Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_316 ID=scaffold_316-JGI_221_v2.0
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: 9821
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.26
Warning! 1534 characters in sequence are not A, C, G, or T
Found at i:95 original size:17 final size:17
Alignment explanation
Indices: 73--109 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
63 AATCTTGAAT
73 AAATAATAA-AAAATAAA
1 AAATAA-AATAAAATAAA
90 AAATAAAATAAAATAAA
1 AAATAAAATAAAATAAA
107 AAA
1 AAA
110 ACCATATGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAAATAAA
Found at i:3025 original size:134 final size:133
Alignment explanation
Indices: 2786--3045 Score: 475
Period size: 134 Copynumber: 1.9 Consensus size: 133
2776 NNNNNNNNNN
*
2786 CACTGCCAAATACAGGGAGATAGAGTATCGGCTTCCATGTACTCCTCTGTAGTCAGGGAGGTAAA
1 CACTGCCAAATACAGGGAGATAGAGTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAA
2851 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
66 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
2916 TTC
131 TTC
* *
2919 CACTGTCAAATATAGGGAGATAGAGTTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAA
1 CACTGCCAAATACAGGGAGATAGAG-TATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAA
*
2984 AATCTGTCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAA
65 AATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAA
3046 CCAGCTCTGC
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
133 23 0.19
134 99 0.81
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (133 bp):
CACTGCCAAATACAGGGAGATAGAGTATCGGCTTCAATGTACTCCTCTGTAGTCAGGGAGGTAAA
ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
TTC
Found at i:3114 original size:86 final size:86
Alignment explanation
Indices: 2993--3292 Score: 519
Period size: 86 Copynumber: 3.5 Consensus size: 86
2983 AAATCTGTCA
* * * **
2993 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCCGTC-AATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTA
3058 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
*
3080 TCTTCGATCTGCTTCACCGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCCGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
3145 AAACGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
3166 TCTTCGATCTGCTTCGCCGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCCGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
3231 AAACGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
3252 TCTTCAATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 TCTTCGATCTGCTTCGCCGTCAATGCAGGAAGGCAAGATCT
3293 ATTTTTCGAT
Statistics
Matches: 204, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
86 186 0.91
87 18 0.09
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCCGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:3160 original size:44 final size:44
Alignment explanation
Indices: 3024--3246 Score: 130
Period size: 44 Copynumber: 5.2 Consensus size: 44
3014 AAATACAGGA
**
3024 AGGCAAGATCTGCAATCTTCAACCAGCTCTGCTACAAACGAGAG
1 AGGCAAGATCTGTTATCTTCAACCAGCTCTGCTACAAACGAGAG
* * * * * ** *
3068 AGGCAAG--GT-TTGTCTTCGATCTGCTTCACCGT-C-AATGCAG-G
1 AGGCAAGATCTGTTATCTTCAACCAGC-TCTGC-TACAAACG-AGAG
3109 AAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTACAAACGAGAG
1 -AGGCAAGATCTGTTATCTTCAACCAGCTCTGCTACAAACGAGAG
* * * * * *
3154 AGGCAAG--GT-TTGTCTTCGATCTGCT-TCGCCGT-C-AATGCAG-G
1 AGGCAAGATCTGTTATCTTCAACCAGCTCT-G-C-TACAAACG-AGAG
3195 AAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTACAAACGAGAG
1 -AGGCAAGATCTGTTATCTTCAACCAGCTCTGCTACAAACGAGAG
3240 AGGCAAG
1 AGGCAAG
3247 GTTTGTCTTC
Statistics
Matches: 127, Mismatches: 30, Indels: 44
0.63 0.15 0.22
Matches are distributed among these distances:
40 1 0.01
41 30 0.24
42 26 0.20
43 4 0.03
44 33 0.26
45 32 0.25
46 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (44 bp):
AGGCAAGATCTGTTATCTTCAACCAGCTCTGCTACAAACGAGAG
Found at i:3288 original size:42 final size:42
Alignment explanation
Indices: 3068--3288 Score: 125
Period size: 42 Copynumber: 5.2 Consensus size: 42
3058 CAAACGAGAG
* * *
3068 AGGCAAGGTTTGTCTTCGATCTGCTTCACCGTCAATGCAGGA
1 AGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGGA
* * * * * *
3110 AGGCAAGATCTGTTATCTTCAACCAGC-TCTGCT-ACAA-AC-GAGA
1 AGGCAAG--GT-TTGTCTTCAATCTGCTTC-GCTGTCAATGCAG-GA
* *
3153 GAGGCAAGGTTTGTCTTCGATCTGCTTCGCCGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGGA
* * * * * *
