Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012990.1 Kokia drynarioides strain JFW-HI SEQ_128008, 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: 66795
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Warning! 23 characters in sequence are not A, C, G, or T
Found at i:516 original size:16 final size:16
Alignment explanation
Indices: 495--558 Score: 56
Period size: 16 Copynumber: 3.7 Consensus size: 16
485 CTAAAAATTC
495 AGGCTTTGTGCTTAGT
1 AGGCTTTGTGCTTAGT
* *
511 AGGCTTCGTGCCGGTGTATT
1 AGGCTTTGTG-C--T-TAGT
*
531 CAGGCTTTATGCTTAGT
1 -AGGCTTTGTGCTTAGT
548 AGGCTTTGTGC
1 AGGCTTTGTGC
559 CGGTGGATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
16 19 0.51
17 4 0.11
18 1 0.03
19 1 0.03
20 4 0.11
21 8 0.22
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.39
Consensus pattern (16 bp):
AGGCTTTGTGCTTAGT
Found at i:537 original size:21 final size:21
Alignment explanation
Indices: 511--617 Score: 90
Period size: 21 Copynumber: 5.6 Consensus size: 21
501 TGTGCTTAGT
*
511 AGGCTTCGTGCCGGTGTATTC
1 AGGCTTTGTGCCGGTGTATTC
* *
532 AGGCTTTATG-C--T-TAGT-
1 AGGCTTTGTGCCGGTGTATTC
*
548 AGGCTTTGTGCCGGTGGATTC
1 AGGCTTTGTGCCGGTGTATTC
*
569 AGGCTTTGTGCC----TACT-
1 AGGCTTTGTGCCGGTGTATTC
*
585 AGGCTTTGTGCTGGTGTATTC
1 AGGCTTTGTGCCGGTGTATTC
606 AGGCTTTGTGCC
1 AGGCTTTGTGCC
618 AGTGATCAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
16 20 0.31
17 6 0.09
18 1 0.02
19 1 0.02
20 6 0.09
21 31 0.48
ACGTcount: A:0.11, C:0.20, G:0.32, T:0.37
Consensus pattern (21 bp):
AGGCTTTGTGCCGGTGTATTC
Found at i:544 original size:37 final size:37
Alignment explanation
Indices: 491--616 Score: 198
Period size: 37 Copynumber: 3.4 Consensus size: 37
481 ACAACTAAAA
*
491 ATTCAGGCTTTGTGCTTAGTAGGCTTCGTGCCGGTGT
1 ATTCAGGCTTTGTGCTTAGTAGGCTTTGTGCCGGTGT
* *
528 ATTCAGGCTTTATGCTTAGTAGGCTTTGTGCCGGTGG
1 ATTCAGGCTTTGTGCTTAGTAGGCTTTGTGCCGGTGT
* * *
565 ATTCAGGCTTTGTGCCTACTAGGCTTTGTGCTGGTGT
1 ATTCAGGCTTTGTGCTTAGTAGGCTTTGTGCCGGTGT
602 ATTCAGGCTTTGTGC
1 ATTCAGGCTTTGTGC
617 CAGTGATCAA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.12, C:0.18, G:0.31, T:0.39
Consensus pattern (37 bp):
ATTCAGGCTTTGTGCTTAGTAGGCTTTGTGCCGGTGT
Found at i:1757 original size:8 final size:7
Alignment explanation
Indices: 1729--1756 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1719 CTTGACTTTC
1729 CTTTTTT
1 CTTTTTT
1736 CTTTTTT
1 CTTTTTT
1743 CTTTTTT
1 CTTTTTT
1750 CTTTTTT
1 CTTTTTT
1757 TGCCTTGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
CTTTTTT
Found at i:5947 original size:28 final size:30
Alignment explanation
Indices: 5893--6022 Score: 110
Period size: 28 Copynumber: 4.5 Consensus size: 30
5883 ATTTAGGGGT
* *
5893 AAAACGGTAATTTTTGGACA-CTTAAGGGCA
1 AAAATGGTAATTTTTGGACATC-CAAGGGCA
*
5923 AAAAT-GTAA-TTTTGGACATCCAAGGG-T
1 AAAATGGTAATTTTTGGACATCCAAGGGCA
* * *
5950 AAAATGGTAATTTTTGGAAACTCGAGGGGCA
1 AAAATGGTAATTTTTGGACA-TCCAAGGGCA
* * **
5981 AAAAT-GTAATTTTTGGATATTC-AGGGGT
1 AAAATGGTAATTTTTGGACATCCAAGGGCA
6009 AAAATGGTAATTTT
1 AAAATGGTAATTTT
6023 GGAAAATTTG
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
27 5 0.06
28 26 0.32
29 22 0.27
30 23 0.28
31 5 0.06
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGACATCCAAGGGCA
Found at i:6007 original size:29 final size:29
Alignment explanation
Indices: 5899--6241 Score: 152
Period size: 29 Copynumber: 11.7 Consensus size: 29
5889 GGGTAAAACG
* *
5899 GTAATTTTTGGACACTT-AAGGGCAAAAAT
1 GTAATTTTTGGA-AATTCAGGGGCAAAAAT
* * * *
5928 GTAA-TTTTGGACATCCAAGGG-TAAAAT
1 GTAATTTTTGGAAATTCAGGGGCAAAAAT
*
5955 GGTAATTTTTGGAAACTCGAGGGGCAAAAAT
1 -GTAATTTTTGGAAATTC-AGGGGCAAAAAT
