Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011155.1 Kokia drynarioides strain JFW-HI SEQ_126129, 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: 337589
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 49 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:4849 original size:15 final size:16
Alignment explanation
Indices: 4818--4856 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
4808 AATTTTTGCC
4818 TTGTTTTTCATTATTT
1 TTGTTTTTCATTATTT
4834 TTGTTTTT-ATT-TTT
1 TTGTTTTTCATTATTT
4848 TTGCTTTTT
1 TTG-TTTTT
4857 TCATGTGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 8 0.36
16 8 0.36
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.79
Consensus pattern (16 bp):
TTGTTTTTCATTATTT
Found at i:5642 original size:24 final size:23
Alignment explanation
Indices: 5615--5660 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
5605 ATTTCCTAAA
*
5615 AAGGAGATATAAGGAAGGTGAGAG
1 AAGGAGAAATAAGG-AGGTGAGAG
*
5639 AAGGAGAAATAAGGTGGTGAGA
1 AAGGAGAAATAAGGAGGTGAGA
5661 AGGAATGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.41, T:0.13
Consensus pattern (23 bp):
AAGGAGAAATAAGGAGGTGAGAG
Found at i:7236 original size:21 final size:20
Alignment explanation
Indices: 7196--7237 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7186 TTTTTCCCTT
* *
7196 ACTTTATTTCTTTAACTTTA
1 ACTTTATTTCTTCAAATTTA
7216 ACTTTATGTTCTTCAAATTTA
1 ACTTTAT-TTCTTCAAATTTA
7237 A
1 A
7238 AACTCAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (20 bp):
ACTTTATTTCTTCAAATTTA
Found at i:8269 original size:20 final size:21
Alignment explanation
Indices: 8244--8294 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
8234 GAAAAATTAA
8244 TTTGAAAAATCTAAG-TGATT
1 TTTGAAAAATCTAAGTTGATT
*
8264 TTTGAAAAATCTAAGTTTATT
1 TTTGAAAAATCTAAGTTGATT
*
8285 TTTGGAAAAT
1 TTTGAAAAAT
8295 TAATTTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (21 bp):
TTTGAAAAATCTAAGTTGATT
Found at i:8862 original size:14 final size:13
Alignment explanation
Indices: 8835--8859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8825 ATTACCCCAC
8835 TGAAAATTTTTTA
1 TGAAAATTTTTTA
8848 TGAAAATTTTTT
1 TGAAAATTTTTT
8860 TATTCGAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TGAAAATTTTTTA
Found at i:13218 original size:45 final size:45
Alignment explanation
Indices: 13154--13243 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
13144 TGTTTATAAT
13154 AGTAATTAGTTGAAGATCTAAATTTGGGATATGGGAACCGTCATC
1 AGTAATTAGTTGAAGATCTAAATTTGGGATATGGGAACCGTCATC
13199 AGTAATTAGTTGAAGATCTAAATTTGGGATATGGGAACCGTCATC
1 AGTAATTAGTTGAAGATCTAAATTTGGGATATGGGAACCGTCATC
13244 TTCCCCTATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.31
Consensus pattern (45 bp):
AGTAATTAGTTGAAGATCTAAATTTGGGATATGGGAACCGTCATC
Found at i:21992 original size:20 final size:18
Alignment explanation
Indices: 21968--22016 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
21958 AATAGCATTT
21968 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
21986 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
22006 T-TTAATTTAAT
1 TATTAATTTAAT
22017 GTTTATCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.26
18 2 0.07
19 4 0.15
20 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:24473 original size:13 final size:13
Alignment explanation
Indices: 24430--24473 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
24420 TCACTTTCTG
24430 TTTTTATATAATT
1 TTTTTATATAATT
*
24443 TTCTTATA-AA-T
1 TTTTTATATAATT
*
24454 TTGTTATATAATT
1 TTTTTATATAATT
24467 TTTTTAT
1 TTTTTAT
24474 GAATGTGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 8 0.31
12 4 0.15
13 14 0.54
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (13 bp):
TTTTTATATAATT
Found at i:27696 original size:26 final size:25
Alignment explanation
Indices: 27633--27706 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
27623 TTCCTTGGTT
* *
27633 CTTGCGAGCTAAGT-TCACGAGCTCCT
1 CTTGCGAGCT-AGTCT-GCGAGCTCCA
27659 CTTGCGAGCTAGGTCTGCGAGCTCCA
1 CTTGCGAGCTA-GTCTGCGAGCTCCA
*
27685 CTTGCGAGCTAGTCTGCAAGCT
1 CTTGCGAGCTAGTCTGCGAGCT
27707 TCCCTCGCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 11 0.26
26 31 0.72
27 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.26
Consensus pattern (25 bp):
CTTGCGAGCTAGTCTGCGAGCTCCA
Found at i:35699 original size:141 final size:141
Alignment explanation
Indices: 35445--35727 Score: 494
Period size: 141 Copynumber: 2.0 Consensus size: 141
35435 TTAAAATACA
* * *
35445 ATAACTTAAAAGTTGGAATTTATAGTATACATTATAGTCCTAGAGGGATATTGTGATACAAATTG
1 ATAACTTAAAAGTTGGAATTTATAGGATACACTATAGTCCTAGAGGGATATTGTAATACAAATTG
*
35510 GGTAATTGATAAAGTTAGCCTTACAAGTGAGTATATCTTCACCTTGGGTGGAGTAGTTATTTATT
66 GGTAATTGATAAAGTTAGCCTTACAAGTGAGTATATCTTCACCTTGGGTGGAGCAGTTATTTATT
35575 GTAAGTATGTT
131 GTAAGTATGTT
* * *
35586 ATAACTTAGAAGTTGGAATTTATAGGATACACTATAGTCCTAGAGGGATGTTGTAATGCAAATTG
1 ATAACTTAAAAGTTGGAATTTATAGGATACACTATAGTCCTAGAGGGATATTGTAATACAAATTG
*
35651 GGTAATTGATAAAGTTAGCCTTACAAGTGAGTATATCTTCACCTTGGGTGGAGCAGTTATTTCTT
66 GGTAATTGATAAAGTTAGCCTTACAAGTGAGTATATCTTCACCTTGGGTGGAGCAGTTATTTATT
35716 GTAAGTATGTT
131 GTAAGTATGTT
35727 A
1 A
35728 AACAAACGTG
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 134 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (141 bp):
ATAACTTAAAAGTTGGAATTTATAGGATACACTATAGTCCTAGAGGGATATTGTAATACAAATTG
GGTAATTGATAAAGTTAGCCTTACAAGTGAGTATATCTTCACCTTGGGTGGAGCAGTTATTTATT
GTAAGTATGTT
Found at i:36175 original size:87 final size:86
Alignment explanation
Indices: 36052--36218 Score: 207
Period size: 87 Copynumber: 1.9 Consensus size: 86
36042 TACCAGCATA
* * * *
36052 AGGTTGAGTTCTCACTCTTAATGTGTTCATATCCC-AAGATTTTGGTGGTCGTATTGAG--GTAG
1 AGGTTGAGTTATCACTCTTAATGTGTTCATATCCCAAAG-TTTGGGTGGCCCTATTGAGACG-A-
*
36114 ACTTGATGAATTCACCGACATGAG
63 ACTTGATAAATTCACCGACATGAG
*
36138 AGGTTGAGTTTATTACTCTTAATG-GATTCATATCCCAAAGTTTGGGTGGCCCTATTGAGACGAA
1 AGGTTGAG-TTATCACTCTTAATGTG-TTCATATCCCAAAGTTTGGGTGGCCCTATTGAGACGAA
36202 CTTGATAAATTCACCGA
64 CTTGATAAATTCACCGA
36219 ACTTAAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
86 9 0.13
87 56 0.80
88 4 0.06
89 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGTGTTCATATCCCAAAGTTTGGGTGGCCCTATTGAGACGAACT
TGATAAATTCACCGACATGAG
Found at i:39745 original size:12 final size:12
Alignment explanation
Indices: 39721--39760 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
39711 CTCATGGAAA
39721 TTATTT-CTTAT
1 TTATTTACTTAT
*
39732 TTATTTATTTAT
1 TTATTTACTTAT
*
39744 TTATTTACTTAC
1 TTATTTACTTAT
39756 TTATT
1 TTATT
39761 GATTACTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTTACTTAT
Found at i:40333 original size:17 final size:18
Alignment explanation
Indices: 40310--40454 Score: 140
Period size: 17 Copynumber: 8.3 Consensus size: 18
40300 CCAAACTCAT
40310 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
* *
40328 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
* *
40345 TTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
40363 TTTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
* *
40380 TTTAAATTTAATTTGAG-
1 TTTAAATTTATTTTAAGA
* *
40397 TTTAAATTTAATTTGAG-
1 TTTAAATTTATTTTAAGA
*
40414 TTTAAATTTACTTTCAA-A
1 TTTAAATTTA-TTTTAAGA
* *
40432 TTTAAAATTATTATAA-A
1 TTTAAATTTATTTTAAGA
40449 TTTAAA
1 TTTAAA
40455 ATAAATAAAG
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
17 68 0.61
18 44 0.39
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:40349 original size:35 final size:34
Alignment explanation
Indices: 40310--40454 Score: 139
Period size: 35 Copynumber: 4.2 Consensus size: 34
40300 CCAAACTCAT
*
40310 TTTAAATTTATTTTAAGATTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGATTAAATTTATTTT-AAA
* *
40345 TTTAAATTTGTTTTAAAATTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAGA-TTAAATTTATTTTAAA
* * * * * *
40380 TTTAAATTTAATTTGAGTTTAAATTTAATTTGAG
1 TTTAAATTTATTTTAAGATTAAATTTATTTTAAA
* * *
40414 TTTAAATTTACTTTCAA-ATTTAAAATTATTATAAA
1 TTTAAATTTA-TTTTAAGA-TTAAATTTATTTTAAA
40449 TTTAAA
1 TTTAAA
40455 ATAAATAAAG
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
34 23 0.26
35 52 0.60
36 12 0.14
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (34 bp):
TTTAAATTTATTTTAAGATTAAATTTATTTTAAA
Found at i:40353 original size:6 final size:6
Alignment explanation
Indices: 40342--40454 Score: 69
Period size: 6 Copynumber: 19.5 Consensus size: 6
40332 ATTTGTTTTA
** *
40342 AAATTT AAATTT -GTTTT AAAATTT AAATTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * *
40389 -AATTT GAGTTT AAATTT -AATTT GAGTTT AAATTT -ACTTT CAAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT -AAATTT
*
40435 AAAATT --ATTAT AAATTT AAA
1 AAATTT AAATT-T AAATTT AAA
40455 ATAAATAAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
4 2 0.02
5 22 0.27
6 47 0.58
7 10 0.12
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:40377 original size:11 final size:12
Alignment explanation
Indices: 40342--40454 Score: 69
Period size: 11 Copynumber: 9.8 Consensus size: 12
40332 ATTTGTTTTA
40342 AAATTTAAATTT
1 AAATTTAAATTT
**
40354 -GTTTTAAAATTT
1 AAATTT-AAATTT
*
40366 AAATTT-ATTTT
1 AAATTTAAATTT
40377 AAATTTAAATTT
1 AAATTTAAATTT
* *
40389 -AATTTGAGTTT
1 AAATTTAAATTT
40400 AAATTT-AATTT
1 AAATTTAAATTT
* *
40411 GAGTTTAAATTT
1 AAATTTAAATTT
*
40423 -ACTTTCAAATTT
1 AAATTT-AAATTT
*
40435 AAAATT--ATTAT
1 AAATTTAAATT-T
40446 AAATTTAAA
1 AAATTTAAA
40455 ATAAATAAAG
Statistics
Matches: 76, Mismatches: 15, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
10 3 0.04
11 40 0.53
12 26 0.34
13 7 0.09
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (12 bp):
AAATTTAAATTT
Found at i:41124 original size:3 final size:3
Alignment explanation
Indices: 41116--41199 Score: 62
Period size: 3 Copynumber: 28.0 Consensus size: 3
41106 ATATCATTAG
* * * * * * *
41116 TAA TAA TAA TAG TCA TAA TAA CAT TAA TAA TAA TAC TAA TAA CAT TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
41165 TAA TAA T-A TAT TAA TAA TTA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41200 ATATAAAAAA
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
2 2 0.03
3 55 0.93
4 2 0.03
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:41145 original size:21 final size:21
Alignment explanation
Indices: 41116--41199 Score: 82
Period size: 21 Copynumber: 3.9 Consensus size: 21
41106 ATATCATTAG
41116 TAATAATAATAGTCATAATAACAT
1 TAATAATAATA--C-TAATAACAT
41140 TAATAATAATACTAATAACAT
1 TAATAATAATACTAATAACAT
* *
41161 TAAATAATAATA-TATTAATAAT
1 T-AATAATAATACTAATAA-CAT
*
41183 T-ATAATAATATTAATAA
1 TAATAATAATACTAATAA
41200 ATATAAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
20 9 0.17
21 20 0.37
22 14 0.26
24 11 0.20
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (21 bp):
