT
84031 AATAAAGGGAGGAAAACTTAGGTTTGAGTGATTAAGAGCAAAGGAACAAGTTTATTCTT
1 AATAAAGGGAGGAAAACTTAGGTTTGAGTGATTAAGAGCAAAGGAACAAGTTTATTCTT
84090 A
1 A
84091 GGTTTTCTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (59 bp):
AATAAAGGGAGGAAAACTTAGGTTTGAGTGATTAAGAGCAAAGGAACAAGTTTATTCTT
Found at i:91700 original size:16 final size:17
Alignment explanation
Indices: 91670--91707 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
91660 CTCGTACATT
91670 CCATGCCTGAAGGATAA
1 CCATGCCTGAAGGATAA
91687 CCATGCCT-AAGGATAA
1 CCATGCCTGAAGGATAA
*
91703 TCATG
1 CCATG
91708 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (17 bp):
CCATGCCTGAAGGATAA
Found at i:92154 original size:16 final size:16
Alignment explanation
Indices: 92133--92163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92123 GAATACCAAT
92133 TAAATTAAGAAATTAC
1 TAAATTAAGAAATTAC
*
92149 TAAATTAAGAGATTA
1 TAAATTAAGAAATTA
92164 AGATCTGACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.32
Consensus pattern (16 bp):
TAAATTAAGAAATTAC
Found at i:100743 original size:11 final size:11
Alignment explanation
Indices: 100727--100796 Score: 54
Period size: 11 Copynumber: 6.1 Consensus size: 11
100717 GAAATAAATT
100727 ATTGAAGCTCG
1 ATTGAAGCTCG
*
100738 ATTGAAGCTAGAG
1 ATTGAAGCT--CG
*
100751 ACTCG-AGCTCG
1 A-TTGAAGCTCG
100762 ATTGAAGCTCG
1 ATTGAAGCTCG
100773 ATTTTG-AGCTCG
1 A--TTGAAGCTCG
*
100785 ATTCAAGCTCG
1 ATTGAAGCTCG
100796 A
1 A
100797 AATCAAACTC
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
10 4 0.09
11 25 0.53
12 7 0.15
13 9 0.19
14 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (11 bp):
ATTGAAGCTCG
Found at i:103135 original size:18 final size:19
Alignment explanation
Indices: 103114--103149 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
103104 TTTCAATCAC
*
103114 ATTTG-TTTAAATTTTCAT
1 ATTTGTTTTAAATGTTCAT
103132 ATTTGTTTTAAATGTTCA
1 ATTTGTTTTAAATGTTCA
103150 GGTGTCATTT
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:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (19 bp):
ATTTGTTTTAAATGTTCAT
Found at i:103577 original size:21 final size:22
Alignment explanation
Indices: 103539--103591 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
103529 CATAATCGAG
*
103539 TTTAGGGTTT-AGTGTTTA-GTA
1 TTTAGGGTTTAAGTATTTATG-A
103560 TTTAGGGTTTAAG-ATTTATGA
1 TTTAGGGTTTAAGTATTTATGA
*
103581 TTTAGGATTTA
1 TTTAGGGTTTA
103592 GGGTTCATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (22 bp):
TTTAGGGTTTAAGTATTTATGA
Found at i:105754 original size:20 final size:20
Alignment explanation
Indices: 105706--105795 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
105696 ACAGGTTCCA
* *
105706 AAATCGCAACGCGAA-AGTC
1 AAATTGCAACGCGAATAGTT
105725 AAATTCGCAACGCGAATAGTT
1 AAATT-GCAACGCGAATAGTT
**
105746 AAATTGCAACGATAATA-TGT
1 AAATTGCAACGCGAATAGT-T
*
105766 -AATTCGCAACGCGAATAGGT
1 AAATT-GCAACGCGAATAGTT
*
105786 AAATCGCAAC
1 AAATTGCAAC
105796 AATAATATGT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.16
20 37 0.65
21 11 0.19
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATTGCAACGCGAATAGTT
Found at i:105755 original size:40 final size:40
Alignment explanation
Indices: 105726--105817 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
105716 GCGAAAGTCA
* * *
105726 AATTCGCAACGCGAATAGTTAAATTGCAACGATAATATGT
1 AATTCGCAACGCGAATAGGTAAATCGCAACGAGAATATGT
* *
105766 AATTCGCAACGCGAATAGGTAAATCGCAACAATAATATGT
1 AATTCGCAACGCGAATAGGTAAATCGCAACGAGAATATGT
* *
105806 AAATCACAACGC
1 AATTCGCAACGC
105818 AAATTCTACA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.23
Consensus pattern (40 bp):
AATTCGCAACGCGAATAGGTAAATCGCAACGAGAATATGT
Found at i:105802 original size:20 final size:20
Alignment explanation
Indices: 105729--105816 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 20
105719 AAAGTCAAAT
** *
105729 TCGCAACGCGAATAGTTAAA
1 TCGCAACGATAATAGGTAAA
* * *
105749 TTGCAACGATAATATGTAAT
1 TCGCAACGATAATAGGTAAA
**
105769 TCGCAACGCGAATAGGTAAA
1 TCGCAACGATAATAGGTAAA
* *
105789 TCGCAACAATAATATGTAAA
1 TCGCAACGATAATAGGTAAA
*
105809 TCACAACG
1 TCGCAACG
105817 CAAATTCTAC
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (20 bp):
TCGCAACGATAATAGGTAAA
Found at i:105892 original size:20 final size:20
Alignment explanation
Indices: 105863--105904 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
105853 CTAATTACTT
*
105863 GAAAATGAAATTCGCGTTGC
1 GAAAACGAAATTCGCGTTGC
105883 GAAAACGAAATTCGCGTTGC
1 GAAAACGAAATTCGCGTTGC
105903 GA
1 GA
105905 TTTTCCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (20 bp):
GAAAACGAAATTCGCGTTGC
Found at i:105936 original size:146 final size:145
Alignment explanation
Indices: 105766--106199 Score: 577
Period size: 152 Copynumber: 2.9 Consensus size: 145
105756 GATAATATGT
* *
105766 AATTCGCAACGCGAATAGGTAAATCGCAACAATAATATGTAAATCACAACGCAAATTCTACAAAT
1 AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGCAAATTCTACAAAT
* *
105831 TCGCAACTCGAATTTCGTAACGCTAATTACTTGAAAATGAAATTCGCGTTGCGAAAACGAAATTC
66 TCGCAACTCGAATTTCGTAACGCTAATTAC-TGAAAATGTAATTAGCGTTGCGAAAACGAAATTC
105896 GCGTTGCGATTTTCCA
130 GCGTTGCGATTTTCCA
* *
105912 AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACTCAAATTTCGCAACT
1 AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGCAAA-TT--CTA--
* * * **
105977 CAAATTTCGCAACTTGAATTTCGCAACGCTAATTACCT--ATATCGGTAATTAATGTTGCGAAAA
61 CAAA-TTCGCAACTCGAATTTCGTAACGCTAATTA-CTGAAAAT--GTAATTAGCGTTGCGAAAA
106040 CGAAATTCGCGTTGCGATTTTCCA
122 CGAAATTCGCGTTGCGATTTTCCA
* * * *
106064 AATTCGTAACGCGAATAGGTAAATCACAACGATAATATGTAAATCGCAACGCGAATTCTCCAAAT
1 AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGCAAATTCTACAAAT
* * *
106129 TCGCAACTCGAATTTCGTAATGCTAATTACCGATATAA-GTAATTAGCGTTGCGAAAATGAAATT
66 TCGCAACTCGAATTTCGTAACGCTAATTACTGA-A-AATGTAATTAGCGTTGCGAAAACGAAATT
106193 CGCGTTG
129 CGCGTTG
106200 AGAAAACGAA
Statistics
Matches: 250, Mismatches: 25, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
145 1 0.00
146 109 0.44
147 6 0.02
148 1 0.00
149 4 0.02
150 3 0.01
151 6 0.02
152 119 0.48
153 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (145 bp):
AATTCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGCAAATTCTACAAAT
TCGCAACTCGAATTTCGTAACGCTAATTACTGAAAATGTAATTAGCGTTGCGAAAACGAAATTCG
CGTTGCGATTTTCCA
Found at i:105940 original size:20 final size:20
Alignment explanation
Indices: 105915--105961 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
105905 TTTTCCAAAT
*
105915 TCGCAACGCGAATAGGTAAA
1 TCGCAACGAGAATAGGTAAA
* *
105935 TCGCAACGATAATATGTAAA
1 TCGCAACGAGAATAGGTAAA
105955 TCGCAAC
1 TCGCAAC
105962 TCAAATTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGAGAATAGGTAAA
Found at i:106010 original size:14 final size:14
Alignment explanation
Indices: 105955--106003 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
105945 AATATGTAAA
105955 TCGCAACTCAAATT
1 TCGCAACTCAAATT
105969 TCGCAACTCAAATT
1 TCGCAACTCAAATT
**
105983 TCGCAACTTGAATT
1 TCGCAACTCAAATT
105997 TCGCAAC
1 TCGCAAC
106004 GCTAATTACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (14 bp):
TCGCAACTCAAATT
Found at i:106010 original size:28 final size:28
Alignment explanation
Indices: 105955--106010 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
105945 AATATGTAAA
*
105955 TCGCAACTCAAATTTCGCAACTCAAATT
1 TCGCAACTCAAATTTCGCAACGCAAATT
** *
105983 TCGCAACTTGAATTTCGCAACGCTAATT
1 TCGCAACTCAAATTTCGCAACGCAAATT
106011 ACCTATATCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (28 bp):
TCGCAACTCAAATTTCGCAACGCAAATT
Found at i:106100 original size:20 final size:20
Alignment explanation
Indices: 106077--106114 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
106067 TCGTAACGCG
106077 AATAGGTAAATCACAACGAT
1 AATAGGTAAATCACAACGAT
* *
106097 AATATGTAAATCGCAACG
1 AATAGGTAAATCACAACG
106115 CGAATTCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (20 bp):
AATAGGTAAATCACAACGAT
Found at i:106197 original size:20 final size:20
Alignment explanation
Indices: 106169--106222 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
