Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold374
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: 461091
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 4
Found at i:2482 original size:13 final size:13
Alignment explanation
Indices: 2464--2490 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2454 TACATGACCA
2464 AATGTATCGATAC
1 AATGTATCGATAC
2477 AATGTATCGATAC
1 AATGTATCGATAC
2490 A
1 A
2491 TCTTATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2597 original size:13 final size:13
Alignment explanation
Indices: 2579--2603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2569 TATAGTGGTC
2579 ATGTATCGATACA
1 ATGTATCGATACA
2592 ATGTATCGATAC
1 ATGTATCGATAC
2604 TGTGCATTAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3826 original size:16 final size:16
Alignment explanation
Indices: 3807--3885 Score: 52
Period size: 16 Copynumber: 4.9 Consensus size: 16
3797 TGATTTGAAT
*
3807 TCAAATTGATCAAAAC
1 TCAAAATGATCAAAAC
*
3823 TCAAAATGATCTAAAC
1 TCAAAATGATCAAAAC
** **
3839 TTGAAAT-AGTTTAAAC
1 TCAAAATGA-TCAAAAC
* ***
3855 TCAAAATAATTTGAAC
1 TCAAAATGATCAAAAC
3871 TCAAAATGATCAAAA
1 TCAAAATGATCAAAA
3886 TAATTAAATT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
15 1 0.02
16 47 0.96
17 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.28
Consensus pattern (16 bp):
TCAAAATGATCAAAAC
Found at i:3829 original size:32 final size:32
Alignment explanation
Indices: 3793--3885 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 32
3783 ATTGAAACCT
3793 AAAATGATTTGAATTCAAATTGATCAAAACTC
1 AAAATGATTTGAATTCAAATTGATCAAAACTC
* * * * **
3825 AAAATGATCTAAACTTGAAATAG-TTTAAACTC
1 AAAATGATTTGAA-TTCAAATTGATCAAAACTC
* * *
3857 AAAATAATTTGAACTCAAAATGATCAAAA
1 AAAATGATTTGAATTCAAATTGATCAAAA
3886 TAATTAAATT
Statistics
Matches: 44, Mismatches: 15, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
31 5 0.11
32 32 0.73
33 7 0.16
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.29
Consensus pattern (32 bp):
AAAATGATTTGAATTCAAATTGATCAAAACTC
Found at i:4464 original size:49 final size:50
Alignment explanation
Indices: 4356--4466 Score: 172
Period size: 50 Copynumber: 2.2 Consensus size: 50
4346 CAATTTGGAG
*
4356 TTGATTATGAAATTTATTTATTTTTAAAATTAATTTTTAAAAAAATCATA
1 TTGATTATAAAATTTATTTATTTTTAAAATTAATTTTTAAAAAAATCATA
*
4406 TTGACTATAAAATTTATTTATTTTTAAAATT-A-TTTTAAAAAAATCATA
1 TTGATTATAAAATTTATTTATTTTTAAAATTAATTTTTAAAAAAATCATA
*
4454 TTTATTTATAAAA
1 TTGA-TTATAAAA
4467 CTTAAAACCG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
48 19 0.34
49 8 0.14
50 29 0.52
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (50 bp):
TTGATTATAAAATTTATTTATTTTTAAAATTAATTTTTAAAAAAATCATA
Found at i:5761 original size:6 final size:6
Alignment explanation
Indices: 5750--5780 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
5740 TAGAAGAGTT
5750 GCAGTG GCAGTG GCAGTG GCAGTG GCAGTG G
1 GCAGTG GCAGTG GCAGTG GCAGTG GCAGTG G
5781 TGAAGCGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (6 bp):
GCAGTG
Found at i:6010 original size:20 final size:20
Alignment explanation
Indices: 5985--6024 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
5975 TGGTAAGCTA
5985 ATCTTCTATGTGTTTTAGAG
1 ATCTTCTATGTGTTTTAGAG
6005 ATCTTCTATGTGTTTTAGAG
1 ATCTTCTATGTGTTTTAGAG
6025 GTTTGGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (20 bp):
ATCTTCTATGTGTTTTAGAG
Found at i:24211 original size:20 final size:20
Alignment explanation
Indices: 24170--24211 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
24160 AAGAAGAATA
* *
24170 TTTTTCGGTGTTCTAGTGTT
1 TTTTTCGGTGTTCTAATCTT
24190 TTTTTCGG-GTCTCTAATCTT
1 TTTTTCGGTGT-TCTAATCTT
24210 TT
1 TT
24212 CCTATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.07, C:0.14, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTTTCGGTGTTCTAATCTT
Found at i:25331 original size:26 final size:26
Alignment explanation
Indices: 25302--25358 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
25292 TAAGATTTTT
*
25302 ATATTAATTAT-TAATATATTAAAATA
1 ATATTAAATATATAATAT-TTAAAATA
*
25328 ATA-TAAATATATAATATTTTAAATA
1 ATATTAAATATATAATATTTAAAATA
*
25353 TTATTA
1 ATATTA
25359 TAAAACATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATTAAATATATAATATTTAAAATA
Found at i:25712 original size:28 final size:30
Alignment explanation
Indices: 25658--25729 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 30
25648 TTACAATCAT
*
25658 ATTTTTATTATATTTGATATTTGATGTGTA
1 ATTTTTATTATATTTGATATTTGATGTATA
25688 ATTTTTATT-T-TTT-ATAATTTGATGTATA
1 ATTTTTATTATATTTGAT-ATTTGATGTATA
*
25716 ATGTTTATTATATT
1 ATTTTTATTATATT
25730 GTTATTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 2 0.05
28 22 0.59
29 2 0.05
30 11 0.30
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (30 bp):
ATTTTTATTATATTTGATATTTGATGTATA
Found at i:25895 original size:18 final size:16
Alignment explanation
Indices: 25872--25942 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 16
25862 AGATTCAATG
*
25872 ATTTATGTATTCATATAT
1 ATTTATATATT-AT-TAT
25890 ATTTATATATTATTAT
1 ATTTATATATTATTAT
25906 A-TTATA-ATTA-TAT
1 ATTTATATATTATTAT
* *
25919 -TTAAAAATATTA-TAT
1 ATT-TATATATTATTAT
25934 ATTTATATA
1 ATTTATATA
25943 ATTTTTTACA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
13 4 0.09
14 6 0.14
15 16 0.36
16 6 0.14
17 2 0.05
18 10 0.23
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (16 bp):
ATTTATATATTATTAT
Found at i:25911 original size:21 final size:21
Alignment explanation
Indices: 25879--25918 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25869 ATGATTTATG
*
25879 TATTCATATATATTTATATAT
1 TATTCATATATAATTATATAT
25900 TATT-ATATTATAATTATAT
1 TATTCATA-TATAATTATAT
25919 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTCATATATAATTATATAT
Found at i:25928 original size:29 final size:29
Alignment explanation
Indices: 25896--25998 Score: 81
Period size: 29 Copynumber: 3.5 Consensus size: 29
25886 ATATATTTAT
25896 ATATTATTATATTATAATTATATTTAAAA
1 ATATTATTATATTATAATTATATTTAAAA
*
25925 ATATTATATATTTATATAATT-T-TTTACAAA
1 ATATTAT-TATAT-TATAATTATATTTA-AAA
* * *
25955 TAAATAATTTATATTAT-A-TA-AATTAAAA
1 -ATATTA-TTATATTATAATTATATTTAAAA
25983 ATATATATTATATTAT
1 ATAT-TATTATATTAT
25999 TTTTCAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
27 12 0.20
28 5 0.08
29 15 0.25
30 11 0.19
31 15 0.25
32 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (29 bp):
ATATTATTATATTATAATTATATTTAAAA
Found at i:35063 original size:20 final size:19
Alignment explanation
Indices: 35019--35060 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
35009 TTGGAAATTA
*
35019 ATAAACTATGTGATTTAGG
1 ATAAACTATATGATTTAGG
35038 AT-AACTATATGATTTAGG
1 ATAAACTATATGATTTAGG
35056 ATAAA
1 ATAAA
35061 ACTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (19 bp):
ATAAACTATATGATTTAGG
Found at i:35379 original size:17 final size:18
Alignment explanation
Indices: 35339--35381 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
35329 ATAATTTAAT
*
35339 GAAAGAAAAAATGAATAAA
1 GAAA-AAAAAATGAACAAA
35358 GAAAAAAAAAT-AACAAA
1 GAAAAAAAAATGAACAAA
*
35375 TAAAAAA
1 GAAAAAA
35382 TTTAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
18 7 0.32
19 4 0.18
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (18 bp):
GAAAAAAAAATGAACAAA
Found at i:35496 original size:25 final size:25
Alignment explanation
Indices: 35440--35501 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
35430 TTTTTTTTTA
*
35440 AAAAAAAATCAATTTTTAAAATTATT
1 AAAAATAAT-AATTTTTAAAATTATT
**
35466 TTAAATAATAATTTTTATAAA-TATT
1 AAAAATAATAATTTTTA-AAATTATT
*
35491 AAAAATGATAA
1 AAAAATAATAA
35502 AAATAACTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AAAAATAATAATTTTTAAAATTATT
Found at i:36350 original size:2 final size:2
Alignment explanation
Indices: 36339--36377 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
36329 AAGTTAATCC
36339 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36378 TTCATGTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:37818 original size:23 final size:23
Alignment explanation
Indices: 37788--37833 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37778 TGATACCATA
37788 TGTCCCTGAAGTTGGGTTTTCAC
1 TGTCCCTGAAGTTGGGTTTTCAC
37811 TGTCCCTGAAGTTGGGTTTTCAC
1 TGTCCCTGAAGTTGGGTTTTCAC
37834 ACCTCACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (23 bp):
TGTCCCTGAAGTTGGGTTTTCAC
Found at i:44874 original size:9 final size:8
Alignment explanation
Indices: 44850--44879 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
44840 AAATCAAAGA
44850 TGGGCACT
1 TGGGCACT
44858 TGGGCACT
1 TGGGCACT
44866 TGAGGCACT
1 TG-GGCACT
44875 TGGGC
1 TGGGC
44880 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.23, G:0.40, T:0.23
Consensus pattern (8 bp):
TGGGCACT
Found at i:44918 original size:18 final size:18
Alignment explanation
Indices: 44895--44929 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44885 TTAAAGATGC
*
44895 AATTATATTTTTTATTTT
1 AATTATATTATTTATTTT
44913 AATTATATTATTTATTT
1 AATTATATTATTTATTT
44930 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTATATTATTTATTTT
Found at i:44942 original size:18 final size:21
Alignment explanation
Indices: 44898--44944 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
44888 AAGATGCAAT
44898 TATATTT-TTTATTTTAATTA
1 TATATTTATTTATTTTAATTA
44918 TATTATTTATTTA-TTT-ATTA
1 TA-TATTTATTTATTTTAATTA
44938 -ATATTTA
1 TATATTTA
44945 ATTCGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.24
19 1 0.04
20 6 0.24
21 8 0.32
22 4 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATATTTATTTATTTTAATTA
Found at i:49285 original size:12 final size:12
Alignment explanation
Indices: 49268--49294 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49258 ATTATTTTTA
49268 AAAAATAATTAT
1 AAAAATAATTAT
49280 AAAAATAATTAT
1 AAAAATAATTAT
49292 AAA
1 AAA
49295 TTAATTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATAATTAT
Found at i:49413 original size:21 final size:21
Alignment explanation
Indices: 49373--49413 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49363 TATTAAAAAC
*
49373 ATATTTTATATTAATTTTTAT
1 ATATTTTATATTAATATTTAT
49394 ATATTTTATAATTAA-ATTTA
1 ATATTTTAT-ATTAATATTTA
49414 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATTTTATATTAATATTTAT
Found at i:50267 original size:27 final size:27
Alignment explanation
Indices: 50229--50283 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
50219 ATGTTCCACG
