Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010395.1 Kokia drynarioides strain JFW-HI SEQ_125274, 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: 24924
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Found at i:3363 original size:4 final size:4
Alignment explanation
Indices: 3344--3407 Score: 51
Period size: 4 Copynumber: 16.0 Consensus size: 4
3334 ACACATTACA
* * *
3344 TTTC TTTC CTTC -TTC TTTC TTTCC TCTC CTTC -TTC TTTC TTTC TTCTC
1 TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TT-TC
* *
3392 CTTC TTCC TTTC TTTC
1 TTTC TTTC TTTC TTTC
3408 CTGTTTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
3 6 0.12
4 36 0.75
5 6 0.12
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (4 bp):
TTTC
Found at i:3375 original size:20 final size:20
Alignment explanation
Indices: 3350--3409 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
3340 TACATTTCTT
3350 TCCTTCTTCTTTCTTTCCTC
1 TCCTTCTTCTTTCTTTCCTC
*
3370 TCCTTCTTCTTTCTTTCTTC
1 TCCTTCTTCTTTCTTTCCTC
3390 TCCTTCTTCCTTTCTTTCCT
1 TCCTTCTT-CTTTCTTTCCT
3410 GTTTATTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
20 27 0.73
21 10 0.27
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
TCCTTCTTCTTTCTTTCCTC
Found at i:4480 original size:61 final size:61
Alignment explanation
Indices: 4404--4537 Score: 182
Period size: 61 Copynumber: 2.2 Consensus size: 61
4394 AAAAAATTTG
* * * *
4404 GGTGTTGGCCATGCAACGACCGACACCCCTTTTTTGTCAGAT-AAAAATTTCAAAATTTTTTT
1 GGTGTTGGCCATGCAACGACCAACACCCC-TTGTTCTCAGATAAAAAAATTC-AAATTTTTTT
* *
4466 -GTGTTGGCCATGCAATGGCCAACACCCCTTGTTCTCAGATAAAAAAATTCAAATTTTTTT
1 GGTGTTGGCCATGCAACGACCAACACCCCTTGTTCTCAGATAAAAAAATTCAAATTTTTTT
4526 GGTGTTGGCCAT
1 GGTGTTGGCCAT
4538 TTTCAGATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
60 20 0.31
61 44 0.69
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (61 bp):
GGTGTTGGCCATGCAACGACCAACACCCCTTGTTCTCAGATAAAAAAATTCAAATTTTTTT
Found at i:4643 original size:61 final size:59
Alignment explanation
Indices: 4560--4757 Score: 220
Period size: 60 Copynumber: 3.3 Consensus size: 59
4550 AAATTTGCAC
* * *
4560 GGCCGACACCCTTTTTTTTCGGACCAAAAGATTTCAAATTTTTTGGTGTTGGCCATGCAAT
1 GGCCGACACCC-TCTTTTTCGGA-AAAAAAATTTCAAATTTTTTGGTGTTGGCCATGCAAT
* * * *
4621 GGCCGACACCCCCTGTTCTCGGATAAAAAAATTTCAAA-TTTTTAGTGTTGGTCATGCAAT
1 GGCCGACACCCTCT-TTTTCGGA-AAAAAAATTTCAAATTTTTTGGTGTTGGCCATGCAAT
** * *
4681 GAACGACACCCTCTTTTTCAGATAAAGAAATTTCAAAATTTTTTGGTGTT-GCCATGCAAT
1 GGCCGACACCCTCTTTTTCGGA-AAAAAAATTTC-AAATTTTTTGGTGTTGGCCATGCAAT
*
4741 GGTCGACACCCTCTTTT
1 GGCCGACACCCTCTTTT
4758 CTTGCATGGC
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
59 17 0.15
60 59 0.51
61 40 0.34
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (59 bp):
GGCCGACACCCTCTTTTTCGGAAAAAAAATTTCAAATTTTTTGGTGTTGGCCATGCAAT