106159 CGATATAAGT
* *
106169 AATTAGCGTTGCGAAAATGA
1 AATTCGCGTTGCGAAAACGA
*
106189 AATTCGCGTTGAGAAAACGA
1 AATTCGCGTTGCGAAAACGA
*
106209 AAATCGCGTTGCGA
1 AATTCGCGTTGCGA
106223 CAGTACTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (20 bp):
AATTCGCGTTGCGAAAACGA
Found at i:106296 original size:20 final size:20
Alignment explanation
Indices: 106273--106322 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
106263 TAACTTCTGT
*
106273 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTAGC
* *
106293 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTAGC
106313 GTTGCGATTT
1 GTTGCGATTT
106323 TGGAACTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (20 bp):
GTTGCGATTTACATATTAGC
Found at i:109070 original size:34 final size:34
Alignment explanation
Indices: 109031--109097 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
109021 TAGCATCGTC
* * *
109031 GTTAAATAATTAGTGATTGGTGATTAAAATAGAT
1 GTTAAATAATTAATGATCGATGATTAAAATAGAT
109065 GTTAAATAATTAATGATCGATGATTAAAATAGA
1 GTTAAATAATTAATGATCGATGATTAAAATAGA
109098 AAAAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.45, C:0.01, G:0.18, T:0.36
Consensus pattern (34 bp):
GTTAAATAATTAATGATCGATGATTAAAATAGAT
Found at i:109791 original size:36 final size:36
Alignment explanation
Indices: 109751--109862 Score: 92
Period size: 36 Copynumber: 3.2 Consensus size: 36
109741 CTCTTCTATG
109751 TTTATTAGTCATGTGAGATTATTTTGTTCTCTTATT
1 TTTATTAGTCATGTGAGATTATTTTGTTCTCTTATT
* * * * *
109787 TTTA-T--TC-T-TTAGA-CATTTGGGATGCTCTTCTATG
1 TTTATTAGTCATGTGAGATTATTT-TG-TTCTC-T-TATT
*
109821 TTTATTAGTCATGTGAGATTGTTTTGTTCTCTTATT
1 TTTATTAGTCATGTGAGATTATTTTGTTCTCTTATT
109857 TTTATT
1 TTTATT
109863 CTTTAGACTT
Statistics
Matches: 55, Mismatches: 11, Indels: 20
0.64 0.13 0.23
Matches are distributed among these distances:
30 4 0.07
31 5 0.09
32 5 0.09
33 3 0.05
34 7 0.13
35 2 0.04
36 13 0.24
37 3 0.05
38 5 0.09
39 5 0.09
40 3 0.05
ACGTcount: A:0.18, C:0.10, G:0.15, T:0.57
Consensus pattern (36 bp):
TTTATTAGTCATGTGAGATTATTTTGTTCTCTTATT
Found at i:109849 original size:70 final size:70
Alignment explanation
Indices: 109736--109921 Score: 311
Period size: 70 Copynumber: 2.7 Consensus size: 70
109726 AAGTAAGTTT
*
109736 GGATGCTCTTCTATGTTTATTAGTCATGTGAGATTATTTTGTTCTCTTATTTTTATTCTTTAGAC
1 GGATGCTCTTCTATGTTTATTAGTCATGTGAGATTGTTTTGTTCTCTTATTTTTATTCTTTAGAC
109801 ATTTG
66 ATTTG
109806 GGATGCTCTTCTATGTTTATTAGTCATGTGAGATTGTTTTGTTCTCTTATTTTTATTCTTTAGAC
1 GGATGCTCTTCTATGTTTATTAGTCATGTGAGATTGTTTTGTTCTCTTATTTTTATTCTTTAGAC
*
109871 TTTTG
66 ATTTG
* * *
109876 GGATGCTCTTCTATATTTTTTA-ACTATGTGAGATTGTTTTGTTCTC
1 GGATGCTCTTCTATGTTTATTAGTC-ATGTGAGATTGTTTTGTTCTC
109922 CTATATTTGC
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
69 1 0.01
70 109 0.99
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.54
Consensus pattern (70 bp):
GGATGCTCTTCTATGTTTATTAGTCATGTGAGATTGTTTTGTTCTCTTATTTTTATTCTTTAGAC
ATTTG
Found at i:109893 original size:36 final size:36
Alignment explanation
Indices: 109783--109895 Score: 94
Period size: 36 Copynumber: 3.2 Consensus size: 36
109773 TTTGTTCTCT
*
109783 TATTTTTATTCTTTAGACATTTGGGATGCTCTTCTA
1 TATTTTTATTCTTTAGACTTTTGGGATGCTCTTCTA
* * * * *
109819 TGTTTATTAGTCATGTGAGA-TTGTT---TTGTTC-TCT-
1 TATTT-TTATTC-T-TTAGACTT-TTGGGATGCTCTTCTA
109853 TATTTTTATTCTTTAGACTTTTGGGATGCTCTTCTA
1 TATTTTTATTCTTTAGACTTTTGGGATGCTCTTCTA
109889 TATTTTT
1 TATTTTT
109896 TAACTATGTG
Statistics
Matches: 56, Mismatches: 11, Indels: 20
0.64 0.13 0.23
Matches are distributed among these distances:
31 6 0.11
32 3 0.05
33 5 0.09
34 8 0.14
35 6 0.11
36 15 0.27
37 5 0.09
38 2 0.04
39 6 0.11
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.57
Consensus pattern (36 bp):
TATTTTTATTCTTTAGACTTTTGGGATGCTCTTCTA
Found at i:118045 original size:12 final size:13
Alignment explanation
Indices: 118019--118047 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
118009 CAAATACCTA
118019 AAAATAATCTTTT
1 AAAATAATCTTTT
118032 AAAATAAT-TTTT
1 AAAATAATCTTTT
118044 AAAA
1 AAAA
118048 AAATATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATAATCTTTT
Found at i:118048 original size:13 final size:14
Alignment explanation
Indices: 118017--118048 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
118007 ATCAAATACC
118017 TAAAAATAATCTTT
1 TAAAAATAATCTTT
118031 T-AAAATAAT-TTT
1 TAAAAATAATCTTT
118043 TAAAAA
1 TAAAAA
118049 AATATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 12 0.71
14 1 0.06
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAAATAATCTTT
Found at i:118322 original size:27 final size:26
Alignment explanation
Indices: 118278--118330 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
118268 AAATATATTA
* * *
118278 ATTTTTATAAACATATATTTTTTTAT
1 ATTTTTATAAAAAGATATTTATTTAT
118304 ATTTTTATAAATAAGATATTTATTTAT
1 ATTTTTATAAA-AAGATATTTATTTAT
118331 TTAGAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
ATTTTTATAAAAAGATATTTATTTAT
Found at i:118520 original size:2 final size:2
Alignment explanation
Indices: 118513--118550 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
118503 TATTATTTAT
118513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
118551 GACTAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:118638 original size:17 final size:17
Alignment explanation
Indices: 118606--118643 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
118596 AAACATATTG
*
118606 AAATTTAAATAGTAAATT
1 AAATTAAAATAGTAAA-T
118624 AAATTAAAATA-TAAAT
1 AAATTAAAATAGTAAAT
118640 AAAT
1 AAAT
118644 AGTGACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 4 0.21
18 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAATTAAAATAGTAAAT
Found at i:119829 original size:3 final size:3
Alignment explanation
Indices: 119823--119875 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
119813 TTTTGGCATG
*
119823 TAA TAA TAA TAA TAA AAA TAA TTAA TAA TAA T-A TAA TAA -AA T-A
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
119866 TAAA TAA TAA
1 T-AA TAA TAA
119876 AAAAATATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
2 6 0.14
3 32 0.74
4 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:119849 original size:22 final size:22
Alignment explanation
Indices: 119823--119890 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
119813 TTTTGGCATG
*
119823 TAATAATAATAATAAAAATAAT
1 TAATAATAATAATAAAAATAAA
119845 TAATAATAATATAATAAAATATAAA
1 TAATAAT-A-ATAATAAAA-ATAAA
* *
119870 TAATAA-AAAAATATAAATAAA
1 TAATAATAATAATAAAAATAAA
119891 AACAAATGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 5 0.12
22 14 0.35
23 2 0.05
24 9 0.22
25 10 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TAATAATAATAATAAAAATAAA
Found at i:119850 original size:19 final size:20
Alignment explanation
Indices: 119825--119885 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
119815 TTGGCATGTA
119825 ATAATAATAATAAAAATAAT
1 ATAATAATAATAAAAATAAT
119845 -TAATAATAATATAATAA-AAT
1 ATAATAATAATA-AA-AATAAT
119865 AT-A-AATAATAAAAA-AAT
1 ATAATAATAATAAAAATAAT
119882 ATAA
1 ATAA
119886 ATAAAAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.19
18 3 0.08
19 18 0.49
20 6 0.16
21 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAAAAATAAT
Found at i:123644 original size:11 final size:11
Alignment explanation
Indices: 123621--123652 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
123611 TGTAATTAAT
123621 TATTTATATATA
1 TATTTA-ATATA
123633 TATTTAATATA
1 TATTTAATATA
123644 TATTTAATA
1 TATTTAATA
123653 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:123656 original size:3 final size:3
Alignment explanation
Indices: 123648--123694 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
123638 AATATATATT
123648 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
123695 TGGATAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:124394 original size:117 final size:115
Alignment explanation
Indices: 124009--124998 Score: 1383
Period size: 117 Copynumber: 8.6 Consensus size: 115