TAATAATAATACTAATAACAT
Found at i:41179 original size:24 final size:22
Alignment explanation
Indices: 41116--41199 Score: 88
Period size: 24 Copynumber: 3.9 Consensus size: 22
41106 ATATCATTAG
41116 TAATAATAATAGTCATAATAACAT
1 TAATAATAATA-T-ATAATAACAT
*
41140 TAATAATAATA-CTAATAACAT
1 TAATAATAATATATAATAACAT
41161 TAAATAATAATATATTAAT-A-AT
1 T-AATAATAATATA-TAATAACAT
41183 T-ATAATAATAT-TAATAA
1 TAATAATAATATATAATAA
41200 ATATAAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.07
19 1 0.02
20 10 0.19
21 10 0.19
22 13 0.24
23 1 0.02
24 15 0.28
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (22 bp):
TAATAATAATATATAATAACAT
Found at i:42307 original size:30 final size:29
Alignment explanation
Indices: 42261--42454 Score: 173
Period size: 30 Copynumber: 6.6 Consensus size: 29
42251 CTTGAAGTTC
42261 CTAAAAATTACATTTTTACCCCTAAAATT
1 CTAAAAATTACATTTTTACCCCTAAAATT
* *
42290 CTAAAAATTCCATTTTTTA-CCCTGAAACTT
1 CTAAAAATTACA-TTTTTACCCCT-AAAATT
* * *
42320 CCAAAAAATACA-TTTTACCCCTAAACTT
1 CTAAAAATTACATTTTTACCCCTAAAATT
* * * *
42348 CCAAAATTTCCATTTTGA-CCCTAAAACTT
1 CTAAAAATTACATTTTTACCCCTAAAA-TT
*
42377 CTAAAAATTACATTTTTACCCCTAAATTT
1 CTAAAAATTACATTTTTACCCCTAAAATT
* * *
42406 CCAAGAATTTTCATTTTTAACCCC-AAAACTT
1 CTAA-AAATTACATTTTT-ACCCCTAAAA-TT
42437 -TCAAAAATTACATTTTTA
1 CT-AAAAATTACATTTTTA
42455 TCCTCGAACT
Statistics
Matches: 133, Mismatches: 22, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
28 27 0.20
29 45 0.34
30 52 0.39
31 9 0.07
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
CTAAAAATTACATTTTTACCCCTAAAATT
Found at i:42337 original size:58 final size:58
Alignment explanation
Indices: 42221--42576 Score: 278
Period size: 59 Copynumber: 6.1 Consensus size: 58
42211 CCTTAGAGGT
* ** *
42221 CCCTAAACTATCCAAAAATT--ATATTTTAACCTTGAAGTTCCTAAAAATTACATTTTTAC
1 CCCTAAACT-TCCAAAAATTCCAT-TTTTACCCTAAAACTTCC-AAAAATTACATTTTTAC
* * * *
42280 CCCTAAAATTCTAAAAATTCCATTTTTTACCCTGAAACTTCCAAAAAATACA-TTTTAC
1 CCCTAAACTTCCAAAAATTCCA-TTTTTACCCTAAAACTTCCAAAAATTACATTTTTAC
* * *
42338 CCCTAAACTTCCAAAATTTCCATTTTGACCCTAAAACTTCTAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTCCATTTTTACCCTAAAACTTCCAAAAATTACATTTTTAC
* * * * *
42396 CCCTAAATTTCCAAGAATTTTCATTTTTAACCCCAAAACTTTCAAAAATTACATTTTTA-
1 CCCTAAACTTCCAA-AAATTCCATTTTT-ACCCTAAAACTTCCAAAAATTACATTTTTAC
* * * * *** *
42455 TCCTCGAACTTCCAAAAATTCCATTTTTAACCTCGAAACTTTTGAAATTTACCA-TTTTA-
1 CCCT-AAACTTCCAAAAATTCCATTTTTACCCT-AAAACTTCCAAAAATTA-CATTTTTAC
* ** * *
42514 CCCTCGAACTTCC-AAAATTCCATTTTTGACTCCCGAAACTTTCAAAATTTACCA-TTTTAC
1 CCCT-AAACTTCCAAAAATTCCATTTTT-AC-CCTAAAACTTCCAAAAATTA-CATTTTTAC
42574 CCC
1 CCC
42577 CGAATGTCCA
Statistics
Matches: 249, Mismatches: 36, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
57 25 0.10
58 70 0.28
59 96 0.39
60 57 0.23
61 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATTCCATTTTTACCCTAAAACTTCCAAAAATTACATTTTTAC
Found at i:42513 original size:30 final size:30
Alignment explanation
Indices: 42420--42572 Score: 120
Period size: 30 Copynumber: 5.2 Consensus size: 30
42410 GAATTTTCAT
* * *
42420 TTTTAACCCCAAAACTTTCAAAAATTA-CA
1 TTTTAACCTCGAAACTTTCAAAATTTACCA
* * *
42449 TTTTTATCCTCG-AACTTCCAAAAATT-CCA
1 -TTTTAACCTCGAAACTTTCAAAATTTACCA
**
42478 TTTTTAACCTCGAAACTTTTGAAATTTACCA
1 -TTTTAACCTCGAAACTTTCAAAATTTACCA
* *
42509 TTTTACCCTCG-AACTTCCAAAA-TT-CCA
1 TTTTAACCTCGAAACTTTCAAAATTTACCA
* *
42536 TTTTTGACTCCCGAAACTTTCAAAATTTACCA
1 -TTTTAAC-CTCGAAACTTTCAAAATTTACCA
42568 TTTTA
1 TTTTA
42573 CCCCCGAATG
Statistics
Matches: 97, Mismatches: 18, Indels: 15
0.75 0.14 0.12
Matches are distributed among these distances:
27 3 0.03
28 7 0.07
29 37 0.38
30 38 0.39
31 9 0.09
32 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (30 bp):
TTTTAACCTCGAAACTTTCAAAATTTACCA
Found at i:42513 original size:59 final size:59
Alignment explanation
Indices: 42292--42637 Score: 266
Period size: 59 Copynumber: 5.9 Consensus size: 59
42282 CTAAAATTCT
* * * ** *
42292 AAAAATTCCATTTTTTACCCTGAAACTTCCAAAAAATA-CATTTTACCC-CTAAACTTCC
1 AAAAATTCCATTTTTAACCCCGAAACTTTCAAAATTTACCATTTTACCCTC-GAACTTCC
* * ** * * *
42350 AAAATTTCCA-TTTTGACCCTAAAAC-TTCTAAAAATTA-CATTTTTACCC-CTAAATTTCC
1 AAAAATTCCATTTTTAACCCCGAAACTTTC-AAAATTTACCA-TTTTACCCTC-GAACTTCC
* * * * *
42408 AAGAATTTTCATTTTTAACCCCAAAACTTTCAAAAATTA-CATTTTTATCCTCGAACTTCC
1 AA-AAATTCCATTTTTAACCCCGAAACTTTCAAAATTTACCA-TTTTACCCTCGAACTTCC
* **
42468 AAAAATTCCATTTTTAACCTCGAAACTTTTGAAATTTACCATTTTACCCTCGAACTTCC
1 AAAAATTCCATTTTTAACCCCGAAACTTTCAAAATTTACCATTTTACCCTCGAACTTCC
* *
42527 -AAAATTCCATTTTTGACTCCCGAAACTTTCAAAATTTACCATTTTACCCCCGAA-TGTCC
1 AAAAATTCCATTTTTAAC-CCCGAAACTTTCAAAATTTACCATTTTACCCTCGAACT-TCC
** * ** *
42586 AAAAATGACATTTTTATCCCC--ATTTTTCTAAAA-TTACCGTTTTACCCTCGAA
1 AAAAATTCCATTTTTAACCCCGAAACTTTC-AAAATTTACCATTTTACCCTCGAA
42638 TATCTAAAAT
Statistics
Matches: 244, Mismatches: 33, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
56 2 0.01
57 44 0.18
58 49 0.20
59 91 0.37
60 54 0.22
61 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAAATTCCATTTTTAACCCCGAAACTTTCAAAATTTACCATTTTACCCTCGAACTTCC
Found at i:42553 original size:118 final size:114
Alignment explanation
Indices: 42226--42601 Score: 339
Period size: 118 Copynumber: 3.2 Consensus size: 114
42216 GAGGTCCCTA
** * *
42226 AACTATCCAAAAATT--ATATTTTAACCTTGAAGTTCCTAAAAATTACATTTTTACCCCTAAAAT
1 AACT-TCCAAAAATTCCAT-TTTTAACCTAAAACTT-CTAAAAATTACATTTTTACCCCTAAACT
* * * * * *
42289 TCTAAAAATTCCATTTTTTACCCTGAAACTTCCAAAAAATACATTTTACCCCTA
63 TC-CAAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTACCCC-G
* * * *
42343 AACTTCCAAAATTTCCATTTTGACCCTAAAACTTCTAAAAATTACATTTTTACCCCTAAATTTCC
1 AACTTCCAAAAATTCCATTTTTAACCTAAAACTTCTAAAAATTACATTTTTACCCCTAAACTTCC
* * *
42408 AAGAATTTTCATTTTTAACCCCAAAACTTTCAAAAATTACATTTTTATCCTCG
66 AA-AA-TTCCATTTTTAACCCCGAAACTTTCAAAAATTACA-TTTTA-CCCCG
* * * * *
42461 AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTTTGAAATTTACCA-TTTTA-CCCTCGAACT
1 AACTTCCAAAAATTCCATTTTTAACCT-AAAACTTCTAAAAATTA-CATTTTTACCCCT-AAACT
* *
42524 TCCAAAATTCCATTTTTGACTCCCGAAACTTTCAAAATTTACCATTTTACCCCCG
63 TCCAAAATTCCATTTTTAAC-CCCGAAACTTTCAAAAATTA-CATTTTA-CCCCG
**
42579 AA-TGTCCAAAAATGACATTTTTA
1 AACT-TCCAAAAATTCCATTTTTA
42602 TCCCCATTTT
Statistics
Matches: 214, Mismatches: 33, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
115 2 0.01
116 40 0.19
117 56 0.26
118 83 0.39
119 31 0.14
120 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (114 bp):
AACTTCCAAAAATTCCATTTTTAACCTAAAACTTCTAAAAATTACATTTTTACCCCTAAACTTCC
AAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTACCCCG
Found at i:42580 original size:30 final size:30
Alignment explanation
Indices: 42263--42576 Score: 203
Period size: 29 Copynumber: 10.7 Consensus size: 30
42253 TGAAGTTCCT
* *
42263 AAAAATTA-CATTTTTACCCCTAAA-ATTC
1 AAAAATTACCATTTTTACCCCGAAACTTTC
* *
42291 TAAAAATT-CCATTTTTTACCCTGAAACTTCC
1 -AAAAATTACCA-TTTTTACCCCGAAACTTTC
* *
42322 AAAAAATA-CA-TTTTACCCCTAAAC-TTC
1 AAAAATTACCATTTTTACCCCGAAACTTTC
* * * **
42349 CAAAATTTCCATTTTGACCCTAAAAC-TTC
1 AAAAATTACCATTTTTACCCCGAAACTTTC
*
42378 TAAAAATTA-CATTTTTACCCCTAAA-TTTCC
1 -AAAAATTACCATTTTTACCCCGAAACTTT-C
* ** *
42408 AAGAATTTTCATTTTTAACCCCAAAACTTTC
1 AAAAATTACCATTTTT-ACCCCGAAACTTTC
* *
42439 AAAAATTA-CATTTTTATCCTCG-AACTTCC
1 AAAAATTACCATTTTTA-CCCCGAAACTTTC
* *
42468 AAAAATT-CCATTTTTAACCTCGAAACTTTT
1 AAAAATTACCATTTTT-ACCCCGAAACTTTC
* *
42498 GAAATTTACCA-TTTTACCCTCG-AAC-TTC
1 AAAAATTACCATTTTTACCC-CGAAACTTTC
*
42526 CAAAATT-CCATTTTTGACTCCCGAAACTTTC
1 AAAAATTACCATTTTT-AC-CCCGAAACTTTC
*
42557 AAAATTTACCA-TTTTACCCC
1 AAAAATTACCATTTTTACCCC
42577 CGAATGTCCA
Statistics
Matches: 224, Mismatches: 37, Indels: 48
0.72 0.12 0.16
Matches are distributed among these distances:
27 10 0.04
28 25 0.11
29 83 0.37
30 68 0.30
31 32 0.14
32 6 0.03
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAAATTACCATTTTTACCCCGAAACTTTC
Found at i:47028 original size:16 final size:17
Alignment explanation
Indices: 47007--47039 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
46997 GCAAATAGAC
47007 CAGAACAGATTG-TTTG
1 CAGAACAGATTGCTTTG
47023 CAGAACAGATTGCTTTG
1 CAGAACAGATTGCTTTG
47040 TTTCTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (17 bp):
CAGAACAGATTGCTTTG
Found at i:47843 original size:14 final size:13
Alignment explanation
Indices: 47817--47841 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47807 TTAACACGTT
47817 TTTTTAATATTTA
1 TTTTTAATATTTA
47830 TTTTTAATATTT
1 TTTTTAATATTT
47842 TACTCCCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:48600 original size:4 final size:4
Alignment explanation
Indices: 48593--48634 Score: 75
Period size: 4 Copynumber: 10.2 Consensus size: 4
48583 CGGGCAGAAG
48593 AAGA AAGA AAGA AAGAA AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAG-A AAGA AAGA AAGA AAGA AAGA AAGA A
48635 GTAAGAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:49108 original size:24 final size:24
Alignment explanation
Indices: 49081--49127 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
49071 TGTGGAACTT
*
49081 GTAGAAAATGATGATCCAACTCCA
1 GTAGAAAATGAAGATCCAACTCCA
49105 GTAGAAAATGAAGATCCAACTCC
1 GTAGAAAATGAAGATCCAACTCC
49128 GTGTATGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (24 bp):
GTAGAAAATGAAGATCCAACTCCA
Found at i:49898 original size:87 final size:86
Alignment explanation
Indices: 49775--49941 Score: 207
Period size: 87 Copynumber: 1.9 Consensus size: 86
49765 TACCAGCATA
* * * *
49775 AGGTTGAGTTCTCACTCTTAATGTGTTCATATCCC-AAGATTTTGGTGGTCGTATTGAG--GTAG
1 AGGTTGAGTTATCACTCTTAATGTGTTCATATCCCAAAG-TTTGGGTGGCCCTATTGAGACG-A-
*
49837 ACTTGATGAATTCACCGACATGAG
63 ACTTGATAAATTCACCGACATGAG
*
49861 AGGTTGAGTTTATTACTCTTAATG-GATTCATATCCCAAAGTTTGGGTGGCCCTATTGAGACGAA
1 AGGTTGAG-TTATCACTCTTAATGTG-TTCATATCCCAAAGTTTGGGTGGCCCTATTGAGACGAA
49925 CTTGATAAATTCACCGA
64 CTTGATAAATTCACCGA
49942 ACTTAAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
86 9 0.13
87 56 0.80
88 4 0.06
89 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGTGTTCATATCCCAAAGTTTGGGTGGCCCTATTGAGACGAACT
TGATAAATTCACCGACATGAG
Found at i:53468 original size:12 final size:12
Alignment explanation
Indices: 53444--53483 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
53434 CTCATGGAAA
53444 TTATTT-CTTAT
1 TTATTTACTTAT
*
53455 TTATTTATTTAT
1 TTATTTACTTAT
*
53467 TTATTTACTTAC
1 TTATTTACTTAT
53479 TTATT
1 TTATT
53484 GATTACTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTTACTTAT
Found at i:54056 original size:17 final size:18
Alignment explanation
Indices: 54033--54177 Score: 140
Period size: 17 Copynumber: 8.3 Consensus size: 18
54023 CCAAACTCAT
54033 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
* *