3196 AGGCAAGATCTGTTATCTTCAACCAGC-TCTGCT-ACAA-AC-GAGA
1 AGGCAAG--GT-TTGTCTTCAATCTGCTTC-GCTGTCAATGCAG-GA
3239 GAGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGGA
3282 AGGCAAG
1 AGGCAAG
3289 ATCTATTTTT
Statistics
Matches: 128, Mismatches: 31, Indels: 40
0.64 0.16 0.20
Matches are distributed among these distances:
41 28 0.22
42 35 0.27
43 12 0.09
44 28 0.22
45 25 0.20
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGGA
Found at i:3361 original size:44 final size:44
Alignment explanation
Indices: 3312--3914 Score: 556
Period size: 44 Copynumber: 13.7 Consensus size: 44
3302 TCCATTTCCT
* * * *
3312 ACCAATATAGAAAGACAGGACCTGCAATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * *
3356 GCCAATACATGAAGACAAGATCTGTTTTCTTTGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * *
3401 ACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
*
3443 TACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
3488 GCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * *
3533 ACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
3575 TACCAATATAGGAAGACAGGACCTGCTCTCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
3620 GCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * *
3665 ACCAGTATGGGAATACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* *
3707 TACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
3752 GCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * **
3797 ACCAGTATGGGAAGACAAGATCTGCT-TTTTCGATCCCCTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
3839 TACCAATATAGGAAGACAGGACCTGTTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
** * * *
3884 GTCAATACATGAAGACAAGATCTGCTTTCTT
1 ACCAATATAGGAAGACAAGATCTGCTATCTT
3915 TTATGACTTC
Statistics
Matches: 442, Mismatches: 101, Indels: 32
0.77 0.18 0.06
Matches are distributed among these distances:
42 4 0.01
43 84 0.19
44 270 0.61
45 84 0.19
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:3377 original size:172 final size:171
Alignment explanation
Indices: 2992--3386 Score: 460
Period size: 172 Copynumber: 2.3 Consensus size: 171
2982 AAAATCTGTC
* **
2992 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCT
1 ATCTTCGATCTGCTTCAC-GCC-AATACAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCT
* *
3057 ACAAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCACCGTCAATGCAGGAAGGCAAGATCTG
64 ACAAACGAGAGAGGCAAGGTTTGTCTTCAATCTGCTTCACCGTCAATGCAGGAAGGCAAGATCTA
* * * **
3122 TTATCTTCAACCAGCTCTGCTACAAACGAGAGAGGCAAGGTTTG
129 TTATCTTCAACCA-CTCTCCTACAAACGAGAAAGACAAGGCCTG
* * *
3166 -TCTTCGATCTGCTTCGCCGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTA
1 ATCTTCGATCTGCTTC-ACGCCAATACAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTA
* *
3230 CAAACGAGAGAGGCAAGGTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTAT
65 CAAACGAGAGAGGCAAGGTTTGTCTTCAATCTGCTTCACCGTCAATGCAGGAAGGCAAGATCTAT
* * *
3295 T-T-TTCGATCCA-TTTCCTACCAATA-TAGAAAGAC-AGGACCTG
130 TATCTTC-AACCACTCTCCTA-CAA-ACGAGAAAGACAAGG-CCTG
* * * *
3336 CAATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTT
1 --ATCTTCGATCTGCTTCACGCCAATACAGGAAGGCAAGATCTGTTATCTT
3387 TGATCTACTT
Statistics
Matches: 189, Mismatches: 24, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
169 8 0.04
170 14 0.07
171 6 0.03
172 129 0.68
173 31 0.16
174 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (171 bp):
ATCTTCGATCTGCTTCACGCCAATACAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
AAACGAGAGAGGCAAGGTTTGTCTTCAATCTGCTTCACCGTCAATGCAGGAAGGCAAGATCTATT
ATCTTCAACCACTCTCCTACAAACGAGAAAGACAAGGCCTG
Found at i:3499 original size:132 final size:132
Alignment explanation
Indices: 3297--3914 Score: 1119
Period size: 132 Copynumber: 4.7 Consensus size: 132
3287 AGATCTATTT
* * *
3297 TTCGATCCATTTCCTACCAATATAGAAAGACAGGACCTGCAATCTTCGATCTACTTCACGCCAAT
1 TTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAAT
*
3362 ACATGAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA
66 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA
3427 TC
131 TC
*
3429 TTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAAT
1 TTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAAT
3494 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA
66 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA
3559 TC
131 TC
*
3561 TTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTCTCTTCGATCTACTTCACGCCAAT
1 TTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAAT
*
