Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011512.1 Corchorus capsularis cultivar CVL-1 contig11533, 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: 9507
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Found at i:2343 original size:43 final size:43
Alignment explanation
Indices: 2289--2573 Score: 358
Period size: 43 Copynumber: 6.5 Consensus size: 43
2279 AAACTGCTAC
* * *
2289 AATG-CCCCTCCTTGGAGCAATTGAAAACTGCAAAGTTGTGGG
1 AATGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGG
2331 AATGCCCCCTCCTTGGAGCAACTGAATAACTGAAAAGTTGTTGG
1 AATGCCCCCTCCTTGGAGCAACTGAA-AACTGAAAAGTTGTTGG
2375 AATGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGG
1 AATGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGG
* * * * *
2418 AATGCCCCATCATTGGAACAACTAAAAAAAAACTGAAAAGTTGTTTG
1 AATGCCCCCTCCTTGGAGCAACT----GAAAACTGAAAAGTTGTTGG
* * *
2465 AATGCCCCCTCCTTAGAGCAACTGAAAAACTGTAGAGTTGTTGG
1 AATGCCCCCTCCTTGGAGCAACTG-AAAACTGAAAAGTTGTTGG
* * *
2509 AATGTCCCCTCTTTGGAGCAA-TGAATAACTGTAAAGTTGTTGG
1 AATGCCCCCTCCTTGGAGCAACTGAA-AACTGAAAAGTTGTTGG
*
2552 AATGCCCCCTCATTGGAGCAAC
1 AATGCCCCCTCCTTGGAGCAAC
2574 GATCTTGATA
Statistics
Matches: 212, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
42 6 0.03
43 94 0.44
44 75 0.35
47 37 0.17
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (43 bp):
AATGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGG
Found at i:2440 original size:87 final size:86
Alignment explanation
Indices: 2289--2573 Score: 367
Period size: 87 Copynumber: 3.3 Consensus size: 86
2279 AAACTGCTAC
* * * *
2289 AATG-CCCCTCCTTGGAGCAATTGAAAACTGCAAAGTTGTGGGAATGCCCCCTCCTTGGAGCAAC
1 AATGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGGAATG-CCCCTCATTGGAGCAAC
2353 TGAATAACTGAAAAGTTGTTGG
65 TGAATAACTGAAAAGTTGTTGG
*
2375 AATGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGGAATGCCCCATCATTGGAACAAC
1 AATGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGGAATGCCCC-TCATTGGAGCAAC
* * *
2440 TAAAAAAAAACTGAAAAGTTGTTTG
65 T---GAATAACTGAAAAGTTGTTGG
* * * *
2465 AATGCCCCCTCCTTAGAGCAACTGAAAAACTGTAGAGTTGTTGGAATGTCCCCTCTTTGGAGCAA
1 AATGCCCCCTCCTTGGAGCAACTG-AAAACTGAAAAGTTGTTGGAATG-CCCCTCATTGGAGCAA
*
2530 -TGAATAACTGTAAAGTTGTTGG
64 CTGAATAACTGAAAAGTTGTTGG
*
2552 AATGCCCCCTCATTGGAGCAAC
1 AATGCCCCCTCCTTGGAGCAAC
2574 GATCTTGATA
Statistics
Matches: 173, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
86 8 0.05
87 88 0.51
90 42 0.24
91 31 0.18
92 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (86 bp):
AATGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGGAATGCCCCTCATTGGAGCAACT
GAATAACTGAAAAGTTGTTGG
Found at i:2552 original size:134 final size:134
Alignment explanation
Indices: 2312--2573 Score: 400
Period size: 134 Copynumber: 2.0 Consensus size: 134
2302 GGAGCAATTG
* * *
2312 AAAACTGCAAAGTTGTGGGAATGCCCCCTCCTTGGAGCAACTGAATAACTGAAAAGTTGTTGGAA
1 AAAACTGAAAAGTTGTGGGAATGCCCCCTCCTTAGAGCAACTGAAAAACTGAAAAGTTGTTGGAA
2377 TGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGGAATGCCCCATCATTGGAACAACTA
66 TGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGGAATGCCCCATCATTGGAACAACTA
2442 AAAA
131 AAAA
** * *
2446 AAAACTGAAAAGTTGTTTGAATGCCCCCTCCTTAGAGCAACTGAAAAACTGTAGAGTTGTTGGAA
1 AAAACTGAAAAGTTGTGGGAATGCCCCCTCCTTAGAGCAACTGAAAAACTGAAAAGTTGTTGGAA
* * * * *
