Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012697.1 Kokia drynarioides strain JFW-HI SEQ_127708, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91801
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 78 characters in sequence are not A, C, G, or T
Found at i:920 original size:18 final size:18
Alignment explanation
Indices: 897--933 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
887 TTTGTGATCA
897 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
915 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
933 A
1 A
934 TATGAATTGT
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:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:8178 original size:20 final size:20
Alignment explanation
Indices: 8153--8203 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
8143 CTTGTAACTC
8153 AGGTATCGATACATTTTCAA
1 AGGTATCGATACATTTTCAA
8173 AGGTATCGATACATTTTCAA
1 AGGTATCGATACATTTTCAA
8193 AGGTATCGATA
1 AGGTATCGATA
8204 TTTTTCGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
AGGTATCGATACATTTTCAA
Found at i:9037 original size:22 final size:22
Alignment explanation
Indices: 9012--9062 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
9002 ATAAACGAAA
9012 CAAACAGAGAGTATCGAAGTAC
1 CAAACAGAGAGTATCGAAGTAC
9034 CAAACAGAGAGTATCGAAGTAC
1 CAAACAGAGAGTATCGAAGTAC
*
9056 TAAACAG
1 CAAACAG
9063 TGAGCACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (22 bp):
CAAACAGAGAGTATCGAAGTAC
Found at i:9137 original size:23 final size:23
Alignment explanation
Indices: 9106--9184 Score: 90
Period size: 23 Copynumber: 3.4 Consensus size: 23
9096 CACGGTACTG
*
9106 ATCAATAAGCACACACAATGC-A
1 ATCAGTAAGCACACACAATGCGA
* *
9128 ATCCAGTAAGCATACACAGTGCGA
1 AT-CAGTAAGCACACACAATGCGA
*
9152 ATCAGTAAGCACACACAGTGCTGA
1 ATCAGTAAGCACACACAATGC-GA
9176 A-CAGTAAGC
1 ATCAGTAAGC
9185 GCGCTAGTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
22 2 0.04
23 42 0.84
24 6 0.12
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.15
Consensus pattern (23 bp):
ATCAGTAAGCACACACAATGCGA
Found at i:9181 original size:46 final size:44
Alignment explanation
Indices: 9081--9184 Score: 111
Period size: 46 Copynumber: 2.3 Consensus size: 44
9071 TAAGTGTTGG
*
9081 GCAACAGTAAGCACACACGGTACTGATCAATAAGCACACACAAT
1 GCAACAGTAAGCACACACAGTACTGATCAATAAGCACACACAAT
* * * *
9125 GCAATCCAGTAAGCATACACAGTGC-GAATCAGTAAGCACACACAGT
1 GCAA--CAGTAAGCACACACAGTACTG-ATCAATAAGCACACACAAT
9171 GCTGAACAGTAAGC
1 GC--AACAGTAAGC
9185 GCGCTAGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
44 4 0.08
45 1 0.02
46 43 0.86
48 2 0.04
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.14
Consensus pattern (44 bp):
GCAACAGTAAGCACACACAGTACTGATCAATAAGCACACACAAT
Found at i:10566 original size:15 final size:15
Alignment explanation
Indices: 10546--10576 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10536 GAAGCTTGGA
10546 GGGCTTAACAATGGT
1 GGGCTTAACAATGGT
10561 GGGCTTAACAATGGT
1 GGGCTTAACAATGGT
10576 G
1 G
10577 AAGGGACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.35, T:0.26
Consensus pattern (15 bp):
GGGCTTAACAATGGT
Found at i:10682 original size:19 final size:20
Alignment explanation
Indices: 10655--10692 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10645 AAAGAGAAGA
* *
10655 TGATATTTTTATCTTTTAAT
1 TGATATTTTCATCTCTTAAT
10675 TGAT-TTTTCATCTCTTAA
1 TGATATTTTCATCTCTTAA
10693 ATTTTCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.61
Consensus pattern (20 bp):
TGATATTTTCATCTCTTAAT
Found at i:18620 original size:13 final size:13
Alignment explanation
Indices: 18579--18614 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
18569 ATCAGATTAA
*
18579 ATGAATGGCAGCC
1 ATGAGTGGCAGCC
18592 ATGAGTGGCAGCC
1 ATGAGTGGCAGCC
18605 ATGAGTGGCA
1 ATGAGTGGCA
18615 AGCATGTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.36, T:0.17
Consensus pattern (13 bp):
ATGAGTGGCAGCC
Found at i:19854 original size:25 final size:25
Alignment explanation
Indices: 19826--19928 Score: 79
Period size: 25 Copynumber: 4.1 Consensus size: 25
19816 TTTGTAATAA
19826 TTAATTATAATTATTGATATTATTT
1 TTAATTATAATTATTGATATTATTT
* *
19851 TTAATCATAATTA--GAGTATTCATTG
1 TTAATTATAATTATTGA-TATT-ATTT
* * * **
19876 TTAATT-TAATCATATT-TTGTAATAA
1 TTAATTATAAT--TATTGATATTATTT
19901 TTAATTATAATTATTGATATTATTT
1 TTAATTATAATTATTGATATTATTT
19926 TTA
1 TTA
19929 CTCATACTTA
Statistics
Matches: 57, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
23 2 0.04
24 12 0.21
25 35 0.61
26 8 0.14
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (25 bp):
TTAATTATAATTATTGATATTATTT
Found at i:19879 original size:75 final size:75
Alignment explanation
Indices: 19797--19949 Score: 279
Period size: 75 Copynumber: 2.0 Consensus size: 75
19787 ATATATTCTG
19797 ATTGTTAATCTAATCATATTTTGTAATAATTAATTATAATTATTGATATTATTTTTAATCATAAT
1 ATTGTTAATCTAATCATATTTTGTAATAATTAATTATAATTATTGATATTATTTTTAATCATAAT
19862 TAGAGTATTC
66 TAGAGTATTC
* * *
19872 ATTGTTAATTTAATCATATTTTGTAATAATTAATTATAATTATTGATATTATTTTTACTCATACT
1 ATTGTTAATCTAATCATATTTTGTAATAATTAATTATAATTATTGATATTATTTTTAATCATAAT
19937 TAGAGTATTC
66 TAGAGTATTC
19947 ATT
1 ATT
19950 ACTAATACTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.52
Consensus pattern (75 bp):
ATTGTTAATCTAATCATATTTTGTAATAATTAATTATAATTATTGATATTATTTTTAATCATAAT
TAGAGTATTC
Found at i:20290 original size:66 final size:66
Alignment explanation
Indices: 20192--20322 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 66
20182 GGTGCTATAC
*
