Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold507
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: 914714
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
File 1 of 8
Found at i:821 original size:24 final size:23
Alignment explanation
Indices: 793--916 Score: 95
Period size: 24 Copynumber: 4.9 Consensus size: 23
783 AAGCCACCCA
793 TTTGTTTGTCAAAATGGTGGTTATT
1 TTTGTTTGTCAAAATGGTGG-T-TT
818 TTGTGTTTGTCAAAAATGGTGGTTT
1 TT-TGTTTGTC-AAAATGGTGGTTT
* *
843 CCTTTGTATTTGTCAAATATGGAGGCTTG
1 --TTTG--TTTGTCAAA-ATGGTGG-TTT
* *
872 TTTATTTGTCAAAATTGGTGGCTT
1 TTTGTTTGTCAAAA-TGGTGGTTT
*
896 GTTGTTTGTCAAAATTGGTGG
1 TTTGTTTGTCAAAA-TGGTGG
917 CTAATTTTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
24 21 0.26
25 18 0.22
26 11 0.13
27 18 0.22
28 12 0.15
29 2 0.02
ACGTcount: A:0.20, C:0.07, G:0.26, T:0.47
Consensus pattern (23 bp):
TTTGTTTGTCAAAATGGTGGTTT
Found at i:825 original size:26 final size:26
Alignment explanation
Indices: 795--864 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 26
785 GCCACCCATT
795 TGTTTGTCAAAATGGTGGTTAT-TTTG
1 TGTTTGTCAAAATGGTGGTT-TCTTTG
821 TGTTTGTCAAAAATGGTGGTTTCCTTTG
1 TGTTTGTC-AAAATGGTGGTTT-CTTTG
*
849 TATTTGTCAAATATGG
1 TGTTTGTCAAA-ATGG
865 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 9 0.23
27 15 0.38
28 15 0.38
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.47
Consensus pattern (26 bp):
TGTTTGTCAAAATGGTGGTTTCTTTG
Found at i:841 original size:27 final size:27
Alignment explanation
Indices: 795--864 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
785 GCCACCCATT
795 TGTTTGTC-AAAATGGTGGTTAT-TTTG
1 TGTTTGTCAAAAATGGTGGTT-TCTTTG
821 TGTTTGTCAAAAATGGTGGTTTCCTTTG
1 TGTTTGTCAAAAATGGTGGTTT-CTTTG
* *
849 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
865 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 9 0.23
27 12 0.31
28 18 0.46
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.47
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTTCTTTG
Found at i:857 original size:28 final size:27
Alignment explanation
Indices: 797--916 Score: 92
Period size: 25 Copynumber: 4.6 Consensus size: 27
787 CACCCATTTG
*
797 TTTGTC-AAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGGTGGTTATTTTGTA
823 TTTGTCAAAAATGGTGGTT-TCCTTTGTA
1 TTTGTCAAAAATGGTGGTTAT--TTTGTA
* * * *
851 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTGTA
* * *
876 TTTGTCAAAATTGGTGGCT-TGTTG--
1 TTTGTCAAAAATGGTGGTTATTTTGTA
*
900 TTTGTCAAAATTGGTGG
1 TTTGTCAAAAATGGTGG
917 CTAATTTTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
24 17 0.21
25 22 0.27
26 9 0.11
27 12 0.15
28 22 0.27
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTGTA
Found at i:917 original size:24 final size:25
Alignment explanation
Indices: 849--918 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
839 GTTTCCTTTG
*
849 TATTTGTC-AAATATGGAGGCTTGTT
1 TATTTGTCAAAAT-TGGTGGCTTGTT
874 TATTTGTCAAAATTGGTGGCTTG-T
1 TATTTGTCAAAATTGGTGGCTTGTT
*
898 TGTTTGTCAAAATTGGTGGCT
1 TATTTGTCAAAATTGGTGGCT
919 AATTTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 21 0.50
25 17 0.40
26 4 0.10
ACGTcount: A:0.21, C:0.09, G:0.26, T:0.44
Consensus pattern (25 bp):
TATTTGTCAAAATTGGTGGCTTGTT
Found at i:1812 original size:15 final size:15
Alignment explanation
Indices: 1794--1835 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
1784 ATTAAATTAC
*
1794 TAAAAATTAAATTTT
1 TAAAAAATAAATTTT
*
1809 TAAAAAAT-AAGTTT
1 TAAAAAATAAATTTT
1823 TAAAAAATAAATT
1 TAAAAAATAAATT
1836 AAAAAAATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TAAAAAATAAATTTT
Found at i:3337 original size:18 final size:18
Alignment explanation
Indices: 3314--3350 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3304 TTGGAAACGA
3314 AATG-AAAAAATAAAATAC
1 AATGAAAAAAAT-AAATAC
3332 AATGAAAAAAATAAATAC
1 AATGAAAAAAATAAATAC
3350 A
1 A
3351 CTGCATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AATGAAAAAAATAAATAC
Found at i:3489 original size:18 final size:18
Alignment explanation
Indices: 3408--3493 Score: 55
Period size: 18 Copynumber: 5.1 Consensus size: 18
3398 AATAAAATTT
*
3408 ATTTATATAATA-ACATAA
1 ATTTATATAATATA-AAAA
*
3426 A-TTAT-TAATATGTAAAA
1 ATTTATATAATAT-AAAAA
*
3443 ATTTATATAAATATATAAA
1 ATTTATAT-AATATAAAAA
3462 A--TAT-T--T-TAAAAA
1 ATTTATATAATATAAAAA
3474 ATTTATATAATATAAAAA
1 ATTTATATAATATAAAAA
3492 AT
1 AT
3494 AAATTAATGG
Statistics
Matches: 52, Mismatches: 5, Indels: 22
0.66 0.06 0.28
Matches are distributed among these distances:
12 6 0.12
13 1 0.02
14 3 0.06
15 1 0.02
16 6 0.12
17 12 0.23
18 13 0.25
19 5 0.10
20 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
ATTTATATAATATAAAAA
Found at i:4724 original size:20 final size:18
Alignment explanation
Indices: 4696--4742 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
4686 ATTTTTTTAA
*
4696 AAAAATTAATTTTAAATGAT
1 AAAATTTAATTTT-AAT-AT
*
4716 AAAATTTAAATTTAATAT
1 AAAATTTAATTTTAATAT
4734 -AAATTTAAT
1 AAAATTTAAT
4743 ATTATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 3 0.12
20 11 0.46
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AAAATTTAATTTTAATAT
Found at i:5264 original size:13 final size:11
Alignment explanation
Indices: 5234--5258 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5224 AAATAATATT
5234 AAATTATTAAA
1 AAATTATTAAA
5245 AAATTATTAAA
1 AAATTATTAAA
5256 AAA
1 AAA
5259 ATTTATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:8966 original size:15 final size:15
Alignment explanation
Indices: 8946--8979 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8936 GCATTCTTTC
8946 ATTATTATTATGAGT
1 ATTATTATTATGAGT
*
8961 ATTATTATTATGATT
1 ATTATTATTATGAGT
8976 ATTA
1 ATTA
8980 GTAATCTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATTATTATTATGAGT
Found at i:9381 original size:25 final size:25
Alignment explanation
Indices: 9319--9388 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
9309 AATAAAAATT
*
9319 AGCCACCAATTTTGACAAA-CAACA
1 AGCCACCAATTTTGACAAATAAACA
9343 AGCCACCAATTTTGACAAATAAACA
1 AGCCACCAATTTTGACAAATAAACA
*
9368 AGCCTCC-ATATTTGACAAATA
1 AGCCACCAAT-TTTGACAAATA
9389 CAAAGGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTGACAAATAAACA
Found at i:9434 original size:27 final size:27
Alignment explanation
Indices: 9373--9443 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
9363 AAACAAGCCT
* *
9373 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
9401 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
9428 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
9444 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:9446 original size:24 final size:24
Alignment explanation
Indices: 9321--9446 Score: 92
Period size: 24 Copynumber: 4.9 Consensus size: 24
9311 TAAAAATTAG
* *
9321 CCACCAATTTTGACAAACAACA-AG
1 CCACCATTTTTGACAAACAA-ATAA
* * *
9345 CCACCAATTTTGACAAATAAACAA
1 CCACCATTTTTGACAAACAAATAA
* * *
9369 GCCTCCATATTTGACAAATACAAAGGAAA
1 -CCACCATTTTTGAC-AA-ACAAA--TAA
9398 CCACCATTTTTGACAAACACAAAATAA
1 CCACCATTTTTGAC-AA-AC-AAATAA
9425 CCACCATTTTTGACAAACAAAT
1 CCACCATTTTTGACAAACAAAT
9447 GGGTGGCTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
23 1 0.01
24 24 0.29
25 13 0.15
26 4 0.05
27 20 0.24
28 17 0.20
29 5 0.06
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (24 bp):
CCACCATTTTTGACAAACAAATAA
Found at i:14028 original size:27 final size:27
Alignment explanation
Indices: 13967--14037 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
13957 AAACAAGTCT
* *
13967 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
*
13995 TCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
14022 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
14038 AATGGGTGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 17 0.45
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:16716 original size:15 final size:16
Alignment explanation
Indices: 16675--16720 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
