Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005906.1 Kokia drynarioides strain JFW-HI SEQ_120260, 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: 39274
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:1259 original size:59 final size:60
Alignment explanation
Indices: 1115--1271 Score: 217
Period size: 60 Copynumber: 2.6 Consensus size: 60
1105 TTGGTAAATA
* * **
1115 AAAAAAATCAAATTTTTAGGTGTTGGCCATGCCATGGTTGACACCCCTTTTTTATCAGAT
1 AAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGGCCGACACCCCTTTTTTATCAGAT
* * *
1175 AAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGGCCGACACCTCTTTTTTATCTGGT
1 AAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGGCCGACACCCCTTTTTTATCAGAT
* * *
1235 AAAATATT-AATTTTTTTGGTGTTGGCCATGCAATGGC
1 AAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGGC
1272 TGCCACCAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
59 27 0.31
60 60 0.69
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (60 bp):
AAAAAATTCAAATTTTTTGGTGTTGGCCATGCCATGGCCGACACCCCTTTTTTATCAGAT
Found at i:2866 original size:92 final size:91
Alignment explanation
Indices: 2769--2945 Score: 205
Period size: 91 Copynumber: 1.9 Consensus size: 91
2759 CACAAAAAAA
* * * * *
2769 TTGATTTTTTA-CCAGATAAAAAAGGGGATGTCGGCCATG-ACATGGCCAACACAAAAAAAAATT
1 TTGATTTTTTATCCAAAT-AAAAAGAGGA-ATCGACCATGCA-ATAGCCAACACAAAAAAAAATT
* * * *
2832 GAATTTTTTATCTGACAAAAAGGAAAATT
63 AAAATTTTTATATGAAAAAAAGGAAAATT
* * *
2861 TTGATTTTTTATTCAAATAAAAAGAGGAATCGACCATGCAATAGCCAACACCAAAAAAATTTAAA
1 TTGATTTTTTATCCAAATAAAAAGAGGAATCGACCATGCAATAGCCAACACAAAAAAAAATTAAA
2926 ATTTTTATATGAAAAAAAGG
66 ATTTTTATATGAAAAAAAGG
2946 GTGTCGATCA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
91 46 0.65
92 21 0.30
93 4 0.06
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (91 bp):
TTGATTTTTTATCCAAATAAAAAGAGGAATCGACCATGCAATAGCCAACACAAAAAAAAATTAAA
ATTTTTATATGAAAAAAAGGAAAATT
Found at i:2989 original size:58 final size:59
Alignment explanation
Indices: 2890--3091 Score: 168
Period size: 58 Copynumber: 3.5 Consensus size: 59
2880 AAAAGAGGAA
* * **
2890 TCGACCAT-GCAATAGCCAACACCAAAAAAATTTAAAATTTTTAT-ATGAAAAAAAGG-GTG
1 TCGACCATGGC-ATGGCCAACACC-AAAAAATTTGATTTTTTTATCAT-AAAAAAAGGAGTG
* * * *
2949 TCGATCATTGCA-GGACCAACACCAAAAAATTTGATTTTTTTATCATATAAATAGGAGTG
1 TCGACCATGGCATGG-CCAACACCAAAAAATTTGATTTTTTTATCATAAAAAAAGGAGTG
* * * *
3008 TCGGCCATGGCATGGCCAACA-CAAAAAA-TTGA-TTTTTTATCAGATTAAAAGGGAGTG
1 TCGACCATGGCATGGCCAACACCAAAAAATTTGATTTTTTTATCATA-AAAAAAGGAGTG
* *
3065 TCGGCCAT-GCATTGGCCAACATCAAAA
1 TCGACCATGGCA-TGGCCAACACCAAAA
3092 TTTATTTTTT
Statistics
Matches: 122, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
56 14 0.11
57 31 0.25
58 37 0.30
59 36 0.30
60 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGACCATGGCATGGCCAACACCAAAAAATTTGATTTTTTTATCATAAAAAAAGGAGTG