20192 TGGATTTAAATCAAATTTCAGATCATTCTATCTTAATTGTTTGCCTCCATTATGTTGTTGCTAGC
1 TGGATTTAAATCAAATTTCAAATCATTCTATCTTAATTGTTTGCCTCCATTATGTTGTTGCTAGC
20257 T
66 T
*
20258 TGGATTTAAATCAGATTTCAAATCATTCTATCTTAATTGTTTGCCTCCATTATGTTGTTGCTAGC
1 TGGATTTAAATCAAATTTCAAATCATTCTATCTTAATTGTTTGCCTCCATTATGTTGTTGCTAGC
20323 AAATGGTGTG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.45
Consensus pattern (66 bp):
TGGATTTAAATCAAATTTCAAATCATTCTATCTTAATTGTTTGCCTCCATTATGTTGTTGCTAGC
T
Found at i:20574 original size:30 final size:29
Alignment explanation
Indices: 20515--20575 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
20505 TAATGTATAA
*
20515 TTTTATACATAAATTATGATTTCATTTAG
1 TTTTATACATAAATTATGAATTCATTTAG
* *
20544 TTTTATACATACAATTTTGAATTGATTTAG
1 TTTTATACATA-AATTATGAATTCATTTAG
20574 TT
1 TT
20576 CTCACAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (29 bp):
TTTTATACATAAATTATGAATTCATTTAG
Found at i:24384 original size:24 final size:25
Alignment explanation
Indices: 24346--24393 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
24336 TCGACAGCAA
* * *
24346 TAATTTTTCTTATTTTTTTAATATT
1 TAATTTTTCTAATTTATTAAATATT
24371 TAATTTTT-TAATTTATTAAATAT
1 TAATTTTTCTAATTTATTAAATAT
24394 ATTACTTGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TAATTTTTCTAATTTATTAAATATT
Found at i:24513 original size:73 final size:73
Alignment explanation
Indices: 24431--24575 Score: 290
Period size: 73 Copynumber: 2.0 Consensus size: 73
24421 ATGCGATGTG
24431 AATGGAAAGCTAAATATCCAATTAATAGTATTAGAGTATATAATGTTGTAATTCAGCTAAGCTGT
1 AATGGAAAGCTAAATATCCAATTAATAGTATTAGAGTATATAATGTTGTAATTCAGCTAAGCTGT
24496 GAGCTAAA
66 GAGCTAAA
24504 AATGGAAAGCTAAATATCCAATTAATAGTATTAGAGTATATAATGTTGTAATTCAGCTAAGCTGT
1 AATGGAAAGCTAAATATCCAATTAATAGTATTAGAGTATATAATGTTGTAATTCAGCTAAGCTGT
24569 GAGCTAA
66 GAGCTAA
24576 GCTGTGAAGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.32
Consensus pattern (73 bp):
AATGGAAAGCTAAATATCCAATTAATAGTATTAGAGTATATAATGTTGTAATTCAGCTAAGCTGT
GAGCTAAA
Found at i:24588 original size:12 final size:12
Alignment explanation
Indices: 24558--24582 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24548 GTTGTAATTC
24558 AGCTAAGCTGTG
1 AGCTAAGCTGTG
24570 AGCTAAGCTGTG
1 AGCTAAGCTGTG
24582 A
1 A
24583 AGTAAGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (12 bp):
AGCTAAGCTGTG
Found at i:25757 original size:30 final size:29
Alignment explanation
Indices: 25718--25927 Score: 210
Period size: 30 Copynumber: 7.1 Consensus size: 29
25708 GGAAGTTCGA
* *
25718 GGGTAAAAATGTAATTTTTAGAAAGTTTAG
1 GGGTTAAAATGTAA-TTTTGGAAAGTTTAG
*
25748 GGGTTAAAATAG-AATTTTGGAAAGTTTGG
1 GGGTTAAAAT-GTAATTTTGGAAAGTTTAG
* *
25777 GGGTAAAAATGTAATTTTTAGAAAGTTT-G
1 GGGTTAAAATGTAA-TTTTGGAAAGTTTAG
* * * *
25806 AAGGTCAAAATATCATTTTGGAGAAGTTT-G
1 -GGGTTAAAATGTAATTTTGGA-AAGTTTAG
* *
25836 GGGTCAAAATATAATTTTGGAAAAGTTTAG
1 GGGTTAAAATGTAATTTTGG-AAAGTTTAG
25866 GGGTTAAAATGTAATTTTGGAAAAGTTTAG
1 GGGTTAAAATGTAATTTTGG-AAAGTTTAG
* *
25896 GTGTTAAAATGTAATTTTTGGATAGTTTAG
1 GGGTTAAAATGTAA-TTTTGGAAAGTTTAG
25926 GG
1 GG
25928 ACCTCTAGGG
Statistics
Matches: 155, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.01
29 55 0.35
30 92 0.59
31 7 0.05
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.37
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTGGAAAGTTTAG
Found at i:25762 original size:59 final size:59
Alignment explanation
Indices: 25694--25927 Score: 255
Period size: 59 Copynumber: 3.9 Consensus size: 59
25684 ATCGAGGTCA
*
25694 AAAATAGAATTTTTGG-AAGTTCGAGGGTAAAAATGTAATTTTTAGAAAGTTTAGGGGTT
1 AAAATAGAA-TTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTAGAAAGTTTAGGGGTT
* * *
25753 AAAATAGAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTAGAAAGTTT-GAAGGTC
1 AAAATAGAATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTAGAAAGTTTAG-GGGTT
** * * *
25812 AAAATATCATTTTGGAGAAGTTTG-GGGTCAAAATATAA-TTTTGGAAAAGTTTAGGGGTT
1 AAAATAGAATTTTGGA-AAGTTTGAGGGTAAAAATGTAATTTTTAG-AAAGTTTAGGGGTT
* * *
25871 AAAAT-GTAATTTTGGAAAAGTTT-AGGTGTTAAAATGTAATTTTTGGATAGTTTAGGG
1 AAAATAG-AATTTTGG-AAAGTTTGAGG-GTAAAAATGTAATTTTTAGAAAGTTTAGGG
25928 ACCTCTAGGG
Statistics
Matches: 149, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
58 12 0.08
59 102 0.68
60 29 0.19
61 6 0.04
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (59 bp):
AAAATAGAATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTAGAAAGTTTAGGGGTT
Found at i:26996 original size:16 final size:17
Alignment explanation
Indices: 26975--27006 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
26965 CCCTCCTTTT
26975 TTATTAATA-TTATTAA
1 TTATTAATATTTATTAA
26991 TTATTAATATTTATTA
1 TTATTAATATTTATTA
27007 CTACTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTAATATTTATTAA
Found at i:27028 original size:31 final size:32
Alignment explanation
Indices: 26982--27043 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
26972 TTTTTATTAA
26982 TATTATTAATTATTAATAT-TTATTACTACTGT
1 TATTATTAATTATTAA-ATGTTATTACTACTGT
*
27014 TATTATT-ATTATTAAATGTTATTATTACTG
1 TATTATTAATTATTAAATGTTATTACTACTG
27044 ATTCATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 2 0.07
31 19 0.68
32 7 0.25
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (32 bp):
TATTATTAATTATTAAATGTTATTACTACTGT
Found at i:27655 original size:36 final size:36
Alignment explanation
Indices: 27606--27674 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
27596 GTAGATGGTA
27606 TTTAGGAAATTTGGGCCATTTGTAATTGGGTTTGGG
1 TTTAGGAAATTTGGGCCATTTGTAATTGGGTTTGGG
* *
27642 TTTAGGCAGTTTGGGCCATTTGTAATTGGGTTT
