Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015030.1 Kokia drynarioides strain JFW-HI SEQ_130074, 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: 91405
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Warning! 201 characters in sequence are not A, C, G, or T
Found at i:3142 original size:2 final size:2
Alignment explanation
Indices: 3131--3167 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3121 TAACTCCGGA
3131 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3168 CATAAAGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:19217 original size:24 final size:24
Alignment explanation
Indices: 19190--19238 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
19180 TAGCACACTG
19190 ATGTTTACTAGGTCGAATAATAAA
1 ATGTTTACTAGGTCGAATAATAAA
* *
19214 ATGTTTATTAGGTCTAATAATAAA
1 ATGTTTACTAGGTCGAATAATAAA
19238 A
1 A
19239 AGTTGAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (24 bp):
ATGTTTACTAGGTCGAATAATAAA
Found at i:26633 original size:814 final size:817
Alignment explanation
Indices: 25056--27475 Score: 4224
Period size: 814 Copynumber: 3.0 Consensus size: 817
25046 GGTTTTGCTG
* *
25056 TTTTTTTTTTTTGCAGTCAACAGCTGCTGCAACAGTGATGACATAAAATCGAATTCAGTAAAGTG
1 TTTTTTTTTTTTGCAGTCAACAGCTGCTGCAACACTGATGTCATAAAATCGAATTCAGTAAAGTG
25121 TAATAATAATAAGTGAAGTGACGTCACGTCTCAGAAAACACAATGTAATTAAGGATAAAGCTTAT
66 TAATAATAATAAGTGAAGT---G--ACGTCTCAGAAAACACAATGTAATTAAGGATAAAGCTTAT
* * *
25186 CTCACCCATTAACTTGCTGCTGTTGGCTTTGATTCTGTTTATATAACAATATTATAATCAAATTG
126 CTCATCCATTAACTTACTGCCGTTGGCTTTGATTCTGTTTATATAACAATATTATAATCAAATTG
* *
25251 GTTCTTAGGCTTTTGTCAATTAGCCTCTGGCCTACTTATGATATTTTAATTTAAGTTAAATTATA
191 GTTCTTAGGCTTTTGTCAATTAGCCTCTGGCCTACTTATGATATTTTAATTTAAGATAAATTATC
* ** *
25316 AAAATAATTACTTTTATTTATCTCGAATTATATTTTAGTCATTAATGTATGAAATATTACGTTTT
256 AAAATAGTTACTTTTATTTATCTCGGGTTACATTTTAGTCATTAATGTATGAAATATTACGTTTT
* *
25381 AGTCATTTATGTTATCGTATTATAATATTTTAGTCACTGAATGTTAATTATCATTAACAGTGTAA
321 AGTCATTTACGTTATCGTATTATAATATTTTAGTCACTGAATGTTAATTATCATTAACGGTGTAA
*
25446 CGGTAAGCTCACGTGAGACGTTAAATCATCACTTCAAAC--AAA-TTTAGATTAAATTATATAAT
386 CGGTAAGCTCACGTGACACGTTAAATCATCACTTCAAACAAAAATTTTAGATTAAATTATATAAT
25508 TGATCCCTATATTTTTTCGTTTTGAGCAGTTTAATTTTTAACAAATGAAAAACATAAAAAAAACT
451 TGATCCCTATATTTTTTCGTTTTGAGCAGTTTAATTTTTAACAAATGAAAAACATAAAAAAAACT
* * *
25573 ACGTTAAAAGAGATGGATAAGAGAGAAAAACAGAGGGAGAAGTATAAGAAAATAAAAAATAAATA
516 ACGTTAAAAGAGATGGAAAAGAGAGGAAAACAGAGGGAGAAGTATAAGAAAATAAAAAATAAAGA
*
25638 AAAAAAGGAAAGTTAAAATAACATAAAAAAATTAAATTGTTCAAAACGAAAAAATAAAAAAATTA
581 AAAAAAGGAAAGTTAAAATAACATAAAAAAATTAAATTGTTCAAAACGAAAAAATAGAAAAATTA
*
25703 ATTGTATAATTTAACCTAAATTTTTTGTTTGAAATGATGATTTAACGTGTCAGATCAGCTTATCA
646 ATTGTATAATTTAACCTAAATTTTTTATTTGAAATGATGATTTAACGTGTCAGATCAGCTTATCA
25768 TTACACCGTTAACGGTAATTAATAGA-TCAGTGACTAAAATATTGCAACCCATTAATATAAGTGA
711 TTACACCGTTAACGGTAATTAAT-GACTCAGTGACTAAAATATTGCAACCCATTAATATAAGTGA
25832 TTAAAACGTAACGTTTTGTTCTCTAGATTTTGCTGATGTGTTT