* *
5986 GTAATTTTTGGATATTCAGGGG-TAAAAT
1 GTAATTTTTGGAAATTCAGGGGCAAAAAT
* * *
6014 GGTAA-TTTTGGAAAATT-TGAGGTCAAAATT
1 -GTAATTTTTGG-AAATTCAG-GGGCAAAAAT
* * **
6044 ATAATTTTTTTGGACATTC-GGGGGTAAAAT
1 GTAA--TTTTTGGAAATTCAGGGGCAAAAAT
* *
6074 GGTAATTTTTGGAAGTTC-GGGGTTAAAAAT
1 -GTAATTTTTGGAAATTCAGGGG-CAAAAAT
* ****
6104 GCAATTTTTGGAAATTCAATTTC-AAAAT
1 GTAATTTTTGGAAATTCAGGGGCAAAAAT
* * *
6132 GGTAATTTTTAGAAAGTTTAGGGGTAAAAAT
1 -GTAATTTTTGGAAA-TTCAGGGGCAAAAAT
* *
6163 GTAA-TTTTGTGAAGTTC-GGGGTAAAAAT
1 GTAATTTTTG-GAAATTCAGGGGCAAAAAT
* * **
6191 GTGA-TTTTGGAAAAGTTTAGGGGTTAAAAT
1 GTAATTTTTGG-AAA-TTCAGGGGCAAAAAT
* *
6221 ATGATTTTTGGAAAATTCAGG
1 GTAATTTTTGG-AAATTCAGG
6242 ACCTTTTAGG
Statistics
Matches: 238, Mismatches: 52, Indels: 47
0.71 0.15 0.14
Matches are distributed among these distances:
27 7 0.03
28 54 0.23
29 81 0.34
30 62 0.26
31 28 0.12
32 6 0.03
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (29 bp):
GTAATTTTTGGAAATTCAGGGGCAAAAAT
Found at i:6023 original size:28 final size:29
Alignment explanation
Indices: 5860--6170 Score: 183
Period size: 29 Copynumber: 10.6 Consensus size: 29
5850 GATGCCCAGT
* * * *
5860 GGGTAAAATGGTATTTTTTAGAGATTTAG
1 GGGTAAAATGGTAATTTTTGGACATTCAG
* *
5889 GGGTAAAACGGTAATTTTTGGACACTTAAG
1 GGGTAAAATGGTAATTTTTGGACA-TTCAG
** * *
5919 GGCAAAAAT-GTAA-TTTTGGACATCCAA
1 GGGTAAAATGGTAATTTTTGGACATTCAG
* *
5946 GGGTAAAATGGTAATTTTTGGAAACTCGAG
1 GGGTAAAATGGTAATTTTTGGACATTC-AG
* *
5976 GGGCAAAAAT-GTAATTTTTGGATATTCAG
1 GGG-TAAAATGGTAATTTTTGGACATTCAG
* *
6005 GGGTAAAATGGTAA-TTTTGGAAAATT-TG
1 GGGTAAAATGGTAATTTTTGG-ACATTCAG
* ** *
6033 AGGTCAAAATTATAATTTTTTTGGACATTCGG
1 GGGT-AAAATGGTAA--TTTTTGGACATTCAG
6065 GGGTAAAATGGTAATTTTTGGA-AGTTC-G
1 GGGTAAAATGGTAATTTTTGGACA-TTCAG
* *
6093 GGGTTAAAAAT-GCAATTTTTGGAAATTCA-
1 GGG-T-AAAATGGTAATTTTTGGACATTCAG
*** * * *
6122 ATTTCAAAATGGTAATTTTTAGAAAGTTTAG
1 GGGT-AAAATGGTAATTTTTGGACA-TTCAG
6153 GGGTAAAAAT-GTAATTTT
1 GGGT-AAAATGGTAATTTT
6171 GTGAAGTTCG
Statistics
Matches: 219, Mismatches: 43, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
27 9 0.04
28 39 0.18
29 92 0.42
30 46 0.21
31 23 0.11
32 10 0.05
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGACATTCAG
Found at i:6190 original size:59 final size:59
Alignment explanation
Indices: 5860--6241 Score: 277
Period size: 58 Copynumber: 6.5 Consensus size: 59
5850 GATGCCCAGT
* * * * * * * *
5860 GGGT-AAAATGGTATTTTTTAGAGATTTAGGGGTAAAACGGTAATTTTTGGACA-CTTAA
1 GGGTAAAAAT-GTAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAG
* * * * **
5918 GGGCAAAAATGTAA-TTTTGGACATCCAAGGGTAAAATGGTAATTTTTGGAAACTCGAG
1 GGGTAAAAATGTAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAG
* * *
5976 GGGCAAAAATGTAATTTTTGGATATTCAGGGGTAAAATGGTAA-TTTTGGAAAATTT-G
1 GGGTAAAAATGTAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAG
* * * * *
6033 AGGTCAAAATTATAATTTTTTTGGACATTCGGGGGTAAAATGGTAATTTTTGG-AAG-TTCG
1 GGGT-AAAAATGTAA--TTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAG
* * *** *
6093 GGGTTAAAAATGCAATTTTTGGAAATTCA-ATTTCAAAATGGTAATTTTTAGAAAGTTTAG
1 GGG-TAAAAATGTAATTTTTGGACATTCAGGGGT-AAAATGGTAATTTTTGGAAAGTTTAG
*
6153 GGGTAAAAATGTAA-TTTTGTGA-AGTTC-GGGGTAAAAAT-GTGA-TTTTGGAAAAGTTTAG
1 GGGTAAAAATGTAATTTTTG-GACA-TTCAGGGGT-AAAATGGTAATTTTTGG-AAAGTTTAG
* * * *
6211 GGGTTAAAATATGATTTTTGGAAAATTCAGG
1 GGGTAAAAATGTAATTTTTGG-ACATTCAGG
6242 ACCTTTTAGG
Statistics
Matches: 257, Mismatches: 47, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
57 40 0.16
58 97 0.38
59 65 0.25
60 48 0.19
61 7 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (59 bp):