1 TTTAGGAAATTTGGGCCATTTGTAATTGGGTTT
27675 TTTTTTGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.17, C:0.07, G:0.32, T:0.43
Consensus pattern (36 bp):
TTTAGGAAATTTGGGCCATTTGTAATTGGGTTTGGG
Found at i:27822 original size:17 final size:17
Alignment explanation
Indices: 27790--27856 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
27780 AATTTAATTT
* *
27790 TAAAGTTAAGTTTAAAA
1 TAAATTTAAATTTAAAA
* *
27807 T-TATTTCAAATTTAAAC
1 TAAATTT-AAATTTAAAA
27824 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
27841 CAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
27857 TCTAAAGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
16 3 0.07
17 34 0.83
18 4 0.10
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:27835 original size:6 final size:6
Alignment explanation
Indices: 27780--27877 Score: 71
Period size: 6 Copynumber: 17.0 Consensus size: 6
27770 TTGGACTTTG
* * * * *
27780 AATTTA ATTTTA AAGTTA AGTTTA AAATT- -ATTTCA AATTTA AA-CTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
** * *
27826 AATTTA AATTTA AA-ACA AATTTA AATTTA AATCTA AA-GTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
27872 AATTTA
1 AATTTA
27878 GAAATAAATC
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
4 3 0.04
5 11 0.16
6 51 0.74
7 4 0.06
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:27850 original size:23 final size:23
Alignment explanation
Indices: 27824--27877 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
27814 AAATTTAAAC
*
27824 TAAATTTAAATTTAAAACAAATT
1 TAAATTTAAATCTAAAACAAATT
**
27847 TAAATTTAAATCTAAAGTAAATT
1 TAAATTTAAATCTAAAACAAATT
27870 TAAATTTA
1 TAAATTTA
27878 GAAATAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAATTTAAATCTAAAACAAATT
Found at i:27867 original size:17 final size:18
Alignment explanation
Indices: 27809--27874 Score: 84
Period size: 17 Copynumber: 3.8 Consensus size: 18
27799 GTTTAAAATT
27809 ATTTCAAATTTAAA-CTAA
1 ATTT-AAATTTAAATCTAA
*
27827 ATTTAAATTTAAAAC-AA
1 ATTTAAATTTAAATCTAA
27844 ATTTAAATTTAAATCTAA
1 ATTTAAATTTAAATCTAA
*
27862 A-GTAAATTTAAAT
1 ATTTAAATTTAAAT
27875 TTAGAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
17 36 0.82
18 8 0.18
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (18 bp):
ATTTAAATTTAAATCTAA
Found at i:27885 original size:23 final size:23
Alignment explanation
Indices: 27824--27885 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
27814 AAATTTAAAC
* **
27824 TAAATTTAAATTTAAAACAAATT
1 TAAATTTAAATATAAAGTAAATT
*
27847 TAAATTTAAATCTAAAGTAAATT
1 TAAATTTAAATATAAAGTAAATT
27870 TAAATTTAGAA-ATAAA
1 TAAATTTA-AATATAAA
27886 TCTGAAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 32 0.94
24 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (23 bp):
TAAATTTAAATATAAAGTAAATT
Found at i:35175 original size:96 final size:97
Alignment explanation
Indices: 35000--35185 Score: 247
Period size: 96 Copynumber: 1.9 Consensus size: 97
34990 GGAAAGGATG
* * * *
35000 TTCGATTATCTTGATTTGAGGAAAAGGTTGCACCTAGTAAGTGAAGGTGCAAATTTTCAGAATCG
1 TTCGATTATCTTAATTTGAAGAAAAGATTGCACCTAGTAAGTGAAGGCGCAAATTTTCAGAATCG
*
35065 AAGATAAGGAAACATTGCCTCGATTAAGGGTA
66 AAGATAAAGAAACATTGCCTCGATTAAGGGTA
*
35097 TTCGATTAT-TTCAATTTGAAGAAAA-ATTGCACCTAGTAAGTTAAGGCGCAAATTTTC-GAAAC
1 TTCGATTATCTT-AATTTGAAGAAAAGATTGCACCTAGTAAGTGAAGGCGCAAATTTTCAG-AA-
35159 TCGAA-ATAATAG-AACATTGCCTCGATT
63 TCGAAGATAA-AGAAACATTGCCTCGATT
35186 TTAAAGTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
95 1 0.01
96 52 0.66
97 26 0.33
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (97 bp):
TTCGATTATCTTAATTTGAAGAAAAGATTGCACCTAGTAAGTGAAGGCGCAAATTTTCAGAATCG
AAGATAAAGAAACATTGCCTCGATTAAGGGTA
Found at i:35520 original size:29 final size:29
Alignment explanation
Indices: 35404--35657 Score: 122
Period size: 30 Copynumber: 8.7 Consensus size: 29
35394 TTCGGATACC
35404 CGAGGGTAAAATGGTAATTTTG-GA-TTCT
1 CGAGGGTAAAATGGTAATTTTGAGAGTT-T
* * *
35432 CG-GGGCAAAATGGTAATTTTGGAAAATTT
1 CGAGGGTAAAATGGTAATTTT-GAGAGTTT
* **
35461 -G-GGGTTTAAAAATGG-AATTTTTAGACATT
1 CGAGGG--T-AAAATGGTAATTTTGAGAGTTT
*
35490 CGAGGGTAAAAGGGTAATTTTGAGAGTTT
1 CGAGGGTAAAATGGTAATTTTGAGAGTTT
* *
35519 CGA-GGTCGAAAATGGTGATTTTG-GAGGTT
1 CGAGGGT--AAAATGGTAATTTTGAGAGTTT
* *
35548 CGAGGGTAAAAATAG-AATTTTTAGAAGTTT
1 CGAGGGT-AAAATGGTAATTTTGAG-AGTTT
* * *
35578 CG-GGCTCAAAAATGGGATTTTTG-GAAG-TT
1 CGAGGGT--AAAATGGTAATTTTGAG-AGTTT
*
35607 CGAGGGTAAAAATGG-AATTTTTAGAAGTTT
1 CGAGGGT-AAAATGGTAATTTTGAG-AGTTT
* *
35637 TGGGGGTAAAAATGG-AATTTT
1 CGAGGGT-AAAATGGTAATTTT
35658 TGGAAGTTTT
Statistics
Matches: 179, Mismatches: 28, Indels: 36
0.74 0.12 0.15
Matches are distributed among these distances:
27 17 0.09
28 26 0.15
29 55 0.31
30 66 0.37
31 15 0.08
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (29 bp):
CGAGGGTAAAATGGTAATTTTGAGAGTTT
Found at i:35598 original size:30 final size:30
Alignment explanation
Indices: 35514--35835 Score: 238
Period size: 30 Copynumber: 10.9 Consensus size: 30
35504 TAATTTTGAG
* * *
35514 AGTTTCGAGGTCGAAAATGGTGA-TTTTGG-
1 AGTTTCGGGGTCAAAAATGG-AATTTTTGGA
* * *
35543 AGGTTCGAGGGT-AAAAATAGAATTTTTAGA
1 AGTTTCG-GGGTCAAAAATGGAATTTTTGGA
* *
35573 AGTTTCGGGCTCAAAAATGGGATTTTTGGA
1 AGTTTCGGGGTCAAAAATGGAATTTTTGGA
*
35603 AG-TTCGAGGGT-AAAAATGGAATTTTTAGA
1 AGTTTCG-GGGTCAAAAATGGAATTTTTGGA
*
35632 AGTTTTGGGGGT-AAAAATGGAATTTTTGGA
1 AG-TTTCGGGGTCAAAAATGGAATTTTTGGA
** * *
35662 AGTTTTTGGCTCAAAATAT--AATTTTTAGA
1 AGTTTCGGGGTCAAAA-ATGGAATTTTTGGA
* * *
35691 AGTTTTGGGGTTAAAAATATG-ATTTTT-G-