54051 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
* *
54068 TTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
54086 TTTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
* *
54103 TTTAAATTTAATTTGAG-
1 TTTAAATTTATTTTAAGA
* *
54120 TTTAAATTTAATTTGAG-
1 TTTAAATTTATTTTAAGA
*
54137 TTTAAATTTACTTTCAA-A
1 TTTAAATTTA-TTTTAAGA
* *
54155 TTTAAAATTATTATAA-A
1 TTTAAATTTATTTTAAGA
54172 TTTAAA
1 TTTAAA
54178 ATAAATAAAG
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
17 68 0.61
18 44 0.39
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:54072 original size:35 final size:34
Alignment explanation
Indices: 54033--54177 Score: 139
Period size: 35 Copynumber: 4.2 Consensus size: 34
54023 CCAAACTCAT
*
54033 TTTAAATTTATTTTAAGATTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGATTAAATTTATTTT-AAA
* *
54068 TTTAAATTTGTTTTAAAATTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAGA-TTAAATTTATTTTAAA
* * * * * *
54103 TTTAAATTTAATTTGAGTTTAAATTTAATTTGAG
1 TTTAAATTTATTTTAAGATTAAATTTATTTTAAA
* * *
54137 TTTAAATTTACTTTCAA-ATTTAAAATTATTATAAA
1 TTTAAATTTA-TTTTAAGA-TTAAATTTATTTTAAA
54172 TTTAAA
1 TTTAAA
54178 ATAAATAAAG
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
34 23 0.26
35 52 0.60
36 12 0.14
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (34 bp):
TTTAAATTTATTTTAAGATTAAATTTATTTTAAA
Found at i:54076 original size:6 final size:6
Alignment explanation
Indices: 54065--54177 Score: 69
Period size: 6 Copynumber: 19.5 Consensus size: 6
54055 ATTTGTTTTA
** *
54065 AAATTT AAATTT -GTTTT AAAATTT AAATTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * *
54112 -AATTT GAGTTT AAATTT -AATTT GAGTTT AAATTT -ACTTT CAAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT -AAATTT
*
54158 AAAATT --ATTAT AAATTT AAA
1 AAATTT AAATT-T AAATTT AAA
54178 ATAAATAAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
4 2 0.02
5 22 0.27
6 47 0.58
7 10 0.12
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:54100 original size:11 final size:12
Alignment explanation
Indices: 54065--54177 Score: 69
Period size: 11 Copynumber: 9.8 Consensus size: 12
54055 ATTTGTTTTA
54065 AAATTTAAATTT
1 AAATTTAAATTT
**
54077 -GTTTTAAAATTT
1 AAATTT-AAATTT
*
54089 AAATTT-ATTTT
1 AAATTTAAATTT
54100 AAATTTAAATTT
1 AAATTTAAATTT
* *
54112 -AATTTGAGTTT
1 AAATTTAAATTT
54123 AAATTT-AATTT
1 AAATTTAAATTT
* *
54134 GAGTTTAAATTT
1 AAATTTAAATTT
*
54146 -ACTTTCAAATTT
1 AAATTT-AAATTT
*
54158 AAAATT--ATTAT
1 AAATTTAAATT-T
54169 AAATTTAAA
1 AAATTTAAA
54178 ATAAATAAAG
Statistics
Matches: 76, Mismatches: 15, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
10 3 0.04
11 40 0.53
12 26 0.34
13 7 0.09
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (12 bp):
AAATTTAAATTT
Found at i:54847 original size:3 final size:3
Alignment explanation
Indices: 54839--54922 Score: 62
Period size: 3 Copynumber: 28.0 Consensus size: 3
54829 ATATCATTAG
* * * * * * *
54839 TAA TAA TAA TAG TCA TAA TAA CAT TAA TAA TAA TAC TAA TAA CAT TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
54888 TAA TAA T-A TAT TAA TAA TTA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
54923 ATATAAAAAA
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
2 2 0.03
3 55 0.93
4 2 0.03
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:54868 original size:21 final size:21
Alignment explanation
Indices: 54839--54922 Score: 82
Period size: 21 Copynumber: 3.9 Consensus size: 21
54829 ATATCATTAG
54839 TAATAATAATAGTCATAATAACAT
1 TAATAATAATA--C-TAATAACAT
54863 TAATAATAATACTAATAACAT
1 TAATAATAATACTAATAACAT
* *
54884 TAAATAATAATA-TATTAATAAT
1 T-AATAATAATACTAATAA-CAT
*
54906 T-ATAATAATATTAATAA
1 TAATAATAATACTAATAA
54923 ATATAAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
20 9 0.17
21 20 0.37
22 14 0.26
24 11 0.20
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (21 bp):
TAATAATAATACTAATAACAT
Found at i:54902 original size:24 final size:22
Alignment explanation
Indices: 54839--54922 Score: 88
Period size: 24 Copynumber: 3.9 Consensus size: 22
54829 ATATCATTAG
54839 TAATAATAATAGTCATAATAACAT
1 TAATAATAATA-T-ATAATAACAT
*
54863 TAATAATAATA-CTAATAACAT
1 TAATAATAATATATAATAACAT
54884 TAAATAATAATATATTAAT-A-AT
1 T-AATAATAATATA-TAATAACAT
54906 T-ATAATAATAT-TAATAA
1 TAATAATAATATATAATAA
54923 ATATAAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.07
19 1 0.02
20 10 0.19
21 10 0.19
22 13 0.24
23 1 0.02
24 15 0.28
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (22 bp):
TAATAATAATATATAATAACAT
Found at i:56030 original size:30 final size:29
Alignment explanation
Indices: 55984--56177 Score: 173
Period size: 30 Copynumber: 6.6 Consensus size: 29
55974 CTTGAAGTTC
55984 CTAAAAATTACATTTTTACCCCTAAAATT
1 CTAAAAATTACATTTTTACCCCTAAAATT
* *
56013 CTAAAAATTCCATTTTTTA-CCCTGAAACTT
1 CTAAAAATTACA-TTTTTACCCCT-AAAATT
* * *
56043 CCAAAAAATACA-TTTTACCCCTAAACTT
1 CTAAAAATTACATTTTTACCCCTAAAATT
* * * *
56071 CCAAAATTTCCATTTTGA-CCCTAAAACTT
1 CTAAAAATTACATTTTTACCCCTAAAA-TT
*
56100 CTAAAAATTACATTTTTACCCCTAAATTT
1 CTAAAAATTACATTTTTACCCCTAAAATT
* * *
56129 CCAAGAATTTTCATTTTTAACCCC-AAAACTT
1 CTAA-AAATTACATTTTT-ACCCCTAAAA-TT
56160 -TCAAAAATTACATTTTTA
1 CT-AAAAATTACATTTTTA
56178 TCCTCGAACT
Statistics
Matches: 133, Mismatches: 22, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
28 27 0.20
29 45 0.34
30 52 0.39
31 9 0.07
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
CTAAAAATTACATTTTTACCCCTAAAATT
Found at i:56060 original size:58 final size:58
Alignment explanation
Indices: 55944--56299 Score: 278
Period size: 59 Copynumber: 6.1 Consensus size: 58
55934 CCTTAGAGGT
* ** *
55944 CCCTAAACTATCCAAAAATT--ATATTTTAACCTTGAAGTTCCTAAAAATTACATTTTTAC
1 CCCTAAACT-TCCAAAAATTCCAT-TTTTACCCTAAAACTTCC-AAAAATTACATTTTTAC
* * * *
56003 CCCTAAAATTCTAAAAATTCCATTTTTTACCCTGAAACTTCCAAAAAATACA-TTTTAC
1 CCCTAAACTTCCAAAAATTCCA-TTTTTACCCTAAAACTTCCAAAAATTACATTTTTAC
* * *
56061 CCCTAAACTTCCAAAATTTCCATTTTGACCCTAAAACTTCTAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTCCATTTTTACCCTAAAACTTCCAAAAATTACATTTTTAC
* * * * *
56119 CCCTAAATTTCCAAGAATTTTCATTTTTAACCCCAAAACTTTCAAAAATTACATTTTTA-
1 CCCTAAACTTCCAA-AAATTCCATTTTT-ACCCTAAAACTTCCAAAAATTACATTTTTAC
* * * * *** *
56178 TCCTCGAACTTCCAAAAATTCCATTTTTAACCTCGAAACTTTTGAAATTTACCA-TTTTA-
1 CCCT-AAACTTCCAAAAATTCCATTTTTACCCT-AAAACTTCCAAAAATTA-CATTTTTAC
* ** * *
56237 CCCTCGAACTTCC-AAAATTCCATTTTTGACTCCCGAAACTTTCAAAATTTACCA-TTTTAC
1 CCCT-AAACTTCCAAAAATTCCATTTTT-AC-CCTAAAACTTCCAAAAATTA-CATTTTTAC
56297 CCC
1 CCC
56300 CGAATGTCCA
Statistics
Matches: 249, Mismatches: 36, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
57 25 0.10
58 70 0.28
59 96 0.39
60 57 0.23
61 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATTCCATTTTTACCCTAAAACTTCCAAAAATTACATTTTTAC
Found at i:56236 original size:30 final size:30
Alignment explanation
Indices: 56143--56295 Score: 120
Period size: 30 Copynumber: 5.2 Consensus size: 30
56133 GAATTTTCAT
* * *
56143 TTTTAACCCCAAAACTTTCAAAAATTA-CA
1 TTTTAACCTCGAAACTTTCAAAATTTACCA
* * *
56172 TTTTTATCCTCG-AACTTCCAAAAATT-CCA
1 -TTTTAACCTCGAAACTTTCAAAATTTACCA
**
56201 TTTTTAACCTCGAAACTTTTGAAATTTACCA
1 -TTTTAACCTCGAAACTTTCAAAATTTACCA
* *
56232 TTTTACCCTCG-AACTTCCAAAA-TT-CCA
1 TTTTAACCTCGAAACTTTCAAAATTTACCA
* *
56259 TTTTTGACTCCCGAAACTTTCAAAATTTACCA
1 -TTTTAAC-CTCGAAACTTTCAAAATTTACCA
56291 TTTTA
1 TTTTA
56296 CCCCCGAATG
Statistics
Matches: 97, Mismatches: 18, Indels: 15
0.75 0.14 0.12
Matches are distributed among these distances:
27 3 0.03
28 7 0.07
29 37 0.38
30 38 0.39
31 9 0.09
32 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (30 bp):
TTTTAACCTCGAAACTTTCAAAATTTACCA
Found at i:56236 original size:59 final size:59
Alignment explanation
Indices: 56015--56360 Score: 266
Period size: 59 Copynumber: 5.9 Consensus size: 59
56005 CTAAAATTCT
* * * ** *
56015 AAAAATTCCATTTTTTACCCTGAAACTTCCAAAAAATA-CATTTTACCC-CTAAACTTCC
1 AAAAATTCCATTTTTAACCCCGAAACTTTCAAAATTTACCATTTTACCCTC-GAACTTCC
* * ** * * *
56073 AAAATTTCCA-TTTTGACCCTAAAAC-TTCTAAAAATTA-CATTTTTACCC-CTAAATTTCC
1 AAAAATTCCATTTTTAACCCCGAAACTTTC-AAAATTTACCA-TTTTACCCTC-GAACTTCC
* * * * *
56131 AAGAATTTTCATTTTTAACCCCAAAACTTTCAAAAATTA-CATTTTTATCCTCGAACTTCC
1 AA-AAATTCCATTTTTAACCCCGAAACTTTCAAAATTTACCA-TTTTACCCTCGAACTTCC
* **
56191 AAAAATTCCATTTTTAACCTCGAAACTTTTGAAATTTACCATTTTACCCTCGAACTTCC
1 AAAAATTCCATTTTTAACCCCGAAACTTTCAAAATTTACCATTTTACCCTCGAACTTCC
* *
56250 -AAAATTCCATTTTTGACTCCCGAAACTTTCAAAATTTACCATTTTACCCCCGAA-TGTCC
1 AAAAATTCCATTTTTAAC-CCCGAAACTTTCAAAATTTACCATTTTACCCTCGAACT-TCC
** * ** *
56309 AAAAATGACATTTTTATCCCC--ATTTTTCTAAAA-TTACCGTTTTACCCTCGAA
1 AAAAATTCCATTTTTAACCCCGAAACTTTC-AAAATTTACCATTTTACCCTCGAA
56361 TATCTAAAAT
Statistics
Matches: 244, Mismatches: 33, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
56 2 0.01
57 44 0.18
58 49 0.20
59 91 0.37
60 54 0.22
61 4 0.02
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAAATTCCATTTTTAACCCCGAAACTTTCAAAATTTACCATTTTACCCTCGAACTTCC
Found at i:56276 original size:118 final size:114
Alignment explanation
Indices: 55949--56324 Score: 339
Period size: 118 Copynumber: 3.2 Consensus size: 114
55939 GAGGTCCCTA
** * *
55949 AACTATCCAAAAATT--ATATTTTAACCTTGAAGTTCCTAAAAATTACATTTTTACCCCTAAAAT
1 AACT-TCCAAAAATTCCAT-TTTTAACCTAAAACTT-CTAAAAATTACATTTTTACCCCTAAACT
* * * * * *
56012 TCTAAAAATTCCATTTTTTACCCTGAAACTTCCAAAAAATACATTTTACCCCTA
63 TC-CAAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTACCCC-G
* * * *
56066 AACTTCCAAAATTTCCATTTTGACCCTAAAACTTCTAAAAATTACATTTTTACCCCTAAATTTCC
1 AACTTCCAAAAATTCCATTTTTAACCTAAAACTTCTAAAAATTACATTTTTACCCCTAAACTTCC
* * *
56131 AAGAATTTTCATTTTTAACCCCAAAACTTTCAAAAATTACATTTTTATCCTCG
66 AA-AA-TTCCATTTTTAACCCCGAAACTTTCAAAAATTACA-TTTTA-CCCCG
* * * * *
56184 AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTTTGAAATTTACCA-TTTTA-CCCTCGAACT
1 AACTTCCAAAAATTCCATTTTTAACCT-AAAACTTCTAAAAATTA-CATTTTTACCCCT-AAACT
* *
56247 TCCAAAATTCCATTTTTGACTCCCGAAACTTTCAAAATTTACCATTTTACCCCCG
63 TCCAAAATTCCATTTTTAAC-CCCGAAACTTTCAAAAATTA-CATTTTA-CCCCG
**
56302 AA-TGTCCAAAAATGACATTTTTA
1 AACT-TCCAAAAATTCCATTTTTA
56325 TCCCCATTTT
Statistics
Matches: 214, Mismatches: 33, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
115 2 0.01
116 40 0.19
117 56 0.26
118 83 0.39
119 31 0.14
120 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (114 bp):
AACTTCCAAAAATTCCATTTTTAACCTAAAACTTCTAAAAATTACATTTTTACCCCTAAACTTCC
AAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTACCCCG
Found at i:56303 original size:30 final size:30
Alignment explanation
Indices: 55986--56299 Score: 203
Period size: 29 Copynumber: 10.7 Consensus size: 30
55976 TGAAGTTCCT
* *
55986 AAAAATTA-CATTTTTACCCCTAAA-ATTC
1 AAAAATTACCATTTTTACCCCGAAACTTTC