775 TTAAAACGTAACGTTTTGTTCTCTAGATTTTGCTGATGTGTTT
*
25875 TTTTTTTTTTTTGCAGTCAACAGCTGCTGCAACACTGATGTCATGAAATCGAATTCAGTAAAGTG
1 TTTTTTTTTTTTGCAGTCAACAGCTGCTGCAACACTGATGTCATAAAATCGAATTCAGTAAAGTG
25940 TAATAATAATAAGTGAAGTGACGTCTCAGAAAACACAATGTAATTAAGGATAAAGCTTATCTCAT
66 TAATAATAATAAGTGAAGTGACGTCTCAGAAAACACAATGTAATTAAGGATAAAGCTTATCTCAT
26005 CCATTAACTTACTGCCGTTGGCTTTGATTCTGTTTATATAACAATATTATAATCAAATTGGTTCT
131 CCATTAACTTACTGCCGTTGGCTTTGATTCTGTTTATATAACAATATTATAATCAAATTGGTTCT
26070 TAGGCTTTTGTCAATTAGCCTCTGGCCTACTTATGATATTTTAATTTAAGATAAATTATCAAAAT
196 TAGGCTTTTGTCAATTAGCCTCTGGCCTACTTATGATATTTTAATTTAAGATAAATTATCAAAAT
*
26135 AGTTATTTTTATTTATCTCGGGTTACATTTTAGTCATTAATGTATGAAATATTACGTTTT-GTCA
261 AGTTACTTTTATTTATCTCGGGTTACATTTTAGTCATTAATGTATGAAATATTACGTTTTAGTCA
26199 TTTACGTTATCGTATTATAATATTTTAGTCACTGAATGTTAATTATCATTAACGGTGTAACGGTA
326 TTTACGTTATCGTATTATAATATTTTAGTCACTGAATGTTAATTATCATTAACGGTGTAACGGTA
26264 AGCTCACGTGACACGTTAAATCATCACTTCAAACAAAAATTTTAGATTAAATTATATAATTGATC
391 AGCTCACGTGACACGTTAAATCATCACTTCAAACAAAAATTTTAGATTAAATTATATAATTGATC
*
26329 CCTATATTTTTTCGTTTTGAGCAGTTTAATTTTTAACAAATGAAAAACAT-AAAAAAACTACATT
456 CCTATATTTTTTCGTTTTGAGCAGTTTAATTTTTAACAAATGAAAAACATAAAAAAAACTACGTT
* * * **
26393 AAAAGAAATGGAAAAAAAAGGAAAACAGATAGAGAAGTATAAGAAAATAAAAAATAAAGAAAAAA
521 AAAAGAGATGGAAAAGAGAGGAAAACAGAGGGAGAAGTATAAGAAAATAAAAAATAAAGAAAAAA
* *
26458 GGGAAAGTTAAAATAACATAAAAAATTTAAATTGTTCAAAACG-AAAAATAGAAAAATTAATTGT
586 AGGAAAGTTAAAATAACATAAAAAAATTAAATTGTTCAAAACGAAAAAATAGAAAAATTAATTGT
* * *
26522 ATAATTTAACCTAAATTTTTTATTTGAAATGATGATTTAACTTTTCAGATCAGTTTATCATTACA
651 ATAATTTAACCTAAATTTTTTATTTGAAATGATGATTTAACGTGTCAGATCAGCTTATCATTACA
* **
26587 CCGTTAACGGTAATTAATGACTCAGTAACTAAAATATTATAACCCATTAATATAAGTGATTAAAA
716 CCGTTAACGGTAATTAATGACTCAGTGACTAAAATATTGCAACCCATTAATATAAGTGATTAAAA
26652 CGTAACGTTTTGTTCTCTAGATTTTGCTGATGTGTTT
781 CGTAACGTTTTGTTCTCTAGATTTTGCTGATGTGTTT
26689 TTTTTTTTTTTTGCAGTCAACAGCTGCTGCAACACTGATGTCATAAAATCGAATTCAGTAAAGTG
1 TTTTTTTTTTTTGCAGTCAACAGCTGCTGCAACACTGATGTCATAAAATCGAATTCAGTAAAGTG
*
26754 TAATAATAATAAGTGAAGTGACGTCTCAGAAAACACAATGTAATTAAGGATAAGGCTTATCTCAT
66 TAATAATAATAAGTGAAGTGACGTCTCAGAAAACACAATGTAATTAAGGATAAAGCTTATCTCAT
26819 CCATTAACTTACTGCCGTTGGCTTTGATTCTGTTTATATAACAATATTATAATCAAATTGGTTCT
131 CCATTAACTTACTGCCGTTGGCTTTGATTCTGTTTATATAACAATATTATAATCAAATTGGTTCT
26884 TAGGCTTTTGTCAATTAGCCTCTGGCCTACTTATGATATTTTAATTTAAGATAAATTATCAAAAT
196 TAGGCTTTTGTCAATTAGCCTCTGGCCTACTTATGATATTTTAATTTAAGATAAATTATCAAAAT
* * *
26949 AGCTACTTTTATTTATCTCGGGTTACATTTTAGTCATTAATGTATGAAATGTTACGTTTTAGTTA
261 AGTTACTTTTATTTATCTCGGGTTACATTTTAGTCATTAATGTATGAAATATTACGTTTTAGTCA
* *
27014 TTTACGTTATCGTATTGTAATATTTTAGTCACTGAATGTTAATTGTCATTAACGGTGTAACGGTA
326 TTTACGTTATCGTATTATAATATTTTAGTCACTGAATGTTAATTATCATTAACGGTGTAACGGTA
* *
27079 AACTCACGTGACACGTTAAATCATCACTTCAAACAAAAATTTTAGATTAAATTATATAATTGGTC
391 AGCTCACGTGACACGTTAAATCATCACTTCAAACAAAAATTTTAGATTAAATTATATAATTGATC