1 AGTTTCGGGGTCAAAAAT-GGAATTTTTGGA
* * * * *
35719 AGGTTCTGAGTTCAAAAATGGGAGTTTTGGA
1 AGTTTC-GGGGTCAAAAATGGAATTTTTGGA
* *
35750 AGTTTCAGGGTCAAAAATGGAATTTTTTGA
1 AGTTTCGGGGTCAAAAATGGAATTTTTGGA
* *
35780 AGTTTTGGGGTCAAAAATGGGATTTTTGGA
1 AGTTTCGGGGTCAAAAATGGAATTTTTGGA
*
35810 AG-TTCGGGGT-AAAAATGAGATTTTTT
1 AGTTTCGGGGTCAAAAATG-GAATTTTT
35836 TACAGTTCGG
Statistics
Matches: 232, Mismatches: 44, Indels: 34
0.75 0.14 0.11
Matches are distributed among these distances:
28 15 0.06
29 98 0.42
30 109 0.47
31 10 0.04
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (30 bp):
AGTTTCGGGGTCAAAAATGGAATTTTTGGA
Found at i:35663 original size:59 final size:58
Alignment explanation
Indices: 35467--35835 Score: 270
Period size: 59 Copynumber: 6.3 Consensus size: 58
35457 ATTTGGGGTT
* * * *
35467 TAAAAATGGAATTTTTAGACA-TTCGAGGGT-AAAAGGGTAATTTTGAG-AGTTTCGAGG
1 TAAAAATGGAATTTTTGGA-AGTTCGAGGGTAAAAATGG-AATTTTTAGAAGTTTCGGGG
* * * * *
35524 TCGAAAATGGTGA-TTTTGGAGGTTCGAGGGTAAAAATAGAATTTTTAGAAGTTTCGGGC
1 T-AAAAATGG-AATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTAGAAGTTTCGGGG
* *
35583 TCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTAGAAGTTTTGGGGG
1 T-AAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTAGAAG-TTTCGGGG
*** * * ** *
35643 TAAAAATGGAATTTTTGGAAGTTTTTGGCTCAAAATATAATTTTTAGAAGTTTTGGGG
1 TAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTAGAAGTTTCGGGG
* * * * * * *
35701 TTAAAAATATG-ATTTTT-GAGGTTCTGA-GTTCAAAAATGGGAGTTTTGGAAGTTTCAGGG
1 -TAAAAAT-GGAATTTTTGGAAGTTC-GAGGGT-AAAAATGGAATTTTTAGAAGTTTCGGGG
* * * *
35760 TCAAAAATGGAATTTTTTGAAGTTTTG-GGGTCAAAAATGGGATTTTTGGAAG-TTCGGGG
1 T-AAAAATGGAATTTTTGGAAG-TTCGAGGGT-AAAAATGGAATTTTTAGAAGTTTCGGGG
*
35819 TAAAAATGAGATTTTTT
1 TAAAAATG-GAATTTTT
35836 TACAGTTCGG
Statistics
Matches: 251, Mismatches: 44, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
57 1 0.00
58 55 0.22
59 159 0.63
60 34 0.14
61 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.36
Consensus pattern (58 bp):
TAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTAGAAGTTTCGGGG
Found at i:35678 original size:29 final size:30
Alignment explanation
Indices: 35551--35835 Score: 239
Period size: 30 Copynumber: 9.7 Consensus size: 30
35541 GGAGGTTCGA
* * *
35551 GGGT-AAAAATAGAATTTTTAGAAGTTTCG
1 GGGTCAAAAATGGAATTTTTGGAAGTTTTG
* * *
35580 GGCTCAAAAATGGGATTTTTGGAAG-TTCG
1 GGGTCAAAAATGGAATTTTTGGAAGTTTTG
*
35609 AGGGT-AAAAATGGAATTTTTAGAAGTTTTGG
1 -GGGTCAAAAATGGAATTTTTGGAAGTTTT-G
*
35640 GGGT-AAAAATGGAATTTTTGGAAGTTTTT
1 GGGTCAAAAATGGAATTTTTGGAAGTTTTG
* *
35669 GGCTCAAAATAT--AATTTTTAGAAGTTTTG
1 GGGTCAAAA-ATGGAATTTTTGGAAGTTTTG
* * * *
35698 GGGTTAAAAATATG-ATTTTT-GAGGTTCTG
1 GGGTCAAAAAT-GGAATTTTTGGAAGTTTTG
* * * * **
35727 AGTTCAAAAATGGGAGTTTTGGAAGTTTCA
1 GGGTCAAAAATGGAATTTTTGGAAGTTTTG
*
35757 GGGTCAAAAATGGAATTTTTTGAAGTTTTG
1 GGGTCAAAAATGGAATTTTTGGAAGTTTTG
* *
35787 GGGTCAAAAATGGGATTTTTGGAAG-TTCG
1 GGGTCAAAAATGGAATTTTTGGAAGTTTTG
*
35816 GGGT-AAAAATGAGATTTTTT
1 GGGTCAAAAATG-GAATTTTT
35836 TACAGTTCGG
Statistics
Matches: 206, Mismatches: 38, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
28 10 0.05
29 83 0.40
30 110 0.53
31 3 0.01
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (30 bp):
GGGTCAAAAATGGAATTTTTGGAAGTTTTG
Found at i:35836 original size:30 final size:30
Alignment explanation
Indices: 35514--35835 Score: 183
Period size: 29 Copynumber: 10.9 Consensus size: 30
35504 TAATTTTGAG
* * *
35514 AGTTTCGAGGTCGAAAATGG-TGATTTTGG-
1 AGTTTCGGGGTCAAAAATGGAT-TTTTTGGA
* * * *
35543 AGGTTCGAGGGT-AAAAATAGAATTTTTAGA
1 AGTTTCG-GGGTCAAAAATGGATTTTTTGGA
*
35573 AGTTTCGGGCTCAAAAATGGGA-TTTTTGGA
1 AGTTTCGGGGTCAAAAAT-GGATTTTTTGGA
* *
35603 AG-TTCGAGGGT-AAAAATGGAATTTTTAGA
1 AGTTTCG-GGGTCAAAAATGGATTTTTTGGA
* *
35632 AGTTTTGGGGGT-AAAAATGGAATTTTTGGA
1 AG-TTTCGGGGTCAAAAATGGATTTTTTGGA
** * * *
35662 AGTTTTTGGCTCAAAATAT--AATTTTTAGA
1 AGTTTCGGGGTCAAAA-ATGGATTTTTTGGA
* * *
35691 AGTTTTGGGGTTAAAAATATGA-TTTTT-G-
1 AGTTTCGGGGTCAAAAAT-GGATTTTTTGGA
* * * *
35719 AGGTTCTGAGTTCAAAAATGGGA-GTTTTGGA
1 AGTTTC-GGGGTCAAAAAT-GGATTTTTTGGA
*
35750 AGTTTCAGGGTCAAAAATGGAATTTTTT-GA
1 AGTTTCGGGGTCAAAAATGG-ATTTTTTGGA
*
35780 AGTTTTGGGGTCAAAAATGGGA-TTTTTGGA
1 AGTTTCGGGGTCAAAAAT-GGATTTTTTGGA
35810 AG-TTCGGGGT-AAAAATGAGATTTTTT
1 AGTTTCGGGGTCAAAAATG-GATTTTTT
35836 TACAGTTCGG
Statistics
Matches: 232, Mismatches: 38, Indels: 46
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.00
28 17 0.07
29 102 0.44
30 93 0.40
31 19 0.08
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (30 bp):
AGTTTCGGGGTCAAAAATGGATTTTTTGGA
Found at i:37674 original size:17 final size:17
Alignment explanation
Indices: 37652--37734 Score: 94
Period size: 17 Copynumber: 4.8 Consensus size: 17
37642 GATATTATTT
**
37652 ATTTTAAATTTGTAATA
1 ATTTTAAATTTAAAATA
37669 ATTTTAAATTTAAAATA
1 ATTTTAAATTTAAAATA
* * *
37686 AATTTAAACTTAAATTA
1 ATTTTAAATTTAAAATA
* *
37703 AATTCAAATTTAAAATTA
1 ATTTTAAATTTAAAA-TA
37721 ATTTTAAATTTAAA
1 ATTTTAAATTTAAA
37735 TTTAAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 41 0.75
18 14 0.25
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (17 bp):
ATTTTAAATTTAAAATA
Found at i:37735 original size:24 final size:23
Alignment explanation
Indices: 37684--37757 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
37674 AAATTTAAAA
*
37684 TAAATTTAAACTTAAATTAAATT
1 TAAATTTAAAATTAAATTAAATT
* *
37707 CAAATTTAAAATTAATTTTAAATT
1 TAAATTTAAAATTAA-ATTAAATT
* *
37731 TAAATTTAAAATAAAAATAAATT
1 TAAATTTAAAATTAAATTAAATT
37754 TAAA
1 TAAA
