Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008994.1 Kokia drynarioides strain JFW-HI SEQ_123692, 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: 61496
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:866 original size:30 final size:29
Alignment explanation
Indices: 794--1197 Score: 264
Period size: 29 Copynumber: 13.8 Consensus size: 29
784 GAAGGTCCCT
794 AAACTATCCAAAAATTACCA-TTTTACCCCC
1 AAACT-TCCAAAAATTACCATTTTTA-CCCC
* *
824 GAACTTCCAAAAATT-CAATTTTTGACCCC
1 AAACTTCCAAAAATTACCATTTTT-ACCCC
*
853 AAACCTTCAAAAAATTACCA-TTTTACCCC
1 AAA-CTTCCAAAAATTACCATTTTTACCCC
*
882 TAAACTT-AAAAAATTACCA-TTTTACCCCC
1 -AAACTTCCAAAAATTACCATTTTTA-CCCC
* * * *
911 AAACTGCTAAAAA-TCCCTTTTTTTACCCC
1 AAACTTCCAAAAATTACC-ATTTTTACCCC
* *
940 GAACCTTCCAAAAATTA-CAATTTTACCCTC
1 -AAACTTCCAAAAATTACCATTTTTACCC-C
* *
970 AAACTTCCAAAAA-TCCCATTTTTGACCTCG
1 AAACTTCCAAAAATTACCATTTTT-ACC-CC
* * * *
1000 AACCCTCTAAAAATTACCA-TTTCAGCCCC
1 AAACTTCCAAAAATTACCATTTTTA-CCCC
*
1029 AAACTCCCAAAAA-T-CTCATTTTTAACCCC
1 AAACTTCCAAAAATTAC-CATTTTT-ACCCC
* *
1058 AAAACTTCTAAAAATTACCA-TTTTCCCCC
1 -AAACTTCCAAAAATTACCATTTTTACCCC
* * * *
1087 GAACTCCCAAAAA-TCCCATTTTTGACCTCG
1 AAACTTCCAAAAATTACCATTTTT-ACC-CC
*
1117 AAACTTCTAAAAATTACCA-TTTTACCCTC
1 AAACTTCCAAAAATTACCATTTTTACCC-C
* *
1146 GAACTTCCAAAAA-TCCCATTTTTATCCCC
1 AAACTTCCAAAAATTACCATTTTTA-CCCC
* *
1175 GAAACATCC-AAAATTACTATTTT
1 -AAACTTCCAAAAATTACCATTTT
1198 ACTCCCGGAT
Statistics
Matches: 291, Mismatches: 51, Indels: 64
0.72 0.13 0.16
Matches are distributed among these distances:
27 5 0.02
28 50 0.17
29 115 0.40
30 105 0.36
31 15 0.05
32 1 0.00
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.30
Consensus pattern (29 bp):
AAACTTCCAAAAATTACCATTTTTACCCC
Found at i:911 original size:58 final size:59
Alignment explanation
Indices: 820--1199 Score: 364
Period size: 59 Copynumber: 6.5 Consensus size: 59
810 ACCATTTTAC
* * * *
820 CCCCG-AACTTCCAAAAATT-CAATTTTTGA-CCCCAAACCTTCAAAAAATTACCA-TTTT-A
1 CCCCGAAACTTCCAAAAATTACCA-TTTT-ACCCCCAAA-CTCCCAAAAA-TCCCATTTTTGA
* * * * * *
878 CCCCTAAACTT-AAAAAATTACCATTTTACCCCCAAACTGCTAAAAATCCCTTTTTTTA
1 CCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCATTTTTGA
* * * *
936 CCCCGAACCTTCCAAAAATTACAATTTTACCCTCAAACTTCCAAAAATCCCATTTTTGA
1 CCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCATTTTTGA
* * * * * * * *
995 CCTCGAACCCTCTAAAAATTACCATTTCAGCCCCAAACTCCCAAAAATCTCATTTTTAA
1 CCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCATTTTTGA
* * *
1054 CCCCAAAACTTCTAAAAATTACCATTTT-CCCCCGAACTCCCAAAAATCCCATTTTTGA
1 CCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCATTTTTGA
* * * * *
1112 CCTCGAAACTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTT-A
1 CCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCATTTTTGA
* *
1170 TCCCCGAAACATCC-AAAATTACTATTTTAC
1 -CCCCGAAACTTCCAAAAATTACCATTTTAC
1200 TCCCGGATGT
Statistics
Matches: 271, Mismatches: 43, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
56 3 0.01
57 13 0.05
58 100 0.37
59 155 0.57