2511 TGTCCCCTCTTTGGAGCAA-TGAATAACTGTAAAGTTGTTGGAATGCCCCCTCATTGGAGCAAC
66 TGCCCCCTCCTTGGAGCAACTGAA-AACTGAAAAGTTGTTGGAATGCCCCATCATTGGAACAAC
2574 GATCTTGATA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
133 4 0.03
134 111 0.97
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (134 bp):
AAAACTGAAAAGTTGTGGGAATGCCCCCTCCTTAGAGCAACTGAAAAACTGAAAAGTTGTTGGAA
TGCCCCCTCCTTGGAGCAACTGAAAACTGAAAAGTTGTTGGAATGCCCCATCATTGGAACAACTA
AAAA
Found at i:2619 original size:38 final size:38
Alignment explanation
Indices: 2573--2794 Score: 266
Period size: 38 Copynumber: 5.8 Consensus size: 38
2563 ATTGGAGCAA
* *
2573 CGATCTTGATAACTGTTGAAAGATGACATGTTTCCAGT
1 CGATCTTGATAACTGCTGAAAGATGACCTGTTTCCAGT
* * * * *
2611 CGAACTTGATAAGTGCTGAAAGACGACATGTCTCCAGT
1 CGATCTTGATAACTGCTGAAAGATGACCTGTTTCCAGT
*
2649 CGATCTTGATAACTGCTCAAAGATGACCTGTTTCCAGT
1 CGATCTTGATAACTGCTGAAAGATGACCTGTTTCCAGT
* * * *
2687 C-AACTCTGATTGATTGCTGAAAGACGACCTGTTTCCAGT
1 CGATCT-TGA-TAACTGCTGAAAGATGACCTGTTTCCAGT
* ***
2726 CGATCTTGATCACTGCTTCGAGATGACCTGTTTCCAGT
1 CGATCTTGATAACTGCTGAAAGATGACCTGTTTCCAGT
*
2764 CGATCGTGATAACTGCTGAAAGATGACCTGT
1 CGATCTTGATAACTGCTGAAAGATGACCTGT
2795 CTCTAGTCAA
Statistics
Matches: 153, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
37 3 0.02
38 118 0.77
39 29 0.19
40 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (38 bp):
CGATCTTGATAACTGCTGAAAGATGACCTGTTTCCAGT
Found at i:2791 original size:115 final size:115
Alignment explanation
Indices: 2589--2806 Score: 301
Period size: 115 Copynumber: 1.9 Consensus size: 115
2579 TGATAACTGT
* *
2589 TGAAAGATGACATGTTTCCAGTCGAACTTGATAAGTGCTGAAAGACGACATGTCTCCAGTCGATC
1 TGAAAGACGACATGTTTCCAGTCGAACTTGATAACTGCTGAAAGACGACATGTCTCCAGTCGATC
* *
2654 TTGATAACTGCTCAAAGATGACCTGTTTCCAGTCAACTCTGATTGATTGC
66 GTGATAACTGCTCAAAGATGACCTGTCTCCAGTCAACTCTGATTGATTGC
* * * *** * * *
2704 TGAAAGACGACCTGTTTCCAGTCGATCTTGATCACTGCTTCGAGATGACCTGTTTCCAGTCGATC
1 TGAAAGACGACATGTTTCCAGTCGAACTTGATAACTGCTGAAAGACGACATGTCTCCAGTCGATC
* *
2769 GTGATAACTGCTGAAAGATGACCTGTCTCTAGTCAACT
66 GTGATAACTGCTCAAAGATGACCTGTCTCCAGTCAACT
2807 AAGACATTGT
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
115 88 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (115 bp):
TGAAAGACGACATGTTTCCAGTCGAACTTGATAACTGCTGAAAGACGACATGTCTCCAGTCGATC
GTGATAACTGCTCAAAGATGACCTGTCTCCAGTCAACTCTGATTGATTGC
Found at i:4435 original size:14 final size:14
Alignment explanation
Indices: 4416--4453 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
4406 ACCTAAAACC
4416 TTTTGAAAACTCAT
1 TTTTGAAAACTCAT
*
4430 TTTTGAAAA-TCTT
1 TTTTGAAAACTCAT
4443 TTCTTGAAAAC
1 TT-TTGAAAAC
4454 AATTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (14 bp):
TTTTGAAAACTCAT
Found at i:6672 original size:30 final size:30
Alignment explanation
Indices: 6636--6726 Score: 182
Period size: 30 Copynumber: 3.0 Consensus size: 30
6626 ACTTCCACAA
6636 GCCAAAAGCCGTGACCATTTACAATTCTGT
1 GCCAAAAGCCGTGACCATTTACAATTCTGT
6666 GCCAAAAGCCGTGACCATTTACAATTCTGT
1 GCCAAAAGCCGTGACCATTTACAATTCTGT
6696 GCCAAAAGCCGTGACCATTTACAATTCTGT
1 GCCAAAAGCCGTGACCATTTACAATTCTGT
6726 G
1 G
6727 AATAATCAGG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (30 bp):
GCCAAAAGCCGTGACCATTTACAATTCTGT
Found at i:8326 original size:36 final size:36
Alignment explanation
Indices: 8286--8359 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