*
27144 CCTATATTTTTTCGTTTTGAGCAGTTTAATTTTTAACAAATGGAAAACATAAAAAAAACTACGTT
456 CCTATATTTTTTCGTTTTGAGCAGTTTAATTTTTAACAAATGAAAAACATAAAAAAAACTACGTT
* * * *
27209 AAAAGAGACGGAGAAGGGAGGAAAACAAAGGGAGAAGTATAAGAAAATAAAAAATAAAGAAAAAA
521 AAAAGAGATGGAAAAGAGAGGAAAACAGAGGGAGAAGTATAAGAAAATAAAAAATAAAGAAAAAA
**
27274 AGGAAAGTTAAAATAACATAAAAAAAATTAAATTGTTCAAAACGAAAAAATAGAAAAACCAATTG
586 AGGAAAGTTAAAATAACAT-AAAAAAATTAAATTGTTCAAAACGAAAAAATAGAAAAATTAATTG
27339 TATAATTTAACCTAAATTTTTTATTTGAAATGATGATTTAACGTGTCAGATCAGCTTATCATTAC
650 TATAATTTAACCTAAATTTTTTATTTGAAATGATGATTTAACGTGTCAGATCAGCTTATCATTAC
* * * * * *
27404 ACTGTTAACGGCAATTAATGGCTCAGTGACTAAAATGTTGCAACCCGTTAATATAAGTGACTAAA
715 ACCGTTAACGGTAATTAATGACTCAGTGACTAAAATATTGCAACCCATTAATATAAGTGATTAAA
27469 ACGTAAC
780 ACGTAAC
27476 ATTTCAAACA
Statistics
Matches: 1521, Mismatches: 72, Indels: 17
0.94 0.04 0.01
Matches are distributed among these distances:
813 102 0.07
814 717 0.47
815 292 0.19
816 163 0.11
817 23 0.02
818 143 0.09
819 81 0.05
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (817 bp):
TTTTTTTTTTTTGCAGTCAACAGCTGCTGCAACACTGATGTCATAAAATCGAATTCAGTAAAGTG
TAATAATAATAAGTGAAGTGACGTCTCAGAAAACACAATGTAATTAAGGATAAAGCTTATCTCAT
CCATTAACTTACTGCCGTTGGCTTTGATTCTGTTTATATAACAATATTATAATCAAATTGGTTCT
TAGGCTTTTGTCAATTAGCCTCTGGCCTACTTATGATATTTTAATTTAAGATAAATTATCAAAAT
AGTTACTTTTATTTATCTCGGGTTACATTTTAGTCATTAATGTATGAAATATTACGTTTTAGTCA
TTTACGTTATCGTATTATAATATTTTAGTCACTGAATGTTAATTATCATTAACGGTGTAACGGTA
AGCTCACGTGACACGTTAAATCATCACTTCAAACAAAAATTTTAGATTAAATTATATAATTGATC
CCTATATTTTTTCGTTTTGAGCAGTTTAATTTTTAACAAATGAAAAACATAAAAAAAACTACGTT
AAAAGAGATGGAAAAGAGAGGAAAACAGAGGGAGAAGTATAAGAAAATAAAAAATAAAGAAAAAA
AGGAAAGTTAAAATAACATAAAAAAATTAAATTGTTCAAAACGAAAAAATAGAAAAATTAATTGT
ATAATTTAACCTAAATTTTTTATTTGAAATGATGATTTAACGTGTCAGATCAGCTTATCATTACA
CCGTTAACGGTAATTAATGACTCAGTGACTAAAATATTGCAACCCATTAATATAAGTGATTAAAA
CGTAACGTTTTGTTCTCTAGATTTTGCTGATGTGTTT
Found at i:28748 original size:17 final size:17
Alignment explanation
Indices: 28726--28764 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
28716 TTCTTGAAAT
*
28726 AAAAATTGGAACG-ATAA
1 AAAAATT-GAAAGAATAA
28743 AAAAATTGAAAGAATAA
1 AAAAATTGAAAGAATAA
28760 AAAAA
1 AAAAA
28765 ATAAAGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.69, C:0.03, G:0.13, T:0.15
Consensus pattern (17 bp):
AAAAATTGAAAGAATAA
Found at i:28770 original size:16 final size:17
Alignment explanation
Indices: 28739--28785 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
28729 AATTGGAACG
*
28739 ATAAAAAAATTGAAAG-A
1 ATAAAAAAAAT-AAAGTA
*
28756 ATAAAAAAAATAAAGTG
1 ATAAAAAAAATAAAGTA
*
28773 ATAAAAAATATAA
1 ATAAAAAAAATAA
28786 TTTTTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (17 bp):
ATAAAAAAAATAAAGTA
Found at i:34413 original size:20 final size:20
Alignment explanation
Indices: 34362--34404 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
34352 TTATATGATT
*
34362 ATATATACATCATATTTTATA
1 ATATATAAAT-ATATTTTATA