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.30
Consensus pattern (59 bp):
CCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCATTTTTGA
Found at i:948 original size:117 final size:115
Alignment explanation
Indices: 814--1199 Score: 397
Period size: 117 Copynumber: 3.3 Consensus size: 115
804 AAAATTACCA
* *
814 TTTTACCCCCG-AACTTCCAAAAATT-CAATTTTTGACCCCAAACCTTCAAAAAATTACCA-TTT
1 TTTTACCCCCGAAACTTCCAAAAATTACAA-TTTT-ACCCCAAA-CTTCCAAAAA-TCCCATTTT
* * * *
876 T-ACCCCTAAACTTAAAAAATTACCATTTTACCCCCAAACTGCTAAAAATCCCTTT
62 TGACCTCGAAACTT-AAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCC-TT
*
931 TTTTA-CCCCGAACCTTCCAAAAATTACAATTTTACCCTCAAACTTCCAAAAATCCCATTTTTGA
1 TTTTACCCCCGAAACTTCCAAAAATTACAATTTTACCC-CAAACTTCCAAAAATCCCATTTTTGA
* * * * *
995 CCTCGAACCCTCTAAAAATTACCATTTCAGCCCCAAACTCCCAAAAATCTCAT
65 CCTCGAA-ACT-TAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCTT
* * * * * * *
1048 TTTTAACCCCAAAACTTCTAAAAATTACCATTTTCCCCCGAACTCCCAAAAATCCCATTTTTGAC
1 TTTTACCCCCGAAACTTCCAAAAATTACAATTTTACCCCAAACTTCCAAAAATCCCATTTTTGAC
* * * *
1113 CTCGAAACTTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCAT
66 CTCGAAAC-T-TAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCTT
* * *
1165 TTTTATCCCCGAAACATCC-AAAATTACTATTTTAC
1 TTTTACCCCCGAAACTTCCAAAAATTACAATTTTAC
1200 TCCCGGATGT
Statistics
Matches: 228, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
115 4 0.02
116 37 0.16
117 121 0.53
118 65 0.29
119 1 0.00
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.30
Consensus pattern (115 bp):
TTTTACCCCCGAAACTTCCAAAAATTACAATTTTACCCCAAACTTCCAAAAATCCCATTTTTGAC
CTCGAAACTTAAAAATTACCATTTTACCCCCAAACTCCCAAAAATCCCTT
Found at i:5800 original size:50 final size:49
Alignment explanation
Indices: 5726--5828 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 49
5716 ATTAATTAAT
* *
5726 AAAATATTATTACTTATTATAATATTATCAATAATAAAAACATCATTTG
1 AAAATATCATTACTTATTATAATATTATCAATAACAAAAACATCATTTG
* * *
5775 AAAATCATCATTACTTATTATAATATTATTATTAACAAAAATATCATTTG
1 AAAAT-ATCATTACTTATTATAATATTATCAATAACAAAAACATCATTTG
5825 AAAA
1 AAAA
5829 CCACATGATA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 5 0.10
50 43 0.90
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (49 bp):
AAAATATCATTACTTATTATAATATTATCAATAACAAAAACATCATTTG
Found at i:6469 original size:13 final size:13
Alignment explanation
Indices: 6451--6496 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
6441 TAAAACAAAA
6451 TAAATTTAAGTTT
1 TAAATTTAAGTTT
6464 TAAATTTAAG-TT
1 TAAATTTAAGTTT
*
6476 TCAATTTAAGTTT
1 TAAATTTAAGTTT
6489 TCAAATTT
1 T-AAATTT
6497 TAATTTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 11 0.38
13 13 0.45
14 5 0.17
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (13 bp):
TAAATTTAAGTTT
Found at i:6483 original size:12 final size:12
Alignment explanation
Indices: 6451--6488 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
6441 TAAAACAAAA
6451 TAAATTTAAGTTT
1 TAAATTTAAG-TT
6464 TAAATTTAAGTT
1 TAAATTTAAGTT
*
6476 TCAATTTAAGTT
1 TAAATTTAAGTT
6488 T
1 T