Found at i:3009 original size:59 final size:57
Alignment explanation
Indices: 2855--3091 Score: 175
Period size: 59 Copynumber: 4.1 Consensus size: 57
2845 GACAAAAAGG
* * * *
2855 AAAATTTTGATTTTTTATTCAAATAAAAAGAG-GAATCGACCAT-GCAATAGCCAACACCAA
1 AAAAATTTGATTTTTTA-TCATATAAAAGGAGTG--TCGACCATGGC-ATGGCCAACACC-A
* * * * *
2915 AAAAATTTAAAATTTTTAT-ATGAAAAAAAGG-GTGTCGATCATTGCA-GGACCAACACCA
1 AAAAATTT-GATTTTTTATCAT--ATAAAAGGAGTGTCGACCATGGCATGG-CCAACACCA
*
2973 AAAAATTTGATTTTTTTATCATATAAATAGGAGTGTCGGCCATGGCATGGCCAACA-CA
1 AAAAATTTGA-TTTTTTATCATATAAA-AGGAGTGTCGACCATGGCATGGCCAACACCA
* * *
3031 AAAAA-TTGATTTTTTATCAGATTAAAAGGGAGTGTCGGCCAT-GCATTGGCCAACATCA
1 AAAAATTTGATTTTTTATCATA-TAAAA-GGAGTGTCGACCATGGCA-TGGCCAACACCA
3089 AAA
1 AAA
3092 TTTATTTTTT
Statistics
Matches: 147, Mismatches: 15, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
56 15 0.10
57 36 0.24
58 32 0.22
59 37 0.25
60 13 0.09
61 14 0.10
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (57 bp):
AAAAATTTGATTTTTTATCATATAAAAGGAGTGTCGACCATGGCATGGCCAACACCA
Found at i:3043 original size:57 final size:59
Alignment explanation
Indices: 2964--3091 Score: 176
Period size: 57 Copynumber: 2.2 Consensus size: 59
2954 CATTGCAGGA
*
2964 CCAACACCAAAAAATTTGATTTTTTTATCATA-TAAATA-GGAGTGTCGGCCATGGCA-TGG
1 CCAACACCAAAAAATTTGA-TTTTTTATCAGATTAAA-AGGGAGTGTCGGCCAT-GCATTGG
3023 CCAACA-CAAAAAA-TTGATTTTTTATCAGATTAAAAGGGAGTGTCGGCCATGCATTGG
1 CCAACACCAAAAAATTTGATTTTTTATCAGATTAAAAGGGAGTGTCGGCCATGCATTGG
*
3080 CCAACATCAAAA
1 CCAACACCAAAA
3092 TTTATTTTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
56 15 0.23
57 31 0.48
58 12 0.19
59 6 0.09
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (59 bp):
CCAACACCAAAAAATTTGATTTTTTATCAGATTAAAAGGGAGTGTCGGCCATGCATTGG
Found at i:3099 original size:56 final size:55
Alignment explanation
Indices: 2964--3101 Score: 156
Period size: 56 Copynumber: 2.4 Consensus size: 55
2954 CATTGCAGGA
*
2964 CCAACACCAAAAAATTTGATTTTTTTATCATATAAATAGGAGTGTCGGCCATGGCATGG
1 CCAACA-C-AAAAATTT-A-TTTTTTATCAGATAAATAGGAGTGTCGGCCATGGCATGG
*
3023 CCAACACAAAAAATTGATTTTTTATCAGATTAAA-AGGGAGTGTCGGCCAT-GCATTGG
1 CCAACAC-AAAAATTTATTTTTTATCAGA-TAAATA-GGAGTGTCGGCCATGGCA-TGG
3080 CCAACATC-AAAATTTATTTTTT
1 CCAACA-CAAAAATTTATTTTTT
3102 CTGTCAGATG
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
56 28 0.39
57 28 0.39
58 10 0.14
59 6 0.08
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (55 bp):
CCAACACAAAAATTTATTTTTTATCAGATAAATAGGAGTGTCGGCCATGGCATGG
Found at i:3101 original size:57 final size:57
Alignment explanation
Indices: 2964--3110 Score: 160
Period size: 57 Copynumber: 2.5 Consensus size: 57
2954 CATTGCAGGA
*
2964 CCAACACCAAAAAATTTGATTTTTTTATCATA-TAAATAGGAGTGTCGGCCATGGCATGG
1 CCAACA-C-AAAAATTT-ATTTTTTTATCAGATTAAATAGGAGTGTCGGCCATGGCATGG
*
3023 CCAACACAAAAAATTGA-TTTTTTATCAGATTAAA-AGGGAGTGTCGGCCAT-GCATTGG