* *
56014 TAAAAATT-CCATTTTTTACCCTGAAACTTCC
1 -AAAAATTACCA-TTTTTACCCCGAAACTTTC
* *
56045 AAAAAATA-CA-TTTTACCCCTAAAC-TTC
1 AAAAATTACCATTTTTACCCCGAAACTTTC
* * * **
56072 CAAAATTTCCATTTTGACCCTAAAAC-TTC
1 AAAAATTACCATTTTTACCCCGAAACTTTC
*
56101 TAAAAATTA-CATTTTTACCCCTAAA-TTTCC
1 -AAAAATTACCATTTTTACCCCGAAACTTT-C
* ** *
56131 AAGAATTTTCATTTTTAACCCCAAAACTTTC
1 AAAAATTACCATTTTT-ACCCCGAAACTTTC
* *
56162 AAAAATTA-CATTTTTATCCTCG-AACTTCC
1 AAAAATTACCATTTTTA-CCCCGAAACTTTC
* *
56191 AAAAATT-CCATTTTTAACCTCGAAACTTTT
1 AAAAATTACCATTTTT-ACCCCGAAACTTTC
* *
56221 GAAATTTACCA-TTTTACCCTCG-AAC-TTC
1 AAAAATTACCATTTTTACCC-CGAAACTTTC
*
56249 CAAAATT-CCATTTTTGACTCCCGAAACTTTC
1 AAAAATTACCATTTTT-AC-CCCGAAACTTTC
*
56280 AAAATTTACCA-TTTTACCCC
1 AAAAATTACCATTTTTACCCC
56300 CGAATGTCCA
Statistics
Matches: 224, Mismatches: 37, Indels: 48
0.72 0.12 0.16
Matches are distributed among these distances:
27 10 0.04
28 25 0.11
29 83 0.37
30 68 0.30
31 32 0.14
32 6 0.03
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAAATTACCATTTTTACCCCGAAACTTTC
Found at i:60751 original size:16 final size:17
Alignment explanation
Indices: 60730--60762 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
60720 GCAAATAGAC
60730 CAGAACAGATTG-TTTG
1 CAGAACAGATTGCTTTG
60746 CAGAACAGATTGCTTTG
1 CAGAACAGATTGCTTTG
60763 TTTCTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (17 bp):
CAGAACAGATTGCTTTG
Found at i:61566 original size:14 final size:13
Alignment explanation
Indices: 61540--61564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61530 TTAACACGTT
61540 TTTTTAATATTTA
1 TTTTTAATATTTA
61553 TTTTTAATATTT
1 TTTTTAATATTT
61565 TACTCCCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:62323 original size:4 final size:4
Alignment explanation
Indices: 62316--62357 Score: 75
Period size: 4 Copynumber: 10.2 Consensus size: 4
62306 CGGGCAGAAG
62316 AAGA AAGA AAGA AAGAA AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAG-A AAGA AAGA AAGA AAGA AAGA AAGA A
62358 GTAAGAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:62831 original size:24 final size:24
Alignment explanation
Indices: 62804--62850 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
62794 TGTGGAACTT
*
62804 GTAGAAAATGATGATCCAACTCCA
1 GTAGAAAATGAAGATCCAACTCCA
62828 GTAGAAAATGAAGATCCAACTCC
1 GTAGAAAATGAAGATCCAACTCC
62851 GTGTATGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (24 bp):
GTAGAAAATGAAGATCCAACTCCA
Found at i:65247 original size:21 final size:21
Alignment explanation
Indices: 65218--65270 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
65208 TGTTTTGAAT
*
65218 TTTAGGGTTTAAAATTTAGGG
1 TTTAAGGTTTAAAATTTAGGG
* *
65239 TTTAAGGTTTAAGATTTATGG
1 TTTAAGGTTTAAAATTTAGGG
*
65260 TTTATGGTTTA
1 TTTAAGGTTTA
65271 TAAGTATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTAAAATTTAGGG
Found at i:65249 original size:14 final size:14
Alignment explanation
Indices: 65218--65270 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
65208 TGTTTTGAAT
**
65218 TTTAGGGTTTAAAA
1 TTTAGGGTTTAAGG
65232 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
* * *
65246 TTTAAGATTTATGG
1 TTTAGGGTTTAAGG
*
65260 TTTATGGTTTA
1 TTTAGGGTTTA
65271 TAAGTATGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:65634 original size:6 final size:6
Alignment explanation
Indices: 65625--65680 Score: 103
Period size: 6 Copynumber: 9.3 Consensus size: 6
65615 TCCAATACCC
*
65625 CTTCCT CTTCCT CTTTCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT
1 CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT
65673 CTTCCT CT
1 CTTCCT CT
65681 AGGGCAGGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
CTTCCT
Found at i:67111 original size:16 final size:16
Alignment explanation
Indices: 67090--67140 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
67080 GGATGAGGAT
67090 ATTATTTTGGTAATTA
1 ATTATTTTGGTAATTA
* *
67106 ATTATTTT-TTTA-TA
1 ATTATTTTGGTAATTA
*
67120 CTATATTTTGGTAATTA
1 AT-TATTTTGGTAATTA
67137 ATTA
1 ATTA
67141 ACTAGGTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
14 3 0.12
15 8 0.31
16 12 0.46
17 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (16 bp):
ATTATTTTGGTAATTA
Found at i:68022 original size:22 final size:23
Alignment explanation
Indices: 67978--68026 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
67968 AGCAGCAATA
* *
67978 AAAATAATAATAATAATAGCACC
1 AAAATAATAATAAAAATAACACC
*
68001 AAAATAGTAA-AAAAATAACACC
1 AAAATAATAATAAAAATAACACC
68023 AAAA
1 AAAA
68027 CAACAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATAATAATAAAAATAACACC
Found at i:68066 original size:53 final size:57
Alignment explanation
Indices: 67954--68081 Score: 129
Period size: 53 Copynumber: 2.3 Consensus size: 57
67944 CCAAACAACC
* * * *
67954 AAAATAACAACCAAAGCAGCAATAAAAATAATAATAATAATAGCACCAAAATAGTAAA
1 AAAATAAC-ACCAAAACAACAATAAAAATAATAATAATAATAGCACCAAAACAATAAA
* * *
68012 AAAATAACACCAAAACAACAATCAAAAT-GTAA-AA-AA-AGCACTAAAACAATAAA
1 AAAATAACACCAAAACAACAATAAAAATAATAATAATAATAGCACCAAAACAATAAA
* * *
68065 AACACAACATCAAAACA
1 AAAATAACACCAAAACA
68082 GAAAAAATAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 28 0.47
54 2 0.03
55 2 0.03
56 3 0.05
57 17 0.28
58 8 0.13
ACGTcount: A:0.66, C:0.17, G:0.05, T:0.12
Consensus pattern (57 bp):
AAAATAACACCAAAACAACAATAAAAATAATAATAATAATAGCACCAAAACAATAAA
Found at i:68087 original size:22 final size:19
Alignment explanation
Indices: 68075--68114 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 19
68065 AACACAACAT
68075 CAAAACAGAAAAAATAGCAAC
1 CAAAACAGAAAAAA-A-CAAC
68096 CAAAACAGCAAAAAAACAA
1 CAAAACAG-AAAAAAACAA
68115 TACCAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 9 0.50
22 6 0.33
ACGTcount: A:0.70, C:0.20, G:0.07, T:0.03
Consensus pattern (19 bp):
CAAAACAGAAAAAAACAAC
Found at i:68362 original size:21 final size:21
Alignment explanation
Indices: 68337--68376 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
68327 TACTTACTAC
68337 TACTAACAAAATAAAATTACT
1 TACTAACAAAATAAAATTACT
*
68358 TACTAACAAAATTAAATTA
1 TACTAACAAAATAAAATTA
68377 AAGTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
TACTAACAAAATAAAATTACT
Found at i:68730 original size:22 final size:22
Alignment explanation
Indices: 68684--68734 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
68674 ATACACTACA
68684 TTTCTTTCATTCTCCTTCTTCTC
1 TTTC-TTCATTCTCCTTCTTCTC
*
68707 TTTCTTCCTTCTACCTTCTT-TC
1 TTTCTTCATTCT-CCTTCTTCTC
68729 TTTCTT
1 TTTCTT
68735 TCTTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTCTTCATTCTCCTTCTTCTC
Found at i:68744 original size:17 final size:17
Alignment explanation
Indices: 68722--68756 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
68712 TCCTTCTACC
68722 TTCTTTCTTTCTTTCTT
1 TTCTTTCTTTCTTTCTT
* *
68739 TTCTTTTTTTTTTTCTT
1 TTCTTTCTTTCTTTCTT
68756 T
1 T
68757 GTTCTACCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTCTTTCTTTCTTTCTT
Found at i:69788 original size:20 final size:21
Alignment explanation
Indices: 69751--69802 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
69741 TATTTTTCAA
*
69751 TAAAATTTTAATAATATTATT
1 TAAAATTTAAATAATATTATT
*
69772 TAAAATTTAAATTTATTATTATT
1 TAAAATTTAAA--TAATATTATT
69795 GTAAAATT
1 -TAAAATT
69803 AAGAGATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 10 0.38
23 9 0.35
24 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAAATTTAAATAATATTATT
Found at i:70690 original size:56 final size:56
Alignment explanation
Indices: 70622--70729 Score: 191
Period size: 56 Copynumber: 1.9 Consensus size: 56
70612 TAGTAATTAT
*
70622 TTAGGAATCAAATTGCTAAAATATAATATCTCATAATAATATCCT-ATAATATCCCA
1 TTAGGAATCAAATTGCTAAAAGATAATATC-CATAATAATATCCTAATAATATCCCA
70678 TTAGGAATCAAATTGCTAAAAGATAATATCCATAATAATATCCTAATAATAT
1 TTAGGAATCAAATTGCTAAAAGATAATATCCATAATAATATCCTAATAATAT
70730 ATAATATTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
55 14 0.28
56 36 0.72
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (56 bp):
TTAGGAATCAAATTGCTAAAAGATAATATCCATAATAATATCCTAATAATATCCCA
Found at i:70726 original size:11 final size:12
Alignment explanation
Indices: 70700--70729 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
70690 TTGCTAAAAG
70700 ATAATATCCATA
1 ATAATATCCATA
70712 ATAATATCC-TA
1 ATAATATCCATA
70723 ATAATAT
1 ATAATAT
70730 ATAATATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATCCATA
Found at i:74983 original size:18 final size:18
Alignment explanation
Indices: 74960--74995 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
74950 TTGTGAAGTT
*
74960 TAAAAAACTTCTTAAGCA
1 TAAAAAACTTCTCAAGCA
74978 TAAAAAACTTCTCAAGCA
1 TAAAAAACTTCTCAAGCA
74996 ATGCATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (18 bp):
TAAAAAACTTCTCAAGCA
Found at i:75539 original size:2 final size:2
Alignment explanation
Indices: 75499--75525 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
75489 TTCTTATAAT
75499 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
75526 GGCCCCTGTA
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:79071 original size:2 final size:2
Alignment explanation
Indices: 79064--79093 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
79054 AAACGACTAT
*
79064 GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
79094 AATGCAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:84007 original size:23 final size:23
Alignment explanation
Indices: 83964--84021 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
83954 TTTATTTCTC
83964 TTAAAAGCCCAAACCCATTAAAAT
1 TTAAAA-CCCAAACCCATTAAAAT
* *
83988 TTAAAACCCAATA-CCGTTAATAT
1 TTAAAACCCAA-ACCCATTAAAAT
84011 TT-AAACCCAAA
1 TTAAAACCCAAA
84022 TTAATAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.03
22 8 0.26
23 15 0.48
24 7 0.23
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.24
Consensus pattern (23 bp):
TTAAAACCCAAACCCATTAAAAT
Found at i:85403 original size:9 final size:9
Alignment explanation
Indices: 85386--85449 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
85376 AAATGATCTA
85386 TTATAATTT
1 TTATAATTT
*
85395 TTATGATTTT
1 TTAT-AATTT
*
85405 TTATAAAATT
1 TTAT-AATTT
*
85415 TTATGATTT
1 TTATAATTT
85424 TTAAATAATTT
1 TT--ATAATTT
85435 TT-T-ATTT
1 TTATAATTT
85442 TTATAATT
1 TTATAATT
85450 CCAAAATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
7 6 0.14
8 2 0.05
9 12 0.28
10 15 0.35
11 8 0.19
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:85408 original size:19 final size:19
Alignment explanation
Indices: 85386--85449 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
85376 AAATGATCTA
85386 TTATAATTTTTATGATTTT
1 TTATAATTTTTATGATTTT
*
85405 TTATAAAATTTTATGATTTT
1 TTAT-AATTTTTATGATTTT
*
85425 TAAATAATTTTT-T-A-TTT
1 T-TATAATTTTTATGATTTT
85442 TTATAATT
1 TTATAATT