6489 TCAAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (12 bp):
TAAATTTAAGTT
Found at i:6487 original size:25 final size:26
Alignment explanation
Indices: 6453--6504 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 26
6443 AAACAAAATA
6453 AATTTAAGTTTT-AAA-TTTAAGTTTC
1 AATTTAAGTTTTCAAATTTTAA-TTTC
6478 AATTTAAGTTTTCAAATTTTAATTTC
1 AATTTAAGTTTTCAAATTTTAATTTC
6504 A
1 A
6505 TTACGACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 12 0.48
26 8 0.32
27 5 0.20
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (26 bp):
AATTTAAGTTTTCAAATTTTAATTTC
Found at i:7972 original size:21 final size:21
Alignment explanation
Indices: 7948--7987 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7938 CCCGAACCCA
7948 TTAACCATTGACCATTGACAG
1 TTAACCATTGACCATTGACAG
* *
7969 TTAACCGTTGACCGTTGAC
1 TTAACCATTGACCATTGAC
7988 TTTTTCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (21 bp):
TTAACCATTGACCATTGACAG
Found at i:21233 original size:30 final size:30
Alignment explanation
Indices: 21197--21258 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
21187 CAACTTAACA
* *
21197 AACAAATGTCTCTAAAATAGTAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
21227 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
21257 AA
1 AA
21259 TAATAAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:29501 original size:46 final size:46
Alignment explanation
Indices: 29434--29525 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
29424 AGAGTCAGAG
29434 CAACATATGAGAGAACTAGAAAGGAAGAAATTTGTTTGGTTGATAT
1 CAACATATGAGAGAACTAGAAAGGAAGAAATTTGTTTGGTTGATAT
29480 CAACATATGAGAGAACTAGAAAGGAAGAAATTTGTTTGGTTGATAT
1 CAACATATGAGAGAACTAGAAAGGAAGAAATTTGTTTGGTTGATAT
29526 ACTCTGATAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (46 bp):
CAACATATGAGAGAACTAGAAAGGAAGAAATTTGTTTGGTTGATAT
Found at i:31048 original size:3 final size:3
Alignment explanation
Indices: 31040--31068 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
31030 AACTATACTA
31040 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
31069 ATTCTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:38622 original size:21 final size:21
Alignment explanation
Indices: 38598--38644 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
38588 CTTCACTTTT
*
38598 ATTTGTTACTGA-TTTTTTTCA
1 ATTT-TTACTGACTCTTTTTCA
*
38619 ATTTTTATTGACTCTTTTTCA
1 ATTTTTACTGACTCTTTTTCA
38640 ATTTT
1 ATTTT
38645 CTTTTAGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.19, C:0.11, G:0.06, T:0.64
Consensus pattern (21 bp):
ATTTTTACTGACTCTTTTTCA
Found at i:43129 original size:20 final size:19
Alignment explanation
Indices: 43101--43143 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
43091 TTTCTTCTTC
* *
43101 TTCTTCTTTGGGCGCTCCTT
1 TTCTACTTTGCGC-CTCCTT
*
43121 TTCTACTTTGCGCCTCTTT
1 TTCTACTTTGCGCCTCCTT
43140 TTCT
1 TTCT
43144 TGTCTTTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.02, C:0.30, G:0.14, T:0.53
Consensus pattern (19 bp):
TTCTACTTTGCGCCTCCTT
Found at i:49971 original size:18 final size:18