123999 TAGAATTATG
* *
124009 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGAT-GAGTTCTTCTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTC
124073 ATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 ATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
124123 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAAT-GAGTTCTTCTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTC
* *** * * * *
124187 ATTATGAACT-TTCTCTGGAAAAAATAATCCATCCAGTGATGAATTCAGA-
66 ATTATGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
124236 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTC
124301 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
64 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
124353 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTC
*
124418 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
64 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
124470 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTTTTCAGAT-GAGTTCTTCTT
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTC
* *** * * * *
124534 ATTATGAACT-TTCTCT-GAAAAAATAATCCATCCAGTGATGAATTCAGA-
66 ATTATGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
124582 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTC
*
124647 TCATTATGAACTCTTCCTGACAATGTTGATCCATCAAATGATGAATTCAAAC
64 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
124699 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTC
*
124764 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
64 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
124816 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTC
** *** * * **
124880 ATTATGAACT-TTCTCTGAAAAAAATAATCCATCAATTTGATGAATTC-AGG
66 ATTATGAACTCTTC-CTGGCAATGTTGATCCATCAA-ATGATGAATTCAAAC
* * *
124930 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTC
124994 ATTAT
66 ATTAT
124999 AAACCTTTTC
Statistics
Matches: 789, Mismatches: 72, Indels: 30
0.89 0.08 0.03
Matches are distributed among these distances:
112 50 0.06
113 80 0.10
114 223 0.28
115 32 0.04
116 74 0.09
117 330 0.42
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (115 bp):
CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTC
ATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
Found at i:124691 original size:346 final size:346
Alignment explanation
Indices: 124009--124998 Score: 1794
Period size: 346 Copynumber: 2.9 Consensus size: 346
123999 TAGAATTATG
* *
124009 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTC--A-GATGAGTTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
* *
124071 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAAGTTGAAC
66 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAAC
* *
124136 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCT
131 AAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
124201 CTGGAAAAAATAATCCATCCAGTGATGAATTCAGATAAAAGGTTGAACAAATTCTTCTCATTATG
196 CT-GAAAAAATAATCCATCCAGTGATGAATTCAGATAAAAGGTTGAACAAATTCTTCTCATTATG
*
124266 AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTGGCAATGTTGAT
260 AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTGACAATGTTGAT
124331 CCATCAAATGATGAATTCAAAC
325 CCATCAAATGATGAATTCAAAC
124353 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
124418 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAAC
66 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAAC
* * *
124483 AAATTCTTCTTATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTTATTATGAACTTTCT
131 AAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
124548 CTGAAAAAATAATCCATCCAGTGATGAATTCAGATAAAAGGTTGAACAAATTCTTCTCATTATGA
196 CTGAAAAAATAATCCATCCAGTGATGAATTCAGATAAAAGGTTGAACAAATTCTTCTCATTATGA
124613 ACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTGACAATGTTGATC
261 ACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTGACAATGTTGATC
124678 CATCAAATGATGAATTCAAAC
326 CATCAAATGATGAATTCAAAC
124699 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
124764 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAAC
66 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAAC
124829 AAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
131 AAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
* * *
124894 CTGAAAAAAATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTAT
196 CTG-AAAAAATAATCCATCCA-GTGATGAATTCAGATAAAAGGTTGAACAAATTCTTCTCATTAT
124959 GAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
259 GAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
124999 AAACCTTTTC
Statistics
Matches: 625, Mismatches: 16, Indels: 9
0.96 0.02 0.01
Matches are distributed among these distances:
344 47 0.08
345 16 0.03
346 344 0.55
347 153 0.24
348 65 0.10
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (346 bp):
CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAAC
AAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
CTGAAAAAATAATCCATCCAGTGATGAATTCAGATAAAAGGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCTGACAATGTTGATC
CATCAAATGATGAATTCAAAC
Found at i:126017 original size:84 final size:84
Alignment explanation
Indices: 125747--126225 Score: 781
Period size: 83 Copynumber: 5.7 Consensus size: 84
125737 GTAATTCCTA
125747 CCAACCCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCCA
1 CCAA-CCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCA
*
125811 CATTCAATGATTGGTTCTG-
65 AATTCAATGATTGGTTCTGT
125830 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCCA
1 CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCA
*
125894 AACTCAATGATTGGTTCTGT
65 AATTCAATGATTGGTTCTGT
**
125914 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACCTT-ATTCTTCCA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCA-TCTTCCA
125978 AATTCAATGATTGGTTCTGT
65 AATTCAATGATTGGTTCTGT
125998 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CAAATTCATCTTCCAA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAA
*
126062 ACTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCTGT
**
126081 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACCTT-ATTCTTCCA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCA-TCTTCCA
126145 AATTCAATGATTGGTTCTGT
65 AATTCAATGATTGGTTCTGT
* * * *
126165 CCAACCAGATCAGATAACTCAAAGAACACTTCTAAAAGATGCTATTGAGTACATTCATCTT
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTT
126226 TGTTCCAGTT
Statistics
Matches: 372, Mismatches: 15, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
83 203 0.55
84 168 0.45
85 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (84 bp):
CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTGT
Found at i:126017 original size:167 final size:167
Alignment explanation
Indices: 125747--126212 Score: 839
Period size: 167 Copynumber: 2.8 Consensus size: 167
125737 GTAATTCCTA
**
125747 CCAACCCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCA-TCTTCC
1 CCAA-CCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACCTT-ATTCTTCC
*
125810 ACATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
64 AAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
125874 ATTGACAAATTCATCTTCCAAACTCAATGATTGGTTCTGT
128 ATTGACAAATTCATCTTCCAAACTCAATGATTGGTTCTGT
125914 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACCTTATTCTTCCAA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACCTTATTCTTCCAA
125979 ATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
66 ATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
126044 GACAAATTCATCTTCCAAACTCAATGATTGGTTCTGT
131 GACAAATTCATCTTCCAAACTCAATGATTGGTTCTGT
126081 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACCTTATTCTTCCAA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACCTTATTCTTCCAA
* *
126146 ATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCTAAAAGATGCTATT
66 ATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
126211 GA
131 GA
126213 GTACATTCAT
Statistics
Matches: 291, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
166 44 0.15
167 245 0.84