37758 ACAAATTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 23 0.53
24 20 0.47
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATTTAAAATTAAATTAAATT
Found at i:37745 original size:17 final size:17
Alignment explanation
Indices: 37654--37783 Score: 91
Period size: 17 Copynumber: 7.2 Consensus size: 17
37644 TATTATTTAT
** *
37654 TTTAAATTTGTAATAAT
1 TTTAAATTTAAAATAAA
37671 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
37688 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
37705 TTCAAATTTAAAATTAATTTTAAA
1 TTTAAATTT--AA--AA---TAAA
37729 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
** *
37746 AATAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
*
37763 TTT-AATCTTAAAATAAG
1 TTTAAAT-TTAAAATAAA
37780 TTTA
1 TTTA
37784 GAAGGGGCCC
Statistics
Matches: 88, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
16 3 0.03
17 66 0.75
19 2 0.02
20 2 0.02
21 1 0.01
22 2 0.02
24 12 0.14
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:37757 original size:6 final size:6
Alignment explanation
Indices: 37671--37740 Score: 81
Period size: 6 Copynumber: 12.0 Consensus size: 6
37661 TTGTAATAAT
* * *
37671 TTTAAA TTTAAA -ATAAA TTTAAA CTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
37717 ATTAAT TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
37741 ATAAAAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 9 0.17
6 44 0.83
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:37765 original size:41 final size:41
Alignment explanation
Indices: 37684--37765 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
37674 AAATTTAAAA
* * **
37684 TAAATTTAAACTTAAATTAAATTCAAATTTAAAATTAATTT
1 TAAATTTAAACTTAAATAAAAATCAAATTTAAAACAAATTT
*
37725 TAAATTTAAATTTAAAATAAAAAT-AAATTTAAAACAAATTT
1 TAAATTTAAACTT-AAATAAAAATCAAATTTAAAACAAATTT
37766 AATCTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 27 0.77
42 8 0.23
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (41 bp):
TAAATTTAAACTTAAATAAAAATCAAATTTAAAACAAATTT
Found at i:38612 original size:202 final size:202
Alignment explanation
Indices: 38103--38957 Score: 862
Period size: 202 Copynumber: 4.2 Consensus size: 202
38093 TGACTTGGCC
* ** * * * *
38103 TTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCAC-TTGTTTTGATCCACTTCTTTGTGTTT
1 TTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTTGTTTCCATCCGCTTCTCTGTATCT
* * * **
38167 CATCAGGAAGACGGATTTGGTTCACTTCTCCGTATCTTATCAGGAAGCTAACCATTTTATTGTTT
66 CATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACC-TTTTATTACTT
* * *
38232 CGACTTGCTTGTCAGTATCTCATCAGGAAGCT-AGAGTTCGAAGATTTGCTCACATCGAGTGTGG
130 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGAGTTCGAAGATTTGCT--CA-C--GT-TGA
* * * *
38296 GT-TTGATTTAGTC
189 GTCTCGAGTTGGTA
* * * * *
38309 TTCTTCTCAGTACCTCATCAGGAAGATGACCGCATCGCTTTGTTTCAATCCTCTTCTATGTATCT
1 TTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTTGTTTCCATCCGCTTCTCTGTATCT
* *
38374 CATCAGGAAGAAGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTT
66 CATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACC-TTTTATTACTT
* * * *
38439 CAACCTACTTCTCTGTATCTCATCAGGAAGCTGAGAGTTCGGAGATTTGCTCACGTTGAGTCTCG
130 CGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGAGTTCGAAGATTTGCTCACGTTGAGTCTCG
38504 AGTTGGTA
195 AGTTGGTA
* * ** * * *
38512 TTCTTCTCTGTATCTCATTAAAAAGATGACCGCATTAC-TTGTTTCCATTCGCTTCTCTTTATCT
1 TTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTTGTTTCCATCCGCTTCTCTGTATCT
* *
38576 CATCAAGAAGGCGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTACTTC
66 CATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTACTTC
* * * * * * * * * * *
38641 GTCCTGCTTCTTAGTTGTCTTATTAAGAAGCTGGGA-TTCGAAGATTTGCTTACATCGAG-CCCT
131 GACCTGCTTCTCAG-TATCTCATCAGGAAGCTGAGAGTTCGAAGATTTGCTCACGTTGAGTCTC-
38704 GAGTTGGTA
194 GAGTTGGTA
** * * * *
38713 TAGTTCTCTGTATCTCATCAGGAAGATGACCGCATCGCTTTGTTTCAATCTGCTTCTCTGTATCT
1 TTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTTGTTTCCATCCGCTTCTCTGTATCT
* * * * * *
38778 CATCCGGAAGACGAATTTGGTCCACTTCTCCGCATCTCATCAGGAAGCTGACCTCTTATTACTTC
66 CATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTACTTC
* * *
38843 GACCTGCTTCTCAGTATTTCATCAGGAAGCTTG-G-GTTCGAAGATTTGCTCGCTTTGAGCCTCA
131 GACCTGCTTCTCAGTATCTCATCAGGAAGC-TGAGAGTTCGAAGATTTGCTCACGTTGAG--TC-
* *
38906 TTTCATTGATTTGGTC
192 --TC---GAGTTGGTA
* *
38922 TTCTCCTCAGTATTTCATCAGGAAGATGACCGCATC
1 TTCTTCTCAGTATCTCATCAGGAAGATGACCGCATC
38958 GCTGTTTGTG
Statistics
Matches: 539, Mismatches: 94, Indels: 29
0.81 0.14 0.04
Matches are distributed among these distances:
200 2 0.00
201 110 0.20
202 184 0.34
203 40 0.07
204 1 0.00
205 1 0.00
206 37 0.07
207 108 0.20
208 17 0.03
209 39 0.07
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (202 bp):
TTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTTGTTTCCATCCGCTTCTCTGTATCT
CATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTACTTC
GACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGAGTTCGAAGATTTGCTCACGTTGAGTCTCGA
GTTGGTA
Found at i:50677 original size:29 final size:28
Alignment explanation
Indices: 50645--50715 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
50635 TTTTAGGTCG
* *
50645 AAAATGGAGATTTTAGAGGTTTAAGGGTA
1 AAAATGGA-ATTTTAGAAGTTCAAGGGTA
* *
50674 AAAATGGAATTTTTGGAAGTTCAGGGGTA
1 AAAATGGAA-TTTTAGAAGTTCAAGGGTA
50703 AAAATGGAATTTT
1 AAAATGGAATTTT
50716 TGGAAGTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.38, C:0.01, G:0.28, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTAGAAGTTCAAGGGTA
Found at i:50743 original size:30 final size:30
Alignment explanation
Indices: 50673--50901 Score: 215
Period size: 30 Copynumber: 7.8 Consensus size: 30
50663 GTTTAAGGGT
*
50673 AAAAATGGAATTTTTGGAAG-TTCAGGGGT-
1 AAAAATGGAATTTTTGGAAGTTTC-GAGGTC
50702 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
1 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
* * **
50732 AAAAATTGAATTTTTGAAAGTTTCGTTGTC
1 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
* * *
50762 -AAAATGG-GTTTTTGGAGGTTTTGAGGAT-
1 AAAAATGGAATTTTTGGAAGTTTCGAGG-TC
**
50790 AAAAATGGAATTTTT-GAAGGTTTTTAGGGTC
1 AAAAATGGAATTTTTGGAA-GTTTCGA-GGTC
* *
50821 -AAAATGAAATTTTTGGAAGTTTCGGGGTC
1 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
* * *
50850 AAAAATGGGATTTTTGGAAG-TTCAAGAT-
1 AAAAATGGAATTTTTGGAAGTTTCGAGGTC
50878 AAAAATGGAATTTTTGGACAGTTT
1 AAAAATGGAATTTTTGGA-AGTTT
50902 GAGAACCTCC
Statistics
Matches: 163, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
28 30 0.18
29 51 0.31
30 77 0.47
31 5 0.03
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.36
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAGTTTCGAGGTC
Found at i:50793 original size:88 final size:88
Alignment explanation
Indices: 50669--50901 Score: 262
Period size: 88 Copynumber: 2.6 Consensus size: 88
50659 AGAGGTTTAA
* * *
50669 GGGT-AAAAATGGAATTTTTGGAAGTTCAGGGGTAAAAATGGAATTTTTGGAAGTTTCGA-GGTC
1 GGGTCAAAAATGGGATTTTTGGAAGTTCA-AGATAAAAATGGAATTTTTGGAAGTTTCGAGGGTC
50732 AAAAATTG-AATTTTTGAAAGTTTCG
65 -AAAA-TGAAATTTTTGAAAGTTTCG
** * * * **
50757 TTGTC-AAAATGGG-TTTTTGGAGGTTTTGAGGATAAAAATGGAATTTTT-GAAGGTTTTTAGGG
1 GGGTCAAAAATGGGATTTTTGGAAG--TTCAAGATAAAAATGGAATTTTTGGAA-GTTTCGAGGG
*
50819 TCAAAATGAAATTTTTGGAAGTTTCG
63 TCAAAATGAAATTTTTGAAAGTTTCG
50845 GGGTCAAAAATGGGATTTTTGGAAGTTCAAGATAAAAATGGAATTTTTGGACAGTTT
1 GGGTCAAAAATGGGATTTTTGGAAGTTCAAGATAAAAATGGAATTTTTGGA-AGTTT
50902 GAGAACCTCC
Statistics
Matches: 121, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
87 14 0.12
88 76 0.63
89 21 0.17
90 10 0.08
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (88 bp):
GGGTCAAAAATGGGATTTTTGGAAGTTCAAGATAAAAATGGAATTTTTGGAAGTTTCGAGGGTCA
AAATGAAATTTTTGAAAGTTTCG
Found at i:51305 original size:11 final size:11
Alignment explanation
Indices: 51289--51314 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51279 GTCGGGTCGG
51289 GTCGGATTCGA
1 GTCGGATTCGA
51300 GTCGGATTCGA
1 GTCGGATTCGA
51311 GTCG
1 GTCG
51315 ACCATGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.38, T:0.27
Consensus pattern (11 bp):
GTCGGATTCGA
Found at i:51770 original size:22 final size:21
Alignment explanation
Indices: 51722--51771 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
51712 TTCTCTTTTT
*
51722 TTTTTTAAAAAAACATTTTAA
1 TTTTTTAAAAAAACATTTCAA
* **
51743 TCTTTTAAACAAAACATTTCCC
1 TTTTTTAAA-AAAACATTTCAA
51765 TTTTTTA
1 TTTTTTA
51772 TACCTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTTAAAAAAACATTTCAA
Found at i:51979 original size:3 final size:3
Alignment explanation
Indices: 51973--52008 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
51963 GTCTTCTTTT
51973 TTA TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
52009 TATTTATGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:52735 original size:6 final size:6
Alignment explanation
Indices: 52709--52812 Score: 83
Period size: 6 Copynumber: 18.0 Consensus size: 6
52699 CATTATTTAT
* * * *
52709 TTTAAA TTTATAA --TAAT TTTAAA TTTAAA -ATAAA TTTAAG CTTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
52755 -TTAAA TTCAAA TTTAAA ATTAAT TTTAAA TTTAAA TTTAAA -ATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
52801 TCTAAA TTTAAA
1 TTTAAA TTTAAA
52813 ACAAAATTAA
Statistics
Matches: 76, Mismatches: 16, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
4 1 0.01
5 15 0.20
6 58 0.76
7 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:52800 original size:17 final size:17
Alignment explanation
Indices: 52709--52840 Score: 95
Period size: 17 Copynumber: 7.4 Consensus size: 17
52699 CATTATTTAT
* *
52709 TTTAAATTTATAATAAT
1 TTTAAATTTAAAATAAA
52726 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
** *
52743 TTTAAGCTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
52760 TTCAAATTTAAAATTAATTTTAAA
1 TTTAAATTT--AA--AA---TAAA
52784 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
52801 TCTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
* *
52818 ATT-AATCTTAAAATAAG
1 TTTAAAT-TTAAAATAAA
52835 TTTAAA
1 TTTAAA
52841 AGAGGCCTGG
Statistics
Matches: 89, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
16 3 0.03
17 65 0.73
18 2 0.02
19 2 0.02
20 2 0.02
21 1 0.01
22 2 0.02
24 12 0.13
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:52829 original size:23 final size:24
Alignment explanation
Indices: 52755--52829 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
52745 TAAGCTTAAA
* ** *
52755 TTAAATTCAAATTTAAAATTAATT
1 TTAAATTTAAATACAAAATTAATC
** *
52779 TTAAATTTAAATTTAAAATAAATC
1 TTAAATTTAAATACAAAATTAATC
52803 -TAAATTTAAA-ACAAAATTAATC
1 TTAAATTTAAATACAAAATTAATC
52825 TTAAA
1 TTAAA
52830 ATAAGTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 9 0.20
23 14 0.32
24 21 0.48
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAAATTTAAATACAAAATTAATC
Found at i:63134 original size:2 final size:2
Alignment explanation
Indices: 63094--63119 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
63084 AAAATTACAA
63094 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