50229 TAATCTATGGATTAGATTTGATTGATC
1 TAATCTATGGATTAGATTTGATTGATC
50256 TAATCTATGGATTAGATTTGATTGATC
1 TAATCTATGGATTAGATTTGATTGATC
50283 T
1 T
50284 TAAATAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.45
Consensus pattern (27 bp):
TAATCTATGGATTAGATTTGATTGATC
Found at i:50378 original size:29 final size:31
Alignment explanation
Indices: 50338--50402 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
50328 GATAAATTTA
* *
50338 AAAAT-TTTATTTATTATTTAAA-AAT-ATT
1 AAAATATTAATTTATTAATTAAATAATAATT
*
50366 AAAATATTAATTTTTTAATTAAATAATAATT
1 AAAATATTAATTTATTAATTAAATAATAATT
*
50397 TAAATA
1 AAAATA
50403 AAACGAGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 5 0.17
29 14 0.47
30 3 0.10
31 8 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
AAAATATTAATTTATTAATTAAATAATAATT
Found at i:50964 original size:20 final size:21
Alignment explanation
Indices: 50930--50969 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
50920 GATATTCGTG
*
50930 TTTATAATAATTTTTTATATA
1 TTTATAATAAATTTTTATATA
50951 TTTAT-ATAAATTTTTATAT
1 TTTATAATAAATTTTTATAT
50970 GTTAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATAATAAATTTTTATATA
Found at i:50981 original size:19 final size:19
Alignment explanation
Indices: 50943--50996 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
50933 ATAATAATTT
* *
50943 TTTATA-TATTTATATAAA
1 TTTATATTATTTAAATTAA
*
50961 TTTTTA-TATGTTAAATTAA
1 TTTATATTAT-TTAAATTAA
50980 TTTATATTATTTAAATT
1 TTTATATTATTTAAATT
50997 TTTAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 8 0.27
19 19 0.63
20 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTATATTATTTAAATTAA
Found at i:52332 original size:18 final size:19
Alignment explanation
Indices: 52309--52357 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 19
52299 TTTTTTAAAA
52309 TTATTATTATAAATATT-T
1 TTATTATTATAAATATTAT
52327 TTATTATTA-AAAT-TTAT
1 TTATTATTATAAATATTAT
*
52344 TTAAT-TTATAAATA
1 TTATTATTATAAATA
52358 AAAATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 13 0.48
18 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATTATAAATATTAT
Found at i:52341 original size:15 final size:15
Alignment explanation
Indices: 52303--52341 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
52293 ACATCATTTT
*
52303 TTAAAATTATTATTA
1 TTAAAATTTTTATTA
52318 -TAAATATTTTTATTA
1 TTAAA-ATTTTTATTA
52333 TTAAAATTT
1 TTAAAATTT
52342 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 4 0.19
15 13 0.62
16 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAAAATTTTTATTA
Found at i:52917 original size:18 final size:19
Alignment explanation
Indices: 52896--52936 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
52886 CAGATAAATT
52896 ATTTTTAT-TTA-ATTTTAA
1 ATTTTTATATTATA-TTTAA
52914 A-TTTTATATTATATTTAA
1 ATTTTTATATTATATTTAA
52932 ATTTT
1 ATTTT
52937 AAAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.30
18 10 0.50
19 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTATATTATATTTAA
Found at i:61015 original size:50 final size:50
Alignment explanation
Indices: 60931--61055 Score: 189
Period size: 50 Copynumber: 2.5 Consensus size: 50
60921 TTTTAATTAG
*
60931 ATGTATCGATACATCTGGGTTAAAAGACAGAATGTATCGATACATT-ACAAA
1 ATGTATCGATACATCTGGG-TAAAAGACAAAATGTATCGATACATTGA-AAA
* *
60982 ATGTATCGACACATATGGGTAAAAGACAAAATGTATCGATACATTGAAAA
1 ATGTATCGATACATCTGGGTAAAAGACAAAATGTATCGATACATTGAAAA
*
61032 ATATATCGATACATCTGGGTAAAA
1 ATGTATCGATACATCTGGGTAAAA
61056 AATGTGACTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 49 0.73
51 18 0.27
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (50 bp):
ATGTATCGATACATCTGGGTAAAAGACAAAATGTATCGATACATTGAAAA
Found at i:62126 original size:27 final size:27
Alignment explanation
Indices: 62048--62155 Score: 83
Period size: 28 Copynumber: 3.9 Consensus size: 27
62038 TGATTTGTGA
* * *
62048 GCTTCGAAAAGGTGCCACTGGCTTGTCG
1 GCTTC-AAAGGGTGCCACTGACTTATCG
* *
62076 GCTTCGAAAGGGTGCCACTAACTTATGG
1 GCTTC-AAAGGGTGCCACTGACTTATCG
* *
62104 GCTT-AAAGGGGTGCCACTGACTTGTAG
1 GCTTCAAA-GGGTGCCACTGACTTATCG
* *
62131 GCTTTGAGAAGGATGCCACTGACTT
1 GC-TTCA-AAGGGTGCCACTGACTT
62156 GCGGGCTTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.04
27 18 0.27
28 29 0.43
29 15 0.22
30 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (27 bp):
GCTTCAAAGGGTGCCACTGACTTATCG
Found at i:62152 original size:29 final size:28
Alignment explanation
Indices: 61985--62425 Score: 458
Period size: 29 Copynumber: 15.5 Consensus size: 28
61975 CACCAATTTG
* **
61985 TGTGGGCTTTAGAGAAGGTTGCCACCCACT
1 TGTGGGCTTT-GA-AAGGATGCCACTGACT
* * * *
62015 TGTAGGCTTTAAAAGGATGCCATTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
62043 TGTGAGCTTCGAAAAGG-TGCCACTGGCT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
62071 TGTCGGCTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
62099 TATGGGC-TT-AAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
*
62126 TGTAGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* *
62155 TGCGGGCTTTGAGAAAGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
62184 CGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
62213 CGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
62242 CGTGGGCTTTGAAAGGATACCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
62270 TGTGGGCTCTGAAAAAGATGCCACTCACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
62299 TGTGGGCTTTGAGAAGGATGTCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* *
62328 TATGGGCTTTGAAAGGATGCCACTGACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
62356 TGCGGGCTTTGAAAAGATACCACTGA-T
1 TGTGGGCTTTGAAAGGATGCCACTGACT
62383 ATGTGGGCTTTGAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
62412 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
62426 AGGGTCGTAT
Statistics
Matches: 346, Mismatches: 54, Indels: 24
0.82 0.13 0.06
Matches are distributed among these distances:
26 3 0.01
27 24 0.07
28 149 0.43
29 158 0.46
30 12 0.03
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:62192 original size:58 final size:56
Alignment explanation
Indices: 61985--62425 Score: 447
Period size: 56 Copynumber: 7.8 Consensus size: 56
61975 CACCAATTTG
* * ** * * * *
61985 TGTGGGCTTTAGAGAAGGTTGCCACCCACTTGTAGGCTTTAAAAGGATGCCATTGATT
1 TGTGGGCTTT-GA-AAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * *
62043 TGTGAGCTTCGAAAAGGTGCCACTGGCTTGTCGGCTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
62099 TATGGGC-TT-AAAGGGGTGCCACTGACTTGTAGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAA-AGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACT
* *
62155 TGCGGGCTTTGAGAAAGATGCCACTGACTCGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAAGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
62213 CGTGGGCTTTGAAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGATACCACTGATT
1 TGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
62270 TGTGGGCTCTGAAAAAGATGCCACTCACTTGTGGGCTTTGAGAAGGATGTCACTGACT
1 TGTGGGCTTTG-AAAAGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACT
* * * * * *
62328 TATGGGCTTTGAAAGGATGCCACTGACATGCGGGCTTTGAAAAGATACCACTGA-T
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
*
62383 ATGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA
1 -TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA
62426 AGGGTCGTAT
Statistics
Matches: 321, Mismatches: 52, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
54 3 0.01
55 24 0.07
56 106 0.33
57 79 0.25
58 106 0.33
59 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (56 bp):
TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:75374 original size:27 final size:27
Alignment explanation
Indices: 75306--75374 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
75296 GTGAAAAATG
*
75306 GGGTTGGAGTATCCCCTCGGAGGAATA
1 GGGTTGGAGTATCCTCTCGGAGGAATA
*
75333 AGGTTGGAGTATCCTCTCGGAGGAATA
1 GGGTTGGAGTATCCTCTCGGAGGAATA
*
75360 GGGTTGGAGTGTCCT
1 GGGTTGGAGTATCCT
75375 AATAAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.20, C:0.16, G:0.38, T:0.26
Consensus pattern (27 bp):
GGGTTGGAGTATCCTCTCGGAGGAATA
Found at i:77552 original size:20 final size:20
Alignment explanation
Indices: 77527--77651 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
77517 TTTTAACTAG
77527 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
77547 ATGTATTGATACATCTGGGTAAAAA
1 ATGTATCGATACAT-T--G--AAAA
*
77572 GATAGAATGTATCGATACATTGAAGA
1 -AT-G--T--ATCGATACATTGAAAA
* * * *
77598 ATGTATCAATACATTCATAC
1 ATGTATCGATACATTGAAAA
* *
77618 ATATATCAATACATTGAAAA
1 ATGTATCGATACATTGAAAA
77638 ATGTATCGATACAT
1 ATGTATCGATACAT
77652 CTGGGTAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 52 0.65
21 1 0.01
22 1 0.01
23 1 0.01
24 1 0.01
25 6 0.08
26 5 0.06
27 1 0.01
28 1 0.01
29 1 0.01
30 1 0.01
31 9 0.11
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:77694 original size:90 final size:91
Alignment explanation
Indices: 77530--77694 Score: 287
Period size: 90 Copynumber: 1.8 Consensus size: 91
77520 TAACTAGATG
* *
77530 TATCGATACATTGAAAAATGTATTGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTGA
1 TATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTGA
*
77595 AGAATGTATCAATACATTCATACATA
66 AAAATGTATCAATACATTCATACATA
*
77621 TATCAATACATTGAAAAATGTATCGATACATCTGGGT-AAAAGATAGAATGTATCGATATATTGA
1 TATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTGA
77685 AAAATGTATC
66 AAAATGTATC
77695 GATATATCTG
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
90 35 0.50
91 35 0.50
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (91 bp):
TATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGATAGAATGTATCGATACATTGA
AAAATGTATCAATACATTCATACATA
Found at i:79331 original size:2 final size:2
Alignment explanation
Indices: 79324--79362 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
79314 TAGGCTAATT
*
79324 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
79363 CTACAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 33 0.97
3 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:81170 original size:20 final size:20
Alignment explanation
Indices: 81134--81171 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
81124 TAGTCAAATA
*
81134 TAAACTCATATATAAATAGT
1 TAAACTCATATAAAAATAGT
81154 TAAACTCCATA-AAAAATA
1 TAAACT-CATATAAAAATA
81172 CATAACCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (20 bp):
TAAACTCATATAAAAATAGT
Found at i:81272 original size:18 final size:19
Alignment explanation