168 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (167 bp):
CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACCTTATTCTTCCAA
ATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
GACAAATTCATCTTCCAAACTCAATGATTGGTTCTGT
Found at i:127393 original size:20 final size:20
Alignment explanation
Indices: 127370--127438 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
127360 TTGACCCCCC
127370 TTTTTTCTTTTTTTCTTTTT
1 TTTTTTCTTTTTTTCTTTTT
*
127390 TTTTTTTTTTTTTTCTTTTT
1 TTTTTTCTTTTTTTCTTTTT
**
127410 TTTTCTT-TTTTTTTCTTCAT
1 TTTT-TTCTTTTTTTCTTTTT
127430 TTTTTTCTT
1 TTTTTTCTT
127439 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.05
20 40 0.91
21 2 0.05
ACGTcount: A:0.01, C:0.10, G:0.00, T:0.88
Consensus pattern (20 bp):
TTTTTTCTTTTTTTCTTTTT
Found at i:127435 original size:1 final size:1
Alignment explanation
Indices: 127370--127423 Score: 72
Period size: 1 Copynumber: 54.0 Consensus size: 1
127360 TTGACCCCCC
* * * *
127370 TTTTTTCTTTTTTTCTTTTTTTTTTTTTTTTTTTCTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
127424 CTTCATTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:127440 original size:12 final size:10
Alignment explanation
Indices: 127377--127438 Score: 97
Period size: 10 Copynumber: 6.0 Consensus size: 10
127367 CCCTTTTTTC
127377 TTTTTTTCTT
1 TTTTTTTCTT
*
127387 TTTTTTTTTT
1 TTTTTTTCTT
127397 TTTTTTTCTT
1 TTTTTTTCTT
127407 TTTTTTTCTT
1 TTTTTTTCTT
127417 TTTTTTTCTT
1 TTTTTTTCTT
127427 CATTTTTTTCTT
1 --TTTTTTTCTT
127439 CAAGCATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
10 38 0.79
12 10 0.21
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:138105 original size:20 final size:19
Alignment explanation
Indices: 138082--138135 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
138072 AAATAAAATG
138082 AAATATAATAGAAAATATAT
1 AAATATAATAGAAAATA-AT
138102 AAATACT-AT-GAAAATAAT
1 AAATA-TAATAGAAAATAAT
*
138120 AAGTATATATA-AAAAT
1 AAATATA-ATAGAAAAT
138136 TTGAAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
17 1 0.03
18 6 0.21
19 14 0.48
20 7 0.24
21 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (19 bp):
AAATATAATAGAAAATAAT
Found at i:140276 original size:11 final size:11
Alignment explanation
Indices: 140253--140284 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
140243 TGTAATTAAT
140253 TATTTATATATA
1 TATTTA-ATATA
140265 TATTTAATATA
1 TATTTAATATA
140276 TATTTAATA
1 TATTTAATA
140285 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:140288 original size:3 final size:3
Alignment explanation
Indices: 140280--140373 Score: 181
Period size: 3 Copynumber: 31.7 Consensus size: 3
140270 AATATATATT
140280 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
140328 TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
140374 TGGATAAAAA
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 88 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:142712 original size:31 final size:31
Alignment explanation
Indices: 142676--142736 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
142666 CTCATCTCAA
** *
142676 TGCCTAATGTTTTCTCTGTTATTATTTTAGG
1 TGCCTAATGTTTTCTCCATTACTATTTTAGG
*
142707 TGCCTAGTGTTTTCTCCATTACTATTTTAG
1 TGCCTAATGTTTTCTCCATTACTATTTTAG
142737 CTGCTCGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.52
Consensus pattern (31 bp):
TGCCTAATGTTTTCTCCATTACTATTTTAGG
Found at i:143631 original size:47 final size:47
Alignment explanation
Indices: 143562--143669 Score: 207
Period size: 47 Copynumber: 2.3 Consensus size: 47
143552 AAGTAAAATT
143562 TCTCGGCGTCTTCTATATATGTTAGTTCAAAAGATGTTCATGGGAGC
1 TCTCGGCGTCTTCTATATATGTTAGTTCAAAAGATGTTCATGGGAGC
*
143609 TCTCGGCGTCTTCTATATATGTTCGTTCAAAAGATGTTCATGGGAGC
1 TCTCGGCGTCTTCTATATATGTTAGTTCAAAAGATGTTCATGGGAGC
143656 TCTCGGCGTCTTCT
1 TCTCGGCGTCTTCT
143670 TCAGCCTTGG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.37
Consensus pattern (47 bp):
TCTCGGCGTCTTCTATATATGTTAGTTCAAAAGATGTTCATGGGAGC
Found at i:143696 original size:32 final size:32
Alignment explanation
Indices: 143651--143736 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
143641 GATGTTCATG
*
143651 GGAGCTCTCGGCGTCTTCTTCAGCCTTGGGGT
1 GGAGTTCTCGGCGTCTTCTTCAGCCTTGGGGT
*
143683 GGAGTTCTTGGCGTCTTCTTCAGCCTTGGGGT
1 GGAGTTCTCGGCGTCTTCTTCAGCCTTGGGGT
*
143715 GGAGTTATCGGCGTCTTCTTCA
1 GGAGTTCTCGGCGTCTTCTTCA
143737 TCAGCATCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.08, C:0.24, G:0.33, T:0.35
Consensus pattern (32 bp):
GGAGTTCTCGGCGTCTTCTTCAGCCTTGGGGT
Found at i:143944 original size:47 final size:50
Alignment explanation
Indices: 143875--143973 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 50
143865 AAAATGCTGC
143875 AAAAGTATTGGGCCCTAGCAATAAAC-AA-AAGCACATGTTTTATAAAAG
1 AAAAGTATTGGGCCCTAGCAATAAACAAACAAGCACATGTTTTATAAAAG
* *
143923 AAAAGT-TTGGTCCCTGGCAATAAACGAAAGCAAGCACATGTTTTATAAAAG
1 AAAAGTATTGGGCCCTAGCAATAAAC-AAA-CAAGCACATGTTTTATAAAAG
143974 TATTAATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
47 17 0.38
48 6 0.13
49 2 0.04
51 20 0.44
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (50 bp):
AAAAGTATTGGGCCCTAGCAATAAACAAACAAGCACATGTTTTATAAAAG
Found at i:145684 original size:14 final size:14
Alignment explanation
Indices: 145667--145988 Score: 207
Period size: 14 Copynumber: 24.8 Consensus size: 14
145657 TATTTCAATT
145667 ACTTTAATGATTTA
1 ACTTTAATGATTTA
145681 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
145695 A---TAAT-AATT-
1 ACTTTAATGATTTA
145704 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
145718 ATTTTAATGATTTA
1 ACTTTAATGATTTA
*
145732 A---TAAT-AATT-
1 ACTTTAATGATTTA
145741 ACTTTAATGATTTA
1 ACTTTAATGATTTA
* * *
145755 A-TAATAATTACTTA
1 ACT-TTAATGATTTA
145769 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
145783 A---TAAT-AATT-
1 ACTTTAATGATTTA
145792 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
145806 ATTTTAATGATTTA
1 ACTTTAATGATTTA
*
145820 A---TAAT-AATT-
1 ACTTTAATGATTTA
145829 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*
145843 ATTTTAATGATTTA
1 ACTTTAATGATTTA
*
145857 A---TAAT-AATT-
1 ACTTTAATGATTTA
145866 ACTTTAATGATTTA
1 ACTTTAATGATTTA
* *
145880 A-TAATAATTATTTA
1 ACT-TTAATGATTTA
145894 ACTTTAATGATTTA
1 ACTTTAATGATTTA
*** * *
145908 AAAATAATTACTTA
1 ACTTTAATGATTTA
145922 ACTTTAATGATTTA
1 ACTTTAATGATTTA
145936 ACTTTAATGATTTA
1 ACTTTAATGATTTA
* * * *
145950 A-TAATAATTACTTG
1 ACT-TTAATGATTTA
145964 ACTTTAATGATTTA
1 ACTTTAATGATTTA
145978 TA-TTTAATGAT
1 -ACTTTAATGAT
145989 ATAATAATAG
Statistics
Matches: 235, Mismatches: 41, Indels: 64
0.69 0.12 0.19
Matches are distributed among these distances:
9 5 0.02
10 15 0.06
11 20 0.09
12 20 0.09
13 18 0.08
14 153 0.65
15 4 0.02
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (14 bp):
ACTTTAATGATTTA
Found at i:145709 original size:23 final size:22
Alignment explanation
Indices: 145681--145807 Score: 93
Period size: 23 Copynumber: 5.7 Consensus size: 22
145671 TAATGATTTA
145681 ACTTTAATGATTTAATAATAATT
1 ACTTTAATGATTTAAT-ATAATT
* *
145704 ACTTTAATGATTTAATTTTAATG
1 ACTTTAATGATTTAA-TATAATT
* * * *
145727 A-TTTAATAATAATTACTTTAATG
1 ACTTTAATGAT--TTAATATAATT
* *
145750 A-TTTAAT-A-ATAAT-TACTT
1 ACTTTAATGATTTAATATAATT
145768 AACTTTAATGATTTAATAATAATT
1 -ACTTTAATGATTTAAT-ATAATT
145792 ACTTTAATGATTTAAT
1 ACTTTAATGATTTAAT
145808 TTTAATGATT
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 6 0.07
21 1 0.01
22 13 0.15
23 50 0.59
24 8 0.09
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
ACTTTAATGATTTAATATAATT
Found at i:145713 original size:37 final size:37
Alignment explanation
Indices: 145663--145997 Score: 218
Period size: 37 Copynumber: 9.0 Consensus size: 37
145653 ATTATATTTC
145663 AATTACTTTAATGATTTAACTTTAATGATTTAATAAT
1 AATTACTTTAATGATTTAACTTTAATGATTTAATAAT
*
145700 AATTACTTTAATGATTTAATTTTAATGATTTAATAAT
1 AATTACTTTAATGATTTAACTTTAATGATTTAATAAT
* * * *
145737 AATTACTTTAATGATTTAA-TAATAATTACTTAACT-TT
1 AATTACTTTAATGATTTAACT-TTAATGATTTAA-TAAT
* * **
145774 AATGA-TTTAATAATAATT-ACTTTAATGATTTAATTTT