3626 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAATACAAGATCTGCA
66 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA
3691 TC
131 TC
3693 TTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAAT
1 TTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAAT
*
3758 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT
66 ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA
*
3823 TT
131 TC
* * *
3825 TTCGATCCCCTTCCTACCAATATAGGAAGACAGGACCTGTTATCTTCGATCTACTTCACGTCAAT
1 TTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAAT
*
3890 ACATGAAGACAAGATCTGCTTTCTT
66 ACATGAAGACAAGATCTGTTTTCTT
3915 TTATGACTTC
Statistics
Matches: 470, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 470 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (132 bp):
TTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAAT
ACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCA
TC
Found at i:4834 original size:7 final size:7
Alignment explanation
Indices: 4822--4883 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
4812 TGGCCTATCC
4822 TTTTTCT
1 TTTTTCT
*
4829 TTTTTCG
1 TTTTTCT
*
4836 TTCTTCT
1 TTTTTCT
4843 TTTTT-T
1 TTTTTCT
*
4849 CTTTTCT
1 TTTTTCT
*
4856 CTTTTCATT
1 TTTTTC--T
4865 TTTTTCT
1 TTTTTCT
4872 CTTTTTCT
1 -TTTTTCT
4880 TTTT
1 TTTT
4884 GTTTTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 5 0.11
7 27 0.60
8 7 0.16
9 6 0.13
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTTCT
Found at i:4849 original size:22 final size:20
Alignment explanation
Indices: 4822--4894 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 20
4812 TGGCCTATCC
4822 TTTTTCTTTTTTCGTTCTTCTT
1 TTTTTCTTTTTTC-TT-TTCTT
*
4844 TTTTTCTTTTCTCTTTTCATT
1 TTTTTCTTTTTTCTTTTC-TT
4865 TTTTTCTCTTTTTCTTTT-TGT
1 TTTTTCT-TTTTTCTTTTCT-T
4886 TTTTT-TTTT
1 TTTTTCTTTT
4895 CAAGTGAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
19 3 0.07
20 5 0.11
21 17 0.37
22 21 0.46
ACGTcount: A:0.01, C:0.15, G:0.03, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTTTCTTTTCTT
Found at i:4855 original size:16 final size:14
Alignment explanation
Indices: 4840--4894 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 14
4830 TTTTCGTTCT
4840 TCTTTTTTTCTTTTC
1 TCTTTTTTT-TTTTC
4855 TCTTTTCATTTTTTTC
1 TCTTTT--TTTTTTTC
* *
4871 TCTTTTTCTTTTTG
1 TCTTTTTTTTTTTC
4885 T-TTTTTTTTT
1 TCTTTTTTTTT
4895 CAAGTGAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 8 0.23
14 7 0.20
15 6 0.17
16 11 0.31
17 3 0.09
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (14 bp):
TCTTTTTTTTTTTC
Found at i:5354 original size:13 final size:14
Alignment explanation
Indices: 5325--5374 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
5315 CCCCGGTAGA
5325 GTTTTTTTCTCTCTT
1 GTTTTTTTCTCT-TT
5340 GTTTTTTTCT-TTT
1 GTTTTTTTCTCTTT
*
5353 GTTTTTTT-TGTTT
1 GTTTTTTTCTCTTT
5366 GGTTTTTTT
1 -GTTTTTTT
5375 ATTTTTTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.03
13 13 0.39
14 9 0.27
15 10 0.30
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (14 bp):
GTTTTTTTCTCTTT
Found at i:5392 original size:13 final size:12
Alignment explanation
Indices: 5338--5393 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 12
5328 TTTTTCTCTC
5338 TTGTTTTTTTCTT
1 TTGTTTTTTT-TT
5351 TTGTTTTTTTTGT
1 TTGTTTTTTTT-T
5364 TTGGTTTTTTTATT
1 TT-GTTTTTTT-TT
5378 TT-TTGTTCTTTTT
1 TTGTT-TT-TTTTT
5391 TTG
1 TTG
5394 CCTCCACTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.08
13 19 0.51
14 14 0.38
15 1 0.03
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (12 bp):
TTGTTTTTTTTT
Found at i:6762 original size:62 final size:62
Alignment explanation
Indices: 6660--6784 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
6650 CTAAACTCGA
6660 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAATG
*
6722 CGTATTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAATG
1 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAATG
6784 C
1 C
6785 AAAAAAAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.41
Consensus pattern (62 bp):
CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAATG
Found at i:9068 original size:17 final size:17
Alignment explanation
Indices: 9046--9082 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9036 AATCTTGAAT
9046 AAATAATAA-AAAATAAA
1 AAATAA-AATAAAATAAA
9063 AAATAAAATAAAATAAA
1 AAATAAAATAAAATAAA
9080 AAA
1 AAA
9083 CCCATATGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAAATAAA
Done.