16665 TTTTAACTTA
* *
16675 TTTTATTAAATAT-AT
1 TTTTAATAAATTTAAT
16690 TTTTAATAAATTTAAT
1 TTTTAATAAATTTAAT
16706 TTTTAAT-AATTTAAT
1 TTTTAATAAATTTAAT
16721 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 19 0.68
16 9 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAATAAATTTAAT
Found at i:16718 original size:24 final size:25
Alignment explanation
Indices: 16691--16750 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 25
16681 TAAATATATT
16691 TTTAATAAATTTAATTTTTAAT-AA
1 TTTAATAAATTTAATTTTTAATAAA
* *
16715 TTTAATATATTT--TTTTTATTAAA
1 TTTAATAAATTTAATTTTTAATAAA
*
16738 TTTTA-AAATTTAA
1 TTTAATAAATTTAA
16751 ATAACTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 12 0.41
23 6 0.21
24 11 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTAATAAATTTAATTTTTAATAAA
Found at i:16763 original size:40 final size:38
Alignment explanation
Indices: 16689--16769 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 38
16679 ATTAAATATA
* * *
16689 TTTTTAATAAATTTAATTTTTAATAATTTAATATATTT
1 TTTTTAATAAATTTAAATTTAAATAACTTAATATATTT
*
16727 TTTTTATTAAATTTTAAAATTTAAATAACTTAATATATTT
1 TTTTTAATAAA-TTT-AAATTTAAATAACTTAATATATTT
16767 TTT
1 TTT
16770 AATGTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 10 0.27
39 3 0.08
40 24 0.65
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (38 bp):
TTTTTAATAAATTTAAATTTAAATAACTTAATATATTT
Found at i:16770 original size:38 final size:36
Alignment explanation
Indices: 16683--16772 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 36
16673 TATTTTATTA
* * *
16683 AATATA-TTTTTAATAAATTTAATTTTTAATAATTT
1 AATATATTTTTTAATAAATTTAAATTTAAATAACTT
*
16718 AATATATTTTTTTTATTAAATTTTAAAATTTAAATAACTT
1 AATATA--TTTTTTAATAAA-TTT-AAATTTAAATAACTT
16758 AATATATTTTTTAAT
1 AATATATTTTTTAAT
16773 GTTTAAACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
35 6 0.13
38 18 0.40
39 3 0.07
40 18 0.40
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (36 bp):
AATATATTTTTTAATAAATTTAAATTTAAATAACTT
Found at i:16868 original size:20 final size:20
Alignment explanation
Indices: 16823--16868 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
16813 GATAAAAATT
16823 ATTTAATATATAAAATATAA
1 ATTTAATATATAAAATATAA
* **
16843 AATTAATATATATTATATAA
1 ATTTAATATATAAAATATAA
*
16863 TTTTAA
1 ATTTAA
16869 AAATAAGCTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTAATATATAAAATATAA
Found at i:16964 original size:13 final size:14
Alignment explanation
Indices: 16946--16976 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
16936 TTATTTTTTT
16946 TTTTAAATTT-ATA
1 TTTTAAATTTGATA
16959 TTTTAAATTTGATA
1 TTTTAAATTTGATA
16973 TTTT
1 TTTT
16977 TTTAATTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TTTTAAATTTGATA
Found at i:17109 original size:52 final size:52
Alignment explanation
Indices: 17031--17145 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 52
17021 GCTTGACTCC
*
17031 TAAACATTAATATCTGATAAGAAATAAGAAAGCCATTATCATGATTCATGTG
1 TAAACATTAATATCTGATAAGAAATAAGAAAGCCATTATCATGATTCATATG
* * * *
17083 TAAACTTTAATATCTTATGAGAAATAAGAAAGCTATTATCATGATTCATATG
1 TAAACATTAATATCTGATAAGAAATAAGAAAGCCATTATCATGATTCATATG
17135 TAAACATTAAT
1 TAAACATTAAT
17146 GTAACCTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (52 bp):
TAAACATTAATATCTGATAAGAAATAAGAAAGCCATTATCATGATTCATATG
Found at i:18281 original size:43 final size:44
Alignment explanation
Indices: 18234--18335 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 44
18224 AGAGTCATTA
*
18234 TTTAATTATTAAAATTTTAAAAT-AAGTTATTTTTATT-TAAAAT
1 TTTAA-TATTAAAATTTTAAAATAAAATTATTTTTATTATAAAAT
*
18277 TTTAAGTATT-AAA--TTAAAATAAAAATTATTTTTATTATATAAT
1 TTTAA-TATTAAAATTTTAAAAT-AAAATTATTTTTATTATAAAAT
*
18320 TATTAATATAAAAATT
1 T-TTAATATTAAAATT
18336 ATTTAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
40 7 0.15
42 16 0.33
43 18 0.38
44 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (44 bp):
TTTAATATTAAAATTTTAAAATAAAATTATTTTTATTATAAAAT
Found at i:18310 original size:30 final size:31
Alignment explanation
Indices: 18275--18339 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
18265 TTTATTTAAA
*
18275 ATTTTAAGTAT-TAA-ATTAAAATAAAAATT
1 ATTTTTAGTATATAATATTAAAATAAAAATT
* *
18304 ATTTTTATTATATAATTATTAATATAAAAATT
1 ATTTTTAGTATATAA-TATTAAAATAAAAATT
18336 ATTT
1 ATTT
18340 AAATTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 9 0.30
30 3 0.10
32 18 0.60
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
ATTTTTAGTATATAATATTAAAATAAAAATT
Found at i:18358 original size:16 final size:16
Alignment explanation
Indices: 18339--18398 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
18329 AAAAATTATT
18339 TAAATTTAATTTAATA
1 TAAATTTAATTTAATA
*
18355 TAAATCTAA-TTAA-A
1 TAAATTTAATTTAATA
*
18369 TAAA-TT-ATTTAATT
1 TAAATTTAATTTAATA
18383 TATAATTTAATTTAAT
1 TA-AATTTAATTTAAT
18399 TAATTAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
12 1 0.03
13 5 0.14
14 7 0.19
15 6 0.17
16 10 0.28
17 7 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTTAATTTAATA
Found at i:18366 original size:45 final size:44
Alignment explanation
Indices: 18316--18410 Score: 101
Period size: 45 Copynumber: 2.2 Consensus size: 44
18306 TTTTATTATA
18316 TAATTATTAATATAA-AAATT-ATTTA-AATTTAATTTAATATAAAT
1 TAATTATTAATA-AATAAATTAATTTATAATTTAATTTAAT-T-AAT
* *
18360 CTAATTA--AATAAATTATTTAATTTATAATTTAATTTAATTAAT
1 -TAATTATTAATAAATAAATTAATTTATAATTTAATTTAATTAAT
18403 TAATTATT
1 TAATTATT
18411 TATTTATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
42 8 0.19
43 10 0.23
44 6 0.14
45 19 0.44
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (44 bp):
TAATTATTAATAAATAAATTAATTTATAATTTAATTTAATTAAT
Found at i:18675 original size:6 final size:6
Alignment explanation
Indices: 18664--18702 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
18654 CATAAAAAAA
* *
18664 TATATG TATATG TATATG TAATATA TATATA TATATG TA
1 TATATG TATATG TATATG T-ATATG TATATG TATATG TA
18703 AATGACTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:18692 original size:19 final size:19
Alignment explanation
Indices: 18665--18703 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18655 ATAAAAAAAT
* *
18665 ATATGTATATGTATATGTA
1 ATATATATATATATATGTA
18684 ATATATATATATATATGTA
1 ATATATATATATATATGTA
18703 A
1 A
18704 ATGACTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
ATATATATATATATATGTA
Found at i:18947 original size:5 final size:5
Alignment explanation
Indices: 18929--19079 Score: 68
Period size: 5 Copynumber: 30.6 Consensus size: 5
18919 TATTAAATCT
* *
18929 ATATA AT-T- ATATA ATATA A-A-A ATAAA ATATA ACATAA ATATA A-ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A ATATA ATATA
* * * * * * * *
18975 A-ATA TTTTTA AAATG ATATA ATATTA TTATA ATATA TTAAA AT-TT ATATAA
1 ATATA -ATATA ATATA ATATA ATA-TA ATATA ATATA ATATA ATATA ATAT-A
* *
19026 ATATA ATATA TTTTAAA ATATA ATTATA ATATA ATATA ATAT- ATA-A
1 ATATA ATATA --ATATA ATATA A-TATA ATATA ATATA ATATA ATATA
19072 ATATA ATA
1 ATATA ATA
19080 AAAATATAAA
Statistics
Matches: 108, Mismatches: 23, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
3 4 0.04
4 19 0.18
5 63 0.58
6 19 0.18
7 3 0.03
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:18960 original size:18 final size:18
Alignment explanation
Indices: 18937--18972 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18927 CTATATAATT
*
18937 ATATAATATAAAAATAAA
1 ATATAACATAAAAATAAA
*
18955 ATATAACATAAATATAAA
1 ATATAACATAAAAATAAA
18973 TAAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
ATATAACATAAAAATAAA
Found at i:18999 original size:19 final size:18
Alignment explanation
Indices: 18975--19047 Score: 67
Period size: 19 Copynumber: 3.9 Consensus size: 18
18965 AATATAAATA
18975 AATATTTTTAAAATGATAT
1 AATATTTTTAAAAT-ATAT
* *
18994 AATATTATTATAATATATT
1 AATATTTTTAAAATATA-T
* * *
19013 AAAATTTATATAA-ATAT
1 AATATTTTTAAAATATAT
19030 AATATATTTTAAAATATA
1 AATAT-TTTTAAAATATA