1 AATTACTTTAATGAT--TTAACTTTAATGATTTAATAAT
* * **
145811 AATGA-TTTAATAATAATT-ACTTTAATGATTTAATTTT
1 AATTACTTTAATGAT--TTAACTTTAATGATTTAATAAT
* *
145848 AATGA-TTTAATAATAATT-ACTTTAATGATTTAATAAT
1 AATTACTTTAATGAT--TTAACTTTAATGATTTAATAAT
* *
145885 AATTA-TTTAA--CTTTAATGATTTAA--A---AATAATT
1 AATTACTTTAATGATTTAA--CTTTAATGATTTAATAA-T
*
145917 ACTTAACTTTAATGATTTAACTTTAATGATTTAATAAT
1 AATT-ACTTTAATGATTTAACTTTAATGATTTAATAAT
*
145955 AATTACTTGACTTTAATGATTTATA-TTTAATGATATAATAAT
1 -A--A-TT-ACTTTAATGATTTA-ACTTTAATGATTTAATAAT
145997 A
1 A
145998 GTAAATATAT
Statistics
Matches: 253, Mismatches: 21, Indels: 44
0.80 0.07 0.14
Matches are distributed among these distances:
31 5 0.02
32 4 0.02
33 3 0.01
34 12 0.05
35 1 0.00
36 21 0.08
37 162 0.64
38 5 0.02
39 6 0.02
41 1 0.00
42 32 0.13
43 1 0.00
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (37 bp):
AATTACTTTAATGATTTAACTTTAATGATTTAATAAT
Found at i:145775 original size:51 final size:51
Alignment explanation
Indices: 145715--145977 Score: 236
Period size: 51 Copynumber: 5.3 Consensus size: 51
145705 CTTTAATGAT
*
145715 TTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAATAATAATTAC
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATAATAATTAC
** * *
145766 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATAATAATTAC
* * * *
145817 TTAA-TAATAATTACTTTAATGAT--TTAATTTTAATGATTTAATAAT-A--A-
1 TTAACT-TTAATGA-TTTAATAATAATT-ACTTTAATGATTTAATAATAATTAC
*
145864 TT-ACTTTAATGATTTAATAATAATTATTTAACTTTAATGATTTAAAAATAATTAC
1 TTAACTTTAATGATTTAATAAT-A--A-TT-ACTTTAATGATTTAATAATAATTAC
145919 TTAACTTTAATGA--T--T--T-A--ACTTTAATGATTTAATAATAATTAC
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATAATAATTAC
*
145961 TTGACTTTAATGATTTA
1 TTAACTTTAATGATTTA
145978 TATTTAATGA
Statistics
Matches: 176, Mismatches: 18, Indels: 42
0.75 0.08 0.18
Matches are distributed among these distances:
42 36 0.20
44 1 0.01
45 8 0.05
46 7 0.04
47 3 0.02
48 1 0.01
50 5 0.03
51 91 0.52
52 10 0.06
54 2 0.01
55 2 0.01
56 10 0.06
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (51 bp):
TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATAATAATTAC
Found at i:145812 original size:88 final size:88
Alignment explanation
Indices: 145678--145844 Score: 334
Period size: 88 Copynumber: 1.9 Consensus size: 88
145668 CTTTAATGAT
145678 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTAC
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTAC
145743 TTTAATGATTTAATAATAATTAC
66 TTTAATGATTTAATAATAATTAC
145766 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTAC
1 TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTAC
145831 TTTAATGATTTAAT
66 TTTAATGATTTAAT
145845 TTTAATGATT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (88 bp):
TTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTAC
TTTAATGATTTAATAATAATTAC
Found at i:145836 original size:9 final size:8
Alignment explanation
Indices: 145657--145894 Score: 57
Period size: 8 Copynumber: 30.9 Consensus size: 8
145647 TGTATTATTA
145657 TATTTCAAT
1 TATTT-AAT
145666 TACTTTAAT
1 TA-TTTAAT
*
145675 GATTTAA-
1 TATTTAAT
*
145682 -CTTTAAT
1 TATTTAAT
*
145689 GATTTAA-
1 TATTTAAT
*
145696 TA-ATAAT
1 TATTTAAT
145703 TACTTTAAT
1 TA-TTTAAT
*
145712 GATTTAA-
1 TATTTAAT
145719 T-TTTAAT
1 TATTTAAT
*
145726 GATTTAA-
1 TATTTAAT
*
145733 TA-ATAAT
1 TATTTAAT
145740 TACTTTAAT
1 TA-TTTAAT
*
145749 GATTTAAT
1 TATTTAAT
* *
145757 AATAATTACT
1 --TATTTAAT
145767 TAACTTTAAT
1 T-A-TTTAAT
*
145777 GATTTAA-
1 TATTTAAT
*
145784 TA-ATAAT
1 TATTTAAT
145791 TACTTTAAT
1 TA-TTTAAT
*
145800 GATTTAA-
1 TATTTAAT
145807 T-TTTAAT
1 TATTTAAT
*
145814 GATTTAA-
1 TATTTAAT
*
145821 TA-ATAAT
1 TATTTAAT
145828 TACTTTAAT
1 TA-TTTAAT
*
145837 GATTTAA-
1 TATTTAAT
145844 T-TTTAAT
1 TATTTAAT
*
145851 GATTTAA-
1 TATTTAAT
*
145858 TA-ATAAT
1 TATTTAAT
145865 TACTTTAAT
1 TA-TTTAAT
*
145874 GATTTAA-
1 TATTTAAT
*
145881 TA-ATAAT
1 TATTTAAT
145888 TATTTAA
1 TATTTAA
145895 CTTTAATGAT
Statistics
Matches: 161, Mismatches: 38, Indels: 61
0.62 0.15 0.23
Matches are distributed among these distances:
6 38 0.24
7 18 0.11
8 60 0.37
9 33 0.20
10 12 0.07
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (8 bp):
TATTTAAT
Found at i:145850 original size:23 final size:23
Alignment explanation
Indices: 145720--145807 Score: 131
Period size: 23 Copynumber: 3.6 Consensus size: 23
145710 ATGATTTAAT
145720 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATAATAATTAC
145743 TTTAATGATTTAATAATAATTACTTAAC
1 TTTAATGATTTAATAAT-A--A-TT-AC
145771 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATAATAATTAC
145794 TTTAATGATTTAAT
1 TTTAATGATTTAAT
145808 TTTAATGATT
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
23 33 0.55
24 3 0.05
25 1 0.02
26 1 0.02
27 3 0.05
28 19 0.32
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (23 bp):
TTTAATGATTTAATAATAATTAC
Found at i:145871 original size:23 final size:23
Alignment explanation
Indices: 145845--145920 Score: 98
Period size: 23 Copynumber: 3.1 Consensus size: 23
145835 ATGATTTAAT
145845 TTTAATGATTTAATAATAATTAC
1 TTTAATGATTTAATAATAATTAC
145868 TTTAATGATTTAATAATAATTATTTAAC
1 TTTAATGATTTAATAAT-A--A-TT-AC
*
145896 TTTAATGATTTAAAAATAATTAC
1 TTTAATGATTTAATAATAATTAC
145919 TT
1 TT
145921 AACTTTAATG
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
23 21 0.45
24 3 0.06
25 1 0.02
26 1 0.02
27 3 0.06
28 18 0.38
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTTAATGATTTAATAATAATTAC
Found at i:145885 original size:125 final size:127
Alignment explanation
Indices: 145663--145997 Score: 532
Period size: 125 Copynumber: 2.6 Consensus size: 127
145653 ATTATATTTC
145663 AATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGA
1 AATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGA
145728 TTTAATAATAATTACTTTAATGATTTAATAATAATTACTTAACTTTAATGATTT-AATAA-T
66 TTTAATAATAATTACTTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAAATAATT
*
145788 AATTACTTTAATGATTTAATTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGA
1 AATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGA
*
145853 TTTAATAATAATTACTTTAATGATTTAATAATAATTATTTAACTTTAATGATTTAAAAATAATT
66 TTTAATAATAATTACTTTAATGATTTAATAATAATTACTTAACTTTAATGATTT--AAATAATT
*
145917 ACTTAACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTGACTTTAATGATTT-ATAT
1 AATT-ACTTTAATGATTTAACTTTAATGATTTAATAAT-A--A-TT-ACTTTAATGATTTAAT-T
*
145981 TTAATGATATAATAATA
59 TTAATGATTTAATAATA
145998 GTAAATATAT
Statistics
Matches: 194, Mismatches: 5, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
125 117 0.60
128 5 0.03
129 4 0.02
130 32 0.16
131 1 0.01
133 1 0.01
134 4 0.02
135 30 0.15
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (127 bp):
AATTACTTTAATGATTTAACTTTAATGATTTAATAATAATTACTTTAATGATTTAATTTTAATGA
TTTAATAATAATTACTTTAATGATTTAATAATAATTACTTAACTTTAATGATTTAAATAATT
Found at i:147875 original size:37 final size:37
Alignment explanation
Indices: 147822--148082 Score: 330
Period size: 37 Copynumber: 6.8 Consensus size: 37
147812 ATCATTAAAG
147822 TTAAA-TAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
*
147858 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
*
147895 TTAAAGTTAAATAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAAG-----TAATTATTATTAAATCATTAAAGTTAAATCA
147937 TTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCA
1 TTAAAG-----TAATTATTATTAAATCATTAAAGTTAAATCA
*
147979 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
*
148016 TTAAAGTAATTATTATTAAATCATTAAAG-TAATTATTA
1 TTAAAGTAATTATTATTAAATCATTAAAGTTAA--ATCA
* **
148054 TTAAA-TCATTAAAATTAAATCATTAAAGT
1 TTAAAGTAATTATTATTAAATCATTAAAGT
148083 AATTATTATT
Statistics
Matches: 208, Mismatches: 8, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
36 8 0.04
37 114 0.55
38 8 0.04
42 78 0.38
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (37 bp):
TTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
Found at i:147902 original size:121 final size:120
Alignment explanation