Alignment explanation
Indices: 49948--49984 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
49938 TGACAACTAG
49948 GATACCTGTGTTCTCAAA
1 GATACCTGTGTTCTCAAA
49966 GATACCTGTGTTCTCAAA
1 GATACCTGTGTTCTCAAA
49984 G
1 G
49985 CTAATATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (18 bp):
GATACCTGTGTTCTCAAA
Found at i:53423 original size:43 final size:43
Alignment explanation
Indices: 53342--53530 Score: 145
Period size: 43 Copynumber: 4.3 Consensus size: 43
53332 TCGAATCATA
*
53342 AGTCTTCCTTT-AAACGA-AATTTCATGCTCATCTCGAGTCACG
1 AGTCTTCCTTTAAAAC-ATAATCTCATGCTCATCTCGAGTCACG
* * *
53384 AGTCTTCCTTTAAAACATAACCTCATGCTC-TTTCCGAGTCATG
1 AGTCTTCCTTTAAAACATAATCTCATGCTCATCT-CGAGTCACG
* *
53427 AGTCTTCC-TTAAAATATAATCTCATGTTATTCTCGAGTCTCGAGTCCCG
1 AGTCTTCCTTTAAAACATAATCTCATG-----CTC-A-TCTCGAGTCACG
** * * * *
53476 AGTCTTCCTTTTTAACATAATCT-ATTGCTTATCCCGAGACATG
1 AGTCTTCCTTTAAAACATAATCTCA-TGCTCATCTCGAGTCACG
53519 AGTCTTCCTTTA
1 AGTCTTCCTTTA
53531 TTATACCCTC
Statistics
Matches: 116, Mismatches: 18, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
42 30 0.26
43 49 0.42
44 1 0.01
45 2 0.02
47 3 0.03
49 16 0.14
50 15 0.13
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (43 bp):
AGTCTTCCTTTAAAACATAATCTCATGCTCATCTCGAGTCACG
Found at i:53464 original size:42 final size:44
Alignment explanation
Indices: 53342--53472 Score: 132
Period size: 42 Copynumber: 3.1 Consensus size: 44
53332 TCGAATCATA
** *
53342 AGTCTTCCTTT-AAACGA-AATTTCATGCTC-ATCTCGAGTCACG
1 AGTCTTCCTTTAAAAC-ATAACCTCATGCTCTTTCTCGAGTCACG
*
53384 AGTCTTCCTTTAAAACATAACCTCATGCTCTTTC-CGAGTCATG
1 AGTCTTCCTTTAAAACATAACCTCATGCTCTTTCTCGAGTCACG
* * *
53427 AGTCTTCC-TTAAAATATAATCTCATG-T-TATTCTCGAGTCTCG
1 AGTCTTCCTTTAAAACATAACCTCATGCTCT-TTCTCGAGTCACG
53469 AGTC
1 AGTC
53473 CCGAGTCTTC
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
40 1 0.01
41 4 0.05
42 39 0.51
43 30 0.39
44 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (44 bp):
AGTCTTCCTTTAAAACATAACCTCATGCTCTTTCTCGAGTCACG
Found at i:55033 original size:37 final size:37
Alignment explanation
Indices: 54983--55056 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
54973 TCTTCTCAAG
54983 TTCCGATGGTAATGCCAACTTATAGGCTATAGGGCCA
1 TTCCGATGGTAATGCCAACTTATAGGCTATAGGGCCA
* *
55020 TTCCGGTGGTAATGCCAGCTTATAGGCTATAGGGCCA
1 TTCCGATGGTAATGCCAACTTATAGGCTATAGGGCCA
55057 ACCCGCTCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (37 bp):
TTCCGATGGTAATGCCAACTTATAGGCTATAGGGCCA
Found at i:55413 original size:57 final size:57
Alignment explanation
Indices: 55319--55432 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 57
55309 AGATCAAACC
55319 AATATAAAGGTGTTCTACATTTTATACCATATAGTGCCTCAAACGATGCCATTTTAA
1 AATATAAAGGTGTTCTACATTTTATACCATATAGTGCCTCAAACGATGCCATTTTAA
* * * *
55376 AATATAAAGGTGTTCTACATTTTATACCGTATGGTGCCTCAACCGGTGCCATTTTAA
1 AATATAAAGGTGTTCTACATTTTATACCATATAGTGCCTCAAACGATGCCATTTTAA
55433 CATTGGACTG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (57 bp):
AATATAAAGGTGTTCTACATTTTATACCATATAGTGCCTCAAACGATGCCATTTTAA