19048 ATTATAATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 5 0.12
18 12 0.28
19 26 0.60
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (18 bp):
AATATTTTTAAAATATAT
Found at i:19046 original size:23 final size:23
Alignment explanation
Indices: 18937--19089 Score: 89
Period size: 23 Copynumber: 6.5 Consensus size: 23
18927 CTATATAATT
18937 ATATAATATAAAA-ATAAAATATA
1 ATATAATATAAAATAT-AAATATA
* * *
18960 ACATAA-ATATAA-ATAAATATTT
1 ATATAATATAAAATATAAATA-TA
* * * * *
18982 TTAAAATGATATAATATTATTATA
1 ATATAAT-ATAAAATATAAATATA
*
19006 ATATATTA-AAATTTATATAAATATA
1 ATATAATATAAA---ATATAAATATA
* * *
19031 ATATATTTTAAAATATAATTATA
1 ATATAATATAAAATATAAATATA
*
19054 ATATAATATAATATATAAATATA
1 ATATAATATAAAATATAAATATA
*
19077 ATAAAAATATAAA
1 AT-ATAATATAAA
19090 TTTTTTTATC
Statistics
Matches: 98, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
21 5 0.05
22 13 0.13
23 37 0.38
24 19 0.19
25 21 0.21
26 3 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (23 bp):
ATATAATATAAAATATAAATATA
Found at i:19086 original size:11 final size:13
Alignment explanation
Indices: 18990--19088 Score: 66
Period size: 11 Copynumber: 7.5 Consensus size: 13
18980 TTTTAAAATG
18990 ATATAATAT-T-A
1 ATATAATATATAA
*
19001 TTATAATATATTAA
1 ATATAATATA-TAA
*
19015 A-AT-TTATATAA
1 ATATAATATATAA
19026 ATATAATATATTTTAAA
1 ATATAATATA---T-AA
19043 ATATAATTATAATATA
1 ATATAA-TAT-ATA-A
19059 ATATAATATATAA
1 ATATAATATATAA
19072 ATATAATA-A-AA
1 ATATAATATATAA
19083 ATATAA
1 ATATAA
19089 ATTTTTTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 24
0.72 0.04 0.24
Matches are distributed among these distances:
11 20 0.28
12 7 0.10
13 16 0.22
14 4 0.06
15 4 0.06
16 9 0.12
17 8 0.11
18 3 0.04
19 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATAATATATAA
Found at i:21111 original size:14 final size:14
Alignment explanation
Indices: 21094--21124 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
21084 ACATAATTAT
21094 ATAAATACATATTC
1 ATAAATACATATTC
21108 ATAAATACATATTC
1 ATAAATACATATTC
21122 ATA
1 ATA
21125 TACGACACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAAATACATATTC
Found at i:21916 original size:34 final size:34
Alignment explanation
Indices: 21852--22034 Score: 260
Period size: 34 Copynumber: 5.4 Consensus size: 34
21842 ACACTGTTAG
* *
21852 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
21885 TGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
21919 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
21953 TATTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
21987 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
22021 TGTTGATTAAATGG
1 TGTTGATTAAATGG
22035 TGGTTTTTAC
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 11 0.08
34 121 0.92
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:22398 original size:19 final size:19
Alignment explanation
Indices: 22342--22404 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
22332 TGGTTGTCGA
**
22342 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
22361 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
22380 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
22399 GTTACT
1 GGTACT
22405 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:26536 original size:34 final size:34
Alignment explanation
Indices: 26470--26654 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
26460 AAGTGGGAGA
* *
26470 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
26503 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
26537 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
26571 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
26605 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
26639 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
26655 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:28918 original size:53 final size:53
Alignment explanation
Indices: 28839--28949 Score: 188
Period size: 53 Copynumber: 2.1 Consensus size: 53
28829 AGAATGATGA
* *
28839 CAAAG-TACAAAATGAATTTCTCAGCAATCCATTTAACTCTTTAAAAATCATT
1 CAAAGATACAAAATGAATTTCTCAGCAATCCATTTAACTCGTTAAAAATCATC
*
28891 CAAAGATACAAAATGAATTTCTCAGCAATCCATTTAACTCGTTAATAATCATC
1 CAAAGATACAAAATGAATTTCTCAGCAATCCATTTAACTCGTTAAAAATCATC
28944 CAAAGA
1 CAAAGA
28950 AAAACTATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
52 5 0.09
53 50 0.91
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (53 bp):
CAAAGATACAAAATGAATTTCTCAGCAATCCATTTAACTCGTTAAAAATCATC
Found at i:31436 original size:20 final size:20
Alignment explanation
Indices: 31411--31450 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
31401 TAAATAAAAT
*
31411 TAAATAATAATTTTATTAAA
1 TAAATAATAATTTTAATAAA
31431 TAAATAATAATTTTAATAAA
1 TAAATAATAATTTTAATAAA
31451 ATCAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATAATAATTTTAATAAA
Found at i:31899 original size:2 final size:2
Alignment explanation
Indices: 31892--31926 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
31882 AATAGGTCCT
31892 TC TC TC TC TC 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 TC TC TC TC TC T
31927 TTGATTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:33286 original size:2 final size:2
Alignment explanation
Indices: 33279--33315 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
33269 TGTGGGCATT
33279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33316 GTAAATTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36589 original size:2 final size:2
Alignment explanation
Indices: 36582--36608 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36572 AGTGAACTTA
36582 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36609 GTTTCTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38432 original size:59 final size:59
Alignment explanation
Indices: 38369--38481 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 59
38359 CTTAATAATT
* *
38369 TATATAT-TTTATTATATTATAATT-ATATTTAAAAAATTTTATAATTATATAAATTTTAA
1 TATATATATTTA-TATACTAT-ATTAATATTTAAAAAATATTATAATTATATAAATTTTAA
* * * *
38428 TATATATATTTATATCCTATATTAATATTTTATAAATATTATATTTATATAAAT
1 TATATATATTTATATACTATATTAATATTTAAAAAATATTATAATTATATAAAT
38482 ATATTCATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 3 0.07
59 39 0.85
60 4 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (59 bp):
TATATATATTTATATACTATATTAATATTTAAAAAATATTATAATTATATAAATTTTAA
Found at i:38466 original size:17 final size:17
Alignment explanation
Indices: 38426--38483 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
38416 TATAAATTTT
*
38426 AATATATATATTTATATCC
1 AATAT-TATATTTATAT-A
*
38445 TATATTAATATTT-TATA
1 AATATT-ATATTTATATA
38462 AATATTATATTTATATA
1 AATATTATATTTATATA
38479 AATAT
1 AATAT
38484 ATTCATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.18
17 14 0.41
18 4 0.12
19 10 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATTATATTTATATA
Found at i:38486 original size:14 final size:14
Alignment explanation
Indices: 38445--38502 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
38435 ATTTATATCC
*
38445 TATATTAATAT-TT
1 TATATAAATATATT
38458 TATA-AATATTATATT
1 TATATAA-A-TATATT
38473 TATATAAATATATT
1 TATATAAATATATT
* *
38487 CATATAATTATATT
1 TATATAAATATATT
38501 TA
1 TA
38503 AATTTATCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 5 0.14
14 22 0.59
15 7 0.19
16 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATAAATATATT
Found at i:42191 original size:33 final size:34
Alignment explanation
Indices: 42154--42231 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 34
42144 AAATAAAAAA
*
42154 ATAAATATAATATGAATTTAAAATTTATAT-AAT
1 ATAAATATAATATGAAATTAAAATTTATATAAAT
* * *
42187 ATAAAT-TATTATTAAATTAAATTTTATATAAAT
1 ATAAATATAATATGAAATTAAAATTTATATAAAT
42220 ATAAA-ATAATAT
1 ATAAATATAATAT
42232 AAAAATTATC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 19 0.50
33 19 0.50
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAAATATAATATGAAATTAAAATTTATATAAAT