Indices: 147765--148123 Score: 477
Period size: 121 Copynumber: 2.9 Consensus size: 120
147755 AGTAATTATT
* *
147765 ATTAAATCATTAAAGTTAAATCATTAAAGTTAAGTAATTATTTTTAAATCATTAAAGTTAAATAA
1 ATTAAATCATTAAAGTTAAATAATTAAA-TTAAGTAATTATTATTAAATCATTAAAGTTAAATAA
147830 TTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
65 TTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
* * * **
147886 ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAATTAAATCATTAAAGTTAAATAA
1 ATTAAATCATTAAAGTTAAATAATTA-AATTAAGTAATTATTATTAAATCATTAAAGTTAAATAA
147951 TTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
65 TTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
*
148007 ATTAAATCATTAAAG-TAATTATTATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTA
1 ATTAAATCATTAAAGTTAA--ATAATT-AA--ATT-AAGTAATTATTATTAAATC------ATTA
*
148071 AATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATT
54 AA--GTTAAA-TAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATT
148124 GAAATATAAT
Statistics
Matches: 208, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
120 3 0.01
121 127 0.61
122 6 0.03
123 1 0.00
124 3 0.01
125 15 0.07
131 6 0.03
133 5 0.02
134 42 0.20
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (120 bp):
ATTAAATCATTAAAGTTAAATAATTAAATTAAGTAATTATTATTAAATCATTAAAGTTAAATAAT
TATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
Found at i:147906 original size:79 final size:79
Alignment explanation
Indices: 147808--148043 Score: 374
Period size: 79 Copynumber: 3.0 Consensus size: 79
147798 GTAATTATTT
*
147808 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTA
1 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTA
147873 TTAAATCATTAAAA
66 TTAAATCATTAAAA
147887 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAATTAAATCATTAAAGTTAAATAAT
1 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAATTAAATCATTAAAG-----TAAT
*
147952 TATTATTAAATCATTAAAG
61 TATTATTAAATCATTAAAA
147971 TTAAATCATTAAAG-----TAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTA
1 TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTA
148031 TTAAATCATTAAA
66 TTAAATCATTAAA
148044 GTAATTATTA
Statistics
Matches: 150, Mismatches: 2, Indels: 15
0.90 0.01 0.09
Matches are distributed among these distances:
74 22 0.15
79 92 0.61
84 36 0.24
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (79 bp):
TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTA
TTAAATCATTAAAA
Found at i:148027 original size:9 final size:8
Alignment explanation
Indices: 147822--148129 Score: 63
Period size: 8 Copynumber: 41.9 Consensus size: 8
147812 ATCATTAAAG
147822 TTAAATAA
1 TTAAATAA
*
147830 TT--ATTA
1 TTAAATAA
*
147836 TTAAATCA
1 TTAAATAA
*
147844 TT-AA-AG
1 TTAAATAA
*
147850 TTAAATCA
1 TTAAATAA
147858 TTAAAGTAA
1 TTAAA-TAA
*
147867 TT--ATTA
1 TTAAATAA
*
147873 TTAAATCA
1 TTAAATAA
147881 TT-AA-AA
1 TTAAATAA
*
147887 TTAAATCA
1 TTAAATAA
*
147895 TT-AA-AG
1 TTAAATAA
147901 TTAAATAA
1 TTAAATAA
*
147909 TT--ATTA
1 TTAAATAA
*
147915 TTAAATCA
1 TTAAATAA
147923 TT-AA-AA
1 TTAAATAA
*
147929 TTAAATCA
1 TTAAATAA
*
147937 TT-AA-AG
1 TTAAATAA
147943 TTAAATAA
1 TTAAATAA
*
147951 TT--ATTA
1 TTAAATAA
*
147957 TTAAATCA
1 TTAAATAA
*
147965 TT-AA-AG
1 TTAAATAA
*
147971 TTAAATCA
1 TTAAATAA
147979 TTAAAGTAA
1 TTAAA-TAA
*
147988 TT--ATTA
1 TTAAATAA
*
147994 TTAAATCA
1 TTAAATAA
148002 TT-AA-AA
1 TTAAATAA
*
148008 TTAAATCA
1 TTAAATAA
148016 TTAAAGTAA
1 TTAAA-TAA
*
148025 TT--ATTA
1 TTAAATAA
*
148031 TTAAATCA
1 TTAAATAA
148039 TTAAAGTAA
1 TTAAA-TAA
*
148048 TT--ATTA
1 TTAAATAA
*
148054 TTAAATCA
1 TTAAATAA
148062 TT-AA-AA
1 TTAAATAA
*
148068 TTAAATCA
1 TTAAATAA
148076 TTAAAGTAA
1 TTAAA-TAA
*
148085 TT--ATTA
1 TTAAATAA
*
148091 TTAAATCA
1 TTAAATAA
*
148099 TT-AA-AG
1 TTAAATAA
*
148105 TTAAATCA
1 TTAAATAA
148113 TTAAAGTAA
1 TTAAA-TAA
148122 TTGAAATA
1 TT-AAATA
148130 TAATAATACA
Statistics
Matches: 211, Mismatches: 48, Indels: 81
0.62 0.14 0.24
Matches are distributed among these distances:
6 57 0.27
7 41 0.19
8 84 0.40
9 26 0.12
10 3 0.01
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.41
Consensus pattern (8 bp):
TTAAATAA
Found at i:148064 original size:97 final size:96
Alignment explanation
Indices: 147943--148123 Score: 335
Period size: 97 Copynumber: 1.9 Consensus size: 96
147933 ATCATTAAAG
*
147943 TTAAATAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAA
1 TTAAATAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAA
148008 TTAAATCATTAAAGTAATTATTATTAAATCA
66 TTAAATCATTAAAGTAATTATTATTAAATCA
148039 TTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 TTAAA-TAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
*
148104 GTTAAATCATTAAAGTAATT
65 ATTAAATCATTAAAGTAATT
148124 GAAATATAAT
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
96 5 0.06
97 77 0.94
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (96 bp):
TTAAATAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAA
TTAAATCATTAAAGTAATTATTATTAAATCA
Found at i:148118 original size:14 final size:14
Alignment explanation
Indices: 147728--148119 Score: 313
Period size: 14 Copynumber: 29.8 Consensus size: 14
147718 CTATTATTAT
147728 ATCATTAAA-TATAA
1 ATCATTAAAGT-TAA
*
147742 ATCATTAAAGTCAA
1 ATCATTAAAGTTAA
* * *
147756 GTAATTATTA-TTAA
1 ATCATTA-AAGTTAA
147770 ATCATTAAAGTTAA
1 ATCATTAAAGTTAA
147784 ATCATTAAAGTTAA
1 ATCATTAAAGTTAA
* * ***
147798 GTAATTATTTTTAA
1 ATCATTAAAGTTAA
147812 ATCATTAAAGTTAA
1 ATCATTAAAGTTAA
* *
147826 ATAATTATTA-TTAA
1 ATCATTA-AAGTTAA
147840 ATCATTAAAGTTAA
1 ATCATTAAAGTTAA
147854 ATCATTAAAG-T-A
1 ATCATTAAAGTTAA
*
147866 ATTATT--A-TTAA
1 ATCATTAAAGTTAA
*
147877 ATCATTAAAATTAA
1 ATCATTAAAGTTAA
147891 ATCATTAAAGTTAA
1 ATCATTAAAGTTAA
* *
147905 ATAATTATTA-TTAA
1 ATCATTA-AAGTTAA
*
147919 ATCATTAAAATTAA
1 ATCATTAAAGTTAA
147933 ATCATTAAAGTTAA
1 ATCATTAAAGTTAA
* *
147947 ATAATTATTA-TTAA
1 ATCATTA-AAGTTAA
147961 ATCATTAAAGTTAA
1 ATCATTAAAGTTAA
147975 ATCATTAAAG-T-A
1 ATCATTAAAGTTAA
*
147987 ATTATT--A-TTAA
1 ATCATTAAAGTTAA
*
147998 ATCATTAAAATTAA
1 ATCATTAAAGTTAA
148012 ATCATTAAAG-T-A
1 ATCATTAAAGTTAA
*
148024 ATTATT--A-TTAA
1 ATCATTAAAGTTAA
148035 ATCATTAAAG-T-A
1 ATCATTAAAGTTAA
*
148047 ATTATT--A-TTAA
1 ATCATTAAAGTTAA
*
148058 ATCATTAAAATTAA
1 ATCATTAAAGTTAA
148072 ATCATTAAAG-T-A
1 ATCATTAAAGTTAA
*
148084 ATTATT--A-TTAA
1 ATCATTAAAGTTAA
148095 ATCATTAAAGTTAA
1 ATCATTAAAGTTAA
148109 ATCATTAAAGT
1 ATCATTAAAGT
148120 AATTGAAATA
Statistics
Matches: 300, Mismatches: 44, Indels: 68
0.73 0.11 0.17
Matches are distributed among these distances:
10 10 0.03
11 30 0.10
12 30 0.10
13 14 0.05
14 211 0.70
15 5 0.02
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (14 bp):
ATCATTAAAGTTAA
Found at i:149865 original size:51 final size:48
Alignment explanation
Indices: 149810--149908 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 48
149800 AAAATTAATA
149810 CTTTTATAAAACATGTGCTTGCTTTCGTTTATTGCCAGGGACCAA-ACTTTT
1 CTTTTATAAAACATGTGC-T--TTT-GTTTATTGCCAGGGACCAATACTTTT
* *
149861 CTTTTATAAAACATGTGCTTTTGTTTATTGCTAGGGCCCAATACTTTT
1 CTTTTATAAAACATGTGCTTTTGTTTATTGCCAGGGACCAATACTTTT
149909 GCAGCATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
47 17 0.38
48 9 0.20
50 1 0.02
51 18 0.40
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (48 bp):
CTTTTATAAAACATGTGCTTTTGTTTATTGCCAGGGACCAATACTTTT
Found at i:150086 original size:32 final size:32
Alignment explanation
Indices: 150047--150132 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
150037 ATGATGCTGA
150047 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
1 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
*
150079 TGAAGAAGACGCCAAGAACTCCACCCCAAGGC
1 TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
*
150111 TGAAGAAGACGCCGAGAGCTCC
1 TGAAGAAGACGCCGAGAACTCC
150133 CATGAACATC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.35, C:0.33, G:0.26, T:0.07
Consensus pattern (32 bp):
TGAAGAAGACGCCGAGAACTCCACCCCAAGGC
Found at i:150183 original size:47 final size:47
Alignment explanation