Indices: 81249--81287 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
81239 AACAAAAGTT
*
81249 TTATTA-ATTTTATTTGAA
1 TTATTATATTTTATTTAAA
*
81267 TTATTATTTTTTATTTAAA
1 TTATTATATTTTATTTAAA
81286 TT
1 TT
81288 TAATTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTATTATATTTTATTTAAA
Found at i:81434 original size:25 final size:25
Alignment explanation
Indices: 81405--81456 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
81395 TTAATCTAAC
81405 TTGTAAACACTTTTTAACTTTTAGT
1 TTGTAAACACTTTTTAACTTTTAGT
81430 TTGTAAACACTTTTTAACTTTTAGT
1 TTGTAAACACTTTTTAACTTTTAGT
81455 TT
1 TT
81457 AAGATCGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.54
Consensus pattern (25 bp):
TTGTAAACACTTTTTAACTTTTAGT
Found at i:83835 original size:13 final size:13
Alignment explanation
Indices: 83817--83842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83807 TACACAAAGT
83817 ATGTATCGATACA
1 ATGTATCGATACA
83830 ATGTATCGATACA
1 ATGTATCGATACA
83843 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:83840 original size:32 final size:33
Alignment explanation
Indices: 83799--83862 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
83789 TAGCCAAACT
**
83799 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
83831 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
83863 TTGGCTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:88900 original size:23 final size:25
Alignment explanation
Indices: 88874--88921 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
88864 AATTCATTGA
* *
88874 AAATTTTAAT-AAATAAA-AAAATT
1 AAATTGTAATGAAAAAAATAAAATT
88897 AAATTGTAATGAAAAAAATAAAATT
1 AAATTGTAATGAAAAAAATAAAATT
88922 TTCTCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
AAATTGTAATGAAAAAAATAAAATT
Found at i:89277 original size:17 final size:17
Alignment explanation
Indices: 89252--89321 Score: 58
Period size: 17 Copynumber: 4.3 Consensus size: 17
89242 GCCATCTAGC
*
89252 TTCCCCTCCCTTTTCTT
1 TTCCTCTCCCTTTTCTT
*
89269 TTCCTCTCCCTCTTCTT
1 TTCCTCTCCCTTTTCTT
*
89286 TT-CTCT-CTTTTTC-T
1 TTCCTCTCCCTTTTCTT
* *
89300 CTCCTCTCTCC-ATTCTT
1 TTCCTCTC-CCTTTTCTT
89317 TTCCT
1 TTCCT
89322 TCTCTCTCGA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
14 2 0.05
15 9 0.22
16 7 0.17
17 23 0.56
ACGTcount: A:0.01, C:0.43, G:0.00, T:0.56
Consensus pattern (17 bp):
TTCCTCTCCCTTTTCTT
Found at i:90016 original size:22 final size:24
Alignment explanation
Indices: 89991--90040 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
89981 TTTAAATTTT
*
89991 TTAATTTAAT-TAA-ATAAATAAA
1 TTAATTTAATCAAACATAAATAAA
*
90013 TTAATTTAATCAAACATTAATAAA
1 TTAATTTAATCAAACATAAATAAA
90037 TTAA
1 TTAA
90041 GCTCGAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 12 0.50
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAATTTAATCAAACATAAATAAA
Found at i:91095 original size:23 final size:23
Alignment explanation
Indices: 91068--91115 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
91058 TTATTTAAAA
91068 AATATTAAAATATATTTTAT-ATT
1 AATATTAAAATAT-TTTTATAATT
* *
91091 AATATTTATATATTTTTATAATT
1 AATATTAAAATATTTTTATAATT
91114 AA
1 AA
91116 ATTTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTAAAATATTTTTATAATT
Found at i:91107 original size:22 final size:21
Alignment explanation
Indices: 91077--91120 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
91067 AAATATTAAA
91077 ATATATTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
91098 ATATATTTTTATAATTAAATTT
1 ATATA-TTTTATAATTAAATTT
91120 A
1 A
91121 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:92090 original size:20 final size:20
Alignment explanation
Indices: 92058--92106 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
92048 AATTATTAAC
* *
92058 ATATTATAAT-TTATATA-A
1 ATATTATAATATTTTAAATA
92076 ATA-TATAATATTTTAAATA
1 ATATTATAATATTTTAAATA
92095 ATATTATAATAT
1 ATATTATAATAT
92107 ATAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 4 0.15
20 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTATAATATTTTAAATA
Found at i:92114 original size:20 final size:19
Alignment explanation
Indices: 92058--92111 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
92048 AATTATTAAC
* *
92058 ATATTATAATTTATATA-A
1 ATATTATAATATATAAATA
*
92076 ATA-TATAATATTTTAAATA
1 ATATTATAATA-TATAAATA
92095 ATATTATAATATATAAA
1 ATATTATAATATATAAA
92112 ATATATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.21
18 7 0.24
19 9 0.31
20 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTATAATATATAAATA
Found at i:92728 original size:23 final size:21
Alignment explanation
Indices: 92694--92735 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
92684 TTAAATAAAT
*
92694 TTAAATAATTTAATTTTTATC
1 TTAAATAATTTAAATTTTATC
92715 TTAAATTAATTTTAAATTTTA
1 TTAAA-TAA-TTTAAATTTTA
92736 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAATAATTTAAATTTTATC
Found at i:93064 original size:22 final size:22
Alignment explanation
Indices: 93039--93080 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
93029 AAAAATAAAA
93039 TTTAT-ATTAATATTTATATATT
1 TTTATAATTAA-ATTTATATATT
93061 TTTATAATTAAATTTATATA
1 TTTATAATTAAATTTATATA
93081 AAATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATAATTAAATTTATATATT
Found at i:94416 original size:7 final size:7
Alignment explanation
Indices: 94404--94430 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
94394 ATAACCACTT
94404 AAAAAAG
1 AAAAAAG
94411 AAAAAAG
1 AAAAAAG
94418 AAAAAAG
1 AAAAAAG
94425 AAAAAA
1 AAAAAA
94431 AAATTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:94791 original size:17 final size:18
Alignment explanation
Indices: 94758--94797 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
94748 AAAAAAATTA
94758 AAATTTAAGTTTAATTTT
1 AAATTTAAGTTTAATTTT
94776 AAATTTAA-TTTAATTTT
1 AAATTTAAGTTTAATTTT
94793 AAATT
1 AAATT
94798 ATTATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
AAATTTAAGTTTAATTTT
Found at i:94923 original size:25 final size:24
Alignment explanation
Indices: 94868--94927 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
94858 AAAATTATTA
94868 TTTAAATAAATTAATAATAAAATT
1 TTTAAATAAATTAATAATAAAATT
* * **
94892 ATCAAATTAAATTAATAATTTAATT
1 TTTAAA-TAAATTAATAATAAAATT
94917 TTTAAATAAAT
1 TTTAAATAAAT
94928 CTATTAAGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAAATAAATTAATAATAAAATT
Found at i:95284 original size:31 final size:31
Alignment explanation
Indices: 95249--95308 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
95239 TAATTATATT
**
95249 AAATTTAAATTATTATTTTTAAATTAATAAA
1 AAATTTAAAAAATTATTTTTAAATTAATAAA
*
95280 AAATTTAAAAAATTATTTTTATATTAATA
1 AAATTTAAAAAATTATTTTTAAATTAATA
95309 TTAGGTATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
AAATTTAAAAAATTATTTTTAAATTAATAAA
Found at i:96837 original size:43 final size:44
Alignment explanation
Indices: 96759--96853 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
96749 TATTTATATT
* *
96759 ATATTTATATATTTTAAATATAATAATTATATTTAAAATATTAA
1 ATATTTATAAATTTTAAATATAATAATGATATTTAAAATATTAA
* * * *
96803 ATATTATATAAATTTTATATATTAT-ATGAT-TTTAATATATTTAT
1 ATATT-TATAAATTTTAAATATAATAATGATATTTAAAATA-TTAA
96847 ATATTTA
1 ATATTTA
96854 AAACTATGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 10 0.23
44 17 0.40
45 16 0.37
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (44 bp):
ATATTTATAAATTTTAAATATAATAATGATATTTAAAATATTAA
Found at i:96852 original size:18 final size:18
Alignment explanation
Indices: 96746--96852 Score: 71
Period size: 18 Copynumber: 5.9 Consensus size: 18
96736 TAAATTAAAT
96746 ATATATTTATATTATATTT-
1 ATATATTTATA-TAT-TTTA
* **
96765 ATATATTTTAAATATAATA
1 ATATA-TTTATATATTTTA
* *
96784 ATTATATTTA-AAATATTA
1 A-TATATTTATATATTTTA
*
96802 A-ATATTATATAAATTTT-
1 ATATATT-TATATATTTTA
96819 ATATA-TTATATGATTTTA
1 ATATATTTATAT-ATTTTA
96837 ATATATTTATATATTT
1 ATATATTTATATATTT
96853 AAAACTATGA
Statistics
Matches: 72, Mismatches: 7, Indels: 19
0.73 0.07 0.19
Matches are distributed among these distances:
16 9 0.12
17 9 0.12
18 26 0.36
19 19 0.26
20 9 0.12
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (18 bp):
ATATATTTATATATTTTA
Found at i:98422 original size:16 final size:17
Alignment explanation
Indices: 98401--98434 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
98391 TATCATAATC
*
98401 GTATTTA-ATATATTTT
1 GTATTTATATAAATTTT
98417 GTATTTATATAAATTTT
1 GTATTTATATAAATTTT
98434 G
1 G
98435 ATACATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
GTATTTATATAAATTTT
Found at i:98722 original size:23 final size:22
Alignment explanation
Indices: 98689--98732 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
98679 AATATAAAAA
98689 ATATTTTTAT-ATTATTATTTAT
1 ATATTTTTATAATTA-TATTTAT
98711 ATATATTTTATAATTATATTTA
1 ATAT-TTTTATAATTATATTTA
98733 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTTTTATAATTATATTTAT
Found at i:98747 original size:21 final size:20
Alignment explanation
Indices: 98720--98779 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
98710 TATATATTTT
98720 ATAATTATATTTAAAT-AAAA
1 ATAATTAT-TTTAAATAAAAA
*
98740 ATATATTATTTTAATTAAAAA
1 ATA-ATTATTTTAAATAAAAA
98761 ATAATTATTTCT-AATAAAA
1 ATAATTATTT-TAAATAAAA
98780 TTGATTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 22 0.63
21 13 0.37
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAATTATTTTAAATAAAAA
Found at i:99365 original size:32 final size:29
Alignment explanation
Indices: 99327--99385 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 29
99317 CGTGTCATAA
*
99327 TTATATTTAAAATTTTTATATTTATTTAAAAT
1 TTATA-TTAAAA-ATTTATA-TTATTTAAAAT
99359 TTATATTAAAAATTTATATTATTTAAA
1 TTATATTAAAAATTTATATTATTTAAA
99386 TTATAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 6 0.23
31 6 0.23
32 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TTATATTAAAAATTTATATTATTTAAAAT
Found at i:99370 original size:13 final size:13
Alignment explanation
Indices: 99346--99379 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
99336 AAATTTTTAT
99346 ATTTAT-TT-AAA
1 ATTTATATTAAAA
99357 ATTTATATTAAAA
1 ATTTATATTAAAA
99370 ATTTATATTA
1 ATTTATATTA
99380 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.29
12 2 0.10
13 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTATATTAAAA
Found at i:99388 original size:22 final size:25
Alignment explanation
Indices: 99357--99403 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
99347 TTTATTTAAA
*
99357 ATTTATATTA-AAAAT-TT-ATATT