GGGTAAAAATGTAATTTTTGGACATTCAGGGGTAAAATGGTAATTTTTGGAAAGTTTAG
Found at i:6220 original size:30 final size:30
Alignment explanation
Indices: 6144--6235 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 30
6134 TAATTTTTAG
*
6144 AAAGTTTAGGGGTAAAAATGTAATTTTGTG-
1 AAAGTTTAGGGGTAAAAATGTGATTTTG-GA
*
6174 -AAG-TTCGGGGTAAAAATGTGATTTTGGA
1 AAAGTTTAGGGGTAAAAATGTGATTTTGGA
* *
6202 AAAGTTTAGGGGTTAAAATATGATTTTTGGA
1 AAAGTTTAGGGGTAAAAATGTGA-TTTTGGA
6233 AAA
1 AAA
6236 TTCAGGACCT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
27 1 0.02
28 21 0.40
29 6 0.11
30 15 0.28
31 10 0.19
ACGTcount: A:0.37, C:0.01, G:0.27, T:0.35
Consensus pattern (30 bp):
AAAGTTTAGGGGTAAAAATGTGATTTTGGA
Found at i:7992 original size:6 final size:6
Alignment explanation
Indices: 7983--8062 Score: 76
Period size: 6 Copynumber: 13.8 Consensus size: 6
7973 TGGACTTTTA
* * * *
7983 TTAATT TTAAAT TTAAAA GTAAAT TTAAAC TT-AAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
** *
8030 TTAAA- ACAAAT TTAAAT TTAAA- ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
8063 AAAATTTAGT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
5 11 0.19
6 47 0.81
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:7998 original size:12 final size:12
Alignment explanation
Indices: 7983--8062 Score: 76
Period size: 11 Copynumber: 6.9 Consensus size: 12
7973 TGGACTTTTA
*
7983 TTAATTTTAAAT
1 TTAAATTTAAAT
**
7995 TTAAAAGTAAAT
1 TTAAATTTAAAT
*
8007 TTAAACTT-AAT
1 TTAAATTTAAAT
8018 TTAAATTTAAAT
1 TTAAATTTAAAT
**
8030 TTAAA-ACAAAT
1 TTAAATTTAAAT
8041 TTAAATTTAAA-
1 TTAAATTTAAAT
*
8052 ATAAATTTAAA
1 TTAAATTTAAA
8063 AAAATTTAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
11 29 0.53
12 26 0.47
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:8024 original size:17 final size:17
Alignment explanation
Indices: 7988--8062 Score: 105
Period size: 17 Copynumber: 4.4 Consensus size: 17
7978 TTTTATTAAT
7988 TTTAAATTTAAAAGTAAA
1 TTTAAATTTAAAA-TAAA
* **
8006 TTTAAACTTAATTTAAA
1 TTTAAATTTAAAATAAA
*
8023 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
8040 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
8057 TTTAAA
1 TTTAAA
8063 AAAATTTAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 39 0.80
18 10 0.20
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:8041 original size:23 final size:23
Alignment explanation
Indices: 7990--8051 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
7980 TTATTAATTT
**
7990 TAAATTTAAAAGTAAATTTAAAC
1 TAAATTTAAATTTAAATTTAAAC
*
8013 TTAATTTAAATTTAAATTTAAAAC
1 TAAATTTAAATTTAAATTT-AAAC
8037 -AAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
8052 ATAAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 30 0.88
24 4 0.12
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAATTTAAATTTAAATTTAAAC
Found at i:20514 original size:12 final size:12
Alignment explanation
Indices: 20497--20531 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
20487 TTTTTAATAT
20497 AATTATTCTTGG
1 AATTATTCTTGG
20509 AATTATTCTTGG
1 AATTATTCTTGG
20521 AATTATTCTTG
1 AATTATTCTTG
20532 TATATATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (12 bp):
AATTATTCTTGG
Found at i:20648 original size:28 final size:28
Alignment explanation
Indices: 20580--20690 Score: 91
Period size: 28 Copynumber: 4.0 Consensus size: 28
20570 TTGTGTATTT
* * * *
20580 TGGCTCGAAAGAGCAATATTTTGGACTT-
1 TGGCTCAAAAGAGCAATATTCT-AAATTC
* *
20608 TGACTCGAAAGAGCAATATTCTAAATTC
1 TGGCTCAAAAGAGCAATATTCTAAATTC
* * * **
20636 TGGCTCAATAGAGCATTACTCTGTA-TC
1 TGGCTCAAAAGAGCAATATTCTAAATTC
*
20663 TGGCTCAAAAGAGTAATATTCTAAATTC
1 TGGCTCAAAAGAGCAATATTCTAAATTC
20691 GTCTTGAAGA