1 CCAACAC-AAAAATTTATTTTTTTATCAGATTAAATA-GGAGTGTCGGCCATGGCA-TGG
*
3080 CCAACATC-AAAATTTATTTTTTCTGTCAGAT
1 CCAACA-CAAAAATTTATTTTTT-TATCAGAT
3111 GGCCGACACC
Statistics
Matches: 78, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
56 22 0.28
57 33 0.42
58 17 0.22
59 6 0.08
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (57 bp):
CCAACACAAAAATTTATTTTTTTATCAGATTAAATAGGAGTGTCGGCCATGGCATGG
Found at i:3137 original size:30 final size:33
Alignment explanation
Indices: 3077--3140 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
3067 GGCCATGCAT
*
3077 TGGCCAACATCAAAATTTATTTTTTCTGTCAGA
1 TGGCCAACACCAAAATTTATTTTTTCTGTCAGA
*
3110 TGGCCGACACCAAAA-TT-TTTTTT-TGTCAGA
1 TGGCCAACACCAAAATTTATTTTTTCTGTCAGA
3140 T
1 T
3141 AAAAAAGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 8 0.28
31 6 0.21
32 2 0.07
33 13 0.45
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (33 bp):
TGGCCAACACCAAAATTTATTTTTTCTGTCAGA
Found at i:4682 original size:51 final size:48
Alignment explanation
Indices: 4626--4729 Score: 127
Period size: 51 Copynumber: 2.1 Consensus size: 48
4616 AATAACATAC
* *
4626 ATAAATATTTATGTTTATGTAAAAACACCAGATTTAAACAAAACAAATTAA
1 ATAAATATTTATATTTAT-TAAAAACACCAGATCT-AA-AAAACAAATTAA
* * *
4677 ATAAATATTTATATTTATTTAAAACATCATATCTAAAAAACAAATTAA
1 ATAAATATTTATATTTATTAAAAACACCAGATCTAAAAAACAAATTAA
*
4725 TTAAA
1 ATAAA
4730 CAAGATTTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 16 0.34
49 2 0.04
50 12 0.26
51 17 0.36
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.35
Consensus pattern (48 bp):
ATAAATATTTATATTTATTAAAAACACCAGATCTAAAAAACAAATTAA
Found at i:22109 original size:5 final size:5
Alignment explanation
Indices: 22099--22147 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
22089 ATTATAAAAT
*
22099 TTAAA TTAAA TTAAA TTAAA TAATAAA --AAA -TAAA TTCAA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA T--TAAA TTAAA TTAAA TTAAA TTAAA TTAAA
22148 ACTTTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
4 3 0.08
5 28 0.74
7 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (5 bp):
TTAAA
Found at i:22117 original size:29 final size:29
Alignment explanation
Indices: 22085--22147 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
22075 TTAAATACTT
* **
22085 TTAAATTATAAAATTTAAATTAAATTAAA
1 TTAAATAATAAAAAATAAATTAAATTAAA
*
22114 TTAAATAATAAAAAATAAATTCAATTAAA
1 TTAAATAATAAAAAATAAATTAAATTAAA
22143 TTAAA
1 TTAAA
22148 ACTTTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (29 bp):
TTAAATAATAAAAAATAAATTAAATTAAA
Found at i:22724 original size:45 final size:43
Alignment explanation
Indices: 22665--22753 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 43
22655 AAGTATAGTC
* *
22665 TAAGTATCACTTGAGATAAT-TGATTACAATTTAAATATCATTTT
1 TAAGTATAACTTGAGA-AATAT-AATACAATTTAAATATCATTTT
*
22709 TAAGTATTAACTTGAGAAATATAATATAATTTAAATATCATTTT
1 TAAGTA-TAACTTGAGAAATATAATACAATTTAAATATCATTTT