85450 CCAAAATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 6 0.15
17 4 0.10
18 1 0.03
19 5 0.13
20 21 0.54
21 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATAATTTTTATGATTTT
Found at i:85436 original size:20 final size:21
Alignment explanation
Indices: 85388--85448 Score: 78
Period size: 19 Copynumber: 3.1 Consensus size: 21
85378 ATGATCTATT
85388 ATAATTTTTATGATTTTTTATA
1 ATAATTTTTATGA-TTTTTATA
85410 A-AA-TTTTATGATTTTTA-A
1 ATAATTTTTATGATTTTTATA
85428 ATAATTTTT-T-ATTTTTATA
1 ATAATTTTTATGATTTTTATA
85447 AT
1 AT
85449 TCCAAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
18 9 0.25
19 12 0.33
20 12 0.33
21 2 0.06
22 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATAATTTTTATGATTTTTATA
Found at i:86929 original size:21 final size:21
Alignment explanation
Indices: 86890--86947 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
86880 TGAAGCAGAC
*
86890 TTCTACTGATACTTA-TGACAA
1 TTCTACTGATAC-AAGTGACAA
**
86911 TTCTACTGATACAAGTGACTC
1 TTCTACTGATACAAGTGACAA
* *
86932 TACTACTAATACAAGT
1 TTCTACTGATACAAGT
86948 CTTACTTCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (21 bp):
TTCTACTGATACAAGTGACAA
Found at i:87219 original size:23 final size:21
Alignment explanation
Indices: 87166--87207 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
87156 CCCGGCTCGA
*
87166 ATTTATAATAATAATTTTTTT
1 ATTTTTAATAATAATTTTTTT
*
87187 ATTTTTAATACTAATTTTTTT
1 ATTTTTAATAATAATTTTTTT
87208 TTGCTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTAATAATAATTTTTTT
Found at i:87909 original size:41 final size:41
Alignment explanation
Indices: 87864--87943 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
87854 GCTTATTGTA
*
87864 TTTTTAATTTGTTTATTGTTTTACGAATTGTTTTAATATCG
1 TTTTTAATTTGTTTATTGTTTTAAGAATTGTTTTAATATCG
* * *
87905 TTTTTAATTTGTTTGTTGTTTTAATATTTGTTTTAATAT
1 TTTTTAATTTGTTTATTGTTTTAAGAATTGTTTTAATAT
87944 TTTTAAGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.65
Consensus pattern (41 bp):
TTTTTAATTTGTTTATTGTTTTAAGAATTGTTTTAATATCG
Found at i:87937 original size:12 final size:12
Alignment explanation
Indices: 87920--87945 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87910 AATTTGTTTG
87920 TTGTTTTAATAT
1 TTGTTTTAATAT
87932 TTGTTTTAATAT
1 TTGTTTTAATAT
87944 TT
1 TT
87946 TTAAGTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:88992 original size:52 final size:52
Alignment explanation
Indices: 88881--89001 Score: 145
Period size: 52 Copynumber: 2.3 Consensus size: 52
88871 ATTCATTTTC
* * **
88881 ATTTA-ATACTCATGATGACACATAGTCATCGGATCTTTTAACCCACAAAGA
1 ATTTATATACTCATGATGACACATAGTCATAGGACCTCATAACCCACAAAGA
* * * ** *
88932 ATTCATATACTCACGATGACACATAGTCATAGGACCTCATAATCCGTAAAGG
1 ATTTATATACTCATGATGACACATAGTCATAGGACCTCATAACCCACAAAGA
88984 ATTTATATACTCATGATG
1 ATTTATATACTCATGATG
89002 GATTTATATA
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
51 4 0.07
52 53 0.93
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (52 bp):
ATTTATATACTCATGATGACACATAGTCATAGGACCTCATAACCCACAAAGA
Found at i:89020 original size:19 final size:19
Alignment explanation
Indices: 88982--89020 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
88972 AATCCGTAAA
* *
88982 GGATTTATATACTCATGAT
1 GGATTTATATAATCACGAT
89001 GGATTTATATAATCACGAT
1 GGATTTATATAATCACGAT
89020 G
1 G
89021 ACACATAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (19 bp):
GGATTTATATAATCACGAT
Found at i:89052 original size:71 final size:71
Alignment explanation
Indices: 88936--89067 Score: 228
Period size: 71 Copynumber: 1.9 Consensus size: 71
88926 CAAAGAATTC
* * *
88936 ATATACTCACGATGACACATAGTCATAGGACCTCATAATCCGTAAAGGATTTATATACTCATGAT
1 ATATAATCACGATGACACATAATCATAGGACCTCATAATCCGTAAACGATTTATATACTCATGAT
89001 GGATTT
66 GGATTT
*
89007 ATATAATCACGATGACACATAATCATCGGACCTCATAATCCGTAAACGATTTATATACTCA
1 ATATAATCACGATGACACATAATCATAGGACCTCATAATCCGTAAACGATTTATATACTCA
89068 CGATAACACA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (71 bp):
ATATAATCACGATGACACATAATCATAGGACCTCATAATCCGTAAACGATTTATATACTCATGAT
GGATTT
Found at i:89062 original size:52 final size:52
Alignment explanation
Indices: 89001--89194 Score: 325
Period size: 52 Copynumber: 3.7 Consensus size: 52
88991 TACTCATGAT
* *
89001 GGATTTATATAATCACGATGACACATAATCATCGGACCTCATAATCCGTAAA
1 GGATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAA
* *
89053 CGATTTATATACTCACGATAACACATAGTCATCGGACCTCATAATCCGTAAA
1 GGATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAA
* *
89105 GGATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAGA
1 GGATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAA
*
89157 GGATTTATATACTCATGATGACACATAGTCATCGGACC
1 GGATTTATATACTCACGATGACACATAGTCATCGGACC
89195 CTTTTCGTTT
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 133 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (52 bp):
GGATTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAA
Found at i:93678 original size:5 final size:5
Alignment explanation
Indices: 93668--93773 Score: 72
Period size: 5 Copynumber: 21.2 Consensus size: 5
93658 TAGGACATGC
* * *
93668 TATGA TATGA T-TCGA TATGA TATGA TATGA TATGA CATGA CATGA TAAGA
1 TATGA TATGA TAT-GA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
* * * * * * ** *
93718 TATGC TATGT TACT-A TTTGA TGTGA TATGA TAAGC TATGA TCCGA AATGA
1 TATGA TATGA TA-TGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
93768 TATGA T
1 TATGA T
93774 CTCTAAAATA
Statistics
Matches: 77, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
4 2 0.03
5 73 0.95
6 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.37
Consensus pattern (5 bp):
TATGA
Found at i:95005 original size:13 final size:13
Alignment explanation
Indices: 94979--95015 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
94969 ATATAAAAAT
94979 ATCCT-AATAATA
1 ATCCTAAATAATA
*
94991 ATCCTAAATATTA
1 ATCCTAAATAATA
95004 ATCCTAAA-AATA
1 ATCCTAAATAATA
95016 GAGTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
ATCCTAAATAATA
Found at i:96382 original size:13 final size:13
Alignment explanation
Indices: 96364--96388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96354 TGTAATTGTG
96364 TAATTATAATTTA
1 TAATTATAATTTA
96377 TAATTATAATTT
1 TAATTATAATTT
96389 GTACCACCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTATAATTTA
Found at i:101888 original size:98 final size:95
Alignment explanation
Indices: 101715--101900 Score: 255
Period size: 98 Copynumber: 1.9 Consensus size: 95
101705 GATTTTGTTA
101715 TTGTAACATTTATTATTCATGTATTCCATTCCACCACCCCATCCCTCAAGAAAAGAAGAAGAGAA
1 TTGTAACATTTATTATTCATGTATTCCATTCCACCACCCCATCCCTCAAGAAAAGAAGAAGAGAA
* * * *
101780 CTCTTCTTCTAAAGGGATCAGGGGTCGTGT
66 CACTTATTCTAAAGAGAGCAGGGGTCGTGT
* * * * * *
101810 TTGTAACATTTATTATTCATGCTATACTCCATTCCCCCACTCCTTTCCTTAAGGAAAGAAGAAGA
1 TTGTAACATTTATTATTCATG-TAT--TCCATTCCACCACCCCATCCCTCAAGAAAAGAAGAAGA
101875 GAACACTTATTCTAAAGAGAGCAGGG
63 GAACACTTATTCTAAAGAGAGCAGGG
101901 ATTGGGTTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
95 21 0.27
96 3 0.04
98 54 0.69
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (95 bp):
TTGTAACATTTATTATTCATGTATTCCATTCCACCACCCCATCCCTCAAGAAAAGAAGAAGAGAA
CACTTATTCTAAAGAGAGCAGGGGTCGTGT
Found at i:105873 original size:16 final size:18
Alignment explanation
Indices: 105834--105875 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
105824 TAAGTTTATA
105834 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
105851 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
105868 A-ATTTATA
1 ATATTTATA
105876 ACCTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:110837 original size:73 final size:73
Alignment explanation
Indices: 110755--110900 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
110745 TTGGAAGTGC
* *
110755 CTAATTCATATCACTTCATCCCTTATTTATAATACATGTAAATCTCTAGTT-GACTCCAAATTAA
1 CTAATTCATATCACTTAATCCCCTATTTATAATACATGTAAATCTCTAGTTGGA-TCCAAATTAA
110819 ATTCTAAAA
65 ATTCTAAAA
*
110828 CTAATTCATATCACTTAATCCCCTATTTATAATACATGTGAATCTCTAGTTGGATCCAAATTAAA
1 CTAATTCATATCACTTAATCCCCTATTTATAATACATGTAAATCTCTAGTTGGATCCAAATTAAA
110893 TTCTAAAA
66 TTCTAAAA
110901 AGATAATTAG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 67 0.97
74 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (73 bp):
CTAATTCATATCACTTAATCCCCTATTTATAATACATGTAAATCTCTAGTTGGATCCAAATTAAA
TTCTAAAA
Found at i:110914 original size:25 final size:23
Alignment explanation
Indices: 110886--110931 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
110876 GTTGGATCCA
110886 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
110911 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
110932 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:114152 original size:19 final size:17
Alignment explanation
Indices: 114122--114164 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
114112 AGAACGTCCA
114122 AAAATAAATAAATAAATTAT
1 AAAAT-AATAAATAAA--AT
114142 AAAATAATAAATAAAAT
1 AAAATAATAAATAAAAT
114159 AAAATA
1 AAAATA
114165 TATAGTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
19 10 0.43
20 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAATAAATAAAAT
Found at i:114564 original size:25 final size:25
Alignment explanation
Indices: 114512--114562 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
114502 AATTATTTAA
* *
114512 TTAGATAATATTATTTTATTAACAT
1 TTAGATAATAATATTTTAATAACAT
*
114537 TTAGATAA-AATATTTTAATAATAT
1 TTAGATAATAATATTTTAATAACAT
114561 TT
1 TT
114563 TATTATGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
TTAGATAATAATATTTTAATAACAT
Found at i:115620 original size:102 final size:104
Alignment explanation
Indices: 115457--115766 Score: 292
Period size: 97 Copynumber: 3.1 Consensus size: 104
115447 AAAAAAATTA
** * *
115457 GGGTGTCGGCCATCCCTTTTTTGTCAGAAAAAAATTTTCAAAATTTTTTTGTGTTGGCCATCAAA
1 GGGTGTCGGCCATCCCTTTTTTG-CAGAAAAAAAAATTCAAAATTTTTTTGTATTGACCATCAAA
*
115522 TTGCCGACACCCTCTTTTCAC-AAAAAAAAATGCATTTTT
65 TGGCCGACACCCTCTTTTCACGAAAAAAAAATGCATTTTT
115561 GGGTGTCGGCCATGCCC-TTTTTG-AGAAAAAAAAATTCAAAA-TTTTTTGATATTGACCATCAA
1 GGGTGTCGGCCAT-CCCTTTTTTGCAGAAAAAAAAATTCAAAATTTTTTTG-TATTGACCATCAA
* *
115623 ATGGCCGACACCCTCTTTTCTCGAAAAAAAAAT---TGTATT
64 ATGGCCGACACCCTCTTTTCACGAAAAAAAAATGCAT-TTTT
** * * * *
115662 ---T-TC-AACA-CCCTCTTTTCT-C-GAGAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATCA
1 GGGTGTCGGCCATCCCT-TTTT-TGCAGA-AAAAAAAATTCAAAATTTTTTTGTATTGACCATCA
* * *
115719 AATGGTCGACACCC-CTTTTTCTCGAAAAAAAATTGCATTTTT
63 AATGGCCGACACCCTC-TTTTCACGAAAAAAAAATGCATTTTT
115761 GGGTGT
1 GGGTGT
115767 TGACCATTGC
Statistics
Matches: 172, Mismatches: 16, Indels: 37
0.76 0.07 0.16
Matches are distributed among these distances:
94 3 0.02
96 9 0.05
97 57 0.33
98 7 0.04