Statistics
Matches: 64, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
27 24 0.38
28 40 0.62
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (28 bp):
TGGCTCAAAAGAGCAATATTCTAAATTC
Found at i:34319 original size:37 final size:37
Alignment explanation
Indices: 34259--34349 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
34249 ACCACTTTGA
* * *
34259 CCACCCTACACAACATAATTGGGCTATAGTAGGCCCAT
1 CCACCTTACACACCACAA-TGGGCTATAGTAGGCCCAT
* * * *
34297 CCACCTTGCACACCACAATGGGCTATGGTAGGCTCGT
1 CCACCTTACACACCACAATGGGCTATAGTAGGCCCAT
34334 CCACCTTACACACCAC
1 CCACCTTACACACCAC
34350 GATAGTGGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 31 0.69
38 14 0.31
ACGTcount: A:0.27, C:0.36, G:0.16, T:0.20
Consensus pattern (37 bp):
CCACCTTACACACCACAATGGGCTATAGTAGGCCCAT
Found at i:41561 original size:20 final size:20
Alignment explanation
Indices: 41536--41585 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
41526 GAAACATGTC
41536 AAAAATAAAATTAAAA-ATTA
1 AAAAATAAAATTAAAATA-TA
**
41556 AAAAATATTATTAAAATATA
1 AAAAATAAAATTAAAATATA
*
41576 TAAAATAAAA
1 AAAAATAAAA
41586 ATGTATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAATAAAATTAAAATATA
Found at i:41596 original size:28 final size:26
Alignment explanation
Indices: 41541--41596 Score: 60
Period size: 28 Copynumber: 2.1 Consensus size: 26
41531 ATGTCAAAAA
*
41541 TAAAATTAAAAATTAAAAAATATTAT
1 TAAAATTAAAAATTAAAAAATATAAT
*
41567 TAAAATATATAAAA-TAAAAATGTATAAT
1 TAAAAT-TA-AAAATTAAAAA-ATATAAT
41595 TA
1 TA
41597 TTAGTCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.24
27 8 0.32
28 11 0.44
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
TAAAATTAAAAATTAAAAAATATAAT
Found at i:41769 original size:7 final size:7
Alignment explanation
Indices: 41757--41799 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
41747 ATTTTAAAAG
41757 ATATAAA
1 ATATAAA
41764 ATATAAA
1 ATATAAA
41771 ATATAAA
1 ATATAAA
*
41778 TTTATAAAA
1 -ATAT-AAA
41787 ATATAAAA
1 ATAT-AAA
41795 ATATA
1 ATATA
41800 TACAAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 15 0.47
8 14 0.44
9 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
ATATAAA
Found at i:41867 original size:30 final size:33
Alignment explanation
Indices: 41821--41900 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
41811 TAATATTTTG
*
41821 AAAAATATATAAAAATTTACAATA-TATAATAT
1 AAAAATATATAAAAATTTAAAATATTATAATAT
*
41853 AAAAATA-A-AAAAATTTAAAATATTATAAATTT
1 AAAAATATATAAAAATTTAAAATATTAT-AATAT
* *
41885 ATAAATTTATAAAAAT
1 AAAAATATATAAAAAT
41901 ATATATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 13 0.32
31 4 0.10
32 16 0.40
33 1 0.03
34 6 0.15
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (33 bp):
AAAAATATATAAAAATTTAAAATATTATAATAT
Found at i:41882 original size:9 final size:8
Alignment explanation
Indices: 41863--41897 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
41853 AAAAATAAAA
41863 AAATTTA-
1 AAATTTAT
41870 AAATATTAT
1 AAAT-TTAT
41879 AAATTTAT
1 AAATTTAT
41887 AAATTTAT
1 AAATTTAT
41895 AAA
1 AAA
41898 AATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 4 0.15
8 18 0.69
9 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAATTTAT
Found at i:41903 original size:8 final size:8
Alignment explanation
Indices: 41751--41799 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
41741 ATTTTTATTT
41751 TAAAAGATA
1 TAAAA-ATA
41760 T-AAAATA
1 TAAAAATA
41767 T-AAAATA
1 TAAAAATA
**
41774 TAAATTTA
1 TAAAAATA
41782 TAAAAATA
1 TAAAAATA
41790 TAAAAATA
1 TAAAAATA
41798 TA
1 TA
41800 TACAAAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 11 0.31