1 ATTTAAATTATAAAATATTCATATT
99379 ATTTAAATTATAAAATATTCATATT
1 ATTTAAATTATAAAATATTCATATT
99404 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 5 0.24
24 2 0.10
25 5 0.24
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTAAATTATAAAATATTCATATT
Found at i:99415 original size:21 final size:22
Alignment explanation
Indices: 99364--99432 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
99354 AAAATTTATA
*
99364 TTAAAAAT-TT-ATATTATTTAAA
1 TTAAAAATATTCATATTATTT--T
99386 TTATAAAATATTCATATT-TTTT
1 TTA-AAAATATTCATATTATTTT
**
99408 TTAAAAATATTTTTATTATTTT
1 TTAAAAATATTCATATTATTTT
99430 TTA
1 TTA
99433 TGTCATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 12 0.30
22 13 0.32
23 5 0.12
24 5 0.12
25 5 0.12
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAAAAATATTCATATTATTTT
Found at i:99443 original size:14 final size:12
Alignment explanation
Indices: 99414--99473 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
99404 TTTTTTAAAA
99414 ATATTTT-TATT
1 ATATTTTATATT
* * *
99425 ATTTTTTATGTC
1 ATATTTTATATT
99437 ATATTTTATATT
1 ATATTTTATATT
99449 ATATTTTA-A-T
1 ATATTTTATATT
*
99459 -TATTTTATATA
1 ATATTTTATATT
99470 ATAT
1 ATAT
99474 AATTATATCG
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
9 7 0.18
10 2 0.05
11 7 0.18
12 22 0.58
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (12 bp):
ATATTTTATATT
Found at i:101509 original size:19 final size:17
Alignment explanation
Indices: 101474--101516 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
101464 TAATTTTTAT
*
101474 AAAAATTTAAAAAATAA
1 AAAAATTAAAAAAATAA
101491 AAAAATTAAGAAAATATAA
1 AAAAATTAA-AAAA-ATAA
*
101510 CAAAATT
1 AAAAATT
101517 TTACTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAATTAAAAAAATAA
Found at i:103153 original size:12 final size:12
Alignment explanation
Indices: 103136--103174 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
103126 AATCATAAAA
*
103136 AATAAACATAAT
1 AATAAAAATAAT
103148 AATAAAAATAAT
1 AATAAAAATAAT
*
103160 AATAATAAAAAAT
1 AATAA-AAATAAT
103173 AA
1 AA
103175 AGAAGACTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:106923 original size:13 final size:13
Alignment explanation
Indices: 106905--106930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106895 ACAAAAAATC
106905 ATGTATCGATACA
1 ATGTATCGATACA
106918 ATGTATCGATACA
1 ATGTATCGATACA
106931 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:106970 original size:13 final size:13
Alignment explanation
Indices: 106948--107037 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
106938 GGCAGTAACT
*
106948 TTGTAGCGATACA
1 TTGTATCGATACA
106961 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
106977 CTTATGTATCGATACA
1 --T-TGTATCGATACA
*
106993 TTGTATGGATACAACA
1 TTGTATCGAT---ACA
107009 CTTATGTATCGATACA
1 --T-TGTATCGATACA
107025 TTGTATCGATACA
1 TTGTATCGATACA
107038 AATTGTTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 31 0.50
14 2 0.03
16 8 0.13
18 2 0.03
19 19 0.31
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:106986 original size:19 final size:18
Alignment explanation
Indices: 106962--107024 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
106952 AGCGATACAT
106962 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
106981 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
106994 TGTATGGATACAACACTTA
1 TGTATCGATACAA-ACTTA
107013 TGTATCGATACA
1 TGTATCGATACA
107025 TTGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:106992 original size:32 final size:32
Alignment explanation
Indices: 106944--107039 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
106934 CCTTGGCAGT
*
106944 AACTT-TGTAGCGATACATTGTATCGATACAA
1 AACTTATGTATCGATACATTGTATCGATACAA
*
106975 AACTTATGTATCGATACATTGTATGGATACAA
1 AACTTATGTATCGATACATTGTATCGATACAA
*
107007 CACTTATGTATCGATACATTGTATCGATACAA
1 AACTTATGTATCGATACATTGTATCGATACAA
107039 A
1 A
107040 TTGTTGAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
31 5 0.08
32 54 0.92
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (32 bp):
AACTTATGTATCGATACATTGTATCGATACAA
Found at i:107726 original size:17 final size:17
Alignment explanation
Indices: 107700--107740 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
107690 TTGAAAAACT
107700 AGAAACAAAAGAAAAAAA
1 AGAAA-AAAAGAAAAAAA
*
107718 AGAAAAAAATAAAAAAA
1 AGAAAAAAAGAAAAAAA
*
107735 GGAAAA
1 AGAAAA
107741 GTGATAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (17 bp):
AGAAAAAAAGAAAAAAA
Found at i:108468 original size:19 final size:19
Alignment explanation
Indices: 108444--108484 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
108434 CTTAGAAATA
108444 TTTATGATA-TTTTATGCAT
1 TTTATGATATTTTTAT-CAT
*
108463 TTTATGCTATTTTTATCAT
1 TTTATGATATTTTTATCAT
108482 TTT
1 TTT
108485 TCATGACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTATGATATTTTTATCAT
Found at i:108630 original size:58 final size:56
Alignment explanation
Indices: 108525--108804 Score: 188
Period size: 58 Copynumber: 4.8 Consensus size: 56
108515 TTTTGTTGAT
* * * * * * * *
108525 GTCATTTAAGTCATTTTTTATTATTTAAAGATTTTTATGTAAATTCATATATGTTGGG
1 GTCA-TTAAGTCATTTTTCATGATCTAGA-ATTTTTATGCAATTTCATGTATGTTGGA
* * *
108583 GTCACTTAAGTCATTTTTCATGATCTAGGAATTTTTATACAATTTCATGTATGATAGA
1 GTCA-TTAAGTCATTTTTCATGATCTA-GAATTTTTATGCAATTTCATGTATGTTGGA
* * *
108641 GCCATTTAAG-CAATTGTTCATGATCTAAGAACTTTTT-TGCAATTTTATGTATGTTGGA
1 GTCA-TTAAGTC-ATTTTTCATGATCT-AGAA-TTTTTATGCAATTTCATGTATGTTGGA
* * * * *
108699 GTCATTTAGATCATTTTTCATAATTTAGATACTTTTATGCAATTTTATGTATGTT-GA
1 GTCATTAAG-TCATTTTTCATGATCTAGA-ATTTTTATGCAATTTCATGTATGTTGGA
* * * * * * *
108756 GGTTATTTAGATTATTTTCCATGATCTACGGACTTTCATGCAATTTCAT
1 -GTCATTAAG-TCATTTTTCATGATCTA-GAATTTTTATGCAATTTCAT
108805 ACATCTTAGA
Statistics
Matches: 179, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
57 14 0.08
58 156 0.87
59 9 0.05
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (56 bp):
GTCATTAAGTCATTTTTCATGATCTAGAATTTTTATGCAATTTCATGTATGTTGGA
Found at i:115114 original size:154 final size:154
Alignment explanation
Indices: 114802--116362 Score: 871
Period size: 154 Copynumber: 10.3 Consensus size: 154
114792 TTAACCTTTA
* * * * * * ** **
114802 ACGTGAAAGTATCTCAATAGCCTTAAAGGATATGAAAATGAACTTAAAAGGACCAACCTATCCT-
1 ACGTAAAAGTATCTCGATAACCTTAAAGGACACGAAAATGAACCTAGGAGGATGAACCTATCCTA
*** ** * * * * * *
114866 AATGTACACTTTTGGCATAAAAGCGACCTGGTGACTACCTAAGATTTGATTTTAGAGAAATTATG
66 AACACACACCATTGGCATAAAAGTGACCTAGTGACGACCTAAGACTTGGTTTTAAAGAAATTATG
* *
114931 AAAA--CATCCTTAGGTGTACCTT-T
131 AAAATGC-T-CTTAGGTATACCTTCG
* * ** * *
114954 AGCGTGAAAGTATCCCGATAATATTAAAGGACATGAAAATGAGCCTAGGAGGATGAACCTATCCT
1 A-CGTAAAAGTATCTCGATAACCTTAAAGGACACGAAAATGAACCTAGGAGGATGAACCTATCCT
* * *
115019 AAACAAACACCATTGGCATAAAAGTGACCTAGTGATGACTTAAGACTTGGTTTTAAAGAAATTAT
65 AAACACACACCATTGGCATAAAAGTGACCTAGTGACGACCTAAGACTTGGTTTTAAAGAAATTAT
*
115084 GAAAATG-TCTCTAGGTATATCTTCG
130 GAAAATGCTCT-TAGGTATACCTTCG
* * *
115109 ACGTGAAAGTATCTCGAGAACTTTAAAGG--AC----ATG-A---A--A--ATGAACCTATCCTA
1 ACGTAAAAGTATCTCGATAACCTTAAAGGACACGAAAATGAACCTAGGAGGATGAACCTATCCTA
* * * * *
115160 AACACATACTATTGGCATAAAAGTGACCTGGTGACGACCTACGACTTAGTTTTGAAA-AAATTAT
66 AACACACACCATTGGCATAAAAGTGACCTAGTGACGACCTAAGACTTGGTTTT-AAAGAAATTAT
*
115224 GAAAATGCTCTTAGGGTATACTTTCG
130 GAAAATGCTCTTA-GGTATACCTTCG
* * * *
115250 ACATAAAAGTATCTC-AGTAACCTTAAAGGACACGGAAATAAACC-AGAAGGATGAACCTATCCT
1 ACGTAAAAGTATCTCGA-TAACCTTAAAGGACACGAAAATGAACCTAGGAGGATGAACCTATCCT
* * * ** * * *
115313 AAACACATACCATTGGCATAAAAATGACTTAGTGACGATTTAGGACTCGATTTTAAAGAAATTAT
65 AAACACACACCATTGGCATAAAAGTGACCTAGTGACGACCTAAGACTTGGTTTTAAAGAAATTAT
*
115378 GAAAATGC-CTTTAGGGTATACCTTCT
130 GAAAATGCTC-TTA-GGTATACCTTCG
* * * * *
115404 ACGTAAAAATATC-CTAGTAACCCTCAAA-GACATGAAAATGAACCTAAGAGGATGAACCTATCC
1 ACGTAAAAGTATCTCGA-TAA-CCTTAAAGGACACGAAAATGAACCTAGGAGGATGAACCTATCC
* ** * * * * * ** *
115467 TAAACACACA-AATTGGCATAAAAAAGACTTGGTGACAATCTAGGACTTGGTTCAAAAAAAATTA
64 TAAACACACACCATTGGCATAAAAGTGACCTAGTGACGACCTAAGACTTGGTTTTAAAGAAATTA
** *
115531 CCAAAATAC-CTTTAAGGTATACCTTCG
129 TGAAAATGCTC-TT-AGGTATACCTTCG
* * * *
115558 ACGTAAAAGTATCTCGGTAACCCT-AA--A-A-G-ACATG-A---A--A--ATAAACCTATCCTA
1 ACGTAAAAGTATCTCGATAACCTTAAAGGACACGAAAATGAACCTAGGAGGATGAACCTATCCTA
* * * * * * *
115609 AACACACACCATTGGCATAAAAGTGA-TTTGATGATGACCTAGGAGTTAGTTCTAAAGAAATTAT
66 AACACACACCATTGGCATAAAAGTGACCTAG-TGACGACCTAAGACTTGGTTTTAAAGAAATTAT
* * *
115673 GAAAATGCCCTTAAGGTATACTTTTG
130 GAAAATGCTCTT-AGGTATACCTTCG
* * * * * * * *
115699 ACATGAAAGTATTTCGGTAA-CTCTAAAAGATAC-AAAATGAACCTAGGAGGATAAACCTATTCT
1 ACGTAAAAGTATCTCGATAACCT-TAAAGGACACGAAAATGAACCTAGGAGGATGAACCTATCCT
* * * * * * *
115762 AAACACACACCATTAGCATAAAAG-CAACTCAGTGATGACCTAAGACTCGATTCTAAAGAAATTA
65 AAACACACACCATTGGCATAAAAGTGACCT-AGTGACGACCTAAGACTTGGTTTTAAAGAAATTA
* * **
115826 TTAAAATGCCCTTGAGGTATATATTCG
129 TGAAAATGCTCTT-AGGTATACCTTCG
* ** * * *
115853 ACGTAAAAGTATCTTGGCAACCTTAATA-GACACAAAAATGAA--AAGTGAAAAGATGAACCTAT
1 ACGTAAAAGTATCTCGATAACCTTAA-AGGACACGAAAATGAACCTAG-G--AGGATGAACCTAT
** * * * * *
115915 CCTAAATGCACACCTTTGGCATAAAAGTGA-CTCGATGACGAACCTAGGACTCGATTTTAAA-AA
62 CCTAAACACACACCATTGGCATAAAAGTGACCTAG-TGACG-ACCTAAGACTTGGTTTTAAAGAA
* * * * * * *
115978 ATTA-CAAAACTACCCCCTAAGTTATACTTTTG
125 ATTATGAAAA-T--GCTCTTAGGTATACCTTCG
* * * *
116010 ATGTGAAAGTATCAT-GGTAATCC-TAAAGGACACGAAAATGAACCTAGGAGGATGAA-TTGATC
1 ACGTAAAAGTATC-TCGATAA-CCTTAAAGGACACGAAAATGAACCTAGGAGGATGAACCT-ATC
* * *
116072 CTAAACACACACCGTTGGCATAAAAGTGACCTAGTGACGACCTAAGACTTGGTTTTGAGGAAATT
63 CTAAACACACACCATTGGCATAAAAGTGACCTAGTGACGACCTAAGACTTGGTTTTAAAGAAATT
* *
116137 ATCAAAATGCTTTTAAGGTATACCTTCG
128 ATGAAAATGCTCTT-AGGTATACCTTCG
* * * * * * * * * ** **
116165 ATGAAAAAATATCCCAACAA-CTCAAAAAGACATGAAAATGAAAAGTAAAAGGATGAACCTATCC
1 ACGTAAAAGTATCTCGATAACCT-TAAAGGACACGAAAATG-AACCTAGGAGGATGAACCTATCC
* * * ** * * **
116229 TAAA-AGCATACCTTTGGCATAAAAGTGTCCCGGTGAAGACCTAAGACTCT-ATTTTAGGGAAAT
64 TAAACA-CACACCATTGGCATAAAAGTGACCTAGTGACGACCTAAGACT-TGGTTTTAAAGAAAT
** * * * *
116292 TACCAAAATAC-CTTTAAAGTACACCTTCA
127 TATGAAAATGCTC-TT-AGGTATACCTTCG
* * * *
116321 ACGTGAAAGTATCTCAATAACTTTAAAAGACACGAAAATGAA
1 ACGTAAAAGTATCTCGATAACCTTAAAGGACACGAAAATGAA
116363 AAGTAAAAGG
Statistics
Matches: 1113, Mismatches: 215, Indels: 159
0.75 0.14 0.11
Matches are distributed among these distances:
140 101 0.09
141 116 0.10
142 5 0.00
143 2 0.00
144 3 0.00
145 1 0.00
146 4 0.00
147 4 0.00
148 8 0.01