99 3 0.02
100 2 0.01
101 10 0.06
102 48 0.28
103 11 0.06
104 19 0.11
105 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (104 bp):
GGGTGTCGGCCATCCCTTTTTTGCAGAAAAAAAAATTCAAAATTTTTTTGTATTGACCATCAAAT
GGCCGACACCCTCTTTTCACGAAAAAAAAATGCATTTTT
Found at i:115806 original size:118 final size:122
Alignment explanation
Indices: 115673--115918 Score: 333
Period size: 118 Copynumber: 2.0 Consensus size: 122
115663 TCAACACCCT
* * *
115673 CTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGGTGTTGGCCAT-CAAATGGTCGACACCCCTTT
1 CTTTTCTCGAAAAAAAAATTTCAAAATTTTTTGGTGTTGACCATGC-AATGGTCGACACCCCGTT
* *
115737 TTC-TCGA-AAAAAAATTGC-A-TTTTTGGGTGTTGACCATTGC-ATGGCCGACACTTC
65 TTCTTCGATAAAAAAATTGCAATTTTTTGGATGTTGACCA-TGCAATGGCCGACACCTC
* *
115791 CTTTTCTCGAAAAAAAAATTTCAAAATTTTTTTGTGTTGATCATGCAATGGTCGACACCCCGTTT
1 CTTTTCTCGAAAAAAAAATTTCAAAATTTTTTGGTGTTGACCATGCAATGGTCGACACCCCGTTT
* * *
115856 TCTTGGATAAAAAAATTGCAAATTTTTTTGATGTTGGCCATGCAATGGCCGACACCTC
66 TCTTCGATAAAAAAATTGC-AATTTTTTGGATGTTGACCATGCAATGGCCGACACCTC
115914 CTTTT
1 CTTTT
115919 TATTTGGTAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
118 60 0.54
119 4 0.04
120 11 0.10
122 4 0.04
123 32 0.29
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (122 bp):
CTTTTCTCGAAAAAAAAATTTCAAAATTTTTTGGTGTTGACCATGCAATGGTCGACACCCCGTTT
TCTTCGATAAAAAAATTGCAATTTTTTGGATGTTGACCATGCAATGGCCGACACCTC
Found at i:115847 original size:61 final size:60
Alignment explanation
Indices: 115673--115918 Score: 220
Period size: 61 Copynumber: 4.1 Consensus size: 60
115663 TCAACACCCT
* * * * * *
115673 CTTTTC-TCGAGAAAAAAATTTCAAAATTTTTTGGTGTTGGCCAT-CAAATGGTCGACACCC
1 CTTTTCTTCGAAAAAAAAATTGC-AAATTTTTTTGTGTTGACCATGC-AATGGCCGACACTC
**
115733 CTTTT-TCTCG-AAAAAAAATTGC--ATTTTTGGGTGTTGACCATTGC-ATGGCCGACACTTC
1 CTTTTCT-TCGAAAAAAAAATTGCAAATTTTTTTGTGTTGACCA-TGCAATGGCCGACAC-TC
* * * *
115791 CTTTTC-TCGAAAAAAAAATTTCAAAATTTTTTTGTGTTGATCATGCAATGGTCGACACCC
1 CTTTTCTTCGAAAAAAAAATTGC-AAATTTTTTTGTGTTGACCATGCAATGGCCGACACTC
* * *
115851 CGTTTTCTTGGATAAAAAAATTGCAAATTTTTTTGATGTTGGCCATGCAATGGCCGACACCTC
1 C-TTTTCTTCGAAAAAAAAATTGCAAATTTTTTTG-TGTTGACCATGCAATGGCCGACA-CTC
115914 CTTTT
1 CTTTT
115919 TATTTGGTAA
Statistics
Matches: 152, Mismatches: 19, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
57 29 0.19
58 18 0.12
59 1 0.01
60 20 0.13
61 44 0.29
62 37 0.24
63 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (60 bp):
CTTTTCTTCGAAAAAAAAATTGCAAATTTTTTTGTGTTGACCATGCAATGGCCGACACTC
Found at i:115965 original size:59 final size:59
Alignment explanation
Indices: 115684--115970 Score: 200
Period size: 62 Copynumber: 4.8 Consensus size: 59
115674 TTTTCTCGAG
* * * *
115684 AAAAAAATTTCAAAATTTTTTGGTGTTGGCCAT-CAAATGGTCGACACCCCTTTTTC-TCGA-
1 AAAAAAA-TTC-AAATTTTTTGGTGTT-GTCATGC-AATGGCCGACACCCCGTTTTCTTGGAT
* * * * *
115744 AAAAAAATTGC--ATTTTTGGGTGTTGACCATTGC-ATGGCCGACACTTCC-TTTTC-TCGAA
1 AAAAAAATT-CAAATTTTTTGGTGTTG-TCA-TGCAATGGCCGACAC-CCCGTTTTCTTGGAT
* *
115802 AAAAAAATTTCAAAATTTTTTTGTGTTGATCATGCAATGGTCGACACCCCGTTTTCTTGGAT
1 AAAAAAA-TTC-AAATTTTTTGGTGTTG-TCATGCAATGGCCGACACCCCGTTTTCTTGGAT
* * * *
115864 AAAAAAATTGCAAATTTTTTTGATGTTGGCCATGCAATGGCCGACACCTCCTTTTTATTTGG-T
1 AAAAAAATT-CAAA-TTTTTTGGTGTT-GTCATGCAATGGCCGACACC-CCGTTTT-CTTGGAT
*
115927 -AAAAAATT-AAATTTTTTGGTGTTAGTCATGTAATGGCCGACACC
1 AAAAAAATTCAAATTTTTTGGTGTT-GTCATGCAATGGCCGACACC
115971 AACTTCCCCT
Statistics
Matches: 189, Mismatches: 20, Indels: 37
0.77 0.08 0.15
Matches are distributed among these distances:
56 1 0.01
57 34 0.18
58 11 0.06
59 34 0.18
60 16 0.08
61 35 0.19
62 46 0.24
63 8 0.04
64 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (59 bp):
AAAAAAATTCAAATTTTTTGGTGTTGTCATGCAATGGCCGACACCCCGTTTTCTTGGAT
Found at i:119719 original size:22 final size:21
Alignment explanation
Indices: 119667--119719 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
119657 AATGAACATG
*
119667 TTTAAATTTAAATAATTTAAA
1 TTTAAAATTAAATAATTTAAA
* * *
119688 TTTCATAATTATATAAGTTTGAA
1 TTT-AAAATTAAATAA-TTTAAA
119711 TTTAAAATT
1 TTTAAAATT
119720 CTACTTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 14 0.56
23 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTAAAATTAAATAATTTAAA
Found at i:119888 original size:84 final size:84
Alignment explanation
Indices: 119773--119967 Score: 241
Period size: 85 Copynumber: 2.3 Consensus size: 84
119763 AATTTAACAT
* **
119773 TATTTAAATAAAAAAGATTATTATTACATTACAA-GTTTTATCAAATATTGTGGTAATTTGACAA
1 TATTTAAAT--AAAA-ATTATTATTATATTACAATGTTTTATCAAATAACGTGGTAATTTGACAA
* *
119837 TATATTATTTATCAAATTTT-CA
63 TACATTATTTAT-AAATTTTAAA
* * * *
119859 TATTTAAAGTACAAATTATTATTATATTACAATTTTTTATCAAATAACGTGTTGATTTGACAATA
1 TATTTAAA-TAAAAATTATTATTATATTACAATGTTTTATCAAATAACGTGGTAATTTGACAATA
*
119924 CATTATTTATTAATTTTAAA
65 CATTATTTATAAATTTTAAA
119944 TATTTAAATAAAAATTATTATTAT
1 TATTTAAATAAAAATTATTATTAT
119968 TATATTANNN
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
84 38 0.40
85 48 0.51
86 8 0.08
87 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (84 bp):
TATTTAAATAAAAATTATTATTATATTACAATGTTTTATCAAATAACGTGGTAATTTGACAATAC
ATTATTTATAAATTTTAAA
Found at i:120249 original size:102 final size:104
Alignment explanation
Indices: 120086--120395 Score: 292
Period size: 97 Copynumber: 3.1 Consensus size: 104
120076 AAAAAAATTA
** * *
120086 GGGTGTCGGCCATCCCTTTTTTGTCAGAAAAAAATTTTCAAAATTTTTTTGTGTTGGCCATCAAA
1 GGGTGTCGGCCATCCCTTTTTTG-CAGAAAAAAAAATTCAAAATTTTTTTGTATTGACCATCAAA
*
120151 TTGCCGACACCCTCTTTTCAC-AAAAAAAAATGCATTTTT
65 TGGCCGACACCCTCTTTTCACGAAAAAAAAATGCATTTTT
120190 GGGTGTCGGCCATGCCC-TTTTTG-AGAAAAAAAAATTCAAAA-TTTTTTGATATTGACCATCAA
1 GGGTGTCGGCCAT-CCCTTTTTTGCAGAAAAAAAAATTCAAAATTTTTTTG-TATTGACCATCAA
* *
120252 ATGGCCGACACCCTCTTTTCTCGAAAAAAAAAT---TGTATT
64 ATGGCCGACACCCTCTTTTCACGAAAAAAAAATGCAT-TTTT
** * * * *
120291 ---T-TC-AACA-CCCTCTTTTCT-C-GAGAAAAAAATTTCAAAATTTTTTGGTGTTGGCCATCA
1 GGGTGTCGGCCATCCCT-TTTT-TGCAGA-AAAAAAAATTCAAAATTTTTTTGTATTGACCATCA
* * *
120348 AATGGTCGACACCC-CTTTTTCTCGAAAAAAAATTGCATTTTT
63 AATGGCCGACACCCTC-TTTTCACGAAAAAAAAATGCATTTTT
120390 GGGTGT
1 GGGTGT
120396 TGACCATTGC
Statistics
Matches: 172, Mismatches: 16, Indels: 37
0.76 0.07 0.16
Matches are distributed among these distances:
94 3 0.02
96 9 0.05
97 57 0.33
98 7 0.04
99 3 0.02
100 2 0.01
101 10 0.06
102 48 0.28
103 11 0.06
104 19 0.11
105 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (104 bp):
GGGTGTCGGCCATCCCTTTTTTGCAGAAAAAAAAATTCAAAATTTTTTTGTATTGACCATCAAAT
GGCCGACACCCTCTTTTCACGAAAAAAAAATGCATTTTT
Found at i:120435 original size:118 final size:122
Alignment explanation
Indices: 120302--120547 Score: 333
Period size: 118 Copynumber: 2.0 Consensus size: 122
120292 TCAACACCCT
* * *
120302 CTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGGTGTTGGCCAT-CAAATGGTCGACACCCCTTT
1 CTTTTCTCGAAAAAAAAATTTCAAAATTTTTTGGTGTTGACCATGC-AATGGTCGACACCCCGTT
* *
120366 TTC-TCGA-AAAAAAATTGC-A-TTTTTGGGTGTTGACCATTGC-ATGGCCGACACTTC
65 TTCTTCGATAAAAAAATTGCAATTTTTTGGATGTTGACCA-TGCAATGGCCGACACCTC
* *
120420 CTTTTCTCGAAAAAAAAATTTCAAAATTTTTTTGTGTTGATCATGCAATGGTCGACACCCCGTTT
1 CTTTTCTCGAAAAAAAAATTTCAAAATTTTTTGGTGTTGACCATGCAATGGTCGACACCCCGTTT
* * *
120485 TCTTGGATAAAAAAATTGCAAATTTTTTTGATGTTGGCCATGCAATGGCCGACACCTC
66 TCTTCGATAAAAAAATTGC-AATTTTTTGGATGTTGACCATGCAATGGCCGACACCTC
120543 CTTTT
1 CTTTT
120548 TATTTGGTAA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
118 60 0.54
119 4 0.04
120 11 0.10
122 4 0.04
123 32 0.29
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (122 bp):
CTTTTCTCGAAAAAAAAATTTCAAAATTTTTTGGTGTTGACCATGCAATGGTCGACACCCCGTTT
TCTTCGATAAAAAAATTGCAATTTTTTGGATGTTGACCATGCAATGGCCGACACCTC
Found at i:120476 original size:61 final size:60
Alignment explanation
Indices: 120302--120547 Score: 220
Period size: 61 Copynumber: 4.1 Consensus size: 60
120292 TCAACACCCT
* * * * * *
120302 CTTTTC-TCGAGAAAAAAATTTCAAAATTTTTTGGTGTTGGCCAT-CAAATGGTCGACACCC
1 CTTTTCTTCGAAAAAAAAATTGC-AAATTTTTTTGTGTTGACCATGC-AATGGCCGACACTC
**
120362 CTTTT-TCTCG-AAAAAAAATTGC--ATTTTTGGGTGTTGACCATTGC-ATGGCCGACACTTC
1 CTTTTCT-TCGAAAAAAAAATTGCAAATTTTTTTGTGTTGACCA-TGCAATGGCCGACAC-TC
* * * *
120420 CTTTTC-TCGAAAAAAAAATTTCAAAATTTTTTTGTGTTGATCATGCAATGGTCGACACCC
1 CTTTTCTTCGAAAAAAAAATTGC-AAATTTTTTTGTGTTGACCATGCAATGGCCGACACTC
* * *
120480 CGTTTTCTTGGATAAAAAAATTGCAAATTTTTTTGATGTTGGCCATGCAATGGCCGACACCTC
1 C-TTTTCTTCGAAAAAAAAATTGCAAATTTTTTTG-TGTTGACCATGCAATGGCCGACA-CTC
120543 CTTTT
1 CTTTT
120548 TATTTGGTAA
Statistics
Matches: 152, Mismatches: 19, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
57 29 0.19
58 18 0.12
59 1 0.01
60 20 0.13
61 44 0.29
62 37 0.24
63 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (60 bp):
CTTTTCTTCGAAAAAAAAATTGCAAATTTTTTTGTGTTGACCATGCAATGGCCGACACTC
Found at i:120594 original size:59 final size:59
Alignment explanation
Indices: 120313--120599 Score: 200
Period size: 62 Copynumber: 4.8 Consensus size: 59
120303 TTTTCTCGAG
* * * *
120313 AAAAAAATTTCAAAATTTTTTGGTGTTGGCCAT-CAAATGGTCGACACCCCTTTTTC-TCGA-
1 AAAAAAA-TTC-AAATTTTTTGGTGTT-GTCATGC-AATGGCCGACACCCCGTTTTCTTGGAT
* * * * *
120373 AAAAAAATTGC--ATTTTTGGGTGTTGACCATTGC-ATGGCCGACACTTCC-TTTTC-TCGAA
1 AAAAAAATT-CAAATTTTTTGGTGTTG-TCA-TGCAATGGCCGACAC-CCCGTTTTCTTGGAT
* *
120431 AAAAAAATTTCAAAATTTTTTTGTGTTGATCATGCAATGGTCGACACCCCGTTTTCTTGGAT
1 AAAAAAA-TTC-AAATTTTTTGGTGTTG-TCATGCAATGGCCGACACCCCGTTTTCTTGGAT
* * * *
120493 AAAAAAATTGCAAATTTTTTTGATGTTGGCCATGCAATGGCCGACACCTCCTTTTTATTTGG-T
1 AAAAAAATT-CAAA-TTTTTTGGTGTT-GTCATGCAATGGCCGACACC-CCGTTTT-CTTGGAT
*
120556 -AAAAAATT-AAATTTTTTGGTGTTAGTCATGTAATGGCCGACACC
1 AAAAAAATTCAAATTTTTTGGTGTT-GTCATGCAATGGCCGACACC
120600 AACTTCCCCT
Statistics
Matches: 189, Mismatches: 20, Indels: 37
0.77 0.08 0.15
Matches are distributed among these distances:
56 1 0.01
57 34 0.18
58 11 0.06
59 34 0.18
60 16 0.08
61 35 0.19
62 46 0.24
63 8 0.04
64 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (59 bp):
AAAAAAATTCAAATTTTTTGGTGTTGTCATGCAATGGCCGACACCCCGTTTTCTTGGAT
Found at i:124348 original size:22 final size:21
Alignment explanation
Indices: 124296--124348 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
124286 AATGAACATG
*
124296 TTTAAATTTAAATAATTTAAA
1 TTTAAAATTAAATAATTTAAA
* * *
124317 TTTCATAATTATATAAGTTTGAA
1 TTT-AAAATTAAATAA-TTTAAA
124340 TTTAAAATT
1 TTTAAAATT
124349 CTACTTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 14 0.56
23 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
TTTAAAATTAAATAATTTAAA
Found at i:124639 original size:86 final size:86
Alignment explanation
Indices: 124389--124962 Score: 843
Period size: 86 Copynumber: 6.6 Consensus size: 86
124379 TACATTTAAA
** * * *
124389 ATTAA-TTTAACATTATTTAAATAAAAAAGATTATTATTACATTACAAGTTTTATCAAATATTGT