Found at i:4757 original size:60 final size:60
Alignment explanation
Indices: 4585--4757 Score: 224
Period size: 60 Copynumber: 2.9 Consensus size: 60
4575 TTTTCGGACC
* * * * *
4585 AAAAGATTTCAAATTTTTTGGTGTTGGCCATGCAATGGCCGACACCCCCTGTTCTCGGATA
1 AAAAAATTTCAAATTTTTTGGTGTTGGCCATGCAATGGACGACACCCTCT-TTTTCAGATA
* * *
4646 AAAAAATTTCAAA-TTTTTAGTGTTGGTCATGCAATGAACGACACCCTCTTTTTCAGATA
1 AAAAAATTTCAAATTTTTTGGTGTTGGCCATGCAATGGACGACACCCTCTTTTTCAGATA
* *
4705 AAGAAATTTCAAAATTTTTTGGTGTT-GCCATGCAATGGTCGACACCCTCTTTT
1 AAAAAATTTC-AAATTTTTTGGTGTTGGCCATGCAATGGACGACACCCTCTTTT
4758 CTTGCATGGC
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
59 17 0.18
60 58 0.60
61 22 0.23
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (60 bp):
AAAAAATTTCAAATTTTTTGGTGTTGGCCATGCAATGGACGACACCCTCTTTTTCAGATA
Found at i:6584 original size:59 final size:59
Alignment explanation
Indices: 6510--6783 Score: 236
Period size: 59 Copynumber: 4.5 Consensus size: 59
6500 AAAAATTTGG
* * *
6510 GTGTTGGCTATGTAATGGTCGACACCCCTTTTTTGTCAAATAAAAAATACAATTTTTTT
1 GTGTTGACCATGTAATGGCCGACACCCCTTTTTTGTCAAATAAAAAATACAATTTTTTT
* ** *
6569 GTGTTGATCATGTAATGGCCGACACTTCTTTTTTGTCAGATAAAAAATACAATTTTTTT
1 GTGTTGACCATGTAATGGCCGACACCCCTTTTTTGTCAAATAAAAAATACAATTTTTTT
* ** *
6628 GTGTTGGCCATACAATGGCCGACACCCCTATTTATCTGAT-AAA-AAAAATTA-AATTTTTTTTT
1 GTGTTGACCATGTAATGGCCGACACCCCT-TTT-T-TG-TCAAATAAAAAATACAA--TTTTTTT
* * * * *
6690 GTGTTGGCCATGCAATGGCCGATACCTCC--TTTT-TCAGATAAAAAAATTTCAAAATTTTTTT
1 GTGTTGACCATGTAATGGCCGACACC-CCTTTTTTGTCAAAT-AAAAAA--T-ACAATTTTTTT
* *
6751 ATGTTGGCCATGTAATGGCCGACACTCCCTTTT
1 GTGTTGACCATGTAATGGCCGACAC-CCCTTTT
6784 CTCGGATAAA
Statistics
Matches: 176, Mismatches: 22, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
56 1 0.01
57 2 0.01
58 1 0.01
59 81 0.46
60 7 0.04
61 40 0.23
62 37 0.21
63 7 0.04
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (59 bp):
GTGTTGACCATGTAATGGCCGACACCCCTTTTTTGTCAAATAAAAAATACAATTTTTTT
Found at i:6707 original size:62 final size:60
Alignment explanation
Indices: 6510--6810 Score: 249
Period size: 62 Copynumber: 5.0 Consensus size: 60
6500 AAAAATTTGG
* * * * * *
6510 GTGTTGGCTATGTAATGGTCGACACCCCTTTTT-TG-TCAAATAAAAAAT-ACAATTTTTTT
1 GTGTTGGCCATGCAATGGCCGACACCCCTTTTTCAGAT-AAA-AAAAATTCAAAATTTTTTT
** * ** *
6569 GTGTTGATCATGTAATGGCCGACACTTCTTTTTTGTCAGAT--AAAAAA-T-ACAATTTTTTT
1 GTGTTGGCCATGCAATGGCCGACAC--CCCTTTT-TCAGATAAAAAAAATTCAAAATTTTTTT
* * *
6628 GTGTTGGCCATACAATGGCCGACACCCCTATTTATCTGATAAAAAAAATT-AAATTTTTTTTT
1 GTGTTGGCCATGCAATGGCCGACACCCCT-TTT-TCAGATAAAAAAAATTCAAA-ATTTTTTT
* *
6690 GTGTTGGCCATGCAATGGCCGATACCTCCTTTTTCAGATAAAAAAATTTCAAAATTTTTTT
1 GTGTTGGCCATGCAATGGCCGACACC-CCTTTTTCAGATAAAAAAAATTCAAAATTTTTTT
* * * * *
6751 ATGTTGGCCATGTAATGGCCGACACTCCCTTTTCTCGGATAAAAAAATTTGAAAATTTTT
1 GTGTTGGCCATGCAATGGCCGACAC-CCCTTTT-TCAGATAAAAAAAATTCAAAATTTTT