149 1 0.00
150 3 0.00
151 1 0.00
152 6 0.01
153 64 0.06
154 396 0.36
155 106 0.10
156 212 0.19
157 70 0.06
158 8 0.01
159 2 0.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (154 bp):
ACGTAAAAGTATCTCGATAACCTTAAAGGACACGAAAATGAACCTAGGAGGATGAACCTATCCTA
AACACACACCATTGGCATAAAAGTGACCTAGTGACGACCTAAGACTTGGTTTTAAAGAAATTATG
AAAATGCTCTTAGGTATACCTTCG
Found at i:115604 original size:449 final size:449
Alignment explanation
Indices: 114983--115835 Score: 1079
Period size: 449 Copynumber: 1.9 Consensus size: 449
114973 AATATTAAAG
* * * **
114983 GACATGAAAATGAGCCTAGGAGGATGAACCTATCCTAAACAAACACCATTGGCATAAAAGTGACC
1 GACATGAAAATGAACCTAAGAGGATGAACCTATCCTAAACAAACACAATTGGCATAAAAAAGACC
** ** * ** ** *
115048 TAGTGATGACTTAAGACTTGGTTTTAAAGAAATTATGAAAATGTCTCTAGGTATATCTTCGACGT
66 TAGTGACAACTTAAGACTTGGTTCAAAAAAAATTACCAAAATACCTCTAGGTATACCTTCGACGT
* ** * * * *
115113 GAAAGTATCTCGAGAACTTTAAAGGACATGAAAATGAACCTATCCTAAACACATACTATTGGCAT
131 AAAAGTATCTCGAGAACCCTAAAAGACATGAAAATAAACCTATCCTAAACACACACCATTGGCAT
* * * *
115178 AAAAGTGACCTGGTGACGACCTACGACTTAGTTTTGAAA-AAATTATGAAAATGCTCTTAGGGTA
196 AAAAGTGACCTGATGACGACCTACGACTTAGTTCT-AAAGAAATTATGAAAATGCCCTTAAGGTA
* * *
115242 TACTTTCGACATAAAAGTATCTCAGTAAC-CTTAAAGGACACGGAAATAAACC-AGAAGGATGAA
260 TACTTTCGACATAAAAGTATCTCAGTAACTC-TAAAAGACAC-AAAATAAACCTAGAAGGATAAA
* * ** * ** * *
115305 CCTATCCTAAACACATACCATTGGCATAAAAATGACTTAGTGACGATTTAGGACTCGATTTTAAA
323 CCTATCCTAAACACACACCATTAGCATAAAAACAACTCAGTGACGACCTAAGACTCGATTCTAAA
115370 GAAATTATGAAAATGCCTTTAGGGTATACCTTCTACGTAAAAATATCCTAGTAACCCTCAAA
388 GAAATTATGAAAATGCCTTTAGGGTATACCTTCTACGTAAAAATATCCTAGTAACCCTCAAA
* *
115432 GACATGAAAATGAACCTAAGAGGATGAACCTATCCTAAACACACA-AATTGGCATAAAAAAGACT
1 GACATGAAAATGAACCTAAGAGGATGAACCTATCCTAAACAAACACAATTGGCATAAAAAAGACC
* * *
115496 TGGTGACAA-TCTAGGACTTGGTTCAAAAAAAATTACCAAAATACCTTTAAGGTATACCTTCGAC
66 TAGTGACAACT-TAAGACTTGGTTCAAAAAAAATTACCAAAATACCTCT-AGGTATACCTTCGAC
115560 GTAAAAGTATCTCG-GTAACCCTAAAAGACATGAAAATAAACCTATCCTAAACACACACCATTGG
129 GTAAAAGTATCTCGAG-AACCCTAAAAGACATGAAAATAAACCTATCCTAAACACACACCATTGG
** * * *
115624 CATAAAAGTGATTTGATGATGACCTAGGAGTTAGTTCTAAAGAAATTATGAAAATGCCCTTAAGG
193 CATAAAAGTGACCTGATGACGACCTACGACTTAGTTCTAAAGAAATTATGAAAATGCCCTTAAGG
* * * * * * *
115689 TATACTTTTGACATGAAAGTATTTCGGTAACTCTAAAAGATACAAAATGAACCTAGGAGGATAAA
258 TATACTTTCGACATAAAAGTATCTCAGTAACTCTAAAAGACACAAAATAAACCTAGAAGGATAAA
* * *
115754 CCTATTCTAAACACACACCATTAGCATAAAAGCAACTCAGTGATGACCTAAGACTCGATTCTAAA
323 CCTATCCTAAACACACACCATTAGCATAAAAACAACTCAGTGACGACCTAAGACTCGATTCTAAA
*
115819 GAAATTATTAAAATGCC
388 GAAATTATGAAAATGCC
115836 CTTGAGGTAT
Statistics
Matches: 339, Mismatches: 59, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
447 1 0.00
448 61 0.18
449 276 0.81
450 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (449 bp):
GACATGAAAATGAACCTAAGAGGATGAACCTATCCTAAACAAACACAATTGGCATAAAAAAGACC
TAGTGACAACTTAAGACTTGGTTCAAAAAAAATTACCAAAATACCTCTAGGTATACCTTCGACGT
AAAAGTATCTCGAGAACCCTAAAAGACATGAAAATAAACCTATCCTAAACACACACCATTGGCAT
AAAAGTGACCTGATGACGACCTACGACTTAGTTCTAAAGAAATTATGAAAATGCCCTTAAGGTAT
ACTTTCGACATAAAAGTATCTCAGTAACTCTAAAAGACACAAAATAAACCTAGAAGGATAAACCT
ATCCTAAACACACACCATTAGCATAAAAACAACTCAGTGACGACCTAAGACTCGATTCTAAAGAA
ATTATGAAAATGCCTTTAGGGTATACCTTCTACGTAAAAATATCCTAGTAACCCTCAAA
Found at i:115651 original size:141 final size:140
Alignment explanation
Indices: 115458--115728 Score: 335
Period size: 141 Copynumber: 1.9 Consensus size: 140
115448 TAAGAGGATG
* * *
115458 AACCTATCCTAAACACACAAATTGGCATAAAAAAGACTTGGTGACAATCTAGGACTTGGTTCAAA
1 AACCTATCCTAAACACACAAATTGGCATAAAAAAGACTTGATGACAACCTAGGACTTAGTTCAAA
* *
115523 AAAAATTACCAAAATACCTTTAAGGTATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAAGA
66 AAAAATTACCAAAATACCCTTAAGGTATACCTTCGACATAAAAGTATCTCGGTAACCCTAAAAGA
115588 CATGAAAATA
131 CATGAAAATA
* ** * ** * *
115598 AACCTATCCTAAACACACACCATTGGCATAAAAGTGATTTGATGATGACCTAGGAGTTAGTTCTA
1 AACCTATCCTAAACACACA-AATTGGCATAAAAAAGACTTGATGACAACCTAGGACTTAGTTCAA
* ** * * * * * *
115663 AAGAAATTATGAAAATGCCCTTAAGGTATACTTTTGACATGAAAGTATTTCGGTAACTCTAAAAG
65 AAAAAATTACCAAAATACCCTTAAGGTATACCTTCGACATAAAAGTATCTCGGTAACCCTAAAAG
115728 A
130 A
115729 TACAAAATGA
Statistics
Matches: 108, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
140 19 0.18
141 89 0.82
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (140 bp):
AACCTATCCTAAACACACAAATTGGCATAAAAAAGACTTGATGACAACCTAGGACTTAGTTCAAA
AAAAATTACCAAAATACCCTTAAGGTATACCTTCGACATAAAAGTATCTCGGTAACCCTAAAAGA
CATGAAAATA
Found at i:115846 original size:295 final size:295
Alignment explanation
Indices: 115303--115884 Score: 636
Period size: 295 Copynumber: 2.0 Consensus size: 295
115293 CAGAAGGATG
* ** * *
115303 AACCTATCCTAAACACATACCATTGGCATAAAAATGACTTAGTGACGATTTAGGACTCGATTTTA
1 AACCTATCCTAAACACACACCATTGGCATAAAAATGACTTAGTGACGACCTAGGACTAGATTCTA
* * * *
115368 AAGAAATTATGAAAATGCCTTTAGGGTATACCTTCTACGTAAAAATATCCTAGTAACCCTCAAAG
66 AAGAAATTATGAAAATGCCCTTAAGGTATACCTTCTACATAAAAATATCCTAGTAACCCTAAAAG
* * * **
115433 ACATGAAAATGAACCTAAGAGGATGAACCTATCCTAAACACACAAATTGGCATAAAAAAGACTTG
131 ACATCAAAATGAACCTAAGAGGATAAACCTATCCTAAACACACAAATTAGCATAAAAAAGACTCA
* * * * * *
115498 GTGACAATCTAGGACTTGGTTCAAAAAAAATTACCAAAATACCTTTAAGGTATACCTTCGACGTA
196 GTGACAACCTAAGACTCGATTCAAAAAAAATTACCAAAATACCCTTAAGGTATACATTCGACGTA
*
115563 AAAGTATCTCGGTAACCCTAAAAGACATGAAAATA
261 AAAGTATCTCGGCAACCCTAAAAGACATGAAAATA
* * * *
115598 AACCTATCCTAAACACACACCATTGGCATAAAAGTGA-TTTGATGATGACCTAGGAGTTAG-TTC
1 AACCTATCCTAAACACACACCATTGGCATAAAAATGACTTAG-TGACGACCTAGGA-CTAGATTC
* * * * * *
115661 TAAAGAAATTATGAAAATGCCCTTAAGGTATA-CTTTTGACATGAAAGTAT-TTCGGTAACTCTA
64 TAAAGAAATTATGAAAATGCCCTTAAGGTATACCTTCT-ACATAAAAATATCCT-AGTAACCCTA
* * * * *
115724 AAAGATA-CAAAATGAACCTAGGAGGATAAACCTATTCTAAACACACACCATTAGCATAAAAGCA
127 AAAGACATCAAAATGAACCTAAGAGGATAAACCTATCCTAAACACACA-AATTAGCATAAAA-AA
** * * ** * * *
115788 -ACTCAGTGATGACCTAAGACTCGATTCTAAAGAAATTATTAAAATGCCCTTGAGGTATATATTC
190 GACTCAGTGACAACCTAAGACTCGATTCAAAAAAAATTACCAAAATACCCTTAAGGTATACATTC
* * *
115852 GACGTAAAAGTATCTTGGCAACCTTAATAGACA
255 GACGTAAAAGTATCTCGGCAACCCTAAAAGACA
115885 CAAAAATGAA
Statistics
Matches: 233, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
294 44 0.19
295 186 0.80
296 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (295 bp):
AACCTATCCTAAACACACACCATTGGCATAAAAATGACTTAGTGACGACCTAGGACTAGATTCTA
AAGAAATTATGAAAATGCCCTTAAGGTATACCTTCTACATAAAAATATCCTAGTAACCCTAAAAG
ACATCAAAATGAACCTAAGAGGATAAACCTATCCTAAACACACAAATTAGCATAAAAAAGACTCA
GTGACAACCTAAGACTCGATTCAAAAAAAATTACCAAAATACCCTTAAGGTATACATTCGACGTA
AAAGTATCTCGGCAACCCTAAAAGACATGAAAATA
Found at i:115980 original size:156 final size:153
Alignment explanation
Indices: 115595--116493 Score: 416
Period size: 156 Copynumber: 5.8 Consensus size: 153
115585 AGACATGAAA
* * * *
115595 ATAAACCTATCCTAAACACACACCATTGGCATAAAAGTGATTTGATGATGACCTAGGAGT-TAGT
1 ATAAACCTATCCTAAACACACACCATTGGCATAAAAGTGACTCGATGATGACCTAGGACTCGA-T
* * *
115659 TCTAAAGAAATTATGAAAATGCCCTTAAGGTATACTTTTGACATGAAAGTATTTCGGTAACTCTA
65 TCTAAAGAAATTATGAAAATGCCCTTAAGGTATACTTTCGACATAAAAGTATTTCGGCAACTCTA
* * *
115724 AAAGATACAAAATGAACCTAGGAGG
130 AAAGACACAAAATGAA-CAAGGAAG
* * ** *
115749 ATAAACCTATTCTAAACACACACCATTAGCATAAAAGCAACTC-AGTGATGACCTAAGACTCGAT
1 ATAAACCTATCCTAAACACACACCATTGGCATAAAAGTGACTCGA-TGATGACCTAGGACTCGAT
* * *
115813 TCTAAAGAAATTATTAAAATGCCCTTGAGGTATA-TATTCGACGTAAAAGTATCTT-GGCAAC-C
65 TCTAAAGAAATTATGAAAATGCCCTTAAGGTATACT-TTCGACATAAAAGTAT-TTCGGCAACTC
*
115875 TTAATAGACACAAAAATGAA-AAGTGAAAAG
128 -TAAAAGACAC-AAAATGAACAAG-G--AAG
* ** * *
115905 ATGAACCTATCCTAAATGCACACCTTTGGCATAAAAGTGACTCGATGACGAACCTAGGACTCGAT
1 ATAAACCTATCCTAAACACACACCATTGGCATAAAAGTGACTCGATGATG-ACCTAGGACTCGAT
* * * * * * ** * * *
115970 TTTAAA-AAATTA-CAAAACTACCCCCTAAGTTATACTTTTGATGTGAAAGTATCAT-GGTAA-T
65 TCTAAAGAAATTATGAAAA-T-GCCCTTAAGGTATACTTTCGACATAAAAGTAT-TTCGGCAACT
* * *
116031 CCTAAAGGACACGAAAATGAACCTAGGAGG
127 -CTAAAAGACAC-AAAATGAA-CAAGGAAG
* * * * * * * *
116061 ATGAA-TTGATCCTAAACACACACCGTTGGCATAAAAGTGAC-CTAGTGACGACCTAAGACTTGG
1 ATAAACCT-ATCCTAAACACACACCATTGGCATAAAAGTGACTCGA-TGATGACCTAGGACTCGA
* * * * ** * * * ** **
116124 TTTTGAGGAAATTATCAAAATGCTTTTAAGGTATACCTTCGATGA-AAAAATATCCCAACAACTC
64 TTCTAAAGAAATTATGAAAATGCCCTTAAGGTATACTTTCGA-CATAAAAGTATTTCGGCAACTC
* * *
116188 AAAAAGACATGAAAATGAA-AAGTAAAAGG
128 TAAAAGACA-CAAAATGAACAAG--GAA-G
* * * * * * * * *
116217 ATGAACCTATCCTAAA-AGCATACCTTTGGCATAAAAGTGTCCCGGTGAAGACCTAAGACTCTAT
1 ATAAACCTATCCTAAACA-CACACCATTGGCATAAAAGTGACTCGATGATGACCTAGGACTCGAT
* ** ** * * * * * * * * * *** *
116281 TTTAGGGAAATTACCAAAATACCTTTAAAGTACACCTTCAACGTGAAAGTATCTCAATAACTTTA
65 TCTAAAGAAATTATGAAAATGCCCTTAAGGTATACTTTCGACATAAAAGTATTTCGGCAACTCTA
*
116346 AAAGACACGAAAATGAA-AAGTAAAAGG
130 AAAGACAC-AAAATGAACAAG--GAA-G
* * * ** * * * ** *
116373 ACAAACATAACCTAAATGCACACCTTTGGCATAAAAGTAACTCGGT-AACACCCTAAGACTCGAT
1 ATAAACCTATCCTAAACACACACCATTGGCATAAAAGTGACTCGATGATGA-CCTAGGACTCGAT
* * * *
116437 TCTAAAAAAATTACTG-AAATG-CCTCTATGGTATACCTTT-AACATGAAAGTATTTCGG
65 TCTAAAGAAATTA-TGAAAATGCCCT-TAAGGTATA-CTTTCGACATAAAAGTATTTCGG
116494 TAAACCTAAG
Statistics
Matches: 575, Mismatches: 131, Indels: 76
0.74 0.17 0.10
Matches are distributed among these distances:
153 7 0.01
154 110 0.19
155 78 0.14
156 301 0.52
157 74 0.13
158 3 0.01
159 2 0.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (153 bp):
ATAAACCTATCCTAAACACACACCATTGGCATAAAAGTGACTCGATGATGACCTAGGACTCGATT
CTAAAGAAATTATGAAAATGCCCTTAAGGTATACTTTCGACATAAAAGTATTTCGGCAACTCTAA
AAGACACAAAATGAACAAGGAAG
Found at i:116205 original size:312 final size:310
Alignment explanation
Indices: 115598--116255 Score: 706
Period size: 312 Copynumber: 2.1 Consensus size: 310
115588 CATGAAAATA
* * * * * *
115598 AACCTATCCTAAACA-CACACCATTGGCATAAAAGTGATTTGATGATGACCTAGGAGTTAGTTCT
1 AACCTATCCTAAA-AGCACACCTTTGGCATAAAAGTGACTCGATGACGACCTAGGACTGAGTTCT
* * * *
115662 AAAGAAATTATGAAAATGCCCTTAAGGTATACTTTTGACATGAAAGTATTTCGGTAACTCTAAAA
65 AAAGAAATTATCAAAATCCCCCTAAGGTATACTTTTGACATGAAAGTATATCGGTAACTCTAAAA
* *
115727 GATACAAAATGAACCTAGGAGGATAAACCTATTCTAAACACACACCATTAGCATAAAAGCAACTC
130 GACACAAAATGAACCTAGGAGGATAAACCTATCCTAAACACACACCATTAGCATAAAAGCAACTC
* * * * *
115792 AGTGATGACCTAAGACTCGATTCTAAAGAAATTATTAAAATGCCCTTGAGGTATATATTCGACGT
195 AGTGACGACCTAAGACTCGATTCTAAAGAAATTATCAAAATGCCCTTAAGGTATACATTCGACGA
* **** * *
115857 AAAAGTATCTTGGCAACCTTAATAGACACAAAAATGAAAAGTGAAAA-GATG