Found at i:42207 original size:16 final size:17
Alignment explanation
Indices: 42172--42224 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 17
42162 AATATGAATT
*
42172 TAAAATTTATAT-AATA
1 TAAATTTTATATAAATA
42188 TAAATTATTAT-TAAAT-
1 TAAATT-TTATATAAATA
42204 TAAATTTTATATAAATA
1 TAAATTTTATATAAATA
42221 TAAA
1 TAAA
42225 ATAATATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 4 0.12
16 17 0.53
17 11 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATTTTATATAAATA
Found at i:43504 original size:27 final size:28
Alignment explanation
Indices: 43473--43623 Score: 89
Period size: 30 Copynumber: 5.2 Consensus size: 28
43463 AAAAAATTTA
43473 ATTTAATAATTTATATAT-TCATATTAT
1 ATTTAATAATTTATATATATCATATTAT
* *
43500 ATTTATATATTTTAT-TATATAATAATTAT
1 ATTTA-ATAATTTATATATATCAT-ATTAT
* *
43529 GTTTGAGAT-A-TTATATATATCAATTTTTAT
1 ATTT-A-ATAATTTATATATATC-A-TATTAT
* *
43559 ATGTTAATAATTTATATCTTATTATATTAT
1 AT-TTAATAATTTATAT-ATATCATATTAT
* * *
43589 ATTTTAATTATTT-TATAAAT-ATAATGAT
1 A-TTTAATAATTTATATATATCAT-ATTAT
43617 ATTTAAT
1 ATTTAAT
43624 TTTACTAGAT
Statistics
Matches: 96, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
27 16 0.17
28 22 0.23
29 18 0.19
30 26 0.27
31 11 0.11
32 3 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (28 bp):
ATTTAATAATTTATATATATCATATTAT
Found at i:43505 original size:19 final size:18
Alignment explanation
Indices: 43481--43519 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
43471 TAATTTAATA
43481 ATTTATATATTCATATTAT
1 ATTTATATATT-ATATTAT
*
43500 ATTTATATATTTTATTAT
1 ATTTATATATTATATTAT
43518 AT
1 AT
43520 AATAATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATATATTATATTAT
Found at i:43922 original size:23 final size:19
Alignment explanation
Indices: 43873--43922 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 19
43863 AGTAATAATA
43873 TTCATATATATTTTTGAAT
1 TTCATATATATTTTTGAAT
43892 TTCTATATGATGATTTTGTGAATT
1 TTC-ATAT-AT-ATTTT-TGAA-T
43916 TTCATAT
1 TTCATAT
43923 TGAAGTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 2 0.08
22 5 0.19
23 8 0.31
24 4 0.15
ACGTcount: A:0.28, C:0.06, G:0.10, T:0.56
Consensus pattern (19 bp):
TTCATATATATTTTTGAAT
Found at i:44528 original size:16 final size:16
Alignment explanation
Indices: 44472--44530 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
44462 CGAATTAAGT
44472 TAAAAT-AATTTAA-A
1 TAAAATAAATTTAATA
* * * *
44486 TAATATAATTTTTATT
1 TAAAATAAATTTAATA
* *
44502 TAAATTTAATTTAATA
1 TAAAATAAATTTAATA
44518 TAAAATAAATTTA
1 TAAAATAAATTTA
44531 TCGATTAATA
Statistics
Matches: 31, Mismatches: 12, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 21 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAATAAATTTAATA
Found at i:44984 original size:2 final size:2
Alignment explanation
Indices: 44970--45015 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
44960 TTATTACTTT
44970 TA TA TA TCA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45012 TA TA
1 TA TA
45016 AAAGGAGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 40 0.95
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:45248 original size:15 final size:16
Alignment explanation
Indices: 45216--45250 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
45206 TTTAAAATCA
45216 AATATAAATATGTATTT
1 AATATAAATA-GTATTT
45233 AATATAAATA-TATTT
1 AATATAAATAGTATTT
45248 AAT
1 AAT
45251 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
17 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
AATATAAATAGTATTT
Found at i:45284 original size:23 final size:23
Alignment explanation
Indices: 45250--45317 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
45240 ATATATTTAA
45250 TTAT-TTTAAAATTTTTATAAAAT
1 TTATATTT-AAATTTTTATAAAAT
* * *
45273 TTATATTTAAATGTGTATATAAT
1 TTATATTTAAATTTTTATAAAAT
* * * *
45296 TTAAATATAGATTTTTTTAAAA
1 TTATATTTAAATTTTTATAAAA
45318 ATTCAAATAA
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
23 31 0.91
24 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATATTTAAATTTTTATAAAAT
Found at i:45803 original size:18 final size:17
Alignment explanation
Indices: 45745--45803 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
45735 AATTTTATAA
*
45745 TTAAATTTAAATAAAATTT
1 TTAAA-TTAAATAAAA-AT
*
45764 TTATTAATTAAATAATAAT
1 TTA--AATTAAATAAAAAT
45783 TTAAATTAAATTAAAAAT
1 TTAAATTAAA-TAAAAAT
45801 TTA
1 TTA
45804 TTAAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 7 0.21
18 9 0.26
19 7 0.21
20 9 0.26
21 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAATTAAATAAAAAT
Found at i:45807 original size:21 final size:20
Alignment explanation
Indices: 45744--45808 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
45734 TAATTTTATA
*
45744 ATTAAATTTAAATAAAATTTTT
1 ATTAAA-TTAAATAAAA-ATTT
*
45766 ATT-AATTAAATAATAA--T
1 ATTAAATTAAATAAAAATTT
45783 -TTAAATTAAATTAAAAATTT
1 ATTAAATTAAA-TAAAAATTT
45803 ATTAAA
1 ATTAAA
45809 AATTAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
16 2 0.06
17 8 0.23
18 5 0.14
20 10 0.29
21 7 0.20
22 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAATTAAATAAAAATTT
Found at i:45846 original size:38 final size:36
Alignment explanation
Indices: 45741--45846 Score: 105
Period size: 33 Copynumber: 2.9 Consensus size: 36
45731 TTATAATTTT
*
45741 ATAATTAAATTTAAA-TAAAATTTTTATTAATTAAATA
1 ATAATTTAATTTAAATTAAAATTTTTATT--TTAAATA
* *
45778 ATAATTTAAATTAAATTAAAA-ATTTA--TTAAA-A
1 ATAATTTAATTTAAATTAAAATTTTTATTTTAAATA
45810 ATTAATTTAATTTAAATTATAATATTTTTATTTTAAA
1 A-TAATTTAATTTAAATTA-AA-ATTTTTATTTTAAA
45847 CTCGATTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
32 2 0.04
33 21 0.37
34 2 0.04
35 1 0.02
36 4 0.07
37 17 0.30
38 10 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
ATAATTTAATTTAAATTAAAATTTTTATTTTAAATA
Found at i:46422 original size:16 final size:17
Alignment explanation
Indices: 46390--46423 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
46380 CTTATTATTA
*
46390 AATATAAGATCAATTTT
1 AATATAAAATCAATTTT
46407 AATATAAAAT-AATTTT
1 AATATAAAATCAATTTT
46423 A
1 A
46424 TATTCTTAAG
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:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
AATATAAAATCAATTTT
Found at i:46693 original size:21 final size:21
Alignment explanation
Indices: 46646--46693 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
46636 CACTATGATT
*
46646 TTAATTTTACTACAATAATAC
1 TTAATTTTACTACAATAATAA
* * *
46667 TCAATTTTATTACTATAATAA
1 TTAATTTTACTACAATAATAA
46688 TTAATT
1 TTAATT
46694 ACAACTACTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATTTTACTACAATAATAA
Found at i:46886 original size:2 final size:2
Alignment explanation
Indices: 46879--46905 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46869 AATGCTTCAC
46879 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
46906 AAAGTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47293 original size:11 final size:11
Alignment explanation
Indices: 47277--47304 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
47267 TTATCAATTT
47277 AAATTTGGATC
1 AAATTTGGATC
47288 AAATTTGGATC
1 AAATTTGGATC
47299 AAATTT
1 AAATTT
47305 TTTCTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (11 bp):
AAATTTGGATC
Found at i:47382 original size:17 final size:16
Alignment explanation
Indices: 47360--47391 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
47350 TTTTTAAATT
47360 ATATTAAAATAATTAAC
1 ATATTAAAAT-ATTAAC
47377 ATATTAAAATATTAA
1 ATATTAAAATATTAA
47392 TATTTTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATTAAAATATTAAC
Found at i:47545 original size:19 final size:20
Alignment explanation
Indices: 47521--47559 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
47511 TATAAATTAA
47521 ATTATAATC-ATAATTAAAG
1 ATTATAATCAATAATTAAAG
*
47540 ATTATATTCGAATAATTAAA
1 ATTATAATC-AATAATTAAA
47560 TCGGCTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTATAATCAATAATTAAAG
Found at i:48203 original size:18 final size:18
Alignment explanation
Indices: 48177--48213 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48167 TATTTAAATT
*
48177 TAAATATAAATATTAATA
1 TAAAAATAAATATTAATA
*
48195 TAAAAATAAATTTTAATA
1 TAAAAATAAATATTAATA
48213 T
1 T
48214 TATTTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAATAAATATTAATA
Found at i:48661 original size:75 final size:76
Alignment explanation
Indices: 48539--48699 Score: 283
Period size: 77 Copynumber: 2.1 Consensus size: 76
48529 GTTTCCACCT
48539 TTTTA-TATCTTAAGGTAATGAAAAAAGGGAAAATAAAAGGATTTATAGG-TT-TATATATATAT
1 TTTTATTAT-TTAAGGTAATGAAAAAAGGGAAAATAAAAGGATTTATAGGTTTATATATATATAT
48601 ATATAAATAAAA
65 ATATAAATAAAA
48613 TTTTATTATTTAAGGTAATGAAAAAAAGGGAAAATAAAAGGATTTATAGGTTTATATATATATAT
1 TTTTATTATTTAAGGTAATG-AAAAAAGGGAAAATAAAAGGATTTATAGGTTTATATATATATAT
48678 ATATAAATAAAA
65 ATATAAATAAAA
48690 TTTTATTATT
1 TTTTATTATT
48700 CTATAAATGA
Statistics
Matches: 83, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
74 16 0.19
75 32 0.39
76 2 0.02
77 33 0.40
ACGTcount: A:0.48, C:0.01, G:0.12, T:0.39
Consensus pattern (76 bp):
TTTTATTATTTAAGGTAATGAAAAAAGGGAAAATAAAAGGATTTATAGGTTTATATATATATATA
TATAAATAAAA
Found at i:48723 original size:77 final size:72
Alignment explanation
Indices: 48555--48716 Score: 245
Period size: 77 Copynumber: 2.2 Consensus size: 72
48545 ATCTTAAGGT
48555 AATGAAAAAAGGGAAAATAAAAGGATTTATAGGTTTATATATATATATATAAATAAAATTTTATT
1 AATGAAAAAAGGGAAAATAAAAGGATTTATAGGTTTATATATATATATATAAATAAAATTTTATT
48620 ATTTAAGG
66 ATTTAA-G
48628 TAATGAAAAAAAGGGAAAATAAAAGGATTTATAGGTTTATATATATATATATATAAATAAAATTT
1 -AATG-AAAAAAGGGAAAATAAAAGGATTTATAGG-TT-TATATATATATATATAAATAAAATTT
48693 TATTATTCTATA-
62 TATTATT-TA-AG
48705 AATGAATAAAAG
1 AATGAA-AAAAG
48717 AAGAAAACTT
Statistics
Matches: 82, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
74 4 0.05
75 31 0.38
76 11 0.13
77 33 0.40
78 2 0.02
79 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.12, T:0.35
Consensus pattern (72 bp):
AATGAAAAAAGGGAAAATAAAAGGATTTATAGGTTTATATATATATATATAAATAAAATTTTATT
ATTTAAG
Found at i:48912 original size:15 final size:14
Alignment explanation
Indices: 48876--48914 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
48866 ATAAAAAATA
48876 AAATAT-AATATAT
1 AAATATAAATATAT
48889 AAATATAAATATATT
1 AAATATAAATATA-T
*
48904 AAATTTAAATA
1 AAATATAAATA
48915 AAATAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.26
14 6 0.26
15 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATATAAATATAT
Found at i:49363 original size:22 final size:25
Alignment explanation
Indices: 49338--49386 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
49328 CAATTTTTTT
49338 TATTTAAAT-TTA-ATTATAAA-AA
1 TATTTAAATATTATATTATAAATAA
*
49360 TATTTAAATATTATTTTATAAATAA
1 TATTTAAATATTATATTATAAATAA
49385 TA
1 TA
49387 ATATAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 3 0.13
24 7 0.30
25 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATTTAAATATTATATTATAAATAA
Found at i:50173 original size:30 final size:30
Alignment explanation
Indices: 50100--50173 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 30
50090 ATTTAATAAG
50100 TTTATATATTCATATCATATTTATATTATTTT
1 TTTATA-ATT-ATATCATATTTATATTATTTT
*
50132 TTTAT-ATTATATCAT-TTT-TATTTTTATAT
1 TTTATAATTATATCATATTTATATTATT-T-T
50161 TTTATAATTATAT
1 TTTATAATTATAT
50174 TGTATCTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 6 0.16
28 4 0.11
29 13 0.34
30 10 0.26
32 5 0.13
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTATAATTATATCATATTTATATTATTTT
Found at i:50332 original size:20 final size:20
Alignment explanation
Indices: 50295--50370 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
50285 ACAATCAATT
*
50295 ATATTAAAATAAAGAATTTAA
1 ATATT-AAATAAATAATTTAA
* *
50316 ATATTAAATATATAATTTTA
1 ATATTAAATAAATAATTTAA
*
50336 ATAATAAATAAAT-A-TTAA
1 ATATTAAATAAATAATTTAA
50354 ATA-T-AATAAAT-ATTTAA
1 ATATTAAATAAATAATTTAA
50371 TAAAAATATG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
16 8 0.17
17 5 0.10
18 6 0.12
19 1 0.02
20 23 0.48
21 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (20 bp):
ATATTAAATAAATAATTTAA
Found at i:50349 original size:31 final size:33
Alignment explanation
Indices: 50313--50378 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 33
50303 ATAAAGAATT
50313 TAAATATTAAATAT-AT-AAT-TTTAATAATAAA
1 TAAATATTAAATATAATAAATATTTAATAA-AAA
50344 TAAATATTAAATATAATAAATATTTAATAAAAA
1 TAAATATTAAATATAATAAATATTTAATAAAAA
50377 TA
1 TA
50379 TGTATTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 14 0.44
32 2 0.06
33 8 0.25
34 8 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAATATTAAATATAATAAATATTTAATAAAAA
Found at i:50452 original size:15 final size:14
Alignment explanation
Indices: 50434--50522 Score: 51
Period size: 15 Copynumber: 6.1 Consensus size: 14
50424 AAAAGTTAAA
50434 ATTTAATAACATAAT
1 ATTTAATAA-ATAAT
50449 ATTTAATAAATAA-
1 ATTTAATAAATAAT
* *
50462 AATTAA-AATTAAT
1 ATTTAATAAATAAT
* *
50475 TTTTATTAAATCAATT
1 ATTTAATAAAT-AA-T
50491 AATTTAA-AAATATCAT
1 -ATTTAATAAATA--AT
50507 ATTTAATTAAA-AAT
1 ATTTAA-TAAATAAT
50521 AT
1 AT
50523 ACAAGATCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 19
0.68 0.10 0.23
Matches are distributed among these distances:
12 5 0.09
13 8 0.14
14 11 0.19
15 18 0.32
16 7 0.12
17 8 0.14
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTAATAAATAAT
Found at i:53184 original size:2 final size:2
Alignment explanation
Indices: 53177--53212 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
53167 CTATACTGCC
*
53177 CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
53213 GTGTTCCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:53849 original size:58 final size:58
Alignment explanation
Indices: 53723--53842 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
53713 AATCAGAAGG
53723 CCAAAAGTCCATCACTTTTGATACTGCTAAAGAATAGGACTATTTCCAATTTACCATA
1 CCAAAAGTCCATCACTTTTGATACTGCTAAAGAATAGGACTATTTCCAATTTACCATA
53781 CCAAAAGTCCATCACTTTTGATACTGCTAAAGAATAGGACTATTTCCAATTTACCATA
1 CCAAAAGTCCATCACTTTTGATACTGCTAAAGAATAGGACTATTTCCAATTTACCATA
53839 CCAA
1 CCAA
53843 GTGTCCAATG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (58 bp):
CCAAAAGTCCATCACTTTTGATACTGCTAAAGAATAGGACTATTTCCAATTTACCATA
Found at i:56452 original size:7 final size:7
Alignment explanation
Indices: 56417--56451 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
56407 CCATTGCTTC
56417 TTCATAG
1 TTCATAG
56424 TTCATAG
1 TTCATAG
*
56431 TTCACAG
1 TTCATAG
56438 TTCATAG
1 TTCATAG
*
56445 CTCATAG
1 TTCATAG
56452 CCATAGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (7 bp):
TTCATAG
Found at i:59864 original size:19 final size:18
Alignment explanation
Indices: 59842--59908 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 18
59832 CATCCTTTTC
59842 ATTATATTTTCTTTGTAAA
1 ATTAT-TTTTCTTTGTAAA
***
59861 ATTATTTTTGACTTCT-TTTC
1 ATTATTTTT--CTT-TGTAAA
59881 ATTATATTTTCTTTGTAAA
1 ATTAT-TTTTCTTTGTAAA
59900 ATTATTTTT
1 ATTATTTTT
59909 GACTTAATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
18 9 0.24
19 14 0.38
20 9 0.24
21 5 0.14
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.63
Consensus pattern (18 bp):
ATTATTTTTCTTTGTAAA
Found at i:59882 original size:39 final size:39
Alignment explanation
Indices: 59836--59913 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
59826 ATTTACCATC
59836 CTTTTCATTATATTTTCTTTGTAAAATTATTTTTGACTT
1 CTTTTCATTATATTTTCTTTGTAAAATTATTTTTGACTT
59875 CTTTTCATTATATTTTCTTTGTAAAATTATTTTTGACTT
1 CTTTTCATTATATTTTCTTTGTAAAATTATTTTTGACTT
59914 AATCATTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (39 bp):
CTTTTCATTATATTTTCTTTGTAAAATTATTTTTGACTT
Found at i:60814 original size:26 final size:26
Alignment explanation
Indices: 60754--60816 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
60744 TTTTATGAAT
*
60754 ATTTATATTTTTAATAATTAAATTTAA