6811 AATCCGAGAA
Statistics
Matches: 201, Mismatches: 27, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
57 2 0.01
58 8 0.04
59 54 0.27
60 11 0.05
61 58 0.29
62 63 0.31
63 4 0.02
64 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (60 bp):
GTGTTGGCCATGCAATGGCCGACACCCCTTTTTCAGATAAAAAAAATTCAAAATTTTTTT
Found at i:6733 original size:61 final size:60
Alignment explanation
Indices: 6551--6797 Score: 238
Period size: 61 Copynumber: 4.1 Consensus size: 60
6541 TTTGTCAAAT
** * * * *
6551 AAAAAA-TACAATTTTTTTGTGTTGATCATGTAATGGCCGACACTTCTTTTTTGTCAGAT--
1 AAAAAATTA-AATTTTTTTGTGTTGGCCATGCAATGGCCGACACCTC-CTTTTATCAGATAA
* *
6610 AAAAAA-TACAATTTTTTTGTGTTGGCCATACAATGGCCGACACC-CCTATTTATCTGATAA
1 AAAAAATTA-AATTTTTTTGTGTTGGCCATGCAATGGCCGACACCTCCT-TTTATCAGATAA
*
6670 AAAAAATTAAATTTTTTTTTGTGTTGGCCATGCAATGGCCGATACCTCCTTTT-TCAGATAA
1 AAAAAATTAAA--TTTTTTTGTGTTGGCCATGCAATGGCCGACACCTCCTTTTATCAGATAA
* * * * *
6731 AAAAATTTCAAAATTTTTTTATGTTGGCCATGTAATGGCCGACA-CTCCCTTTTCTCGGATAA
1 AAAAAATT--AAATTTTTTTGTGTTGGCCATGCAATGGCCGACACCT-CCTTTTATCAGATAA
6793 AAAAA
1 AAAAA
6798 TTTGAAAATT
Statistics
Matches: 161, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
57 1 0.01
58 9 0.06
59 39 0.24
60 10 0.06
61 50 0.31
62 46 0.29
63 6 0.04
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (60 bp):
AAAAAATTAAATTTTTTTGTGTTGGCCATGCAATGGCCGACACCTCCTTTTATCAGATAA
Found at i:6792 original size:123 final size:121
Alignment explanation
Indices: 6562--6797 Score: 298
Period size: 123 Copynumber: 1.9 Consensus size: 121
6552 AAAAATACAA
* * * * *
6562 TTTTTTTGTGTTGATCATGTAATGGCCGACACTTCTTTTTTGTCAGATAAAAAATACAATTTTTT
1 TTTTTTTGTGTTGACCATGCAATGGCCGACACCTCTCTTTTGTCAGATAAAAAATAAAATTTTTT
* *
6627 TGTGTTGGCCATACAATGGCCGACACCCCTATTTATCTGATAAAAAAAATTAAATT
66 TATGTTGGCCATACAATGGCCGACACCCCTATTTATCGGATAAAAAAAATTAAATT
* *
6683 TTTTTTTGTGTTGGCCATGCAATGGCCGATACCTC-CTTTT-TCAGATAAAAAAATTTCAAAATT
1 TTTTTTTGTGTTGACCATGCAATGGCCGACACCTCTCTTTTGTCAGAT-AAAAAA--T-AAAATT
** *
6746 TTTTTATGTTGGCCATGTAATGGCCGACACTCCCT-TTTCTCGGATAAAAAAA
62 TTTTTATGTTGGCCATACAATGGCCGACAC-CCCTATTTATCGGATAAAAAAA
6798 TTTGAAAATT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
119 6 0.06
120 10 0.10
121 30 0.31
122 1 0.01
123 47 0.48
124 4 0.04
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (121 bp):
TTTTTTTGTGTTGACCATGCAATGGCCGACACCTCTCTTTTGTCAGATAAAAAATAAAATTTTTT
TATGTTGGCCATACAATGGCCGACACCCCTATTTATCGGATAAAAAAAATTAAATT
Found at i:6900 original size:60 final size:62
Alignment explanation
Indices: 6828--6981 Score: 224
Period size: 60 Copynumber: 2.5 Consensus size: 62
6818 GAAAAGGGCA
* * *
6828 ATGGCCGACACCAAAAAAATTTGAAATTTTTTTATCTGA-AA-AAGGGGTGTCGGCCATTGC
1 ATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCCGAGAACAAGGGGTGTCGACCATTGC
* *