260 AAAAATATCCCAACAACCTAAAAAGACACAAAAATGAAAAGT-AAAAGGATG
* *
115908 AACCTATCCTAAATGCACACCTTTGGCATAAAAGTGACTCGATGACGAACCTAGGACTCGA-TTT
1 AACCTATCCTAAAAGCACACCTTTGGCATAAAAGTGACTCGATGACG-ACCTAGGACT-GAGTTC
* **
115972 TAAA-AAATTA-CAAAACTACCCCCTAAGTTATACTTTTGATGTGAAAGTATCAT-GGTAA-TCC
64 TAAAGAAATTATCAAAA-T-CCCCCTAAGGTATACTTTTGACATGAAAGTAT-ATCGGTAACT-C
* * * * *
116033 TAAAGGACACGAAAATGAACCTAGGAGGATGAA-TTGATCCTAAACACACACCGTTGGCATAAAA
125 TAAAAGACAC-AAAATGAACCTAGGAGGATAAACCT-ATCCTAAACACACACCATTAGCATAAAA
** * * * * * ** *
116097 GTGAC-CTAGTGACGACCTAAGACTTGGTTTTGAGGAAATTATCAAAATGCTTTTAAGGTATACC
188 GCAACTC-AGTGACGACCTAAGACTCGATTCTAAAGAAATTATCAAAATGCCCTTAAGGTATACA
* **
116161 TTCGATGAAAAAATATCCCAACAA-CTCAAAAAGACATGAAAATGAAAAGTAAAAGGATG
252 TTCGACGAAAAAATATCCCAACAACCT-AAAAAGACACAAAAATGAAAAGTAAAAGGATG
*
116220 AACCTATCCTAAAAGCATACCTTTGGCATAAAAGTG
1 AACCTATCCTAAAAGCACACCTTTGGCATAAAAGTG
116256 TCCCGGTGAA
Statistics
Matches: 287, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
309 4 0.01
310 49 0.17
311 64 0.22
312 170 0.59
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.25
Consensus pattern (310 bp):
AACCTATCCTAAAAGCACACCTTTGGCATAAAAGTGACTCGATGACGACCTAGGACTGAGTTCTA
AAGAAATTATCAAAATCCCCCTAAGGTATACTTTTGACATGAAAGTATATCGGTAACTCTAAAAG
ACACAAAATGAACCTAGGAGGATAAACCTATCCTAAACACACACCATTAGCATAAAAGCAACTCA
GTGACGACCTAAGACTCGATTCTAAAGAAATTATCAAAATGCCCTTAAGGTATACATTCGACGAA
AAAATATCCCAACAACCTAAAAAGACACAAAAATGAAAAGTAAAAGGATG
Found at i:117111 original size:2 final size:2
Alignment explanation
Indices: 117099--117140 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
117089 CATAAATCCC
* *
117099 TA TA T- TA TA TA TA TA TA TA TA TA TA TA AA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
117140 T
1 T
117141 TGGTCCCTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118186 original size:5 final size:6
Alignment explanation
Indices: 118133--118190 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
118123 TAGTTACAAA
* * *
118133 TAAAA- TAAAAT AAAATAT TCAAAAT TAAAAG AAAAAT TAAAAT TAAAAT
1 TAAAAT TAAAAT TAAA-AT T-AAAAT TAAAAT TAAAAT TAAAAT TAAAAT
*
118182 TAAATT TAA
1 TAAAAT TAA
118191 TACTCATAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
5 5 0.12
6 30 0.70
7 5 0.12
8 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (6 bp):
TAAAAT
Found at i:118690 original size:24 final size:23
Alignment explanation
Indices: 118657--118715 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
118647 TATATTATTC
*
118657 AAAATGTTAATTATTAAAAATGAAA
1 AAAAT-TTAATT-TTAAAAATCAAA
*
118682 AAAATTTAAATTTTAAAATTCAAA
1 AAAATTT-AATTTTAAAAATCAAA
118706 ATAAATTTAA
1 A-AAATTTAA
118716 CCAAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (23 bp):
AAAATTTAATTTTAAAAATCAAA
Found at i:118711 original size:25 final size:25
Alignment explanation
Indices: 118657--118715 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
118647 TATATTATTC
*
118657 AAAATGTT-AATTATTAAAAATGAAA
1 AAAAT-TTAAATTATTAAAAATCAAA
*
118682 AAAATTTAAATT-TTAAAATTCAAA
1 AAAATTTAAATTATTAAAAATCAAA
118706 ATAAATTTAA
1 A-AAATTTAA
118716 CCAAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (25 bp):
AAAATTTAAATTATTAAAAATCAAA
Found at i:122227 original size:78 final size:79
Alignment explanation
Indices: 122132--122354 Score: 220
Period size: 79 Copynumber: 2.8 Consensus size: 79
122122 CTGGAGTATC
* ** *
122132 CCCTGATTATGGAAAATCGGTGTTCTAGAAATAAAATC-GGGTTGGAATATCCCCTCGAAAATAA
1 CCCTGATTATGGAAAATCAGCATTCTAAAAATAAAATCGGGGTTGGAATATCCCCTCGAAAATAA
122196 CAAGGTTAGAGCAT
66 CAAGGTTAGAGCAT
* * *
122210 CCCTGATTATAGG-AAATCAGCATTTTAAAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATA
1 CCCTGATTAT-GGAAAATCAGCATTCTAAAAATAAAATCGGGGTTGGAATATCCCCTCGAAAATA
** *
122274 ACTGGGTTAGAGTAT
65 ACAAGGTTAGAGCAT
* * ** * ** * *
122289 CCCTGATTGT-GAGAAATTAATACTT-TAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAAT
1 CCCTGATTATGGA-AAATCAGCA-TTCTAAAAATAAAATCGGGGTTGGAATATCCCCTCGAAAAT
122352 AAC
64 AAC
122355 GGGATTAGAG
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
77 1 0.01
78 30 0.25
79 88 0.73
80 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (79 bp):
CCCTGATTATGGAAAATCAGCATTCTAAAAATAAAATCGGGGTTGGAATATCCCCTCGAAAATAA
CAAGGTTAGAGCAT
Found at i:122363 original size:79 final size:79
Alignment explanation
Indices: 122157--122421 Score: 277
Period size: 79 Copynumber: 3.4 Consensus size: 79
122147 ATCGGTGTTC
* * * *
122157 TAGAAATAAAATC-GGGTTGGAATATCCCCTCGAAAATAACAAGGTTAGAGCATCCCTGATTAT-
1 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCTGATTATG
* **
122220 AGGAAATCAGCATTT
66 A-GAAATTAATATTT
* * * * *
122235 TAAAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAATAACTGGGTTAGAGTATCCCTGATTGTG
1 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCTGATTATG
*
122300 AGAAATTAATACTT
66 AGAAATTAATATTT
* * **
122314 TAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAAC-GGGATTAGAGTATTTC-GATTAT
1 TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGG-TTAGAGTATCCCTGATTAT
* * *
122377 GAAAAATTGATGTTT
65 GAGAAATTAATATTT
* * *
122392 TGGAAATAAAACCAGGGTTAGAGTATCCCC
1 TAGAAATAAAACCGGGGTTGGAGTATCCCC
122422 GAGATGAAAA
Statistics
Matches: 157, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
78 57 0.36
79 99 0.63
80 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (79 bp):
TAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCTGATTATG
AGAAATTAATATTT
Found at i:122429 original size:50 final size:50
Alignment explanation
Indices: 122375--122471 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
122365 TATTTCGATT
* * *
122375 ATGAAAAATTGATGTTTTGGAAATAAAACCAGGGTTAGAGTATCCCCGAG
1 ATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTAGAGTATCCCCGAG
* * *
122425 ATGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCC
1 ATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTAGAGTATCCCC
122472 TCGAAAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTAGAGTATCCCCGAG
Found at i:122523 original size:79 final size:79
Alignment explanation
Indices: 122425--122629 Score: 232
Period size: 79 Copynumber: 2.6 Consensus size: 79
122415 TATCCCCGAG
* * * *
122425 ATGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACAAGATTA
1 ATGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCACCAAAATAACAAGATTA
122490 GAGTACCCCCAATT
66 GAGTACCCCCAATT
* * * * * ** *
122504 GTGAAAAATCGAA-GCTTTAGAAATAAGGCCGAGGTTGGAATATCCCCACCAAAATAACGGGGTT
1 ATGAAAAATC-AATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCACCAAAATAACAAGATT
* * *
122568 GGAGTATCCCCGATT
65 AGAGTACCCCCAATT
* * *
122583 ATGAGAAATCAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCC
1 ATGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCC
122630 GAGATGAAAA
Statistics
Matches: 101, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
78 2 0.02
79 97 0.96
80 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (79 bp):
ATGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCACCAAAATAACAAGATTA
GAGTACCCCCAATT
Found at i:125683 original size:41 final size:41
Alignment explanation
Indices: 125621--125722 Score: 105
Period size: 41 Copynumber: 2.4 Consensus size: 41
125611 CTTGGGGACT
* *
125621 AAGGAAAAAAAGAAATAAAATGCATCATGCCCTTTAAAGACA
1 AAGG-AAAAAGGAAATAAAATGCACCATGCCCTTTAAAGACA
* ** * * * *
125663 AAGGAAAAAGGAAATTAAATGTGCCATGCTCTTTGAGGATA
1 AAGGAAAAAGGAAATAAAATGCACCATGCCCTTTAAAGACA
125704 AAGGAAAAAGGAGAATAAA
1 AAGGAAAAAGGA-AATAAA
125723 GTGTGTCTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
41 40 0.82
42 9 0.18
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.18
Consensus pattern (41 bp):
AAGGAAAAAGGAAATAAAATGCACCATGCCCTTTAAAGACA
Found at i:125870 original size:86 final size:87
Alignment explanation
Indices: 125670--125893 Score: 238
Period size: 88 Copynumber: 2.6 Consensus size: 87
125660 ACAAAGGAAA
* * * * * ** **
125670 AAGGAAATTAAATGTGCCATGCTCTTTGAGGATAAAGGAAAAAGGAGAATAAAGTGTGTCTTGCT
1 AAGGAAA-TAAATGTGTCATGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAGTGCATCCAGCT
*
125735 CTTTGAGAACTAGAAGGGAAAAG
65 CTTTGAGAACTAAAAGGGAAAAG
* * * *
125758 AAGGATATAAAGTGCGTCCTACTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAG-GCATCCAGCT
1 AAGGAAATAAA-TGTGTCATGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAGTGCATCCAGCT
*
125822 -TTTCGAGGAC-AAAAGGGAAAAG
65 CTTT-GAGAACTAAAAGGGAAAAG
*
125844 AAGGAAATGAAATGTGTCATGCTCTTTGAGGACAAAAGAAAAAAAGAAAA
1 AAGGAAAT-AAATGTGTCATGCTCTTTGAGGAC-AAAGGAAAAAAGAAAA
125894 GCGTCCTGCT
Statistics
Matches: 112, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
86 39 0.35
87 33 0.29
88 40 0.36
ACGTcount: A:0.45, C:0.11, G:0.25, T:0.20
Consensus pattern (87 bp):
AAGGAAATAAATGTGTCATGCTCTTTGAGGACAAAGGAAAAAAGAAAAAAAAGTGCATCCAGCTC
TTTGAGAACTAAAAGGGAAAAG
Found at i:126010 original size:61 final size:61
Alignment explanation
Indices: 125919--126345 Score: 415
Period size: 61 Copynumber: 7.1 Consensus size: 61
125909 GGGTAAAGAG
* * * * * *
125919 AAAAGGAAAAGGCATCCTGTTGTTTGAGGACTAAAAAGTGTCACCAATTTGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
125980 GAAAA-AAAAAGGCGTCTTGCTCTTTAAGGACTAAAAGGTGCCACCAACTCGAGTGGGCTTT
1 -AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
126041 GAAAAGAAAAAGGTGTTCGGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
126104 AAAAGGAAAAGGCGTCCTACCCCTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * **
126165 AAAA-AGAAAAGGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGTTTGTGTGGGCTTT
1 AAAAGA-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * **
126225 AAAAGGAAAATGCGTCCTACTCTTTGTGAACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
126286 ------AAAAGGCATCCTACTCTTTGAGGACTGGAAAA-TGCCACCAACTGGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
*
126341 GAAAG
1 AAAAG
126346 GCATACTGCA
Statistics
Matches: 302, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
55 44 0.15
56 4 0.01
60 49 0.16
61 129 0.43
62 51 0.17
63 25 0.08
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (61 bp):
AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:126110 original size:185 final size:182
Alignment explanation
Indices: 125919--126340 Score: 473
Period size: 185 Copynumber: 2.3 Consensus size: 182
125909 GGGTAAAGAG
***** * *
125919 AAAAGGAAAAGGCATCCTGTTGTTTGAGGACTAAAAAGTGTCACCAATTTGTGTGGGCTTTGAAA
1 AAAAGGAAAAGGCATCCTACCCCTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA
* *