22753 T
1 T
22754 TGATTTAGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 30 0.75
45 10 0.25
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.44
Consensus pattern (43 bp):
TAAGTATAACTTGAGAAATATAATACAATTTAAATATCATTTT
Found at i:25184 original size:60 final size:60
Alignment explanation
Indices: 25120--25552 Score: 272
Period size: 59 Copynumber: 7.3 Consensus size: 60
25110 CGGAGAATAC
* * * * *
25120 GGGGTCAAAATGTGATTTTAGG-GAAGTTTG-GGGTTGAAATGTGATTTTTAGG-AAGGTTTA
1 GGGGTTAAAATGTGATTTT-GGACAAGTTTGAGGGTTAAAATGT-AATTTT-GGAAAGCTTTA
25180 GGGGTTAAAATGTGATTTTGGACAAGTTTGAGGGTTAAAATGTAATTTTGGAAAGCTTTA
1 GGGGTTAAAATGTGATTTTGGACAAGTTTGAGGGTTAAAATGTAATTTTGGAAAGCTTTA
** * * * * **
25240 GGGGTTAAAATGCAACTTTGGAAAAATTTTAAGGGTTAAAATACAATTTTGGAAAAG-TTTA
1 GGGGTTAAAATGTGATTTTGG-ACAAGTTTGAGGGTTAAAATGTAATTTTGG-AAAGCTTTA
* * * *
25301 GGGGTTAAAATGTAAATTTAGAAAAGTTT----GTTCAAAATGTAATTTTGGAAAAG-TTT-
1 GGGGTTAAAATGTGATTTTGGACAAGTTTGAGGGTT-AAAATGTAATTTTGG-AAAGCTTTA
* * * ** * *
25357 GAGGG-TCAAATGTAATTTTGGAGAAGTTTG-GGGTCGAAATGTAATTTTAGATAAG-TTTT
1 G-GGGTTAAAATGTGATTTTGGACAAGTTTGAGGGTTAAAATGTAATTTTGGA-AAGCTTTA
*** * * ** *
25416 GGGACCAAAATATGATTTTGGA-AAGGTTTGAGGTTTAAAATACAATTTT-GAGAAG-TTTT
1 GGGGTTAAAATGTGATTTTGGACAA-GTTTGAGGGTTAAAATGTAATTTTGGA-AAGCTTTA
* * ** *
25475 GGGGTTAAAATGTGATTTTGGA-AAGGTTTAAGGGTCAAAATACAATTTTGGGAAG-TTTA
1 GGGGTTAAAATGTGATTTTGGACAA-GTTTGAGGGTTAAAATGTAATTTTGGAAAGCTTTA
* * *
25534 AGAGTTAAAATGTAATTTT
1 GGGGTTAAAATGTGATTTT
25553 TAAAGAAAAC
Statistics
Matches: 308, Mismatches: 49, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
56 24 0.08
57 25 0.08
58 23 0.07
59 98 0.32
60 76 0.25
61 58 0.19
62 4 0.01
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (60 bp):
GGGGTTAAAATGTGATTTTGGACAAGTTTGAGGGTTAAAATGTAATTTTGGAAAGCTTTA
Found at i:25523 original size:30 final size:29
Alignment explanation
Indices: 25121--25552 Score: 270
Period size: 30 Copynumber: 14.6 Consensus size: 29
25111 GGAGAATACG
* * * *
25121 GGGTCAAAATGTGATTTTAGGGAAGTTT-G
1 GGGTTAAAATGTAATTTT-GGAAAGTTTAA
* * * *
25150 GGGTTGAAATGTGATTTTTAGGAAGGTTTAG
1 GGGTTAAAATGT-AATTTT-GGAAAGTTTAA
* *
25181 GGGTTAAAATGTGATTTTGGACAAGTTTGA
1 GGGTTAAAATGTAATTTTGGA-AAGTTTAA
*
25211 GGGTTAAAATGTAATTTTGGAAAGCTTTAG
1 GGGTTAAAATGTAATTTTGGAAAG-TTTAA
* * *
25241 GGGTTAAAATGCAACTTTGGAAAAATTTTAA
1 GGGTTAAAATGTAATTTTGG--AAAGTTTAA
** *
25272 GGGTTAAAATACAATTTTGGAAAAGTTTAG
1 GGGTTAAAATGTAATTTTGG-AAAGTTTAA
* *
25302 GGGTTAAAATGTAAATTTAGAAAAGTTT--
1 GGGTTAAAATGT-AATTTTGGAAAGTTTAA
*
25330 --GTTCAAAATGTAATTTTGGAAAAGTTTGA
1 GGGTT-AAAATGTAATTTTGG-AAAGTTTAA
* *
25359 GGG-TCAAATGTAATTTTGGAGAAGTTT-G
1 GGGTTAAAATGTAATTTTGGA-AAGTTTAA
** * *
25387 GGGTCGAAATGTAATTTTAGATAAGTTT-T
1 GGGTTAAAATGTAATTTTGGA-AAGTTTAA
** * * *
25416 GGGACCAAAATATGATTTTGGAAAGGTTTGA
1 GGG-TTAAAATGTAATTTTGGAAA-GTTTAA
* ** **