6888 ATGGCCAACACCAAAAAATTTTGAAATTTTTTTATCCGAGAACAGGGGGTGTCGACCATTGC
1 ATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCCGAGAACAAGGGGTGTCGACCATTGC
*
6950 ATGGCCAACACC-AAAAAATTTGATTATTTTTT
1 ATGGCCAACACCAAAAAAATTTGA-AATTTTTT
6982 ATCAGATAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
60 36 0.43
61 12 0.14
62 36 0.43
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (62 bp):
ATGGCCAACACCAAAAAAATTTGAAATTTTTTTATCCGAGAACAAGGGGTGTCGACCATTGC
Found at i:6951 original size:62 final size:60
Alignment explanation
Indices: 6828--6970 Score: 223
Period size: 62 Copynumber: 2.4 Consensus size: 60
6818 GAAAAGGGCA
* * * *
6828 ATGGCCGACACCAAAAAAATTTGAAATTTTTTTATCTGAAAAAGGGGTGTCGGCCATTGC
1 ATGGCCAACACCAAAAAATTTTGAAATTTTTTTATCCGAAAAAGGGGTGTCGACCATTGC
*
6888 ATGGCCAACACCAAAAAATTTTGAAATTTTTTTATCCGAGAACAGGGGGTGTCGACCATTGC
1 ATGGCCAACACCAAAAAATTTTGAAATTTTTTTATCCGA-AA-AAGGGGTGTCGACCATTGC
6950 ATGGCCAACACCAAAAAATTT
1 ATGGCCAACACCAAAAAATTT
6971 GATTATTTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
60 36 0.47
61 2 0.03
62 38 0.50
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (60 bp):
ATGGCCAACACCAAAAAATTTTGAAATTTTTTTATCCGAAAAAGGGGTGTCGACCATTGC
Found at i:8054 original size:43 final size:44
Alignment explanation
Indices: 7972--8059 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 44
7962 CTTTGTATAT
* * **
7972 ATTAGTATGGTTAAATCATATGATATAGTAAATTAGAAGTTTAC
1 ATTAGTATCGTTAAATCATATGACATAGTAAACCAGAAGTTTAC
* *
8016 ATTAGTATCGTTGAATCATGTG-CATAGTAAACCAGAAGTTTAC
1 ATTAGTATCGTTAAATCATATGACATAGTAAACCAGAAGTTTAC
8059 A
1 A
8060 AGTCCAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
43 19 0.50
44 19 0.50
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (44 bp):
ATTAGTATCGTTAAATCATATGACATAGTAAACCAGAAGTTTAC
Found at i:8811 original size:17 final size:17
Alignment explanation
Indices: 8791--8823 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8781 TTTAAGGACT
8791 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
8808 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
8824 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:12481 original size:3 final size:3
Alignment explanation
Indices: 12475--12502 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12465 ATAATAATAA
12475 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12503 TCCTATCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13120 original size:16 final size:16
Alignment explanation
Indices: 13101--13131 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13091 CATTTTAAAA
13101 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
13117 CATATATATTTGAAA
1 CATATAAATTTGAAA
13132 TTTTTTCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:13266 original size:20 final size:19
Alignment explanation
Indices: 13238--13275 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