Indices: 150114--150221 Score: 200
Period size: 47 Copynumber: 2.3 Consensus size: 47
150104 CCAAGGCTGA
150114 AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAACG-AACATATAT
1 AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAA-GTAACATATAT
150161 AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAAGTAACATATAT
1 AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAAGTAACATATAT
150208 AGAAGACGCCGAGA
1 AGAAGACGCCGAGA
150222 TATCCGATAG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
46 1 0.02
47 59 0.98
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (47 bp):
AGAAGACGCCGAGAGCTCCCATGAACATCTTTTGAAGTAACATATAT
Found at i:153156 original size:4 final size:4
Alignment explanation
Indices: 153142--153192 Score: 52
Period size: 4 Copynumber: 13.0 Consensus size: 4
153132 TTTCCTTTTG
* **
153142 ATTT A-TT ATTT ATTT ATTTT ATTT ACTT A-AC ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
153189 ATTT
1 ATTT
153193 GTATAACATT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
3 4 0.10
4 31 0.79
5 4 0.10
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:153199 original size:27 final size:27
Alignment explanation
Indices: 153147--153215 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
153137 TTTTGATTTA
153147 TTATTTATTTATTTTATTTACTTAACAT
1 TTATTTATTTA-TTTATTTACTTAACAT
*
153175 TTATTTATTTATTTATTT-GTATAACAT
1 TTATTTATTTATTTATTTACT-TAACAT
*
153202 TT-TTTATTTTTTTA
1 TTATTTATTTATTTA
153216 AGAAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 12 0.32
27 15 0.39
28 11 0.29
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.68
Consensus pattern (27 bp):
TTATTTATTTATTTATTTACTTAACAT
Found at i:157548 original size:46 final size:47
Alignment explanation
Indices: 157494--157608 Score: 189
Period size: 46 Copynumber: 2.5 Consensus size: 47
157484 ATTAACATAG
*
157494 TATTTTTATTTTTCAATGATGATGTGATTAACATAATATTTTTA-TA
1 TATTTTTATTTTTCAATGATGATGTGATTAACAAAATATTTTTATTA
*
157540 TATTTTTATTTTTCAATGATGATGTGATTAATAAAATATTTTTATTA
1 TATTTTTATTTTTCAATGATGATGTGATTAACAAAATATTTTTATTA
*
157587 TATTTTTATTTTTTAATG-TGAT
1 TATTTTTATTTTTCAATGATGAT
157609 ATTATTTTGT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
46 46 0.71
47 19 0.29
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (47 bp):
TATTTTTATTTTTCAATGATGATGTGATTAACAAAATATTTTTATTA
Found at i:158611 original size:2 final size:2
Alignment explanation
Indices: 158606--158654 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
158596 TTTTTAAAAC
158606 AT AT AT AT AT 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 AT AT
158648 AT AT AT A
1 AT AT AT A
158655 CCTTAATCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:158839 original size:24 final size:24
Alignment explanation
Indices: 158812--158920 Score: 96
Period size: 24 Copynumber: 4.5 Consensus size: 24
158802 AAACGAAGAT
158812 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
158836 ATCAGATATCATAACAGAATCCAA
1 ATCAGAAATCAAAACAGAATTCAG
* *
158860 ATCAGAAATCAGAACAAAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
158884 GTCATG-TATCAGAACAGAATTCA-
1 ATCA-GAAATCAAAACAGAATTCAG
*
158907 AGTCAAAAATCAAA
1 A-TCAGAAATCAAA
158921 TAAAATATTT
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
24 65 0.98
25 1 0.02
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:158883 original size:48 final size:47
Alignment explanation
Indices: 158812--158926 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 47
158802 AAACGAAGAT
* *
158812 ATCAGAAATCAAAACAGAATTCAGATCA-GATATCATAACAGAATCCAA
1 ATCAGAAATC-AAACAAAATTCAGATCATG-TATCAGAACAGAATCCAA
* *
158860 ATCAGAAATCAGAACAAAATTCAGGTCATGTATCAGAACAGAATTCAA
1 ATCAGAAATCA-AACAAAATTCAGATCATGTATCAGAACAGAATCCAA
* * *
158908 GTCAAAAATCAAATAAAAT
1 ATCAGAAATCAAACAAAAT
158927 ATTTATGTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.14
48 49 0.84
49 1 0.02
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.20
Consensus pattern (47 bp):
ATCAGAAATCAAACAAAATTCAGATCATGTATCAGAACAGAATCCAA
Found at i:162429 original size:169 final size:167
Alignment explanation
Indices: 162149--162483 Score: 636
Period size: 169 Copynumber: 2.0 Consensus size: 167
162139 CTTGGATACA
162149 AGTGTTGAATTTGTATATCTCTGACACGGATATATTCAGTGTGCTGTGTGTAAATTAGTTAAATT
1 AGTGTTGAATTTGTATATCTCTGACACGGATATATTCAGTGTGCTGTGTGTAAATTAGTTAAATT
162214 ATCATCAAAATTCATCTTTGCAATTGAGCCCCATTTTGCAGTTCTTAATTGTCATTTGGGATCTG
66 ATCATCAAAATTCATCTTTGCAATTGAGCCCCATTTTGCAGTTCTT-ATTGTCATTT-GGATCTG
162279 CATTTCTTTCTACTCAGCATATTTGTTCTGTTGAATGAAT
129 CATTTCTTTCTACTCAGCATATTTGTTCT-TTGAATGAAT
162319 AGTGTTGAATTTGTATATCTCTGACACGGATATATTCAGTGTGCTGTGTG-AAATTAGTTAAATT
1 AGTGTTGAATTTGTATATCTCTGACACGGATATATTCAGTGTGCTGTGTGTAAATTAGTTAAATT
162383 ATCATCAAAATTCATCTTTGCAATTGAGCCCCATTTTGCAGTTCTTATTGTCATTTGGATCTGCA
66 ATCATCAAAATTCATCTTTGCAATTGAGCCCCATTTTGCAGTTCTTATTGTCATTTGGATCTGCA
162448 TTTCTTTCTACTCAGCATATTTGTTCTTTGAATGAA
131 TTTCTTTCTACTCAGCATATTTGTTCTTTGAATGAA
162484 GATGAGTTAC
Statistics
Matches: 165, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
166 9 0.05
167 36 0.22
168 10 0.06
169 60 0.36
170 50 0.30
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (167 bp):
AGTGTTGAATTTGTATATCTCTGACACGGATATATTCAGTGTGCTGTGTGTAAATTAGTTAAATT
ATCATCAAAATTCATCTTTGCAATTGAGCCCCATTTTGCAGTTCTTATTGTCATTTGGATCTGCA
TTTCTTTCTACTCAGCATATTTGTTCTTTGAATGAAT
Found at i:173326 original size:11 final size:11
Alignment explanation
Indices: 173310--173339 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
173300 CATTATCGAT
173310 AAATCAAAGGA
1 AAATCAAAGGA
173321 AAATCAAAGGA
1 AAATCAAAGGA
*
173332 AATTCAAA
1 AAATCAAA
173340 ACTACAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (11 bp):
AAATCAAAGGA
Found at i:174038 original size:31 final size:31
Alignment explanation
Indices: 174003--174075 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
173993 TTACTAACAA
174003 TAGATGTCTA-ACG-TTTTCTCCGTTACACTTT
1 TAGATGTCTATA-GTTTTTC-CCGTTACACTTT
**
174034 TAGATACCTATAGTTTTTCCCGTTACACTTT
1 TAGATGTCTATAGTTTTTCCCGTTACACTTT
*
174065 CAGATGTCTAT
1 TAGATGTCTAT
174076 CGATATATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 29 0.83
32 6 0.17
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (31 bp):
TAGATGTCTATAGTTTTTCCCGTTACACTTT
Found at i:188648 original size:3 final size:3
Alignment explanation
Indices: 188640--188668 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
188630 ATATTTAAGC
188640 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
188669 AGAATTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:191294 original size:24 final size:26
Alignment explanation
Indices: 191251--191298 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
191241 GAACTCATAA
*
191251 AAAATTTAGAAGTTCGATTGAAGCCT
1 AAAATTTAGAAGTTCAATTGAAGCCT
191277 AAAATTT-G-AGTTCAATTGAAGC
1 AAAATTTAGAAGTTCAATTGAAGC
191299 GAAAGAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 1 0.05
26 7 0.33
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (26 bp):
AAAATTTAGAAGTTCAATTGAAGCCT
Found at i:192040 original size:21 final size:19
Alignment explanation
Indices: 192014--192056 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
192004 TACTAAAAGT
*
192014 TTTGAGTTATTCGAGTTACTA
1 TTTGAGTTAGTCGA-TT-CTA
192035 TTTGAGTTAGTCGATTCTA
1 TTTGAGTTAGTCGATTCTA
192054 TTT
1 TTT
192057 TATAACTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 2 0.10
21 13 0.62
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (19 bp):
TTTGAGTTAGTCGATTCTA
Found at i:193504 original size:37 final size:37
Alignment explanation
Indices: 193429--193534 Score: 133
Period size: 37 Copynumber: 2.7 Consensus size: 37
193419 TAAGTAATTG
*
193429 TTCATAATAATAAGTGTTGGAAAAAATAAATTTTAAGGGCAAC
1 TTCATAATAATAAGTATT-G--AAAA-AAA--TTAAGGGCAAC
*
193472 TTCATAATAATAAGTATTGAAAAAAATTAAGGGTAAC
1 TTCATAATAATAAGTATTGAAAAAAATTAAGGGCAAC
193509 TTCATAATAATAAGTATT-AAAAAAAT
1 TTCATAATAATAAGTATTGAAAAAAAT
193535 GAGTTTTAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