125984 AA-AAAAGGCGTCTTGCTCTTTAAGGACTAAAAGGTGCCACCAACTCGAGTGGGCTTTGAAAAGA
65 AAGAAAAGGCATCCTGCTCTTTAAGGACT-AAAGGTGCCACCAACTCGAGTGGGCTTT-AAAAGA
* * * * *
126048 AAAAGGTGTTCGGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
128 AAAAGGCGTCCGACTCTTTGAGAACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT
*
126104 AAAAGGAAAAGGCGTCCTACCCCTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAAGGAAAAGGCATCCTACCCCTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* * ** * * *
126169 AGAAAAGGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAGTTTGTGTGGGCTTTAAAAGGAAA
66 AGAAAAGGCATCCTGCTCTTTAAGGACTAAAGGTGCCACCAACTCGAGTGGGCTTTAAAAGAAAA
* * * *
126234 ATGCGTCCTACTCTTTGTGAACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
131 AGGCGTCCGACTCTTTGAGAACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
126286 ------AAAAGGCATCCTACTCTTTGAGGACTGGAAAA-TGCCACCAACTGGTGTGGGCTTT
1 AAAAGGAAAAGGCATCCTACCCCTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
126341 GAAAGGCATA
Statistics
Matches: 204, Mismatches: 31, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
176 45 0.22
177 4 0.02
182 28 0.14
183 23 0.11
184 28 0.14
185 76 0.37
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (182 bp):
AAAAGGAAAAGGCATCCTACCCCTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
AGAAAAGGCATCCTGCTCTTTAAGGACTAAAGGTGCCACCAACTCGAGTGGGCTTTAAAAGAAAA
AGGCGTCCGACTCTTTGAGAACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:126243 original size:121 final size:122
Alignment explanation
Indices: 125919--126346 Score: 467
Period size: 121 Copynumber: 3.5 Consensus size: 122
125909 GGGTAAAGAG
* * * * * *
125919 AAAAGGAAAAGGCATCCTGTTGTTTGAGGACTAAAAAGTGTCACCAATTTGTGTGGGCTTTGAAA
1 AAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AAA
* * * * * * *
125984 A-AAAAAGGCGTCTTGCTCTTTAAGGACTAAAAGGTGCCACCAACTCGAGTGGGCTTT
65 AGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* ** * * *
126041 GAAAAGAAAAAGGTGTTCGGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAAAAG-AAAAGGCATCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
126106 AAGGAAAAGGCGTCCTACCCCTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
64 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* **
126165 AAAAAGAAAAGGCATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGTTTGTGTGGGCTTTAAAA
1 AAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * **
126229 GGAAAATGCGTCCTACTCTTTGTGAACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
66 GGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
126286 ------AAAAGGCATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAA
1 AAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
126345 GG
66 GG
126347 CATACTGCAC
Statistics
Matches: 259, Mismatches: 43, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
115 25 0.10
116 28 0.11
121 78 0.30
122 5 0.02
123 46 0.18
124 77 0.30
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (122 bp):
AAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
GGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:126550 original size:62 final size:61
Alignment explanation
Indices: 126375--126561 Score: 250
Period size: 61 Copynumber: 3.0 Consensus size: 61
126365 TTAAAAGGTG
*
126375 AAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGA-AAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
* * * * * *
126436 AGAGGAGAAGGCATCCTACTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGAGCTTTA
1 AAAGGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
** * *
126497 AAAGGAAAAGGTGTCCTGCTCTTTGTGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAAGGCATCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTA
126559 AAA
1 AAA
126562 AGCGTCCTGC
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
60 2 0.02
61 75 0.70
62 30 0.28
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (61 bp):
AAAGGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:126629 original size:217 final size:210
Alignment explanation
Indices: 126166--126691 Score: 664
Period size: 217 Copynumber: 2.5 Consensus size: 210
126156 GTGGGCTTTA
**
126166 AAAAGA-AAAGGCATCCTGCTCTTTGAGGACT--GAAGGTGCCACCAGTTTGTGTGGGCTTTAAA
1 AAAAGAGAAA-GCATCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAA
* * * * *
126228 AGGAAAATGCGTCCTACTCTTTGTGAACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
64 AGGAGAAGGCGTCCTACTCTTTGAGAACTGGAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGA
* * *
126293 ATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTGGTGTGGGCTTTGAAAGGCATACTGCACT
129 ATCCTACTCTTTGAGGACTAGAAAATGCCACCAACTGGTGTGGGCTTTAAAAAGCATACTGCACT
*
126358 TTGAGGATTAAAAGGTG
194 TTGAGGACTAAAAGGTG
* *
126375 AAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAG
1 AAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
126440 GAGAAGGCATCCTACTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAA
66 GAGAAGGCGTCCTACTCTTTGAGAACTGGAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGG--A
* * * * *
126505 AGGTGTCCTGCTCTTTGTGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCT
129 A----TCCTACTCTTTGAGGACTAGAAAA-TGCCACCAACTGGTGTGGGCTTTAAAAAGCATACT
** *
126570 GCTTTTTGAGGACTAAAGGGTG
189 GCACTTTGAGGACTAAAAGGTG
* * *
126592 AAAAGAGAGAGCATCCTACTCTCTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
126657 GAGAAGGCGTCCTGCTCTTTGA-AGACTGAAAAGTG
66 GAGAAGGCGTCCTACTCTTTGAGA-ACTGGAAAGTG
126692 AAAGGAGAAA
Statistics
Matches: 270, Mismatches: 36, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
209 26 0.10
210 83 0.31
211 3 0.01
212 1 0.00
216 21 0.08
217 136 0.50
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (210 bp):
AAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
GAGAAGGCGTCCTACTCTTTGAGAACTGGAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAT
CCTACTCTTTGAGGACTAGAAAATGCCACCAACTGGTGTGGGCTTTAAAAAGCATACTGCACTTT
GAGGACTAAAAGGTG
Found at i:127677 original size:1 final size:1
Alignment explanation
Indices: 127673--127772 Score: 101
Period size: 1 Copynumber: 100.0 Consensus size: 1
127663 CTTTTCTCTC
* * * * * * *
127673 TTTTTTTTCTTTTTTTTTTTTGTTTTTTTTTTGTTTTTGTTTTTTTGTTTTGTTTTTTTTTATTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
127738 TTTTGTTTTTTGTTTTTTGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
127773 AAAAAAGAAG
Statistics
Matches: 77, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.01, C:0.01, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:127699 original size:37 final size:33
Alignment explanation
Indices: 127671--127772 Score: 114
Period size: 34 Copynumber: 3.0 Consensus size: 33
127661 TTCTTTTCTC
*
127671 TCTTTTTTTTCTTTTTTTTTTTTGTTTTTTTTT
1 TCTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTT
* *
127704 TGTTTTTGTTTTTTTGTTTTGTTTTTTTTTATTTTTT
1 TCTTTTT-TTTTTTT-TTTT-TTTTTGTTT-TTTTTT
* * *
127741 TGTTTTTTGTTTTTTGTTTTTTTGTTTTTTTT
1 TCTTTTTTTTTTTTTTTTTTTTTGTTTTTTTT
127773 AAAAAAGAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
33 11 0.19
34 14 0.24
35 7 0.12
36 14 0.24
37 13 0.22
ACGTcount: A:0.01, C:0.02, G:0.09, T:0.88
Consensus pattern (33 bp):
TCTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTT
Found at i:127710 original size:30 final size:29
Alignment explanation
Indices: 127673--127772 Score: 137
Period size: 31 Copynumber: 3.3 Consensus size: 29
127663 CTTTTCTCTC
*
127673 TTTTTTTTCTTTTTTTTTTTTGTTTTTTT
1 TTTTTTTTGTTTTTTTTTTTTGTTTTTTT
*
127702 TTTGTTTTTGTTTTTTTGTTTTGTTTTTTTT
1 TTT-TTTTTGTTTTTTTTTTTTG-TTTTTTT
127733 TATTTTTTTGTTTTTTGTTTTTTGTTTTTTT
1 T-TTTTTTTGTTTTTT-TTTTTTGTTTTTTT
127764 GTTTTTTTT
1 -TTTTTTTT
127773 AAAAAAGAAG
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
29 3 0.05
30 17 0.27
31 34 0.54
32 9 0.14
ACGTcount: A:0.01, C:0.01, G:0.09, T:0.89
Consensus pattern (29 bp):
TTTTTTTTGTTTTTTTTTTTTGTTTTTTT
Found at i:136532 original size:28 final size:28
Alignment explanation
Indices: 136476--136552 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
136466 GAAATAAAGC
*** *
136476 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
136504 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
** *
136532 CAAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
136553 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:136605 original size:52 final size:52
Alignment explanation
Indices: 136536--136873 Score: 187
Period size: 52 Copynumber: 6.4 Consensus size: 52
136526 AAATAACAAG
*
136536 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
136588 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * * *
136641 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
136692 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
136747 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTATTTTTGGAAATAAAATCGGA
* * * * *
136802 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
136853 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
136874 GAGAATTGAT
Statistics
Matches: 216, Mismatches: 42, Indels: 56
0.69 0.13 0.18
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 2 0.01
51 37 0.17
52 79 0.37
53 20 0.09
54 17 0.08
55 43 0.20
56 2 0.01
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:136751 original size:27 final size:28
Alignment explanation
Indices: 136688--136763 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
136678 GCGATAAAAC
***
136688 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
136716 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
136743 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
136764 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:139251 original size:13 final size:13
Alignment explanation
Indices: 139233--139258 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139223 ACAAAGATCC
139233 ATGTATCGATACA
1 ATGTATCGATACA
139246 ATGTATCGATACA
1 ATGTATCGATACA
139259 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:139254 original size:33 final size:33
Alignment explanation
Indices: 139212--139278 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
139202 AAAATTTCCA
***
139212 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
139245 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
139278 A
1 A
139279 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:139322 original size:19 final size:18
Alignment explanation
Indices: 139298--139365 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
139288 CAGTAGCTAA