34383 ATATATAAATATATTTTA-A
1 ATATATAAATATATTTTATA
34402 ATA
1 ATA
34405 ATTTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 8 0.38
21 9 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATAAATATATTTTATA
Found at i:42164 original size:37 final size:37
Alignment explanation
Indices: 42116--42189 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
42106 GCTATTCTTT
*
42116 TATTAAAATTTTAAATAAGATAAATTAACATATTTATG
1 TATTAAAATTTTAAATAAGATAAATT-ACATAATTATG
* *
42154 TATT-AAATTTTATATAATATAAATTACATAATTATG
1 TATTAAAATTTTAAATAAGATAAATTACATAATTATG
42190 AAAAGATAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 10 0.30
37 19 0.58
38 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (37 bp):
TATTAAAATTTTAAATAAGATAAATTACATAATTATG
Found at i:47772 original size:40 final size:40
Alignment explanation
Indices: 47728--47806 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
47718 ACAAAAAATC
*
47728 AATAATTAAACAACTTCAAATCCCTTTTAGAAACAGTGAT
1 AATAATTAAACAACTTCAAATCCCTTGTAGAAACAGTGAT
*
47768 AATAATTAAACAACTTTAAATCCCTTGTAGAAACAGTGA
1 AATAATTAAACAACTTCAAATCCCTTGTAGAAACAGTGA
47807 AAGAAAGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (40 bp):
AATAATTAAACAACTTCAAATCCCTTGTAGAAACAGTGAT
Found at i:49562 original size:25 final size:25
Alignment explanation
Indices: 49528--49578 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
49518 GCGTCTTAGG
49528 TAAGCTCCATTCATTCTAACACGTA
1 TAAGCTCCATTCATTCTAACACGTA
49553 TAAGCTCCATTCATTCTAACACGTA
1 TAAGCTCCATTCATTCTAACACGTA
49578 T
1 T
49579 GTCGTCTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (25 bp):
TAAGCTCCATTCATTCTAACACGTA
Found at i:63336 original size:3 final size:3
Alignment explanation
Indices: 63328--63362 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
63318 TTTCATAAAA
* *
63328 AAT AAT AAT AAT AAT AAT AGT AAT AGT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
63363 ATCATTTCCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:63578 original size:2 final size:2
Alignment explanation
Indices: 63571--63597 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63561 GAAAGCTTAT
63571 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
63598 AAACTCAAGT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:75456 original size:20 final size:20
Alignment explanation
Indices: 75422--75459 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
75412 GGCATTGTTC
75422 GTAACAAAACGATAACATAA
1 GTAACAAAACGATAACATAA
75442 GTAACTAAAAC-ATAACAT
1 GTAAC-AAAACGATAACAT
75460 TTCAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.58, C:0.16, G:0.08, T:0.18
Consensus pattern (20 bp):
GTAACAAAACGATAACATAA
Found at i:78948 original size:117 final size:118
Alignment explanation
Indices: 78804--79043 Score: 455
Period size: 117 Copynumber: 2.0 Consensus size: 118
78794 CGTAAAAATG
78804 AAAACACTAAAAAAATCCAAGATAGTTGGGTGATCAAAAAAGACAAAATTGAATAGTTAGATGAT
1 AAAACACTAAAAAAATCCAAGATAGTTGGGTGATCAAAAAAGACAAAATTGAATAGTTAGATGAT