36 8 0.13
37 28 0.46
39 3 0.05
40 4 0.07
42 1 0.02
43 17 0.28
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (37 bp):
TTCATAATAATAAGTATTGAAAAAAATTAAGGGCAAC
Found at i:196644 original size:3 final size:3
Alignment explanation
Indices: 196636--196691 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
196626 AAGAAAGAAA
* * * *
196636 AAT AAT AAT ATT AAT ATT AAT AAT AAT ATT AAAT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
196682 AAT AAT AAT A
1 AAT AAT AAT A
196692 TACCCAGACA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:196670 original size:28 final size:28
Alignment explanation
Indices: 196639--196692 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
196629 AAAGAAAAAT
* * *
196639 AATAATATTAATATTAATAATAATATTA
1 AATAATAATAACAATAATAATAATATTA
196667 AATAATAATAACAATAATAATAATAT
1 AATAATAATAACAATAATAATAATAT
196693 ACCCAGACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
AATAATAATAACAATAATAATAATATTA
Found at i:197354 original size:45 final size:45
Alignment explanation
Indices: 197244--197657 Score: 256
Period size: 45 Copynumber: 9.3 Consensus size: 45
197234 CTCATCCCCA
* * * *
197244 CGAGAAAATCAAGAAGGACAT-AGTCGAAAAG-TTGACTCCTCTCCG
1 CGAGAAAGTCAAGAAGGACATCA--CTAAAAGATTGACTTCTCTTCG
* * * * * * * *
197289 CGTGAAAGTTAATAATGACATCATTAAAAGGTTGACTTTTCTTTG
1 CGAGAAAGTCAAGAAGGACATCACTAAAAGATTGACTTCTCTTCG
* * * *
197334 CGAGAAAGTCACGAAGGACATCACTAACAGATTAACTTCTCTTCA
1 CGAGAAAGTCAAGAAGGACATCACTAAAAGATTGACTTCTCTTCG
* * * ** *
197379 CGAGAAAGTCAAGGACGTCAT-A-TAAAA-ATTGACCCCTCTTTG
1 CGAGAAAGTCAAGAAGGACATCACTAAAAGATTGACTTCTCTTCG
* * * * * *
197421 CAAGAAAGTCAAGAATTG-CATCACTAACAGGTTGACTTTTCTTCA
1 CGAGAAAGTCAAGAA-GGACATCACTAAAAGATTGACTTCTCTTCG
* ** *
197466 CGAGAAGGTCAAGAAGGAGGTCACTAAAAGATTGAC-TCATATTCG
1 CGAGAAAGTCAAGAAGGACATCACTAAAAGATTGACTTC-TCTTCG
** * * * * * * *
197511 CGAGAAAGTCAAGAATAACCTTACTGAAATATTTACTCCTATTCG
1 CGAGAAAGTCAAGAAGGACATCACTAAAAGATTGACTTCTCTTCG
* *
197556 CGAGAAAGTCAAGAATGACAAT-ACTAAAAGATTGAC-TCATCTTCA
1 CGAGAAAGTCAAGAAGGAC-ATCACTAAAAGATTGACTTC-TCTTCG
* * * * *
197601 CGAGAAAGACAATAAGGATATCA-TAAGAGATTGAC-TCTTCTTTG
1 CGAGAAAGTCAAGAAGGACATCACTAAAAGATTGACTTC-TCTTCG
197645 CGAGAAAGTCAAG
1 CGAGAAAGTCAAG
197658 TTAAGGTTTG
Statistics
Matches: 276, Mismatches: 81, Indels: 25
0.72 0.21 0.07
Matches are distributed among these distances:
42 26 0.09
43 6 0.02
44 43 0.16
45 198 0.72
46 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (45 bp):
CGAGAAAGTCAAGAAGGACATCACTAAAAGATTGACTTCTCTTCG
Found at i:197758 original size:37 final size:36
Alignment explanation
Indices: 197672--197916 Score: 181
Period size: 37 Copynumber: 6.6 Consensus size: 36
197662 GGTTTGTAGG
*
197672 GAAACAATCCTAAGAATGACTAAAATGAATTTCTAGA
1 GAAACAATCCTAAGAAGGACTAAAA-GAATTTCTAGA
****
197709 GAAATGGGCCTAAGAAGGACTCTAAAA-AATTTCTAGA
1 GAAACAATCCTAAGAAGGA--CTAAAAGAATTTCTAGA
* * **
197746 AAAACAATCCTAAAAAGGACTAAAATGACCTTCTAGA
1 GAAACAATCCTAAGAAGGACTAAAA-GAATTTCTAGA
* * * *
197783 GAAACGATCCTAAGAATGACTCCAACA-AATTTTTAGA
1 GAAACAATCCTAAGAAGGACT--AAAAGAATTTCTAGA
* * *
197820 TAAACAATCCTAAGAAGAACTAAAATGAATTTATAGA
1 GAAACAATCCTAAGAAGGACTAAAA-GAATTTCTAGA
* ** * *
197857 G-AACTGATTATAATAAAGACTAAAAATGAATTTCTAGA
1 GAAAC-AATCCTAAGAAGGACT-AAAA-GAATTTCTAGA
*
197895 GAAACGATCCTAAGAAGGACTA
1 GAAACAATCCTAAGAAGGACTA
197917 GAGTGAGGTT
Statistics
Matches: 158, Mismatches: 39, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
35 9 0.06
36 3 0.02
37 106 0.67
38 28 0.18
39 12 0.08
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (36 bp):
GAAACAATCCTAAGAAGGACTAAAAGAATTTCTAGA
Found at i:197795 original size:74 final size:74
Alignment explanation
Indices: 197673--197916 Score: 240
Period size: 74 Copynumber: 3.3 Consensus size: 74
197663 GTTTGTAGGG
* * * * *
197673 AAACAATCCTAAGAATGACTAAAATGAATTTCTAGAGAAATGGGCCTAAGAAGGACTCTAAAAAA
1 AAACAATCCTAAGAAGGACTAAAATGAACTTCTAGAGAAACGAGCCTAAGAAGGACTCCAAAAAA
197738 TTTCTAGAA
66 TTTCTAGAA
* * * * *
197747 AAACAATCCTAAAAAGGACTAAAATGACCTTCTAGAGAAACGATCCTAAGAATGACTCCAACAAA
1 AAACAATCCTAAGAAGGACTAAAATGAACTTCTAGAGAAACGAGCCTAAGAAGGACTCCAAAAAA
* *
197812 TTTTTAGAT
66 TTTCTAGAA
* * * *** * * *
197821 AAACAATCCTAAGAAGAACTAAAATGAATTTATAGAG-AACTGATTATAATAAAGACT-AAAAAT
1 AAACAATCCTAAGAAGGACTAAAATGAACTTCTAGAGAAAC-GAGCCTAAGAAGGACTCCAAAA-
*
197884 GAATTTCTAGAG
64 -AATTTCTAGAA
*
197896 AAACGATCCTAAGAAGGACTA
1 AAACAATCCTAAGAAGGACTA
197917 GAGTGAGGTT
Statistics
Matches: 140, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
73 6 0.04
74 106 0.76
75 28 0.20
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (74 bp):
AAACAATCCTAAGAAGGACTAAAATGAACTTCTAGAGAAACGAGCCTAAGAAGGACTCCAAAAAA
TTTCTAGAA
Found at i:203230 original size:2 final size:2
Alignment explanation
Indices: 203223--203248 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
203213 TTTTATCAAT
203223 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
203249 AGGAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:203288 original size:13 final size:13
Alignment explanation
Indices: 203272--203301 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
203262 CGTAATATAT
203272 ATATGTAAAATAA
1 ATATGTAAAATAA
203285 ATATGTAAAATAA
1 ATATGTAAAATAA
203298 ATAT
1 ATAT
203302 AGGTTATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
ATATGTAAAATAA
Found at i:203874 original size:22 final size:22
Alignment explanation
Indices: 203838--203879 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
203828 AATGTAAACG
*
203838 CAAAAATATTGAAAGCTTGTAAT
1 CAAAAATATTAAAAG-TTGTAAT
203861 CAAAAA-ATTAAAAGTTGTA
1 CAAAAATATTAAAAGTTGTA
203880 TTTAGTGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (22 bp):
CAAAAATATTAAAAGTTGTAAT
Found at i:206152 original size:18 final size:17
Alignment explanation
Indices: 206125--206158 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
206115 CACACACATG
206125 CATGTGTATATTTGTTTA
1 CATGTGTATA-TTGTTTA
*
206143 CATGTTTATATTGTTT
1 CATGTGTATATTGTTT
206159 TTGATCCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.59
Consensus pattern (17 bp):
CATGTGTATATTGTTTA
Found at i:209064 original size:43 final size:43
Alignment explanation
Indices: 209017--209108 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
209007 AGGTACTGAT
* * *
209017 ATTTAGCGGCGTCTGTCTTACAAACGCCGCAATAGGAGTTGAG
1 ATTTAGCGACGTCTGTCTCACAAACGCCGCAATAAGAGTTGAG
* * * *
209060 ATTTAGCGACGTTTTTGTCACAAACGCCGCAATAAGTGTTGAG
1 ATTTAGCGACGTCTGTCTCACAAACGCCGCAATAAGAGTTGAG
209103 ATTTAG
1 ATTTAG
209109 TGGCATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
ATTTAGCGACGTCTGTCTCACAAACGCCGCAATAAGAGTTGAG
Found at i:209118 original size:43 final size:43
Alignment explanation
Indices: 209036--209118 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
209026 CGTCTGTCTT
* *
209036 ACAAACGCCGCAATAGGAGTTGAGATTTAGCGACGTTTTTGTC
1 ACAAACGCCGCAATAAGAGTTGAGATTTAGCGACATTTTTGTC
* * *
209079 ACAAACGCCGCAATAAGTGTTGAGATTTAGTGGCATTTTT
1 ACAAACGCCGCAATAAGAGTTGAGATTTAGCGACATTTTT
209119 TTATGCAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
ACAAACGCCGCAATAAGAGTTGAGATTTAGCGACATTTTTGTC
Found at i:209291 original size:43 final size:44
Alignment explanation
Indices: 209124--209292 Score: 153
Period size: 44 Copynumber: 3.9 Consensus size: 44
209114 TTTTTTTATG
** * * *
209124 CAAACGCCGCTAAAATTCTGGTATTTAGTGGTGTTTTTA-AGATA
1 CAAACGCCGCTAAAGGTCTGGTATATAGCGGCGTTTTTAGA-ATA
* * *** * *
209168 CAAATGCTGCGGTAGGTTTGCTATATAGCGGCGTTTTTAGAATA
1 CAAACGCCGCTAAAGGTCTGGTATATAGCGGCGTTTTTAGAATA
* * * *
209212 CAAACGCTGCTAATGGTCTGGTATATATCGGTGTTTTTAGAATA
1 CAAACGCCGCTAAAGGTCTGGTATATAGCGGCGTTTTTAGAATA
* *
209256 CAAACGCCGCTAAAGGT-TGGTATATAGAGACGTTTTT
1 CAAACGCCGCTAAAGGTCTGGTATATAGCGGCGTTTTT
209293 TTTTATAAAA
Statistics
Matches: 97, Mismatches: 27, Indels: 3
0.76 0.21 0.02
Matches are distributed among these distances:
43 16 0.16
44 80 0.82
45 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (44 bp):
CAAACGCCGCTAAAGGTCTGGTATATAGCGGCGTTTTTAGAATA
Done.