8 23 0.66
9 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (8 bp):
TAAAAATA
Found at i:42067 original size:12 final size:12
Alignment explanation
Indices: 42052--42093 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
42042 AAACAATAAT
42052 AACAACAACTAC
1 AACAACAACTAC
* *
42064 AACAACAACAAA
1 AACAACAACTAC
42076 AACAACAACTAC
1 AACAACAACTAC
*
42088 TACAAC
1 AACAAC
42094 TTTGATGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.07
Consensus pattern (12 bp):
AACAACAACTAC
Found at i:48095 original size:17 final size:17
Alignment explanation
Indices: 48070--48110 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
48060 TGTTTTCTTA
* *
48070 TTTAATTTTATTAATTT
1 TTTATTTTTATTAATCT
*
48087 TTTATTTTTATTTATCT
1 TTTATTTTTATTAATCT
48104 TTTATTT
1 TTTATTT
48111 ATTTATTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTAATCT
Found at i:48271 original size:17 final size:17
Alignment explanation
Indices: 48218--48293 Score: 77
Period size: 17 Copynumber: 4.5 Consensus size: 17
48208 AATATTGTGT
*
48218 TATTA-TATCATGCTAG
1 TATTATTATCATGTTAG
* *
48234 TAATTATTAT-GTGTTAT
1 T-ATTATTATCATGTTAG
*
48251 TATTATTATCATGTTAC
1 TATTATTATCATGTTAG
48268 TATTATTATCATAGTT-G
1 TATTATTATCAT-GTTAG
48285 TATTATTAT
1 TATTATTAT
48294 TATTTGTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
16 9 0.18
17 35 0.70
18 6 0.12
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (17 bp):
TATTATTATCATGTTAG
Found at i:54785 original size:9 final size:8
Alignment explanation
Indices: 54763--54846 Score: 52
Period size: 9 Copynumber: 10.2 Consensus size: 8
54753 TCAGCAAAAG
*
54763 AAAAGAAA
1 AAAAGGAA
54771 AGAAAGGCAA
1 A-AAAGG-AA
54781 AAAAGGAA
1 AAAAGGAA
54789 AAAA--AA
1 AAAAGGAA
54795 AAAAGAGAA
1 AAAAG-GAA
54804 AAGAA--AA
1 AA-AAGGAA
54811 ANAAAGGCAA
1 A-AAAGG-AA
54821 AAAAGGAA
1 AAAAGGAA
*
54829 AAAA-AAA
1 AAAAGGAA
54836 AAAAGAGAA
1 AAAAG-GAA
54845 AA
1 AA
54847 GAAAAAGGAG
Statistics
Matches: 61, Mismatches: 3, Indels: 23
0.70 0.03 0.26
Matches are distributed among these distances:
6 6 0.10
7 11 0.18
8 14 0.23
9 22 0.36
10 8 0.13
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAGGAA
Found at i:54810 original size:39 final size:40
Alignment explanation
Indices: 54761--54851 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
54751 TTTCAGCAAA
54761 AGAAAAGAAAAGAAAGGCAAAAAAGG-AAAAAAAAAAAAG
1 AGAAAAGAAAAGAAAGGCAAAAAAGGAAAAAAAAAAAAAG
*
54800 AGAAAAGAAAAANAAAGGCAAAAAAGGAAAAAAAAAAAAAG
1 AGAAAAG-AAAAGAAAGGCAAAAAAGGAAAAAAAAAAAAAG
54841 AGAAAAGAAAA
1 AGAAAAGAAAA
54852 AGGAGAGGTC
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
39 7 0.14
40 22 0.45
41 20 0.41
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.00
Consensus pattern (40 bp):
AGAAAAGAAAAGAAAGGCAAAAAAGGAAAAAAAAAAAAAG
Found at i:54828 original size:40 final size:41
Alignment explanation
Indices: 54761--54853 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
54751 TTTCAGCAAA
54761 AGAAAAG-AAAAGAAAGGCAAAAAAGG-AAAAAAAAAAAAG
1 AGAAAAGAAAAAGAAAGGCAAAAAAGGAAAAAAAAAAAAAG
*
54800 AGAAAAGAAAAANAAAGGCAAAAAAGGAAAAAAAAAAAAAG
1 AGAAAAGAAAAAGAAAGGCAAAAAAGGAAAAAAAAAAAAAG
54841 AGAAAAGAAAAAG
1 AGAAAAGAAAAAG
54854 GAGAGGTCGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 7 0.14
40 18 0.36
41 25 0.50
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.00
Consensus pattern (41 bp):
AGAAAAGAAAAAGAAAGGCAAAAAAGGAAAAAAAAAAAAAG
Found at i:54829 original size:25 final size:25
Alignment explanation
Indices: 54793--54840 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
54783 AAGGAAAAAA
*
54793 AAAAAAGAGAAAAGAAAAANAAAGGC
1 AAAAAAGAGAAAA-AAAAAAAAAGGC