1 ATTAATTTTAA-A-TATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGT
* * *
124453 GGTAATTTGACAATATATTATTT
64 GTTGATTTGACAATACATTATTT
* * * *
124476 ATCAAATTTT-CATATTTAAAGT-ACAA--ATTATTATTATATTACAATTTTTTATCAAATAACG
1 AT-TAATTTTAAATATTTAAA-TAAAAATTATTATTATTATATTACAA-TTTTTATCAAATAATG
124537 TGTTGATTTGACAATACATTATTT
63 TGTTGATTTGACAATACATTATTT
124561 ATTAATTTTAAATATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGTGT
1 ATTAATTTTAAATATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGTGT
*
124626 TGATTTGATAATACATTATTT
66 TGATTTGACAATACATTATTT
*
124647 ATTAATTTTAAATATTTAAATAAAAATTATTATTATTATATTATAATTTTTATCAAATAATGTGT
1 ATTAATTTTAAATATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGTGT
*
124712 TTATTTGACAATACATTATTT
66 TGATTTGACAATACATTATTT
* *
124733 ATTAATTTCAAATATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGTAT
1 ATTAATTTTAAATATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGTGT
124798 TGATTTGACAATACATTATTT
66 TGATTTGACAATACATTATTT
* *
124819 ATTAAATTTAAATATTTAAATAAAAATTATTATTATTATATTATAATTTTTATCAAATAATGTGT
1 ATTAATTTTAAATATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGTGT
*
124884 TGATTTGACAATATATTATTT
66 TGATTTGACAATACATTATTT
* *
124905 ATTAAATTTAAATATTTAAATAAAAATTATTATTATTATTATATTATAATTTTTATCA
1 ATTAATTTTAAATATTTAAAT-AAAA--ATTATTATTATTATATTACAATTTTTATCA
124963 TTTTTTAAAT
Statistics
Matches: 449, Mismatches: 27, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
84 24 0.05
85 48 0.11
86 316 0.70
87 26 0.06
88 2 0.00
89 33 0.07
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (86 bp):
ATTAATTTTAAATATTTAAATAAAAATTATTATTATTATATTACAATTTTTATCAAATAATGTGT
TGATTTGACAATACATTATTT
Found at i:127380 original size:30 final size:30
Alignment explanation
Indices: 127344--127406 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
127334 TTTGATTTTT
*
127344 TTTCGTTTACT-TTTTAAATTTAATTTGTAA
1 TTTCGTTT-CTATTTTAAATTTAATTTCTAA
*
127374 TTTCGTTTTTATTTTAAATTTAATTTCTAA
1 TTTCGTTTCTATTTTAAATTTAATTTCTAA
127404 TTT
1 TTT
127407 ATTGTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTCGTTTCTATTTTAAATTTAATTTCTAA
Found at i:127417 original size:30 final size:29
Alignment explanation
Indices: 127355--127446 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 29
127345 TTCGTTTACT
* *
127355 TTTTAAATTTAATTTGTAATTTCGTT-TTTA
1 TTTTAAATTTAATTTCTAATTT--TTGTATA
127385 TTTTAAATTTAATTTCTAATTTATTGTATA
1 TTTTAAATTTAATTTCTAATTT-TTGTATA
* **
127415 TTTTAATTTTTCTTTCTAATTTTCTGTATA
1 TTTTAAATTTAATTTCTAATTTT-TGTATA
127445 TT
1 TT
127447 CTAATTATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
29 3 0.06
30 51 0.94
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTTAAATTTAATTTCTAATTTTTGTATA
Found at i:128088 original size:31 final size:31
Alignment explanation
Indices: 128047--128134 Score: 149
Period size: 31 Copynumber: 2.8 Consensus size: 31
128037 TGCCGCTTCA
* * *
128047 CATGATAGTATATAATTCAACTCCGACAATG
1 CATGACAGTATGTAGTTCAACTCCGACAATG
128078 CATGACAGTATGTAGTTCAACTCCGACAATG
1 CATGACAGTATGTAGTTCAACTCCGACAATG
128109 CATGACAGTATGTAGTTCAACTCCGA
1 CATGACAGTATGTAGTTCAACTCCGA
128135 AATTCGATTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
CATGACAGTATGTAGTTCAACTCCGACAATG
Found at i:128381 original size:61 final size:61
Alignment explanation
Indices: 128298--128753 Score: 461
Period size: 61 Copynumber: 7.5 Consensus size: 61
128288 GGGGAAGTTA
* * *
128298 GTGTCGGCCATTACATGACCAACACAAAAAAAATTTGCAATTTTTTTATCCATGAAAA-GGG
1 GTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGCAATTTTTTTATCCA-GAAAAGGGG
* * * * * *
128359 TTGTCGGCCATTGCATGTCCAACACAAAAAAAATTTACAATTTTTTTATTCGAGAACAGGGG
1 GTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGCAATTTTTTTA-TCCAGAAAAGGGG
* * * *
128421 GTGTCGGCCATTGCTTGGCCGACACC-AAAAATTTTGAAATTTTTTT-TCTCA-AAAAGGGG
1 GTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGCAATTTTTTTATC-CAGAAAAGGGG
* *
128480 GTGTCGACCATTGCATGGCCAACACCAAAACAATTTGCAATTTTTTTATCCGAGAATAA-GGG
1 GTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGCAATTTTTTTATCC-AGAA-AAGGGG
* ** * * *
128542 GTGTCGACCATTGCATGGCCAACACCAAAAAGTTTTGAAATTTTTTTCTCAAGAAAAGGGG
1 GTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGCAATTTTTTTATCCAGAAAAGGGG
* * * * *
128603 GTGTCGGCCA-TGCAATGGCCAGCACC-CAAAAA--TACAATTTTTTTTTCGAGAAAAGGGG
1 GTGTCGGCCATTGC-ATGGCCAACACCAAAAAAATTTGCAATTTTTTTATCCAGAAAAGGGG
*
128661 GTGTCGGCCATTTG-ATGGCCAACACCAAAAAATTTTG-AATTTTTTT-TCTCGAGAAAAGGGG
1 GTGTCGGCCA-TTGCATGGCCAACACCAAAAAAATTTGCAATTTTTTTATC-C-AGAAAAGGGG
* * *
128722 ATGTCGACCA-TGCAATGGCCAACACCCAAAAA
1 GTGTCGGCCATTGC-ATGGCCAACACCAAAAAA
128754 TACAATTTTT
Statistics
Matches: 331, Mismatches: 45, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
58 43 0.13
59 40 0.12
60 38 0.11
61 131 0.40
62 77 0.23
63 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (61 bp):
GTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGCAATTTTTTTATCCAGAAAAGGGG
Found at i:128494 original size:121 final size:122
Alignment explanation
Indices: 128298--128773 Score: 527
Period size: 121 Copynumber: 4.0 Consensus size: 122
128288 GGGGAAGTTA
* * * * * * *
128298 GTGTCGGCCATTACATGACCAACACAAAAAAAATTTGCAATTTTTTTATC-CATGAAAA-GGGTT
1 GTGTCGGCCATTGCATGGCCAACAC-CAAAAATTTTGAAATTTTTTT-TCTCAAGAAAAGGGGGT
* * *
128361 GTCGGCCATTGC-ATGTCCAACACAAAAAAAATTTACAATTTTTTTATTCGAGAACAGGGG
64 GTCGACCA-TGCAATGGCCAACAC-AAAAAAATTTACAATTTTTTTATTCGAGAAAAGGGG
* *
128421 GTGTCGGCCATTGCTTGGCCGACACCAAAAATTTTGAAATTTTTTTTCTC-A-AAAAGGGGGTGT
1 GTGTCGGCCATTGCATGGCCAACACCAAAAATTTTGAAATTTTTTTTCTCAAGAAAAGGGGGTGT
* * *
128484 CGACCATTGC-ATGGCCAACACCAAAACAATTTGCAATTTTTTTATCCGAGAATAA-GGG
66 CGACCA-TGCAATGGCCAACA-CAAAAAAATTTACAATTTTTTTATTCGAGAA-AAGGGG
*
128542 GTGTCGACCATTGCATGGCCAACACCAAAAAGTTTTGAAA-TTTTTTTCTCAAGAAAAGGGGGTG
1 GTGTCGGCCATTGCATGGCCAACACCAAAAA-TTTTGAAATTTTTTTTCTCAAGAAAAGGGGGTG
* * **
128606 TCGGCCATGCAATGGCCAGCACCCAAAAA--TACAATTTTTTT-TTCGAGAAAAGGGG
65 TCGACCATGCAATGGCCAACACAAAAAAATTTACAATTTTTTTATTCGAGAAAAGGGG
* *
128661 GTGTCGGCCATTTG-ATGGCCAACACCAAAAAATTTTG-AATTTTTTTTCTCGAGAAAAGGGGAT
1 GTGTCGGCCA-TTGCATGGCCAACACC-AAAAATTTTGAAATTTTTTTTCTCAAGAAAAGGGGGT
**
128724 GTCGACCATGCAATGGCCAACACCCAAAAA--TACAA-TTTTTT-TTCGAGAAA
64 GTCGACCATGCAATGGCCAACACAAAAAAATTTACAATTTTTTTATTCGAGAAA
128774 TGGCCAACAC
Statistics
Matches: 311, Mismatches: 30, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
118 19 0.06
119 90 0.29
120 23 0.07
121 94 0.30
122 38 0.12
123 47 0.15
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (122 bp):
GTGTCGGCCATTGCATGGCCAACACCAAAAATTTTGAAATTTTTTTTCTCAAGAAAAGGGGGTGT
CGACCATGCAATGGCCAACACAAAAAAATTTACAATTTTTTTATTCGAGAAAAGGGG
Found at i:128679 original size:119 final size:121
Alignment explanation
Indices: 128298--128773 Score: 546
Period size: 119 Copynumber: 4.0 Consensus size: 121
128288 GGGGAAGTTA
* * * * * * * *
128298 GTGTCGGCCATTACATGACCAACACAAAAAAAATTTGCAATTTTTTTATCCATGAAAA-GGGTTG
1 GTGTCGGCCATTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTCT-CAAGAAAAGGGGGTG
* * * *
128362 TCGGCCATTGCATGTCCAACACAAAAAAAATTTACAATTTTTTTATTCGAGAACAGGGG
65 TCGACCATTGCATGGCCAACAC-CAAAAAA-TTACAATTTTTTTATTCGAGAAAAGGGG
* *
128421 GTGTCGGCCATTGCTTGGCCGACACC-AAAAATTTTGAAATTTTTTTTCTC-A-AAAAGGGGGTG
1 GTGTCGGCCATTGCATGGCCAACACCAAAAAATTTTGAAA-TTTTTTTCTCAAGAAAAGGGGGTG
* *
128483 TCGACCATTGCATGGCCAACACCAAAACAATTTGCAATTTTTTTATCCGAGAATAA-GGG
65 TCGACCATTGCATGGCCAACACCAAAA-AA-TTACAATTTTTTTATTCGAGAA-AAGGGG
* *
128542 GTGTCGACCATTGCATGGCCAACACCAAAAAGTTTTGAAATTTTTTTCTCAAGAAAAGGGGGTGT
1 GTGTCGGCCATTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTCTCAAGAAAAGGGGGTGT
* * *
128607 CGGCCA-TGCAATGGCCAGCACCCAAAAA-TACAATTTTTTT-TTCGAGAAAAGGGG
66 CGACCATTGC-ATGGCCAACACCAAAAAATTACAATTTTTTTATTCGAGAAAAGGGG
* * *
128661 GTGTCGGCCATTTG-ATGGCCAACACCAAAAAATTTTGAATTTTTTTTCTCGAGAAAAGGGGATG
1 GTGTCGGCCA-TTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTCTCAAGAAAAGGGGGTG
*
128725 TCGACCA-TGCAATGGCCAACACCCAAAAA-TACAA-TTTTTT-TTCGAGAAA
65 TCGACCATTGC-ATGGCCAACACCAAAAAATTACAATTTTTTTATTCGAGAAA
128774 TGGCCAACAC
Statistics
Matches: 311, Mismatches: 32, Indels: 25
0.85 0.09 0.07
Matches are distributed among these distances:
118 17 0.05
119 97 0.31
120 22 0.07
121 84 0.27
122 31 0.10
123 60 0.19
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (121 bp):
GTGTCGGCCATTGCATGGCCAACACCAAAAAATTTTGAAATTTTTTTCTCAAGAAAAGGGGGTGT
CGACCATTGCATGGCCAACACCAAAAAATTACAATTTTTTTATTCGAGAAAAGGGG
Found at i:128861 original size:98 final size:98
Alignment explanation
Indices: 128675--128870 Score: 297
Period size: 97 Copynumber: 2.0 Consensus size: 98
128665 CGGCCATTTG
*
128675 ATGGCCAACACCAAAAAATTTTGAATTTTTTTTCTCGAGAAAAGGGGATGTCGACCATGCAATGG
1 ATGGCCAACACCAAAAAATTTTGAATTTTTTTTCTCGAGAAAAGGGGATGTCGACCATGCAATAG
*
128740 CCAACACCCAAAAATACAATTTTTTTTCGAGAA
66 CCAACACCAAAAAATACAATTTTTTTTCGAGAA
* *
128773 ATGGCCAACACCAAAAAATTTTGAATTTTTTTTTCTC-A-AAAAGGGGGTGTCGGCCATGCAATA
1 ATGGCCAACACCAAAAAATTTTGAA-TTTTTTTTCTCGAGAAAAGGGGATGTCGACCATGCAATA
* * * *
128836 TCCCACACCAAAAAATGCAATTTTTTTTCTAGAA
65 GCCAACACCAAAAAATACAATTTTTTTTCGAGAA
128870 A
1 A
128871 GGAGGTGTTC
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
97 52 0.58
98 26 0.29
99 11 0.12
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (98 bp):
ATGGCCAACACCAAAAAATTTTGAATTTTTTTTCTCGAGAAAAGGGGATGTCGACCATGCAATAG
CCAACACCAAAAAATACAATTTTTTTTCGAGAA
Found at i:137585 original size:12 final size:12
Alignment explanation
Indices: 137568--137601 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
137558 GAGCCTCAGA
*
137568 ACCAACCCGAGT
1 ACCAACCCGAGC
*
137580 ACCAACCGGAGC
1 ACCAACCCGAGC
137592 ACCAACCCGA
1 ACCAACCCGA
137602 TCCCCAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.44, G:0.18, T:0.03
Consensus pattern (12 bp):
ACCAACCCGAGC
Found at i:138101 original size:30 final size:30
Alignment explanation
Indices: 138039--138130 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 30
138029 TCGGTTTAAT
* * * *
138039 TTTTAAATTTAATTTGTAATTTCGTTTTTA
1 TTTTAAATTTAATTTCTAATTTCCTGTATA
138069 TTTTAAATTTAATTTCTAATTTCCTGTATA
1 TTTTAAATTTAATTTCTAATTTCCTGTATA
* **
138099 TTTTTAATTTTTTTTCTAATTTCCTGTATA
1 TTTTAAATTTAATTTCTAATTTCCTGTATA
138129 TT
1 TT
138131 CTAATTATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (30 bp):
TTTTAAATTTAATTTCTAATTTCCTGTATA
Found at i:138134 original size:17 final size:17
Alignment explanation
Indices: 138082--138136 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 17
138072 TAAATTTAAT
138082 TTCTAATTTCCTGTATA
1 TTCTAATTTCCTGTATA
*
138099 TTTTTAATTT--T-T-T-
1 -TTCTAATTTCCTGTATA
138112 TTCTAATTTCCTGTATA
1 TTCTAATTTCCTGTATA
138129 TTCTAATT
1 TTCTAATT