139298 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
139317 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
139332 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
139349 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
139366 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:139338 original size:13 final size:13
Alignment explanation
Indices: 139320--139344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
139310 ACAATACTTA
139320 TGTATCGATACAT
1 TGTATCGATACAT
139333 TGTATCGATACA
1 TGTATCGATACA
139345 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:139342 original size:32 final size:32
Alignment explanation
Indices: 139301--139363 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
139291 TAGCTAATTA
*
139301 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
139333 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
139364 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:139445 original size:21 final size:21
Alignment explanation
Indices: 139421--139477 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
139411 CATTTGTAGG
139421 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
139442 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
139463 ATGTATCGATACATT
1 ATGTATCGATACATT
139478 TGGATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:139502 original size:13 final size:13
Alignment explanation
Indices: 139484--139509 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139474 CATTTGGATT
139484 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
139497 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
139510 ACACTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:144505 original size:79 final size:78
Alignment explanation
Indices: 144371--144673 Score: 281
Period size: 79 Copynumber: 3.8 Consensus size: 78
144361 ATGACAACCG
* ** * **
144371 GGTTGGAGTATCCTTGATTATGAAAAATCGGTGTTCT-AGAAATAAAATCAAGGTTGGAGTATCC
1 GGTTGGAGTATCCTCGATTATGAAAAATCGACGTTTTGA-AAATAAAATCGGGGTTGGAGTATCC
*
144435 CCTCGGAAATAACAA
65 CCTTGGAAATAAC-A
* * * * *
144450 GGTTGGAGCATCCTTGATTAT-AGGAAATCGGCGTTTTGAAAATAAAATCGGGGTTGAAGTATCC
1 GGTTGGAGTATCCTCGATTATGA-AAAATCGACGTTTTGAAAATAAAATCGGGGTTGGAGTATCC
* *
144514 CCTTGAAAATAACGG
65 CCTTGGAAATAAC-A
* * * * **
144529 GGTTAGAGTATCCTCGATTATGAGAAATCAATAC-TTTAG-AAATAAAGCCGGGGTTGGAGTATC
1 GGTTGGAGTATCCTCGATTATGAAAAATC--GACGTTTTGAAAATAAAATCGGGGTTGGAGTATC
144592 CCCTTGGAAATAACA
64 CCCTTGGAAATAACA
* * ** * *
144607 GGATTGGAGTATCCCCGATTATGAAAAATTGATATTTTGAAAATAAAATCGGGGTAGGAATATCC
1 GG-TTGGAGTATCCTCGATTATGAAAAATCGACGTTTTGAAAATAAAATCGGGGTTGGAGTATCC
144672 CC
65 CC
144674 GAGATGAAAA
Statistics
Matches: 183, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
77 1 0.01
78 7 0.04
79 168 0.92
80 6 0.03
81 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (78 bp):
GGTTGGAGTATCCTCGATTATGAAAAATCGACGTTTTGAAAATAAAATCGGGGTTGGAGTATCCC
CTTGGAAATAACA
Found at i:144721 original size:50 final size:51
Alignment explanation
Indices: 144612--144723 Score: 131
Period size: 50 Copynumber: 2.2 Consensus size: 51
144602 TAACAGGATT
* ** *
144612 GGAGTATCCCCGATTATGAAAAATTGATATTTTGAAAATAAAATCGGGGTA
1 GGAGTATCCCCGATGATGAAAAATCAATATTTTGAAAATAAAACCGGGGTA
* *
144663 GGAATATCCCCGA-GATGAAAAATCAATATTTT-AGAAATAAAGCCGGGGTTA
1 GGAGTATCCCCGATGATGAAAAATCAATATTTTGA-AAATAAAACCGGGG-TA
144714 -GAGTATCCCC
1 GGAGTATCCCC
144724 TAAAAAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
49 1 0.02
50 37 0.71
51 14 0.27
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.26
Consensus pattern (51 bp):
GGAGTATCCCCGATGATGAAAAATCAATATTTTGAAAATAAAACCGGGGTA
Found at i:144776 original size:79 final size:79
Alignment explanation
Indices: 144678--144883 Score: 261
Period size: 79 Copynumber: 2.6 Consensus size: 79
144668 ATCCCCGAGA
* * * *
144678 TGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTAGAGTATCCCCTAAAAAATAAGAGGGTTGG
1 TGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGAAAAAATAACAGGGTTGG
*
144743 AGTATCCTCAATTG
66 AGTATCCCCAATTG
* * * **
144757 TGAAAAATCGAA-GCTTTAGAGATAAGGCCGGGGTTGGAGTATCCCCGCCAAAATAACAGGGTTG
1 TGAAAAATC-AATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGAAAAAATAACAGGGTTG
*
144821 GAGTATCCCCGATTG
65 GAGTATCCCCAATTG
* * * *
144836 TGAGAAATCAATATTTTAGAAATAAAGTCGAGGTTGGAGTATCCCCGA
1 TGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGA
144884 GATGAAAAAT
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 2 0.02
79 102 0.96
80 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (79 bp):
TGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGAAAAAATAACAGGGTTGG
AGTATCCCCAATTG
Found at i:144800 original size:129 final size:130
Alignment explanation
Indices: 144526--144803 Score: 319
Period size: 129 Copynumber: 2.1 Consensus size: 130
144516 TTGAAAATAA
* * * * *
144526 CGGGGTTAGAGTATCCTCGATTATGAGAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATGATGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTAGAGTAT
*** * * * *
144591 CCCCTTGGAAATAACAGGATTGGAGTATCCCCGATTATGAAAAATTGATATTTTGAAAATAAAAT
66 CCCCTAAAAAATAACAGGATTGGAGTATCCCCAATTATGAAAAATCGATATTTAGAAAATAAAAC
* * *
144656 CGGGGTAGGAATATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATGATGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTAGAGTAT
* * * * * *
144720 CCCCTAAAAAATAAGAGGGTTGGAGTATCCTCAATTGTGAAAAATCGA-AGCTTTAG-AGATAAG
66 CCCCTAAAAAATAACAGGATTGGAGTATCCCCAATTATGAAAAATCGATA--TTTAGAAAATAAA
*
144783 GC
129 AC
144785 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
144804 CCAAAATAAC
Statistics
Matches: 122, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
128 1 0.01
129 101 0.83
130 20 0.16
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATGATGAAAAATCAATACTTTAGAAATAAAGCCGGGGTTAGAGTAT
CCCCTAAAAAATAACAGGATTGGAGTATCCCCAATTATGAAAAATCGATATTTAGAAAATAAAAC
Found at i:144852 original size:208 final size:208
Alignment explanation
Indices: 144489--144894 Score: 532
Period size: 208 Copynumber: 2.0 Consensus size: 208
144479 GGCGTTTTGA
* ** * *
144489 AAATAAAATCGGGGTTGAAGTATCCCCTTGAAAATAACGGGGTTAGAGTATCCTCGATTATGAGA
1 AAATAAAACCGGGGTTGAAGTATCCCCTAAAAAATAACGGGGTTAGAGTATCCTCAATTATGAAA
****
144554 AATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTTGGAAATAACAGGATTGGAGTAT
66 AATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGCCAAAATAACAGGATTGGAGTAT
** *
144619 CCCCGATTATGAAAAATTGATATTTT-GAAAATAAAATCGGGGTAGGAATATCCCCGAGATGAAA
131 CCCCGATTATGAAAAATCAATATTTTAG-AAATAAAATCGAGGTAGGAATATCCCCGAGATGAAA
144683 AATCAATATTTTAG
195 AATCAATATTTTAG
* * *
144697 AAATAAAGCCGGGGTT-AGAGTATCCCCTAAAAAATAA-GAGGGTTGGAGTATCCTCAATTGTGA
1 AAATAAAACCGGGGTTGA-AGTATCCCCTAAAAAATAACG-GGGTTAGAGTATCCTCAATTATGA
* * * *
144760 AAAATCGAA-GCTTTAGAGATAAGGCCGGGGTTGGAGTATCCCCGCCAAAATAACAGGGTTGGAG
64 AAAATC-AATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGCCAAAATAACAGGATTGGAG
* * * * *
144824 TATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCGAGGTTGGAGTATCCCCGAGATGA
128 TATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCGAGGTAGGAATATCCCCGAGATGA
144889 AAAATC
193 AAAATC
144895 TAGAAATTTA
Statistics
Matches: 170, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
207 2 0.01
208 165 0.97
209 3 0.02
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (208 bp):
AAATAAAACCGGGGTTGAAGTATCCCCTAAAAAATAACGGGGTTAGAGTATCCTCAATTATGAAA
AATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGCCAAAATAACAGGATTGGAGTAT
CCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCGAGGTAGGAATATCCCCGAGATGAAAA
ATCAATATTTTAG
Found at i:147809 original size:31 final size:31
Alignment explanation
Indices: 147764--147838 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
147754 AATTGTGCAA
* *
147764 TTAAAAATGATTTATAATGATTTATTAT-ATTT
1 TTAAAAAT-TTTTATAATGATTTATT-TGATAT
* * *
147796 TTAAATATTTTTATACTTATTTATTTGATAT
1 TTAAAAATTTTTATAATGATTTATTTGATAT
147827 TTAAAAATTTTT
1 TTAAAAATTTTT
147839 GATATTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 1 0.03
31 28 0.78
32 7 0.19
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (31 bp):
TTAAAAATTTTTATAATGATTTATTTGATAT
Found at i:147852 original size:31 final size:31
Alignment explanation
Indices: 147795--147867 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
147785 TTATTATATT
* **
147795 TTTAAATATTTTTATACTTATTTATTTGAT-A
1 TTTAAAAATTTTTATACTTAAATATTT-ATAA
147826 TTTAAAAATTTTTGATA-TTAAATATTTATAA
1 TTTAAAAATTTTT-ATACTTAAATATTTATAA
*
147857 TTTTAAAATTT
1 TTTAAAAATTT
147868 ATATTTACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.06
31 31 0.86
32 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (31 bp):
TTTAAAAATTTTTATACTTAAATATTTATAA
Found at i:148762 original size:20 final size:19
Alignment explanation
Indices: 148729--148777 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 19
148719 TTTATTTAAA
148729 TTTAATTATAAAAA-ATATAAT
1 TTTAA-TATAAAAATA-AT-AT
148750 TATTAATATAAAAATAATAT
1 T-TTAATATAAAAATAATAT
148770 TTTAATAT
1 TTTAATAT
148778 TTTTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 11 0.42
22 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAATATAAAAATAATAT
Found at i:148774 original size:19 final size:20
Alignment explanation
Indices: 148729--148777 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
148719 TTTATTTAAA
148729 TTTAATTATAAAAAATATAAT
1 TTTAA-TATAAAAAATATAAT
148750 TATTAATAT-AAAAATA-ATAT
1 T-TTAATATAAAAAATATA-AT
148770 TTTAATAT
1 TTTAATAT
148778 TTTTAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.31
20 10 0.38
21 4 0.15
22 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAATATAAAAAATATAAT
Found at i:154379 original size:2 final size:2
Alignment explanation
Indices: 154372--154396 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
154362 TGTCACTGTT
154372 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
154397 TATCCCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:163707 original size:13 final size:13
Alignment explanation
Indices: 163674--163735 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
163664 TTATAATAAT
*
163674 AATATTTTTTTAA
1 AATATATTTTTAA
163687 AA-A-A-TTTTAA
1 AATATATTTTTAA
*
163697 ATTATATTTTTGAA
1 AATATATTTTT-AA
*
163711 AAAATATTTTTAA
1 AATATATTTTTAA
163724 AATATAATTTTT
1 AATAT-ATTTTT
163736 TATGAATCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
12 2 0.05
13 12 0.31
14 17 0.44
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
AATATATTTTTAA
Done.