54819 AAAAAAG-GAAAAAAAAAAAAAG
1 AAAAAAGAGAAAAAAAAAAAAAG
54841 AGAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
25 5 0.24
26 7 0.33
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.00
Consensus pattern (25 bp):
AAAAAAGAGAAAAAAAAAAAAAGGC
Found at i:54845 original size:16 final size:16
Alignment explanation
Indices: 54819--54852 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
54809 AAANAAAGGC
54819 AAAAAAGGAAAA-AAA
1 AAAAAAGGAAAAGAAA
54834 AAAAAAGAGAAAAGAAA
1 AAAAAAG-GAAAAGAAA
54851 AA
1 AA
54853 GGAGAGGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 5 0.29
17 5 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAGGAAAAGAAA
Found at i:54857 original size:14 final size:14
Alignment explanation
Indices: 54779--54857 Score: 56
Period size: 14 Copynumber: 5.8 Consensus size: 14
54769 AAAGAAAGGC
54779 AAAAAAGGA-AAAA
1 AAAAAAGGAGAAAA
*
54792 AAAAAAAGAGAAAA
1 AAAAAAGGAGAAAA
* * **
54806 GAAAAA-NA-AAGGC
1 AAAAAAGGAGAA-AA
*
54819 AAAAAAGGAAAAAA
1 AAAAAAGGAGAAAA
*
54833 AAAAAAAGAGAAAA
1 AAAAAAGGAGAAAA
*
54847 GAAAAAGGAGA
1 AAAAAAGGAGA
54858 GGTCGAGATG
Statistics
Matches: 49, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
12 2 0.04
13 14 0.29
14 31 0.63
15 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAGGAGAAAA
Found at i:55757 original size:52 final size:52
Alignment explanation
Indices: 55695--56281 Score: 184
Period size: 50 Copynumber: 11.5 Consensus size: 52
55685 AACTTCTATA
* * * **
55695 TCCCTGAAGTTGCAATGGAATGCAGTAAAATTAACAATAGCGGATCTCAATC
1 TCCCTGAAGTTACAATGGAATGGAGTAAAATTAACAATACCAAATCTCAATC
* * * * *
55747 TCCCTGAAGTTACAGTGGAATGGAGTGAAGTT-ACAACACCAAATCTTATATC
1 TCCCTGAAGTTACAATGGAATGGAGTAAAATTAACAATACCAAATCTCA-ATC
* ** * * * ****
55799 T--CTGAAGTTACAGTGG-ATCAAATTAAAACTAACAGTAATTGATCTCAATC
1 TCCCTGAAGTTACAATGGAAT-GGAGTAAAATTAACAATACCAAATCTCAATC
* * * * *
55849 TCCCTGAAGTTACAGTGGAATGGAGTGAAGTT-ACAACACCAAATCTC-ATA
1 TCCCTGAAGTTACAATGGAATGGAGTAAAATTAACAATACCAAATCTCAATC
* * * * *
55899 TCCTTGAAGTT-CTAATGG-ATCGGATTAAAACTAACAATAGCATATCTCAATC
1 TCCCTGAAGTTAC-AATGGAAT-GGAGTAAAATTAACAATACCAAATCTCAATC
* * * * * * * * *
55951 TCTCTGAAGTTGCAATGGAATGGAGTGAAGTT-TCAACACCGAATC-CTATA
1 TCCCTGAAGTTACAATGGAATGGAGTAAAATTAACAATACCAAATCTCAATC
* * * * ** * * * *
56001 TCCTTGAAGTTGCAGTGG-ATCGGATTAAAACAAACAGTAGCAGATCTTAATC
1 TCCCTGAAGTTACAATGGAAT-GGAGTAAAATTAACAATACCAAATCTCAATC
* ** * * * * * *
56053 TCCTTGAAGTTGTAGTGGAATGGAGTGAAGTT-ACAACACCAAAT-TCTATA
1 TCCCTGAAGTTACAATGGAATGGAGTAAAATTAACAATACCAAATCTCAATC
* ** * * * * * * **
56103 TTCCTGAAGTTGTAGTGG-ATCGGATTAAAACT-ATAGTAACGGATCTCAATC
1 TCCCTGAAGTTACAATGGAAT-GGAGTAAAATTAACAATACCAAATCTCAATC
* * * * ** * *
56154 TCCTTGAAGTTGCAGTGGAATGGAGTGAGGTT-ACAATACCAAATC-CTATA
1 TCCCTGAAGTTACAATGGAATGGAGTAAAATTAACAATACCAAATCTCAATC
* * * * * * * * *
56204 TCCTTGAAGTTGCAGTGG-ATCGGATTAAAACTAACAATAGCAGATCTTAGTC
1 TCCCTGAAGTTACAATGGAAT-GGAGTAAAATTAACAATACCAAATCTCAATC
* * *
56256 TCCTTGAAGTTGCAGTGGAATGGAGT
1 TCCCTGAAGTTACAATGGAATGGAGT
56282 GAAACTGTAA
Statistics
Matches: 382, Mismatches: 130, Indels: 46
0.68 0.23 0.08
Matches are distributed among these distances:
49 11 0.03
50 130 0.34
51 108 0.28
52 124 0.32
53 9 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (52 bp):
TCCCTGAAGTTACAATGGAATGGAGTAAAATTAACAATACCAAATCTCAATC
Found at i:55853 original size:102 final size:102
Alignment explanation
Indices: 55691--56284 Score: 723
Period size: 102 Copynumber: 5.8 Consensus size: 102
55681 CGACAACTTC
* * * * * * * *
55691 TATATCCCTGAAGTTGCAATGGAAT-GCAGTAAAATTAACAATAGCGGATCTCAATCTCCCTGAA