*
78869 CATTTTGTAACTTTTCATTGTTGGGTGATCATTAATGTAGTTTACCCTTTTTT
66 CATTTTGTAACTTTTCATTGTTAGGTGATCATTAATGTAGTTTACCCTTTTTT
78922 AAAACACT-AAAAAATCCAAGATAGTTGGGTGATCAAAAAAGACAAAATTGAATAGTTAGATGAT
1 AAAACACTAAAAAAATCCAAGATAGTTGGGTGATCAAAAAAGACAAAATTGAATAGTTAGATGAT
*
78986 CATTTTGTAATTTTTCATTGTTAGGTGATCATTAATGTAGTTTACCCTTTTTT
66 CATTTTGTAACTTTTCATTGTTAGGTGATCATTAATGTAGTTTACCCTTTTTT
79039 AAAAC
1 AAAAC
79044 CATATTGTCT
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
117 112 0.93
118 8 0.07
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (118 bp):
AAAACACTAAAAAAATCCAAGATAGTTGGGTGATCAAAAAAGACAAAATTGAATAGTTAGATGAT
CATTTTGTAACTTTTCATTGTTAGGTGATCATTAATGTAGTTTACCCTTTTTT
Found at i:85013 original size:51 final size:51
Alignment explanation
Indices: 84958--85077 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 51
84948 AACTCTCAAA
* *
84958 ATTTATACATTTTGTCAATTTGCTCTTGATTTAACAAATTTAACCAACAAC
1 ATTTATACATTCTGTCAATTTGATCTTGATTTAACAAATTTAACCAACAAC
* * * * * ***
85009 ATTTATGCATTCTATTAATTTTATCTTGATTTAACAAATTTAGCCCGTAAC
1 ATTTATACATTCTGTCAATTTGATCTTGATTTAACAAATTTAACCAACAAC
*
85060 ATTTACACATTCTGTCAA
1 ATTTATACATTCTGTCAA
85078 CATTTATATA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (51 bp):
ATTTATACATTCTGTCAATTTGATCTTGATTTAACAAATTTAACCAACAAC
Found at i:88654 original size:29 final size:29
Alignment explanation
Indices: 88622--88692 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
88612 AAAATTTTTA
*
88622 AAAATTTTAATTTAACCCCTAAACTTTCT
1 AAAATTTTAATTTAACCCCTAAACTTTCC
** *
88651 AAAATTGCATTTTAACCCCTAAACTTTCC
1 AAAATTTTAATTTAACCCCTAAACTTTCC
*
88680 AACATTTTAATTT
1 AAAATTTTAATTT
88693 TGACCTTTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.41
Consensus pattern (29 bp):
AAAATTTTAATTTAACCCCTAAACTTTCC
Found at i:90024 original size:18 final size:18
Alignment explanation
Indices: 90001--90043 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
89991 ACTTACCACA
90001 AATTGAAAATTGTGACAC
1 AATTGAAAATTGTGACAC
90019 AATTGAAAATTGTGACAC
1 AATTGAAAATTGTGACAC
*
90037 CATTGAA
1 AATTGAA
90044 TTTCTCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (18 bp):
AATTGAAAATTGTGACAC
Found at i:90467 original size:24 final size:24
Alignment explanation
Indices: 90439--90486 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
90429 AAATTCGTAA
*
90439 GTAAAATAAATTATGCTAATAAAT
1 GTAAAATAAATTATACTAATAAAT
* *
90463 GTAAAATATATTATATTAATAAAT
1 GTAAAATAAATTATACTAATAAAT
90487 ACTATATCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (24 bp):
GTAAAATAAATTATACTAATAAAT
Found at i:90962 original size:14 final size:14
Alignment explanation
Indices: 90943--90978 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
90933 AAGCTGAGGA
90943 AAGAGCTTTTGTTG
1 AAGAGCTTTTGTTG
90957 AAGAGCTTTTGTTG
1 AAGAGCTTTTGTTG
90971 AAGGAGCT
1 AA-GAGCT
90979 GAAAGAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (14 bp):
AAGAGCTTTTGTTG
Done.