13228 TAACTTTTTA
*
13238 ATATATTTTTTAAAATATT
1 ATATATTTTTAAAAATATT
13257 ATATATTTTTTAAAAATAT
1 ATATA-TTTTTAAAAATAT
13276 AAATTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATTTTTAAAAATATT
Found at i:13336 original size:20 final size:20
Alignment explanation
Indices: 13311--13349 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13301 TTGAAATTCA
*
13311 AAAATTATTTTAAATTTTTG
1 AAAATTAATTTAAATTTTTG
*
13331 AAAATTAATTTGAATTTTT
1 AAAATTAATTTAAATTTTT
13350 TTATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
AAAATTAATTTAAATTTTTG
Found at i:13476 original size:23 final size:21
Alignment explanation
Indices: 13440--13503 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
13430 TTCAAATTAT
*
13440 TCGAATTATT--AAATTCAAC
1 TCGAATTATTCAAAATTCAAA
*
13459 TCG-ATTCAATCTCAAAATTTAAA
1 TCGAATT--AT-TCAAAATTCAAA
13482 TCGAATTATTCAAAATTCAAA
1 TCGAATTATTCAAAATTCAAA
13503 T
1 T
13504 ATTTTTTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 2 0.06
21 13 0.36
22 2 0.06
23 10 0.28
24 3 0.08
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
TCGAATTATTCAAAATTCAAA
Found at i:16707 original size:20 final size:21
Alignment explanation
Indices: 16682--16723 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
16672 AATCAAAAAT
*
16682 AAAATTAGTTTTT-TATTAAA
1 AAAATTAATTTTTATATTAAA
16702 AAAATTAATTTTTATATTAAA
1 AAAATTAATTTTTATATTAAA
16723 A
1 A
16724 TATAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAAATTAATTTTTATATTAAA
Found at i:16723 original size:19 final size:19
Alignment explanation
Indices: 16682--16738 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
16672 AATCAAAAAT
*
16682 AAAATTAGTTTTT-TATTAAA
1 AAAATTAATTTTTATATT--A
16702 AAAATTAATTTTTATATT-
1 AAAATTAATTTTTATATTA
*
16720 AAAATATAATATTTATATT
1 AAAAT-TAATTTTTATATT
16739 TATATTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 5 0.15
19 12 0.36
20 12 0.36
21 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AAAATTAATTTTTATATTA
Found at i:19049 original size:10 final size:10
Alignment explanation
Indices: 19036--19067 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
19026 TTAGGTTGAG
*
19036 TTAATGAAAT
1 TTAATTAAAT
19046 TTAATTAAAT
1 TTAATTAAAT
19056 TTAATTAAAT
1 TTAATTAAAT
19066 TT
1 TT
19068 GCTCTTGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (10 bp):
TTAATTAAAT
Found at i:24728 original size:6 final size:5
Alignment explanation
Indices: 24716--24761 Score: 56
Period size: 5 Copynumber: 8.4 Consensus size: 5
24706 GGAAAGATCA
24716 AATTT ATATTT ATATTT GTAATTT AATTT AATTT AATTT AATTT AA
1 AATTT A-ATTT A-ATTT --AATTT AATTT AATTT AATTT AATTT AA
24762 AATAAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 23 0.61
6 10 0.26
7 4 0.11
8 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
AATTT
Done.