1 TATATCCTTGAAGTTGCAGTGG-ATCGGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGAA
*
55755 GTTACAGTGGAATGGAGTGAAGTTACAACACCAAATCT
65 GTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCT
* ** **
55793 TATAT-CTCTGAAGTTACAGTGGATCAAATTAAAACTAACAGTAATTGATCTCAATCTCCCTGAA
1 TATATCCT-TGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGAA
*
55857 GTTACAGTGGAATGGAGTGAAGTTACAACACCAAATCT
65 GTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCT
* * * * * *
55895 CATATCCTTGAAGTT-CTAATGGATCGGATTAAAACTAACAATAGCATATCTCAATCTCTCTGAA
1 TATATCCTTGAAGTTGC-AGTGGATCGGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGAA
* * * *
55959 GTTGCAATGGAATGGAGTGAAGTTTCAACACCGAATCC
65 GTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCT
* * * *
55997 TATATCCTTGAAGTTGCAGTGGATCGGATTAAAACAAACAGTAGCAGATCTTAATCTCCTTGAAG
1 TATATCCTTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGAAG
*
56062 TTGTAGTGGAATGGAGTGAAGTTACAACACCAAAT-T
66 TTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCT
* * * *
56098 CTATATTCC-TGAAGTTGTAGTGGATCGGATTAAAACT-ATAGTAACGGATCTCAATCTCCTTGA
1 -TATA-TCCTTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGA
* * *
56161 AGTTGCAGTGGAATGGAGTGAGGTTACAATACCAAATCC
64 AGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCT
* * * * *
56200 TATATCCTTGAAGTTGCAGTGGATCGGATTAAAACTAACAATAGCAGATCTTAGTCTCCTTGAAG
1 TATATCCTTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGAAG
56265 TTGCAGTGGAATGGAGTGAA
66 TTGCAGTGGAATGGAGTGAA
56285 ACTGTAACAA
Statistics
Matches: 425, Mismatches: 57, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
100 3 0.01
101 91 0.21
102 325 0.76
103 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (102 bp):
TATATCCTTGAAGTTGCAGTGGATCGGATTAAAACTAACAGTAACAGATCTCAATCTCCCTGAAG
TTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCT
Found at i:56055 original size:204 final size:203
Alignment explanation
Indices: 55688--56284 Score: 801
Period size: 204 Copynumber: 2.9 Consensus size: 203
55678 AAACGACAAC
* * * *
55688 TTCTATATCCCTGAAGTTGC-AATGGAAT-GCAGTAAAATTAACAATAGCGGATCTCAATCTCCC
1 TTCTATATTCCTGAAGTT-CTAATGG-ATCGGATTAAAACTAACAATAGCGGATCTCAATCT-CC
* * *
55751 TGAAGTTACAGTGGAATGGAGTGAAGTTACAACACCAAATCTTATAT-CTCTGAAGTTACAGTGG
63 TGAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCT-TGAAGTTGCAGTGG
** *** * * *
55815 ATCAAATTAAAACTAACAGTAATTGATCTCAATCTCCCTGAAGTTACAGTGGAATGGAGTGAAGT
127 ATCGGATTAAAACTAACAGTAGCAGATCTTAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGT
55880 TACAACACCAAA
192 TACAACACCAAA
**
55892 -TCTCATA-TCCTTGAAGTTCTAATGGATCGGATTAAAACTAACAATAGCATATCTCAATCTCTC
1 TTCT-ATATTCC-TGAAGTTCTAATGGATCGGATTAAAACTAACAATAGCGGATCTCAATCTC-C
* * *
55955 TGAAGTTGCAATGGAATGGAGTGAAGTTTCAACACCGAATCCTATATCCTTGAAGTTGCAGTGGA
63 TGAAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCTTGAAGTTGCAGTGGA
* *
56020 TCGGATTAAAACAAACAGTAGCAGATCTTAATCTCCTTGAAGTTGTAGTGGAATGGAGTGAAGTT
128 TCGGATTAAAACTAACAGTAGCAGATCTTAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGTT
56085 ACAACACCAAA
193 ACAACACCAAA
* * * * *
56096 TTCTATATTCCTGAAGTTGTAGTGGATCGGATTAAAACT-ATAGTAACGGATCTCAATCTCCTTG
1 TTCTATATTCCTGAAGTTCTAATGGATCGGATTAAAACTAACAATAGCGGATCTCAATCTCC-TG
* *
56160 AAGTTGCAGTGGAATGGAGTGAGGTTACAATACCAAATCCTATATCCTTGAAGTTGCAGTGGATC
65 AAGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCTTGAAGTTGCAGTGGATC
* *
56225 GGATTAAAACTAACAATAGCAGATCTTAGTCTCCTTGAAGTTGCAGTGGAATGGAGTGAA
130 GGATTAAAACTAACAGTAGCAGATCTTAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAA
56285 ACTGTAACAA
Statistics
Matches: 346, Mismatches: 38, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