138137 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
12 8 0.27
14 2 0.07
15 2 0.07
16 2 0.07
17 8 0.27
18 8 0.27
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.62
Consensus pattern (17 bp):
TTCTAATTTCCTGTATA
Found at i:138152 original size:32 final size:30
Alignment explanation
Indices: 138067--138143 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
138057 ATTTCGTTTT
* **
138067 TATTTTAAATTTAATTTCTAATTTCCTGTA
1 TATTTTTAATTTTTTTTCTAATTTCCTGTA
138097 TATTTTTAATTTTTTTTCTAATTTCCTGTA
1 TATTTTTAATTTTTTTTCTAATTTCCTGTA
*
138127 TA-TTCTAATTATTTTTT
1 TATTTTTAATT-TTTTTT
138144 TTTAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 7 0.17
30 35 0.83
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.64
Consensus pattern (30 bp):
TATTTTTAATTTTTTTTCTAATTTCCTGTA
Found at i:139032 original size:58 final size:57
Alignment explanation
Indices: 138950--139153 Score: 160
Period size: 61 Copynumber: 3.4 Consensus size: 57
138940 AGGGGAAGTT
* * * * *
138950 GGTGTTGGCCATTACATGAT-CAACACCAAAAAATTTAA-TTTTTTACCAAATAAAATGG
1 GGTGTCGGCCATTGCATG-TCCAACACAAAAAAATTGAATTTTTTTACC-AAGAAAA-GG
* *
139008 GGTGTCGGCCATTGCATGTCCAACACAAAAAAAAATTGAATTTTTTTTTTCCAAGAACAGG
1 GGTGTCGGCCATTGCATGTCCAACAC--AAAAAAATTGAA--TTTTTTTACCAAGAAAAGG
* * * *
139069 GATGTCGGCCATTGCATGACCAACACAAAAAAAAATTGAAATTTTTTTATCCGAGAAAGGG
1 GGTGTCGGCCATTGCATGTCCAACAC--AAAAAAATTG-AATTTTTTTA-CCAAGAAAAGG
* * *
139130 GAGTATCAGCCATTGCATGGCCAA
1 G-GTGTCGGCCATTGCATGTCCAA
139154 TACGAAAATT
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
57 1 0.01
58 22 0.18
60 17 0.14
61 47 0.39
62 25 0.21
63 8 0.07
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (57 bp):
GGTGTCGGCCATTGCATGTCCAACACAAAAAAATTGAATTTTTTTACCAAGAAAAGG
Found at i:139078 original size:61 final size:62
Alignment explanation
Indices: 139009--139153 Score: 204
Period size: 61 Copynumber: 2.4 Consensus size: 62
138999 ATAAAATGGG
* * *
139009 GTGTCGGCCATTGCATGTCCAACACAAAAAAAAATTGAATTTTTTTTTTCCAAGAACA-GGGA
1 GTGTCGGCCATTGCATGACCAACACAAAAAAAAATTGAAATTTTTTTATCCAAGAA-AGGGGA
*
139071 -TGTCGGCCATTGCATGACCAACACAAAAAAAAATTGAAATTTTTTTATCCGAGAAAGGGGA
1 GTGTCGGCCATTGCATGACCAACACAAAAAAAAATTGAAATTTTTTTATCCAAGAAAGGGGA
* * *
139132 GTATCAGCCATTGCATGGCCAA
1 GTGTCGGCCATTGCATGACCAA
139154 TACGAAAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 1 0.01
61 55 0.74
62 18 0.24
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (62 bp):
GTGTCGGCCATTGCATGACCAACACAAAAAAAAATTGAAATTTTTTTATCCAAGAAAGGGGA
Found at i:139452 original size:112 final size:111
Alignment explanation
Indices: 139336--139567 Score: 290
Period size: 112 Copynumber: 2.1 Consensus size: 111
139326 AAATGTATTT
* * * * *
139336 TTTTTTTTGAAAA-AATGGGTGTCGGTCATTGCATGGCCAACA-C-AAAAATTTTGTATTTTTTT
1 TTTTTTTTGAAAAGGA--GGTGTCGGCCATTGCATGGACAAAACCAAAAAATTTCG-ATTTTTTT
** * * *
139398 TCTCAAAAAGGGCGTGTCGGCCATGCAATGGCCAACATCGAAAAATGCAA
63 TCTCAAAAA-GAAGTGTCGGCCATGCAATGGCCAACACCAAAAAATACAA
139448 TTTTTTTCTGAAAAGGAGGTGTCGGCCATTGCATGGACAAAACCAAAAAATTTCGATTTTTTTTC
1 TTTTTTT-TGAAAAGGAGGTGTCGGCCATTGCATGGACAAAACCAAAAAATTTCGATTTTTTTTC
**
139513 TCAAAAAGAAGTGTCGGCTGTGCAATGGCCAACACCAAAAAATACAA
65 TCAAAAAGAAGTGTCGGCCATGCAATGGCCAACACCAAAAAATACAA
139560 TTTTTTTT
1 TTTTTTTT
139568 CTCAAAAAGG
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
111 1 0.01
112 69 0.66
113 24 0.23
114 10 0.10
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (111 bp):
TTTTTTTTGAAAAGGAGGTGTCGGCCATTGCATGGACAAAACCAAAAAATTTCGATTTTTTTTCT
CAAAAAGAAGTGTCGGCCATGCAATGGCCAACACCAAAAAATACAA
Found at i:139585 original size:57 final size:55
Alignment explanation
Indices: 139390--139577 Score: 193
Period size: 56 Copynumber: 3.3 Consensus size: 55
139380 AAAATTTTGT
* * * * *
139390 ATTTTTTTTCTCAAAAAGGGCGTGTCGGCCATGCAATGGCCAACATCGAAAAATGCA
1 ATTTTTTTTCTCAAAAA-GGAGTGTCGG-CTTGCAATGGCCAACACCAAAAAATACA
* * * * *
139447 A-TTTTTTTCT-GAAAAGGAGGTGTCGGCCATTGC-ATGGACAAAACCAAAAAATTTCG
1 ATTTTTTTTCTCAAAAAGGA-GTGTCGG-C-TTGCAATGGCCAACACCAAAAAA-TACA
*
139503 ATTTTTTTTCTCAAAAAGAAGTGTCGGCTGTGCAATGGCCAACACCAAAAAATACA
1 ATTTTTTTTCTCAAAAAGGAGTGTCGGCT-TGCAATGGCCAACACCAAAAAATACA
139559 ATTTTTTTTCTCAAAAAGG
1 ATTTTTTTTCTCAAAAAGG
139578 GATTGTCGAC
Statistics
Matches: 108, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
54 2 0.02
55 28 0.26
56 39 0.36
57 33 0.31
58 6 0.06
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (55 bp):
ATTTTTTTTCTCAAAAAGGAGTGTCGGCTTGCAATGGCCAACACCAAAAAATACA
Found at i:139603 original size:57 final size:57
Alignment explanation
Indices: 139346--139622 Score: 216
Period size: 57 Copynumber: 4.9 Consensus size: 57
139336 TTTTTTTTGA
* * * **
139346 AAAAATGG-GTGTCGGTCATTGC-ATGGCCAACA-CAAAAATTTTGTATTTTTTTTCTC
1 AAAAA-GGAGTGTCGGCCATTGCAATGACCAACACCAAAAA-ATTCAATTTTTTTTCTC
* * * * *
139402 AAAAAGGGCGTGTCGGCCA-TGCAATGGCCAACATCGAAAAATGCAA-TTTTTTTCT-
1 AAAAA-GGAGTGTCGGCCATTGCAATGACCAACACCAAAAAATTCAATTTTTTTTCTC
* * *
139457 GAAAAGGAGGTGTCGGCCATTGC-ATGGA-CAAAACCAAAAAATTTCGATTTTTTTTCTC
1 AAAAAGGA-GTGTCGGCCATTGCAAT-GACCAACACCAAAAAA-TTCAATTTTTTTTCTC
* * *
139515 AAAAAGAAGTGTCGG-C-TGTGCAATGGCCAACACCAAAAAATACAATTTTTTTTCTC
1 AAAAAGGAGTGTCGGCCAT-TGCAATGACCAACACCAAAAAATTCAATTTTTTTTCTC
* * * * *
139571 AAAAAGGGATTGTCGACCATTGC-ATGATCAACACAAAAAAATTTAATTTTTT
1 AAAAA-GGAGTGTCGGCCATTGCAATGACCAACACCAAAAAATTCAATTTTTT
139623 ATCTGATAAA
Statistics
Matches: 177, Mismatches: 29, Indels: 29
0.75 0.12 0.12
Matches are distributed among these distances:
54 2 0.01
55 27 0.15
56 50 0.28
57 82 0.46
58 15 0.08
59 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (57 bp):
AAAAAGGAGTGTCGGCCATTGCAATGACCAACACCAAAAAATTCAATTTTTTTTCTC
Found at i:139609 original size:112 final size:111
Alignment explanation
Indices: 139353--139609 Score: 286
Period size: 112 Copynumber: 2.3 Consensus size: 111
139343 TGAAAAAATG
** * * **
139353 GGTGTCGGTCATTGCATGGCCAACACAAAAATTTTGTATTTTTTTTCTCAAAAAGGGCGTGTCGG
1 GGTGTCGACCATTGCAT-GACAACACAAAAATTTCGTATTTTTTTTCTCAAAAAGGAAGTGTCGG
* * * *
139418 CCATGCAATGGCCAACATCGAAAAATGCAATTTTTTTCTGAAAAGGA
65 CCATGCAATGGCCAACACCAAAAAATACAATTTTTTTCTAAAAAGGA
* *
139465 GGTGTCGGCCATTGCATGGACAAAACCAAAAAATTTCG-ATTTTTTTTCTCAAAAA-GAAGTGTC
1 GGTGTCGACCATTGCAT-GACAACA-C-AAAAATTTCGTATTTTTTTTCTCAAAAAGGAAGTGTC
**
139528 GGCTGTGCAATGGCCAACACCAAAAAATACAATTTTTTTTCTCAAAAAGG-
63 GGCCATGCAATGGCCAACACCAAAAAATACAA-TTTTTTTCT-AAAAAGGA
*
139578 GATTGTCGACCATTGCATGATCAACACAAAAA
1 G-GTGTCGACCATTGCATGA-CAACACAAAAA
139610 AATTTAATTT
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
112 60 0.48
113 31 0.25
114 33 0.27
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (111 bp):
GGTGTCGACCATTGCATGACAACACAAAAATTTCGTATTTTTTTTCTCAAAAAGGAAGTGTCGGC
CATGCAATGGCCAACACCAAAAAATACAATTTTTTTCTAAAAAGGA
Found at i:140466 original size:25 final size:23
Alignment explanation
Indices: 140438--140486 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 23
140428 AATTTAATAG
140438 TTTAAATATC-AATTTTGATAAAAAA
1 TTTAAATA-CAAATTTT-A-AAAAAA
140463 TTTAAATACAAATTTTAAAAAAA
1 TTTAAATACAAATTTTAAAAAAA
140486 T
1 T
140487 AATATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.30
24 2 0.09
25 14 0.61
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTAAATACAAATTTTAAAAAAA
Found at i:142569 original size:43 final size:43
Alignment explanation
Indices: 142486--142665 Score: 146
Period size: 43 Copynumber: 4.2 Consensus size: 43
142476 GTATTTTTTT
* * * * *** *
142486 CACAAATGCTACTAAAGAACATGATTTTTAACGATACTTTTCT
1 CACAAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTTCC
* * *
142529 CACAAACGCTGCTAAATAACATGATATATAGCGGCGCTTTTCC
1 CACAAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTTCC
* * * * * *
142572 CACAAACACCGCTAAAGAACATGGTCTTTAGTGGTGC-TTTCT
1 CACAAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTTCC
* * * * * *
142614 CACAAACCCTGTTATAGAACATGATCTTTAACAGCGTTTTTCC
1 CACAAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTTCC
142657 CACAAACGC
1 CACAAACGC
142666 CTCTAACATA
Statistics
Matches: 105, Mismatches: 31, Indels: 2
0.76 0.22 0.01
Matches are distributed among these distances:
42 31 0.30
43 74 0.70
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
CACAAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTTCC
Found at i:146613 original size:41 final size:41
Alignment explanation
Indices: 146568--146692 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
146558 GGCGCTTTTT
* * * **
146568 CATAAATGTCGCTAATGCTCTGATTTTTAGTGGCATTTTCC
1 CATAAATGCCGCTAATACTCTGATCTTTAACGGCATTTTCC
146609 CATAAATGCCGCTAATACTCTGATCTTTAACGGCATTTTCCC
1 CATAAATGCCGCTAATACTCTGATCTTTAACGGCATTTT-CC
* ** * * *
146651 CACAAGCGCTGCTAATGCTCTGATCTTTAACGGCGTTTTCC
1 CATAAATGCCGCTAATACTCTGATCTTTAACGGCATTTTCC
146692 C
1 C
146693 CACAAACGCT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 37 0.51
42 35 0.49
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.35
Consensus pattern (41 bp):
CATAAATGCCGCTAATACTCTGATCTTTAACGGCATTTTCC
Found at i:146673 original size:42 final size:42
Alignment explanation
Indices: 146578--146713 Score: 184
Period size: 42 Copynumber: 3.3 Consensus size: 42
146568 CATAAATGTC
* ** * * *
146578 GCTAATGCTCTGATTTTTAGTGGCATTTT-CCCATAAATGCC
1 GCTAATGCTCTGATCTTTAACGGCATTTTCCCCACAAACGCT
* *
146619 GCTAATACTCTGATCTTTAACGGCATTTTCCCCACAAGCGCT
1 GCTAATGCTCTGATCTTTAACGGCATTTTCCCCACAAACGCT
*
146661 GCTAATGCTCTGATCTTTAACGGCGTTTTCCCCACAAACGCT
1 GCTAATGCTCTGATCTTTAACGGCATTTTCCCCACAAACGCT
146703 GCTAATGCTCT
1 GCTAATGCTCT
146714 TTCTCATATT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 25 0.30
42 58 0.70
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (42 bp):
GCTAATGCTCTGATCTTTAACGGCATTTTCCCCACAAACGCT
Found at i:147108 original size:21 final size:21
Alignment explanation
Indices: 147069--147114 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
147059 AAAACGAGCC
*
147069 TTTTTTCCTTTAAATTTTGAT
1 TTTTTTCCTTTAAATTTTGAA
*
147090 TTTTTTCGGTTTAAA-TTTGAA
1 TTTTTTC-CTTTAAATTTTGAA
147111 TTTT
1 TTTT
147115 GAAACAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.65
Consensus pattern (21 bp):
TTTTTTCCTTTAAATTTTGAA
Found at i:149015 original size:41 final size:42
Alignment explanation
Indices: 148925--149018 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 42
148915 CTATTGCTTA
* *
148925 ACCTTTAGCGGCATTTTCCCCATAAACGCCGCTAGTGCTTTG
1 ACCTTTAGCGGCATTTTCCCCATAAACGCCGCTAGTACTCTG
** * ** * *
148967 ATATTTAGCGGCGTTTT-GTCATAAACGCTGCTATTACTCTG
1 ACCTTTAGCGGCATTTTCCCCATAAACGCCGCTAGTACTCTG
149008 ACCTTTAGCGG
1 ACCTTTAGCGG
149019 TGCTTTCCCA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
41 27 0.66
42 14 0.34
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (42 bp):
ACCTTTAGCGGCATTTTCCCCATAAACGCCGCTAGTACTCTG
Done.