1 ATTTA-ATTTTTAATAATTAAATATAA
** *
60781 ATAAAATTTTTATTAATTAAATA-ATA
1 ATTTAATTTTTAATAATTAAATATA-A
60807 ATTTAATTTT
1 ATTTAATTTT
60817 AAATTTGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.03
26 25 0.86
27 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTTAATTTTTAATAATTAAATATAA
Found at i:64041 original size:110 final size:110
Alignment explanation
Indices: 63807--64136 Score: 628
Period size: 110 Copynumber: 3.0 Consensus size: 110
63797 AGCTACTATA
63807 TCCTTAAATTTGTCTACTTTTGATCTTTGGAAATCATGACCAACTTCATAAATATCATTTTTTTT
1 TCCTTAAATTTGTCTACTTTTGATCTTTGGAAATCATGACCAACTTCATAAATATCATTTTTTTT
*
63872 --TACATCCTTCAAGAAAAGGTGTTCATGATAAGTCTGAATTATT
66 ACAACATCCTTCAAGAAAAGGTGTTCATGATAAGTCTGAATTATT
63915 TCCTTAAATTTGTCTACTTTTGATCTTTGGAAATCATGACCAACTTCATAAATATCATTTTTTTT
1 TCCTTAAATTTGTCTACTTTTGATCTTTGGAAATCATGACCAACTTCATAAATATCATTTTTTTT
63980 ACAACATCCTTCAAGAAAAGGTGTTCATGATAAGTCTGAATTATT
66 ACAACATCCTTCAAGAAAAGGTGTTCATGATAAGTCTGAATTATT
64025 TCCTTAAATTTGTCTACTTTTGATCTTTGGAAATCATGACCAACTTCATAAATATCATTTTTTTT
1 TCCTTAAATTTGTCTACTTTTGATCTTTGGAAATCATGACCAACTTCATAAATATCA-TTTTTTT
64090 TACAACATCCTTCAAGAAAAGGTGTTCATGATAAGTCTGAATTATT
65 TACAACATCCTTCAAGAAAAGGTGTTCATGATAAGTCTGAATTATT
64136 T
1 T
64137 TTGATTTTTT
Statistics
Matches: 218, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
108 65 0.30
110 99 0.45
111 54 0.25
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (110 bp):
TCCTTAAATTTGTCTACTTTTGATCTTTGGAAATCATGACCAACTTCATAAATATCATTTTTTTT
ACAACATCCTTCAAGAAAAGGTGTTCATGATAAGTCTGAATTATT
Found at i:65769 original size:27 final size:26
Alignment explanation
Indices: 65699--65769 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 26
65689 TTAATTATTG
65699 TTAAA-AAT-ATTT-ATATTTTTATAA
1 TTAAATAATAATTTAAT-TTTTTATAA
* * *
65723 TTAAAT-TTAAATAAATTTTTTTATTAA
1 TTAAATAATAATTTAA-TTTTTTA-TAA
65750 TTAAATAATAATTTAATTTT
1 TTAAATAATAATTTAATTTT
65770 AAACTTAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
24 6 0.17
25 2 0.06
26 7 0.20
27 14 0.40
28 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTAAATAATAATTTAATTTTTTATAA
Found at i:68595 original size:21 final size:19
Alignment explanation
Indices: 68541--68608 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 19
68531 CGTTAATCTG
68541 AATTTACTATTTTAATATATTA
1 AATTTA-TATTTT--TATATTA
*
68563 AATAT-TATTTTTATATTA
1 AATTTATATTTTTATATTA
68581 ATATTTATATATTTTATTATTA
1 A-ATTTATAT-TTTTA-TATTA
68603 AATTTA
1 AATTTA
68609 AATAAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 8 0.20
19 3 0.08
20 9 0.22
21 10 0.25
22 10 0.25
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTATATTTTTATATTA
Found at i:68630 original size:23 final size:23
Alignment explanation
Indices: 68594--68650 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
68584 TTTATATATT
68594 TTATTATTAAATTTAAATAAA-AA
1 TTATTATTAAATTT-AATAAATAA
** *
68617 TTATTATTTTATTTTATAAATAA
1 TTATTATTAAATTTAATAAATAA
68640 TTA-TA-TAAATT
1 TTATTATTAAATT
68651 AGATCAAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 4 0.14
22 7 0.25
23 17 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATTATTAAATTTAATAAATAA
Found at i:69082 original size:12 final size:12
Alignment explanation
Indices: 69065--69102 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
69055 TTAAAATAAT
*
69065 TTTTTATTAAAA
1 TTTTTATAAAAA
69077 TTTTTA-AAAATA
1 TTTTTATAAAA-A
69089 TTTTTATAAAAA
1 TTTTTATAAAAA
69101 TT
1 TT
69103 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 3 0.13
12 16 0.70
13 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTTATAAAAA
Found at i:69324 original size:27 final size:28
Alignment explanation
Indices: 69279--69334 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
69269 AAATTTGAGT
*
69279 TAATTTGAAAAGATAAAATATATTAAAA
1 TAATTTGAAAAGATAAAATATATAAAAA
* * *
69307 TAATTT-AAAATATTAAATTTATAAAAA
1 TAATTTGAAAAGATAAAATATATAAAAA
69334 T
1 T
69335 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (28 bp):
TAATTTGAAAAGATAAAATATATAAAAA
Found at i:69428 original size:38 final size:39
Alignment explanation
Indices: 69386--69473 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 39
69376 AAAACTTAAA
69386 TAAAATTAATAAAATAATATATAATTTTAA-AATATT-TT
1 TAAAATTAATAAAAT-ATATATAATTTTAATAATATTATT
* * *
69424 TAAAAAAATAAATAAAATATATATTATTTTAATAATTTTATT
1 T---AAAATTAATAAAATATATATAATTTTAATAATATTATT
69466 TATAAATT
1 TA-AAATT
69474 TTTTAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
38 1 0.03
39 1 0.03
40 17 0.43
41 18 0.45
42 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (39 bp):
TAAAATTAATAAAATATATATAATTTTAATAATATTATT
Found at i:69533 original size:20 final size:20
Alignment explanation
Indices: 69510--69548 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
69500 ATTTATTTTT
* *
69510 AATAATATATTTATAATAAA
1 AATAAAATAATTATAATAAA
69530 AATAAAATAATTATAATAA
1 AATAAAATAATTATAATAA
69549 TTAAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAAAATAATTATAATAAA
Found at i:73062 original size:28 final size:27
Alignment explanation
Indices: 73031--73083 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
73021 ATATGAAATC
73031 TTAAAT-ATTTAAAATTAAAAAATATATA
1 TTAAATCA-TTAAAATT-AAAAATATATA
*
73059 TTAAATCATTAAAATTTAAAATATA
1 TTAAATCATTAAAATTAAAAATATA
73084 AAATTTCAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 14 0.61
29 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
TTAAATCATTAAAATTAAAAATATATA
Found at i:78090 original size:2 final size:2
Alignment explanation
Indices: 78083--78110 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
78073 TACTAATTGC
78083 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
78111 TAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78454 original size:32 final size:32
Alignment explanation
Indices: 78376--78473 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 32
78366 TGTATTATAT
78376 TTACATATTCATATT-TATATAAA-TTTAATATA
1 TTACATATTCATATTATATA-AAATTTTAA-ATA
* *
78408 GTA-ATAATTTATATTATATAAAATTTTAAATA
1 TTACAT-ATTCATATTATATAAAATTTTAAATA
* * * *
78440 TTACGTATTCATATTATATCATATTTTAATTA
1 TTACATATTCATATTATATAAAATTTTAAATA
78472 TT
1 TT
78474 TTTATATCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
31 2 0.04
32 42 0.78
33 10 0.19
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (32 bp):
TTACATATTCATATTATATAAAATTTTAAATA
Found at i:78492 original size:13 final size:12
Alignment explanation
Indices: 78453--78496 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
78443 CGTATTCATA
78453 TTATATCATATT
1 TTATATCATATT
*
78465 TTA-ATTAT-TT
1 TTATATCATATT
78475 TTATATCATATT
1 TTATATCATATT
78487 TATATATCAT
1 T-TATATCAT
78497 GTCTAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 5 0.19
11 8 0.30
12 6 0.22
13 8 0.30
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATATCATATT
Found at i:79191 original size:15 final size:15
Alignment explanation
Indices: 79173--79204 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
79163 TCAAGCATAC
79173 CATATCTGACTCTCA
1 CATATCTGACTCTCA
79188 CATATCTGACTCTCA
1 CATATCTGACTCTCA
79203 CA
1 CA
79205 ATCGAATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.34, G:0.06, T:0.31
Consensus pattern (15 bp):
CATATCTGACTCTCA
Found at i:81588 original size:26 final size:27
Alignment explanation
Indices: 81541--81591 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
81531 TTATTAGAAA
81541 GAAAACTTGTAACTATGCCTTTTCAAT
1 GAAAACTTGTAACTATGCCTTTTCAAT
81568 GAAAACTTGT-ACTATGCCTTTTCA
1 GAAAACTTGTAACTATGCCTTTTCA
81592 TTTCACTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (27 bp):
GAAAACTTGTAACTATGCCTTTTCAAT
Found at i:83576 original size:21 final size:23
Alignment explanation
Indices: 83550--83591 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
83540 TCTAGTGCTT
*
83550 CTTTTT-ATATTTTTT-TTTACC
1 CTTTTTAAAATTTTTTATTTACC
83571 CTTTTTAAAATTTTTTATTTA
1 CTTTTTAAAATTTTTTATTTA