63120 GATAAAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63200 original size:33 final size:33
Alignment explanation
Indices: 63133--63227 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 33
63123 AAAGCTTATA
* * * * *
63133 TAAAAATCATAAAAAAAATATTAAAGTGCAAAAAA
1 TAAAAATTATAAAAATAAT-TAAAAATG-AAAAAT
* *
63168 TAAAAATTTATAAAAATTATTATAAATGAAAAAT
1 TAAAAA-TTATAAAAATAATTAAAAATGAAAAAT
*
63202 TATAAATTATAAAAATAATTAAAAAT
1 TAAAAATTATAAAAATAATTAAAAAT
63228 TGCAAAAAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
33 18 0.37
34 10 0.20
35 11 0.22
36 10 0.20
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (33 bp):
TAAAAATTATAAAAATAATTAAAAATGAAAAAT
Found at i:72039 original size:46 final size:46
Alignment explanation
Indices: 71972--72109 Score: 276
Period size: 46 Copynumber: 3.0 Consensus size: 46
71962 ATCTGCTTTG
71972 GTTAAGGTTTATTGGATTTTAGTTATTAAATAAAGTATGGGTCAAA
1 GTTAAGGTTTATTGGATTTTAGTTATTAAATAAAGTATGGGTCAAA
72018 GTTAAGGTTTATTGGATTTTAGTTATTAAATAAAGTATGGGTCAAA
1 GTTAAGGTTTATTGGATTTTAGTTATTAAATAAAGTATGGGTCAAA
72064 GTTAAGGTTTATTGGATTTTAGTTATTAAATAAAGTATGGGTCAAA
1 GTTAAGGTTTATTGGATTTTAGTTATTAAATAAAGTATGGGTCAAA
72110 TATGTGTAGA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 92 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (46 bp):
GTTAAGGTTTATTGGATTTTAGTTATTAAATAAAGTATGGGTCAAA
Found at i:72629 original size:18 final size:18
Alignment explanation
Indices: 72606--72640 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
72596 ATAAAAATAC
72606 GCTCTCTC-TCTCTCTTTT
1 GCTCTCTCAT-TCTCTTTT
72624 GCTCTCTCATTCTCTTT
1 GCTCTCTCATTCTCTTT
72641 GTCATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.03, C:0.37, G:0.06, T:0.54
Consensus pattern (18 bp):
GCTCTCTCATTCTCTTTT
Found at i:72860 original size:14 final size:15
Alignment explanation
Indices: 72841--72869 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
72831 CTATGATTTA
72841 TTTATTAT-ATCATG
1 TTTATTATAATCATG
72855 TTTATTATAATCATG
1 TTTATTATAATCATG
72870 AAAACAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (15 bp):
TTTATTATAATCATG
Found at i:77757 original size:30 final size:30
Alignment explanation
Indices: 77693--77749 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
77683 AATAGTCTAT
* * *
77693 ATTTTTATAATTTTTAAAAGATTAAATCAA
1 ATTTTTATCAGTTTTAAAAGATAAAATCAA
*
77723 ATTTTTATCAGTTTTAAATGATAAAAT
1 ATTTTTATCAGTTTTAAAAGATAAAAT
77750 GTAATTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (30 bp):
ATTTTTATCAGTTTTAAAAGATAAAATCAA
Found at i:85600 original size:3 final size:3
Alignment explanation
Indices: 85592--85627 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
85582 TTAACAGCAT
85592 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85628 ATAGTATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:86796 original size:59 final size:58
Alignment explanation
Indices: 86723--87268 Score: 651
Period size: 59 Copynumber: 9.3 Consensus size: 58
86713 TGAACTTTTC
* * *
86723 AAAATTCCAATTTTGATCTCGAAACTTCCAAAATTTACCATTTTACCCCCAGATGTCTA
1 AAAACTCCATTTTTGATC-CGAAACTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* * * * *
86782 AAAACTCTATTTTTGATCTCGAACCATCCAAAAATTACCATTTTACCCTCGGATGTCTA
1 AAAACTCCATTTTTGATC-CGAAACTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* *
86841 AAAACTCCATTTTTTATCCTAAACCTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
1 AAAACTCCATTTTTGATCCGAAA-CTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* *
86900 AAAACTCCATTTTTGATCGGAAACCTTCCAAAATTTACCATTTTACTCCCGGATGTCTA
1 AAAACTCCATTTTTGATCCGAAA-CTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* * * * *
86959 AAAACTCCATTGTTGATCCGAAACCTTCCAAAAATTACCATTTTATCGCCGAATGTCTA
1 AAAACTCCATTTTTGATCCGAAA-CTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
*** * * * *
87018 AAAACTCTGCTTTTGATCTCGAACCTTCTAAAATTTACCATTTTACCCCCAGATGTATA
1 AAAACTCCATTTTTGATC-CGAAACTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* * * * * *
87077 AAAACTTCATTTTCGATCCAAAACCTTCCAAAATTTACCATTTTACCCTCGAATTTCTA
1 AAAACTCCATTTTTGATCCGAAA-CTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* * * * * *
87136 AAAACTTCATTTTTTATTCGAACCTTCCAAAAATTACCATTTTATCCCCGGATGTCTA
1 AAAACTCCATTTTTGATCCGAAACTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* * * *
87194 AAAACTCCATTTTTGATCCTGAACCTTCCAAAATTTACCATTTTACCCTCGAATATCTA
1 AAAACTCCATTTTTGATCC-GAAACTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
*
87253 AAAATTCCATTTTTGA
1 AAAACTCCATTTTTGA
87269 CCTCGAGCAT
Statistics
Matches: 413, Mismatches: 70, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
58 52 0.13
59 357 0.86
60 4 0.01
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (58 bp):
AAAACTCCATTTTTGATCCGAAACTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
Found at i:86869 original size:118 final size:117
Alignment explanation
Indices: 86723--87300 Score: 725
Period size: 118 Copynumber: 4.9 Consensus size: 117
86713 TGAACTTTTC
* * *
86723 AAAATTCCAATTTTGATCTCGAAA-CTTCCAAAATTTACCATTTTACCCCC-AGATGTCTAAAAA
1 AAAACTCCATTTTTGATC-CTAAACCTTCCAAAATTTACCATTTTACCCCCGA-ATGTCTAAAAA
*
86786 CTCTATTTTTGATCTCGAACCATCCAAAAATTACCATTTTACCCTCGGATGTCTA
64 CTCTATTTTTGATCTCGAACCTTCCAAAAATTACCATTTTACCC-CGGATGTCTA
* *
86841 AAAACTCCATTTTTTATCCTAAACCTTCCAAAATTTACCATTTTACCCCCGGATGTCTAAAAACT
1 AAAACTCCATTTTTGATCCTAAACCTTCCAAAATTTACCATTTTACCCCCGAATGTCTAAAAACT
* * *
86906 CCATTTTTGATC-GGAAACCTTCCAAAATTTACCATTTTACTCCCGGATGTCTA
66 CTATTTTTGATCTCG-AACCTTCCAAAAATTACCATTTTAC-CCCGGATGTCTA