Found at i:59903 original size:21 final size:21
Alignment explanation
Indices: 59879--59931 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
59869 TTGTGATAAG
59879 TCTACTGATACAAGTCATGCT
1 TCTACTGATACAAGTCATGCT
*
59900 TCTACCGATACAAGTCATGCT
1 TCTACTGATACAAGTCATGCT
59921 TCTACTGATAC
1 TCTACTGATAC
59932 TAAAAACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (21 bp):
TCTACTGATACAAGTCATGCT
Found at i:60349 original size:42 final size:42
Alignment explanation
Indices: 60297--60515 Score: 217
Period size: 43 Copynumber: 5.2 Consensus size: 42
60287 CCTAGTCATA
*
60297 AGTCTTCCTTTAAACGA-AATATCATGCTCATCCCGAGTCACG
1 AGTCTTCCTTTAAAC-ATAATCTCATGCTCATCCCGAGTCACG
* * * * *
60339 AGTCTTCCTTTAAAACATAACCTCATGCTCTTTCCAAGTCACA
1 AGTCTTCCTTT-AAACATAATCTCATGCTCATCCCGAGTCACG
* * **
60382 AGTCTTCCTTAAAACATAATCTCATGCTCTTCTTGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGTCACG
* * * * *
60424 AGTCTTCCTTTTTAACATAATCTTATGCTCATCTCGAGACATG
1 AGTCTTCC-TTTAAACATAATCTCATGCTCATCCCGAGTCACG
* ** * *
60467 AGTCTTCCTTT-AATATACCCTCATGCTCATCCCGAGACATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGTCACG
60508 AGTCTTCC
1 AGTCTTCC
60516 ATATATACAT
Statistics
Matches: 149, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
41 33 0.22
42 48 0.32
43 68 0.46
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGTCACG
Found at i:60433 original size:85 final size:85
Alignment explanation
Indices: 60290--60453 Score: 222
Period size: 85 Copynumber: 1.9 Consensus size: 85
60280 AAAACAACCT
* *
60290 AGTCATAAGTCTTCCTTTAAACGAAATATCATGCTCATCCCGAGTCACGAGTCTTCCTTTAAAAC
1 AGTCACAAGTCTTCCTTAAAACGAAATATCATGCTCATCCCGAGTCACGAGTCTTCCTTTAAAAC
60355 ATAACCTCATGCTCTTTCCA
66 ATAACCTCATGCTCTTTCCA
* * ** **
60375 AGTCACAAGTCTTCCTTAAAAC-ATAATCTCATGCTCTTCTTGAGTCACGAGTCTTCCTTTTTAA
1 AGTCACAAGTCTTCCTTAAAACGA-AATATCATGCTCATCCCGAGTCACGAGTCTTCCTTTAAAA
* *
60439 CATAATCTTATGCTC
65 CATAACCTCATGCTC
60454 ATCTCGAGAC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 67 0.99
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (85 bp):
AGTCACAAGTCTTCCTTAAAACGAAATATCATGCTCATCCCGAGTCACGAGTCTTCCTTTAAAAC
ATAACCTCATGCTCTTTCCA
Found at i:60471 original size:85 final size:85
Alignment explanation
Indices: 60296--60476 Score: 204
Period size: 85 Copynumber: 2.1 Consensus size: 85
60286 ACCTAGTCAT
*
60296 AAGTCTTCCTTTAAACGAAATATCATGCTCATCCCGAGTCACGAGTCTTCCTTTAAAACATAACC
1 AAGTCTTCCTTAAAACGAAATATCATGCTCATCCCGAGTCACGAGTCTTCCTTTAAAACATAACC
* *
60361 TCATGCTCTTTCCAAGTCAC
66 TCATGCTCTCTCCAAGACAC
* * ** ** *
60381 AAGTCTTCCTTAAAAC-ATAATCTCATGCTCTTCTTGAGTCACGAGTCTTCCTTTTTAACATAAT
1 AAGTCTTCCTTAAAACGA-AATATCATGCTCATCCCGAGTCACGAGTCTTCCTTTAAAACATAAC
* * *
60445 CTTATGCTCATCT-CGAGACAT
65 CTCATGCTC-TCTCCAAGACAC
*
60466 GAGTCTTCCTT
1 AAGTCTTCCTT
60477 TAATATACCC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
84 1 0.01
85 77 0.96
86 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (85 bp):
AAGTCTTCCTTAAAACGAAATATCATGCTCATCCCGAGTCACGAGTCTTCCTTTAAAACATAACC
TCATGCTCTCTCCAAGACAC
Done.