83592 TAATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (23 bp):
CTTTTTAAAATTTTTTATTTACC
Found at i:83793 original size:23 final size:23
Alignment explanation
Indices: 83767--83813 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
83757 TCATTAAATG
*
83767 AATTAATTTA-ATAATATATAAAA
1 AATTAATATATAT-ATATATAAAA
*
83790 AATTAATATATATATATATGAAA
1 AATTAATATATATATATATAAAA
83813 A
1 A
83814 TTTGTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTAATATATATATATATAAAA
Found at i:84199 original size:20 final size:20
Alignment explanation
Indices: 84169--84216 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
84159 TTGTTATTTA
84169 TTAAGTTTCTAAATTGCCATT
1 TTAA-TTTCTAAATTGCCATT
84190 TTAATTTCTAAATTGCCATT
1 TTAATTTCTAAATTGCCATT
84210 TTAATTT
1 TTAATTT
84217 TTCTAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTAATTTCTAAATTGCCATT
Found at i:84568 original size:62 final size:62
Alignment explanation
Indices: 84470--84593 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
84460 CCTGTAACAT
*
84470 AGTCTTGCAGTAAGTATGGTTTAAGATTTAAAATATTTACCAGCATGAATCAGCAATACCTA
1 AGTCTTGCAGGAAGTATGGTTTAAGATTTAAAATATTTACCAGCATGAATCAGCAATACCTA
*
84532 AGTCTTGCAGGAAGTATGGTTTAAGATTTAAGATATTTACCAGCATGAATCAGCAATACCTA
1 AGTCTTGCAGGAAGTATGGTTTAAGATTTAAAATATTTACCAGCATGAATCAGCAATACCTA
84594 TTTCAAATTC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (62 bp):
AGTCTTGCAGGAAGTATGGTTTAAGATTTAAAATATTTACCAGCATGAATCAGCAATACCTA
Found at i:85698 original size:523 final size:521
Alignment explanation
Indices: 84708--85737 Score: 1668
Period size: 523 Copynumber: 2.0 Consensus size: 521
84698 CGTACTGGAA
* * ** * * *
84708 AAAAATGTGCATTTAGTTATACTTTCGGATTGGATCATAAACAAATAATTGCTCAGTTGCTTTGT
1 AAAAATCTGCATTTAGTTACACTTTCGGATCAGATCATAAACAAATAATTGATCAGTGGATTTGT
* *
84773 CAGCTAAACTAGTGGTTCCATAAAAGTTCTCATGTCGTTCTCATCTTCCTTTGATTCTCTATAAT
66 CAGCTAAACCAGTGGTTCCATAAAAGTTCTCATGTCGTTCGCATCTTCCTTTGATTCTCTATAAT
*
84838 TTTGCGGTTTAAAAAGTTTCCACATCACAACTGGACACCGCCTTTGAAGGCCAGCACATTCAGCA
131 TTTGCGGTTTAAAAAGCTTCCACATCACAACTGGACACCGCCTTTGAAGGCCAGCACATTCAGCA
*
84903 AACCTCCCAAACATCTTTTGCATTCCGGCTATGGCTTGACATACAAATCATAGAATCTAAGCCTA
196 AACCTCCCAAACATCTTTTGCATTCCGGATATGGCTTGACATACAAATCATAGAATCTAAGCCTA
84968 CTTGGCTTTATCAAACTCTTCAACCCCACATCAAATCCCAGTGCACCTTTTGATCTCAAATACTC
261 CTTGGCTTTATCAAACTCTTCAACCCCACATCAAATCCCAGTGCACCTTTTGATCTCAAATACTC
* * *
85033 AATTACATTGTAGTGAGGATCAATCTGTTTGTCGAAATTTACACCCAGATACTCAGGAACATCAA
326 AATTACATTGTAATGAGGAACAATCTGTTTGTCAAAATTTACACCCAGATACTCAGGAACATCAA
* * *
85098 CCAAGCAACCAACACCGTACTTCATCGTTTTCACCAAGAACTTGATTTTCTTCTCCACCTCCTCT
391 CCAAGCAACCAACACCGTACTTCATCGTGTTAACCAAGAACTTGATTTTCTTCTCAACCTCCTCT
* *
85163 ATCTCATATAAAATCAATCTTGGTTTTTTCCATAGAGACCTTAAATGCTTCTCCGCGAACCAACG
456 ATCTCATATAAAATCAATCTTGGCTCTTTCCATAG-GACCTTAAATGCTTCTCCGCGAACCAACG
85228 GG
520 GG
* * * *
85230 AAAAATCTGCATTTAGTTACACTTTCGGCTCAGATTATATACAAATCATTGATCAGTGGATTTGT
1 AAAAATCTGCATTTAGTTACACTTTCGGATCAGATCATAAACAAATAATTGATCAGTGGATTTGT
* * *
85295 CAGCTAAACCAGTGGTTCCATAAAAGTTTTCATGTTGTTCGCATCTTCCTTTGATTCTCTATACT
66 CAGCTAAACCAGTGGTTCCATAAAAGTTCTCATGTCGTTCGCATCTTCCTTTGATTCTCTATAAT
* ** * *
85360 TTTGCGGTTTAAAAAGCTTCCACATCCCAACTGGATGCCGCCTTTGAAGGCCAGCGCCTTCAGCA
131 TTTGCGGTTTAAAAAGCTTCCACATCACAACTGGACACCGCCTTTGAAGGCCAGCACATTCAGCA
* * *
85425 AACCTCCCAAACATCTTTTCGCATTCTGGATATGGCTTGACATACAGATTATAGAATCTAAGCCT
196 AACCTCCCAAACATCTTTT-GCATTCCGGATATGGCTTGACATACAAATCATAGAATCTAAGCCT
85490 ACTTGGCTTTATCAAACTCTTCAACCCCACATCAAATCCCAGTGCACCTTTTGATCTCAAATACT
260 ACTTGGCTTTATCAAACTCTTCAACCCCACATCAAATCCCAGTGCACCTTTTGATCTCAAATACT
* *
85555 CAATTACATTG-AATCGAGGAACAATCTGTTTGTCAAAATTTGCACCCAGATACTCTGGAACATC
325 CAATTACATTGTAAT-GAGGAACAATCTGTTTGTCAAAATTTACACCCAGATACTCAGGAACATC
* *
85619 AACCAAGCAACCAACACCGTACTTCATCGTGTTAACCAAGAACTCT-ATTTTCTTTTCAATCTCC
389 AACCAAGCAACCAACACCGTACTTCATCGTGTTAACCAAGAACT-TGATTTTCTTCTCAACCTCC
85683 TCTATCTCATATAAAATCAATCTTGGCTCTTTCCATAGGACCTTAAATGCTTCTC
453 TCTATCTCATATAAAATCAATCTTGGCTCTTTCCATAGGACCTTAAATGCTTCTC
85738 GACGGATCAA
Statistics
Matches: 467, Mismatches: 38, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
522 211 0.45
523 255 0.55
524 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (521 bp):
AAAAATCTGCATTTAGTTACACTTTCGGATCAGATCATAAACAAATAATTGATCAGTGGATTTGT
CAGCTAAACCAGTGGTTCCATAAAAGTTCTCATGTCGTTCGCATCTTCCTTTGATTCTCTATAAT
TTTGCGGTTTAAAAAGCTTCCACATCACAACTGGACACCGCCTTTGAAGGCCAGCACATTCAGCA
AACCTCCCAAACATCTTTTGCATTCCGGATATGGCTTGACATACAAATCATAGAATCTAAGCCTA
CTTGGCTTTATCAAACTCTTCAACCCCACATCAAATCCCAGTGCACCTTTTGATCTCAAATACTC
AATTACATTGTAATGAGGAACAATCTGTTTGTCAAAATTTACACCCAGATACTCAGGAACATCAA
CCAAGCAACCAACACCGTACTTCATCGTGTTAACCAAGAACTTGATTTTCTTCTCAACCTCCTCT
ATCTCATATAAAATCAATCTTGGCTCTTTCCATAGGACCTTAAATGCTTCTCCGCGAACCAACGG
G
Found at i:86808 original size:25 final size:29
Alignment explanation
Indices: 86755--86816 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
86745 ATTAAATTAT
*
86755 TATTAAATTAATAAAAATAATTTTATTTAA
1 TATTTAATTAATAAAAATAA-TTTATTTAA
86785 -ATTTAATT-ATAAAAATAA-TT-TTTAA
1 TATTTAATTAATAAAAATAATTTATTTAA
86810 TATTTAA
1 TATTTAA
86817 ATATGTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 5 0.17
26 8 0.27
28 10 0.33
29 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TATTTAATTAATAAAAATAATTTATTTAA
Found at i:87316 original size:22 final size:22
Alignment explanation
Indices: 87255--87330 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 22
87245 GTTTTGATAA
* *
87255 AAATT-AAAATTTTTAT-TTCT
1 AAATTAAAAATATTTATATTAT
87275 AAATTAAATAA-A-TTATATTA-
1 AAATTAAA-AATATTTATATTAT
87295 AAATTAAAAATATTTATAATTAT
1 AAATTAAAAATATTTAT-ATTAT
* *
87318 AATTTATAAATAT
1 AAATTAAAAATAT
87331 AAAAATGATA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
19 2 0.04
20 18 0.40
21 8 0.18
22 6 0.13
23 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTAAAAATATTTATATTAT
Found at i:90582 original size:84 final size:84
Alignment explanation
Indices: 90441--90611 Score: 342
Period size: 84 Copynumber: 2.0 Consensus size: 84
90431 TCATCGAACT
90441 TAGTTTGTTGATTAGCCCATAATACTCATACATTTCTGGTTTTTATTATTAGAAGGTGCATAGCT
1 TAGTTTGTTGATTAGCCCATAATACTCATACATTTCTGGTTTTTATTATTAGAAGGTGCATAGCT
90506 TCGGTCTTTATGGAAGGTA
66 TCGGTCTTTATGGAAGGTA
90525 TAGTTTGTTGATTAGCCCATAATACTCATACATTTCTGGTTTTTATTATTAGAAGGTGCATAGCT
1 TAGTTTGTTGATTAGCCCATAATACTCATACATTTCTGGTTTTTATTATTAGAAGGTGCATAGCT
90590 TCGGTCTTTATGGAAGGTA
66 TCGGTCTTTATGGAAGGTA
90609 TAG
1 TAG
90612 GGGGTTCTTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (84 bp):
TAGTTTGTTGATTAGCCCATAATACTCATACATTTCTGGTTTTTATTATTAGAAGGTGCATAGCT
TCGGTCTTTATGGAAGGTA
Found at i:94907 original size:13 final size:13
Alignment explanation
Indices: 94876--94919 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
94866 TATTTATATC
*
94876 ATATAAAGATTAA
1 ATATAAATATTAA
94889 ATATATAATATTATA
1 ATATA-AATATTA-A
94904 ATATAAATATTAA
1 ATATAAATATTAA
94917 ATA
1 ATA
94920 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 9 0.32
14 13 0.46
15 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATAAATATTAA
Found at i:95200 original size:15 final size:14
Alignment explanation
Indices: 95179--95221 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
95169 TAAGATAAGT
95179 AAAAATTATAAATA
1 AAAAATTATAAATA
*
95193 TTAAAATT-TAAATA
1 -AAAAATTATAAATA
95207 AAAAATTATTAAATA
1 AAAAATTA-TAAATA
95222 CTATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 6 0.25
14 6 0.25
15 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAAATTATAAATA
Found at i:95627 original size:3 final size:3
Alignment explanation
Indices: 95619--95655 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
95609 ATTTCGGCGT
95619 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
95656 ATGTGCAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:95833 original size:20 final size:18
Alignment explanation
Indices: 95808--95855 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