25447 GGTTTAAAATACAATTTT-GAGAAGTTTTG
1 GGGTTAAAATGTAATTTTGGA-AAGTTTAA
*
25476 GGGTTAAAATGTGATTTTGGAAAGGTTTAA
1 GGGTTAAAATGTAATTTTGGAAA-GTTTAA
* ** *
25506 GGGTCAAAATACAATTTTGGGAAGTTTAA
1 GGGTTAAAATGTAATTTTGGAAAGTTTAA
*
25535 GAGTTAAAATGTAATTTT
1 GGGTTAAAATGTAATTTT
25553 TAAAGAAAAC
Statistics
Matches: 318, Mismatches: 64, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
26 9 0.03
27 14 0.04
28 4 0.01
29 103 0.32
30 142 0.45
31 43 0.14
32 3 0.01
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTGGAAAGTTTAA
Found at i:25541 original size:59 final size:57
Alignment explanation
Indices: 25165--25552 Score: 282
Period size: 59 Copynumber: 6.6 Consensus size: 57
25155 GAAATGTGAT
* * * **
25165 TTTTAGGAAGGTTTAGGGGTTAAAATGTGATTTTGGACAAGTTTGAGGGTTAAAATGTAA
1 TTTT-GGAAAGTTTAGGGGTTAAAATGTAATTTTGGA-AAGTTT-AGGGTCAAAATACAA
* * * *
25225 TTTTGGAAAGCTTTAGGGGTTAAAATGCAACTTTGGAAAAATTTTAAGGGTTAAAATACAA
1 TTTTGGAAAG-TTTAGGGGTTAAAATGTAATTTTGG--AAAGTTT-AGGGTCAAAATACAA
* * * **
25286 TTTTGGAAAAGTTTAGGGGTTAAAATGTAAATTTAGAAAAGTTT--GTTCAAAATGTAA
1 TTTTGG-AAAGTTTAGGGGTTAAAATGT-AATTTTGGAAAGTTTAGGGTCAAAATACAA
* * * **
25343 TTTTGGAAAAGTTT-GAGGG-TCAAATGTAATTTTGGAGAAGTTTGGGGTCGAAATGTAA
1 TTTTGG-AAAGTTTAG-GGGTTAAAATGTAATTTTGGA-AAGTTTAGGGTCAAAATACAA
* * *** * * * *
25401 TTTTAGATAAGTTTTGGGACCAAAATATGATTTTGGAAAGGTTTGAGGTTTAAAATACAA
1 TTTTGGA-AAGTTTAGGGGTTAAAATGTAATTTTGGAAA-GTTT-AGGGTCAAAATACAA
* *
25461 TTTT-GAGAAGTTTTGGGGTTAAAATGTGATTTTGGAAAGGTTTAAGGGTCAAAATACAA
1 TTTTGGA-AAGTTTAGGGGTTAAAATGTAATTTTGGAAA-GTTT-AGGGTCAAAATACAA
* * *
25520 TTTTGGGAAGTTTAAGAGTTAAAATGTAATTTT
1 TTTTGGAAAGTTTAGGGGTTAAAATGTAATTTT
25553 TAAAGAAAAC
Statistics
Matches: 266, Mismatches: 47, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
55 7 0.03
56 14 0.05
57 27 0.10
58 26 0.10
59 96 0.36
60 46 0.17
61 40 0.15
62 10 0.04
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (57 bp):
TTTTGGAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAGTTTAGGGTCAAAATACAA
Found at i:27008 original size:13 final size:13
Alignment explanation
Indices: 26990--27015 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26980 GGTCTAGGGA
26990 GTTTTGGGTTTAG
1 GTTTTGGGTTTAG
27003 GTTTTGGGTTTAG
1 GTTTTGGGTTTAG
27016 TGATATTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.38, T:0.54
Consensus pattern (13 bp):
GTTTTGGGTTTAG
Found at i:29628 original size:44 final size:44
Alignment explanation
Indices: 29580--29669 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
29570 ACATATGTGG
29580 AATGTTTATGAAAACGGTACATGAAATGCATGAGCGTGAATGTT
1 AATGTTTATGAAAACGGTACATGAAATGCATGAGCGTGAATGTT
29624 AATGTTTATGAAAACGGTACATGAAATGCATGAGCGTGAATGTT
1 AATGTTTATGAAAACGGTACATGAAATGCATGAGCGTGAATGTT
29668 AA
1 AA
29670 ATGAAATTAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (44 bp):
AATGTTTATGAAAACGGTACATGAAATGCATGAGCGTGAATGTT
Done.