202 1 0.00
203 143 0.41
204 194 0.56
205 8 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (203 bp):
TTCTATATTCCTGAAGTTCTAATGGATCGGATTAAAACTAACAATAGCGGATCTCAATCTCCTGA
AGTTGCAGTGGAATGGAGTGAAGTTACAACACCAAATCCTATATCCTTGAAGTTGCAGTGGATCG
GATTAAAACTAACAGTAGCAGATCTTAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAAGTTACA
ACACCAAA
Found at i:56242 original size:305 final size:306
Alignment explanation
Indices: 55690--56284 Score: 835
Period size: 305 Copynumber: 1.9 Consensus size: 306
55680 ACGACAACTT
** *
55690 CTATATCCCTGAAGTTGCAATGGAATGCAGTAAAATTAACAATAGCGGATCTCAATCTCCCTGAA
1 CTATATCCCTGAAGTTGCAATGGAATGCAGTAAAACAAACAATAGCAGATCTCAATCTCCCTGAA
55755 GTTACAGTGGAATGGAGTGAAGTTACAACACCAAATCTTATATCTCTGAAGTTACAGTGGATCAA
66 GTTACAGTGGAATGGAGTGAAGTTACAACACCAAATCTTATATCTCTGAAGTTACAGTGGATCAA
**
55820 ATTAAAACTAACAGTAATTGATCTCAATCTCCCTGAAGTTACAGTGGAATGGAGTGAAGTTACAA
131 ATTAAAACTAACAGTAACGGATCTCAATCTCCCTGAAGTTACAGTGGAATGGAGTGAAGTTACAA
*
55885 CACCAAATCTCATATCCTTGAAGTTCTAATGGATCGGATTAAAACTAACAATAGCATATCTCAAT
196 CACCAAATCTCATATCCTTGAAGTTCTAATGGATCGGATTAAAACTAACAATAGCAGATCTCAAT
55950 CT-CTCTGAAGTTGCAATGGAATGGAGTGAAGTTTCAACACCGAATC
261 CTCCT-TGAAGTTGCAATGGAATGGAGTGAAGTTTCAACACCGAATC
* * * * * * *
55996 CTATATCCTTGAAGTTGCAGTGG-ATCGGATTAAAACAAACAGTAGCAGATCTTAATCTCCTTGA
1 CTATATCCCTGAAGTTGCAATGGAAT-GCAGTAAAACAAACAATAGCAGATCTCAATCTCCCTGA
** **
56060 AGTTGTAGTGGAATGGAGTGAAGTTACAACACCAAAT-TCTATAT-TCCTGAAGTTGTAGTGGAT
65 AGTTACAGTGGAATGGAGTGAAGTTACAACACCAAATCT-TATATCT-CTGAAGTTACAGTGGAT
** * * * *
56123 CGGATTAAAACT-ATAGTAACGGATCTCAATCTCCTTGAAGTTGCAGTGGAATGGAGTGAGGTTA
128 CAAATTAAAACTAACAGTAACGGATCTCAATCTCCCTGAAGTTACAGTGGAATGGAGTGAAGTTA
* *
56187 CAATACCAAATC-CTATATCCTTGAAGTTGC-AGTGGATCGGATTAAAACTAACAATAGCAGATC
193 CAACACCAAATCTC-ATATCCTTGAAGTT-CTAATGGATCGGATTAAAACTAACAATAGCAGATC
* * *
56250 TTAGTCTCCTTGAAGTTGCAGTGGAATGGAGTGAA
256 TCAATCTCCTTGAAGTTGCAATGGAATGGAGTGAA
56285 ACTGTAACAA
Statistics
Matches: 255, Mismatches: 28, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
304 1 0.00
305 135 0.53
306 119 0.47
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (306 bp):
CTATATCCCTGAAGTTGCAATGGAATGCAGTAAAACAAACAATAGCAGATCTCAATCTCCCTGAA
GTTACAGTGGAATGGAGTGAAGTTACAACACCAAATCTTATATCTCTGAAGTTACAGTGGATCAA
ATTAAAACTAACAGTAACGGATCTCAATCTCCCTGAAGTTACAGTGGAATGGAGTGAAGTTACAA
CACCAAATCTCATATCCTTGAAGTTCTAATGGATCGGATTAAAACTAACAATAGCAGATCTCAAT
CTCCTTGAAGTTGCAATGGAATGGAGTGAAGTTTCAACACCGAATC
Found at i:65035 original size:101 final size:101
Alignment explanation
Indices: 64784--65044 Score: 294
Period size: 101 Copynumber: 2.6 Consensus size: 101
64774 TGGAATTAAG
* * * * * ** * *
64784 TGAAGCTACAACACCAAATCCTATATCACTAAAGTTGTAG-GGATCAAATTAAAGCTACAGTAGC
1 TGAAGCTACAACATCAAATCCTATACCCCTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAAGA
** *
64848 AAATCTTTATCTCTCTGAAGTTACAGTAGAGCAAAA
66 AAAAATTTATCTCTCTGAAGTTACAGCAGAGCAAAA
* * * * *
64884 TTAAGCTACCACATCAAATCCTATACCCCTGGAGTTGCAATGGATTGGATTAAAGCTAC-GAAAG
1 TGAAGCTACAACATCAAATCCTATACCCCTGAAGTTGCAGTGGATCGGATTAAAGCTACAG-AAG
** *
64948 AAAAAATTTATCTCTCTGAAGTTGTAGCAGAGCAAGA
65 AAAAAATTTATCTCTCTGAAGTTACAGCAGAGCAAAA
*
64985 TGAAGCTACAACATCAAATCCTATACCCCTGAAGTTGCAGTCGATCGGATTGAAA-CTACA
1 TGAAGCTACAACATCAAATCCTATACCCCTGAAGTTGCAGTGGATCGGATT-AAAGCTACA
65045 TTAGGAAGTC
Statistics
Matches: 131, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
100 32 0.24
101 96 0.73
102 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (101 bp):
TGAAGCTACAACATCAAATCCTATACCCCTGAAGTTGCAGTGGATCGGATTAAAGCTACAGAAGA
AAAAATTTATCTCTCTGAAGTTACAGCAGAGCAAAA
Done.