95798 CTATGATAAT
95808 ATTAAATAATATAAAAAATA
1 ATTAAA-AATATAAAAAA-A
95828 ATT-AAAATATAAAAAAA
1 ATTAAAAATATAAAAAAA
95845 ATATAAAAATA
1 AT-TAAAAATA
95856 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.12
18 12 0.46
19 8 0.31
20 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTAAAAATATAAAAAAA
Found at i:95904 original size:18 final size:17
Alignment explanation
Indices: 95878--95941 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 17
95868 AATATTTTAA
* *
95878 TATTTATATAATATGAAT
1 TATTAATATAATA-AAAT
*
95896 TATTAATATATTAAAAT
1 TATTAATATAATAAAAT
*
95913 TATATAATATAA-AATAT
1 TAT-TAATATAATAAAAT
95930 T-TTAATCATAAT
1 TATTAAT-ATAAT
95942 TCTAATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 4 0.11
16 5 0.13
17 11 0.29
18 18 0.47
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTAATATAATAAAAT
Found at i:96429 original size:22 final size:23
Alignment explanation
Indices: 96384--96427 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
96374 GATCGAAATA
*
96384 AAAATAATTAAAATATTAATTTT
1 AAAATAATTAAAATATAAATTTT
96407 AAAA-AATTAAAATA-AAATTTT
1 AAAATAATTAAAATATAAATTTT
96428 TATTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATAATTAAAATATAAATTTT
Found at i:97773 original size:27 final size:28
Alignment explanation
Indices: 97718--97770 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
97708 AATATATGTT
97718 TTTTAAAGTTATTTATAAATATATAAATA
1 TTTTAAAG-TATTTATAAATATATAAATA
*
97747 TTTTAAA-TATTTTTAAATA-ATAAA
1 TTTTAAAGTATTTATAAATATATAAA
97771 ATAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 11 0.48
29 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
TTTTAAAGTATTTATAAATATATAAATA
Found at i:98357 original size:22 final size:21
Alignment explanation
Indices: 98318--98366 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
98308 ACTTTTATAA
*
98318 AAATTTAAGTTTATTTAAAATT
1 AAATTTAAATTTATTT-AAATT
*
98340 TAATTTAAATTTGA-TTAAATT
1 AAATTTAAATTT-ATTTAAATT
98361 AAATTT
1 AAATTT
98367 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.43
22 12 0.52
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
AAATTTAAATTTATTTAAATT
Found at i:98377 original size:15 final size:15
Alignment explanation
Indices: 98341--98382 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
98331 TTTAAAATTT
98341 AATTTAAATTTGATTA
1 AATTTAAATTT-ATTA
98357 AA-TTAAATTT-TTAA
1 AATTTAAATTTATT-A
98371 AATTTAAATTTA
1 AATTTAAATTTA
98383 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.09
14 3 0.13
15 16 0.70
16 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTTAAATTTATTA
Found at i:98400 original size:35 final size:35
Alignment explanation
Indices: 98331--98400 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
98321 TTTAAGTTTA
* * *
98331 TTTAAAATTTAATTTAAATTTGATTAAATTAAATT
1 TTTAAAATTTAATTTAAATTTAAATAAATAAAATT
*
98366 TTTAAAATTTAAATTTAATTTTAAATAAA-AAAATT
1 TTTAAAATTT-AATTTAAATTTAAATAAATAAAATT
98401 CAAATTCACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (35 bp):
TTTAAAATTTAATTTAAATTTAAATAAATAAAATT
Found at i:103362 original size:20 final size:21
Alignment explanation
Indices: 103334--103372 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
103324 AATAAATTAA
103334 TTTAATATTTAA-TTTTAAAT
1 TTTAATATTTAAGTTTTAAAT
*
103354 TTTATTATTTAAGTTTTAA
1 TTTAATATTTAAGTTTTAA
103373 TTTAAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTAATATTTAAGTTTTAAAT
Found at i:103374 original size:20 final size:19
Alignment explanation
Indices: 103330--103375 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
103320 TAAAAATAAA
103330 TTAA-TTTAATATTTAATT
1 TTAATTTTAATATTTAATT
*
103348 TTAAATTTTATTATTTAAGTT
1 TT-AATTTTAATATTTAA-TT
103369 TTAATTT
1 TTAATTT
103376 AAATTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 2 0.08
20 16 0.67
21 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTAATTTTAATATTTAATT
Found at i:103649 original size:2 final size:2
Alignment explanation
Indices: 103642--103676 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
103632 GGTTGTAGCG
*
103642 CT CT CT CT CT CT AT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
103677 CCTTAGCTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:104688 original size:172 final size:172
Alignment explanation
Indices: 104399--104736 Score: 491
Period size: 171 Copynumber: 2.0 Consensus size: 172
104389 GTTTGCCTGC
* * *
104399 TAATAGGTCGAGTTCGGATATGGCTAAATCACTGGTCTCTAATCTAGAGGTAATTTATCAAGCTA
1 TAATAGGTCGAGTTCGGATATGGCAAAATCACTGGCCTCTAATCTAAAGGTAATTTATCAAGCTA
* *
104464 TCGTTTTCGTTGGCAACTAAGAGTTACAAATCTGAAGCATATCATCCTGC-TTTTGCCCAATAAG
66 TCCTTTTCGTTGGCAACTAAGAGTTACAAATCTGAAGCATATCATACTGCTTTTTGCCCAATAAG
*
104528 TTAGCTTAGATTACTTTGTAGTTCCATTCTGTTATATTTATG
131 TTAGCTTAGATTACTTTGTAGTTCCATTATGTTATATTTATG
* * * * **
104570 TAATAGGTCGAGTTTGGATGTGGCAAAATCACTGGCCTTTTATCTAAAGGTAATTTATTGAGCTT
1 TAATAGGTCGAGTTCGGATATGGCAAAATCACTGGCCTCTAATCTAAAGGTAATTTATCAAGC-T
* *
104635 ATCCTTTTCGTTGGTAACTAAGAGTTA-AGAATCTGGAGCATATCATACTGCTTTTTGCCCAATA
65 ATCCTTTTCGTTGGCAACTAAGAGTTACA-AATCTGAAGCATATCATACTGCTTTTTGCCCAATA
* * *
104699 TGTTAGCTTGGATTACTTTTTAGTTCCATTATGTTATA
129 AGTTAGCTTAGATTACTTTGTAGTTCCATTATGTTATA
104737 CATATGCACC
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
171 55 0.37
172 46 0.31
173 46 0.31
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (172 bp):
TAATAGGTCGAGTTCGGATATGGCAAAATCACTGGCCTCTAATCTAAAGGTAATTTATCAAGCTA
TCCTTTTCGTTGGCAACTAAGAGTTACAAATCTGAAGCATATCATACTGCTTTTTGCCCAATAAG
TTAGCTTAGATTACTTTGTAGTTCCATTATGTTATATTTATG
Found at i:108401 original size:14 final size:14
Alignment explanation
Indices: 108382--108409 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
108372 TAAACAATTT
108382 GGTTTAGTAAAATC
1 GGTTTAGTAAAATC
108396 GGTTTAGTAAAATC
1 GGTTTAGTAAAATC
108410 AATTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GGTTTAGTAAAATC
Found at i:109127 original size:35 final size:35
Alignment explanation
Indices: 109081--109161 Score: 130
Period size: 33 Copynumber: 2.4 Consensus size: 35
109071 CAATAAGTTT
* *
109081 ATGCAATTAGTTTTGTAGGATTCGTGTCTGTGTTC
1 ATGCAACTAGTTTTGTAGGATTAGTGTCTGTGTTC
109116 ATGCAACTAG--TTGTAGGATTAGTGTCTGTGTTC
1 ATGCAACTAGTTTTGTAGGATTAGTGTCTGTGTTC
109149 ATGCAACTAGTTT
1 ATGCAACTAGTTT
109162 GCTGTTCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 32 0.76
35 10 0.24
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (35 bp):
ATGCAACTAGTTTTGTAGGATTAGTGTCTGTGTTC
Found at i:111896 original size:21 final size:21
Alignment explanation
Indices: 111857--111896 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
111847 TTGTAAAATT
*
111857 TAAAAAATTTCTTTCAATAAA
1 TAAAAAATTTCTCTCAATAAA
111878 TAAAATAATTTCTCT-AATA
1 TAAAA-AATTTCTCTCAATA
111897 TTTAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAATTTCTCTCAATAAA
Found at i:112192 original size:26 final size:24
Alignment explanation
Indices: 112163--112211 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
112153 TTTAATTACA
112163 ATATGAAAAAAATAAAATATAATATG
1 ATAT-AAAAAAATAAAATA-AATATG
* *
112189 ATATAAAAATATTAAATAAATAT
1 ATATAAAAAAATAAAATAAATAT
112212 ATGAATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
ATATAAAAAAATAAAATAAATATG
Found at i:112675 original size:2 final size:2
Alignment explanation
Indices: 112668--112699 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
112658 TTTGGAAAAC
*
112668 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112700 TAATATGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:113341 original size:17 final size:18
Alignment explanation
Indices: 113307--113341 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
113297 AGGTAGAGGA
113307 AGTTTGAAAGAGCAAATT
1 AGTTTGAAAGAGCAAATT
113325 AGTTTGAAAGA-CAAATT
1 AGTTTGAAAGAGCAAATT
113342 GCATGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.29
Consensus pattern (18 bp):
AGTTTGAAAGAGCAAATT
Done.