* * * * *
86959 AAAACTCCATTGTTGATCCGAAACCTTCCAAAAATTACCATTTTATCGCCGAATGTCTAAAAACT
1 AAAACTCCATTTTTGATCCTAAACCTTCCAAAATTTACCATTTTACCCCCGAATGTCTAAAAACT
** * * * *
87024 CTGCTTTTGATCTCGAACCTTCTAAAATTTACCATTTTACCCCCAGATGTATA
66 CTATTTTTGATCTCGAACCTTCCAAAAATTACCATTTTA-CCCCGGATGTCTA
* * * * *
87077 AAAACTTCATTTTCGATCCAAAACCTTCCAAAATTTACCATTTTACCCTCGAATTTCTAAAAACT
1 AAAACTCCATTTTTGATCCTAAACCTTCCAAAATTTACCATTTTACCCCCGAATGTCTAAAAACT
*
87142 -TCATTTTTTAT-TCGAACCTTCCAAAAATTACCATTTTATCCCCGGATGTCTA
66 CT-ATTTTTGATCTCGAACCTTCCAAAAATTACCATTTTA-CCCCGGATGTCTA
* * * *
87194 AAAACTCCATTTTTGATCCTGAACCTTCCAAAATTTACCATTTTACCCTCGAATATCTAAAAATT
1 AAAACTCCATTTTTGATCCTAAACCTTCCAAAATTTACCATTTTACCCCCGAATGTCTAAAAACT
* * * * * *
87259 CCATTTTTGACCTCGAGCATTCCAAAAATTACCCTTTCACCC
66 CTATTTTTGATCTCGAACCTTCCAAAAATTACCATTTTACCC
87301 TCGAGCATCT
Statistics
Matches: 398, Mismatches: 53, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
117 111 0.28
118 283 0.71
119 4 0.01
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.34
Consensus pattern (117 bp):
AAAACTCCATTTTTGATCCTAAACCTTCCAAAATTTACCATTTTACCCCCGAATGTCTAAAAACT
CTATTTTTGATCTCGAACCTTCCAAAAATTACCATTTTACCCCGGATGTCTA
Found at i:86936 original size:177 final size:176
Alignment explanation
Indices: 86723--87268 Score: 735
Period size: 177 Copynumber: 3.1 Consensus size: 176
86713 TGAACTTTTC
* *
86723 AAAATTCCAATTTTGATCTCGAAA-CTTCCAAAATTTACCATTTTACCCCCAGATGTCTAAAAAC
1 AAAACTCCATTTTTGATC-CGAAACCTTCCAAAATTTACCATTTTACCCCC-GATGTCTAAAAAC
*
86787 TCTATTTTTGATCTCGAACCATCCAAAAATTACCATTTTA-CCCTCGGATGTCTAAAAACTCCAT
64 TCTATTTTTGATCTCGAACCTTCCAAAAATTACCATTTTATCCC-CGGATGTCTAAAAACTCCAT
* *
86851 TTTTTATCCTAAACCTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
128 TTTTGATCCTGAACCTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* *
86900 AAAACTCCATTTTTGATCGGAAACCTTCCAAAATTTACCATTTTACTCCCGGATGTCTAAAAACT
1 AAAACTCCATTTTTGATCCGAAACCTTCCAAAATTTACCATTTTAC-CCCCGATGTCTAAAAACT
* * * * ***
86965 CCATTGTTGATC-CGAAACCTTCCAAAAATTACCATTTTATCGCCGAATGTCTAAAAACTCTGCT
65 CTATTTTTGATCTCG-AACCTTCCAAAAATTACCATTTTATCCCCGGATGTCTAAAAACTCCATT
* * *
87029 TTTGAT-CTCGAACCTTCTAAAATTTACCATTTTACCCCCAGATGTATA
129 TTTGATCCT-GAACCTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
* * * * *
87077 AAAACTTCATTTTCGATCCAAAACCTTCCAAAATTTACCATTTTACCCTCGAATTTCTAAAAACT
1 AAAACTCCATTTTTGATCCGAAACCTTCCAAAATTTACCATTTTACCCCCG-ATGTCTAAAAACT
*
87142 -TCATTTTTTAT-TCGAACCTTCCAAAAATTACCATTTTATCCCCGGATGTCTAAAAACTCCATT
65 CT-ATTTTTGATCTCGAACCTTCCAAAAATTACCATTTTATCCCCGGATGTCTAAAAACTCCATT
* * *
87205 TTTGATCCTGAACCTTCCAAAATTTACCATTTTACCCTCGAATATCTA
129 TTTGATCCTGAACCTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
*
87253 AAAATTCCATTTTTGA
1 AAAACTCCATTTTTGA
87269 CCTCGAGCAT
Statistics
Matches: 319, Mismatches: 41, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
176 107 0.34
177 207 0.65
178 5 0.02
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (176 bp):
AAAACTCCATTTTTGATCCGAAACCTTCCAAAATTTACCATTTTACCCCCGATGTCTAAAAACTC
TATTTTTGATCTCGAACCTTCCAAAAATTACCATTTTATCCCCGGATGTCTAAAAACTCCATTTT
TGATCCTGAACCTTCCAAAATTTACCATTTTACCCCCGGATGTCTA
Found at i:87265 original size:28 final size:27
Alignment explanation
Indices: 87114--87265 Score: 76
Period size: 29 Copynumber: 5.3 Consensus size: 27
87104 CCAAAATTTA
87114 CCATTTTACCCTCGAATTTCTAAAAACTT
1 CCATTTTACCCTCGAA-TTCTAAAAA-TT
**** *
87143 -CATTTTTTATTCGAACCTTCCAAAAATT
1 CCATTTTACCCTCGAA--TTCTAAAAATT
* *
87171 ACCATTTTATCCC-CGGATGTCTAAAAACT
1 -CCATTTTA-CCCTCGAAT-TCTAAAAATT
* * *
87200 CCATTTTTGATCCT-GAACCTTCCAAAATTT
1 CCA-TTTT-ACCCTCGAA--TTCTAAAAATT
87230 ACCATTTTACCCTCGAATATCTAAAAATT
1 -CCATTTTACCCTCGAAT-TCTAAAAATT
87259 CCATTTT
1 CCATTTT
87266 TGACCTCGAG
Statistics
Matches: 89, Mismatches: 21, Indels: 27
0.65 0.15 0.20
Matches are distributed among these distances:
28 25 0.28
29 36 0.40
30 24 0.27
31 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (27 bp):
CCATTTTACCCTCGAATTCTAAAAATT
Found at i:87266 original size:29 final size:28
Alignment explanation
Indices: 87117--87288 Score: 72
Period size: 29 Copynumber: 5.9 Consensus size: 28
87107 AAATTTACCA
87117 TTTTACCCTCGAATTTCTAAAAACTT-CATT
1 TTTTACCCTCGAA-TTCTAAAAA-TTCCA-T
* *
87147 TTTTA--TTCGAACCTTCCAAAAATTACCA-
1 TTTTACCCTCGAA--TTCTAAAAATT-CCAT
* *
87175 TTTTATCCC-CGGATGTCTAAAAACTCCAT
1 TTTTA-CCCTCGAAT-TCTAAAAATTCCAT
* * *
87204 TTTTGATCCT-GAACCTTCCAAAATTTACCA-
1 TTTT-ACCCTCGAA--TTCTAAAAATT-CCAT
87234 TTTTACCCTCGAATATCTAAAAATTCCAT
1 TTTTACCCTCGAAT-TCTAAAAATTCCAT
*
87263 TTTTGA-CCTCGAGCATTCCAAAAATT
1 TTTT-ACCCTCGA--ATTCTAAAAATT
87289 ACCCTTTCAC
Statistics
Matches: 107, Mismatches: 16, Indels: 38
0.66 0.10 0.24
Matches are distributed among these distances:
28 20 0.19
29 46 0.43
30 35 0.33
31 6 0.06
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (28 bp):
TTTTACCCTCGAATTCTAAAAATTCCAT
Found at i:87286 original size:30 final size:30
Alignment explanation
Indices: 87193--87288 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 30
87183 CCGGATGTCT
* * *
87193 AAAAACTCCATTTTTGATCCT-GAACCTTCC
1 AAAAATTCCATTTTTGACCCTCG-ACATTCC
* *
87223 AAAATTTACCA-TTTT-ACCCTCGA-ATATCT
1 AAAAATT-CCATTTTTGACCCTCGACAT-TCC
87252 AAAAATTCCATTTTTGA-CCTCGAGCATTCC
1 AAAAATTCCATTTTTGACCCTCGA-CATTCC
87282 AAAAATT
1 AAAAATT
87289 ACCCTTTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.08
29 23 0.44
30 20 0.38
31 5 0.10
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (30 bp):
AAAAATTCCATTTTTGACCCTCGACATTCC
Done.