8276 GATTAAATTC
** *
8286 TTTATTGACTTTACTTAATTACCCTGAATTAAGTCT
1 TTTATTGACTCCACTTAATTACCCTGAATTAAGCCT
8322 TTTATTGACTCCACTTAATTACCCTGAATTAAGCCT
1 TTTATTGACTCCACTTAATTACCCTGAATTAAGCCT
8358 TT
1 TT
8360 ATTCTACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (36 bp):
TTTATTGACTCCACTTAATTACCCTGAATTAAGCCT
Found at i:8370 original size:31 final size:33
Alignment explanation
Indices: 8297--8377 Score: 103
Period size: 36 Copynumber: 2.4 Consensus size: 33
8287 TTATTGACTT
*
8297 TACTTAATTACCCTGAATTAAGTCTTTTATTGAC
1 TACTTAATTACCCTGAATTAAGTCCTTTATT-AC
8331 TCCACTTAATTACCCTGAATTAAG-CCTTTATT-C
1 T--ACTTAATTACCCTGAATTAAGTCCTTTATTAC
*
8364 TACTTAATTTCCCT
1 TACTTAATTACCCT
8378 TCCTGAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
31 12 0.28
33 2 0.05
34 1 0.02
35 7 0.16
36 21 0.49
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.43
Consensus pattern (33 bp):
TACTTAATTACCCTGAATTAAGTCCTTTATTAC
Found at i:8454 original size:36 final size:36
Alignment explanation
Indices: 8377--8964 Score: 712
Period size: 36 Copynumber: 16.6 Consensus size: 36
8367 TTAATTTCCC
* * * **
8377 TTCC-TGAAATTAAGCCTGTGTCTT-TTTAGTTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8411 TTCCTTGAAATTAAGCCAGTCTTTCCCTTACCTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8447 TTCCTTGAAATTAAGCCAATCTTTTCTTTACCTAGT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8483 TTCCTTGAAACTAAGCCAGTCTTCTC-TTACCTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
*
8518 TTCCTTGAAATTAAGTCAGTCTTTTCTTTACCTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8554 TTCCTTGAAATTAAGTCAGTCTTTTCTTTACCTAGT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8590 TTCCTTGAAACTAAGCCAGTCTTTTTTTTACCTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8626 TTCCTTGAAATTAAGTCAGTCTTTTCTTTACCTAGT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* * *
8662 TTCCTTGAAACTAAGCCAGTC-TTT-TTTACTTAAC
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* * *
8696 TTCTTTGAAATTAAGCCAGTC-TATCTGTACCTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* * * *
8731 TTCCTTGAAATTAAGTCAGTCTTCTCTTTACGTAGT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* * * * *
8767 TTCCTTGAAACTAAGGCAGTCTTCTCTATACCTAGT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8803 TTCCTTGAAACTAAGCCAGTCTTCTC-TTACCTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8838 TTCCTTGAAATTAAGTCAGTC-TTT-TTTACTTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* *
8872 TTCATTGAAATTAAGCCAGTCTTTTCTTTACCTAGT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
* * *
8908 TTCCTTGAAACTAAGCCAGAC-TTT-TTTACTTAAT
1 TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
*
8942 TTCCTTGAAATTAAGCCAATCTT
1 TTCCTTGAAATTAAGCCAGTCTT
8965 CTTTCAGTCT
Statistics
Matches: 478, Mismatches: 67, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
34 87 0.18
35 109 0.23
36 282 0.59
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (36 bp):
TTCCTTGAAATTAAGCCAGTCTTTTCTTTACCTAAT
Found at i:8459 original size:107 final size:104
Alignment explanation
Indices: 8377--8956 Score: 602
Period size: 107 Copynumber: 5.5 Consensus size: 104
8367 TTAATTTCCC
* * ** * *
8377 TTCC-TGAAATTAAGCCTGTGTCTTTTTAGTTAATTTCCTTGAAATTAAGCCAGTCTTTCCCTTA
1 TTCCTTGAAACTAAGCCAGTGTCTTTTTACCTAATTTCCTTGAAATTAAGTCAGTCTTTCCTTTA
*
8441 CCTAATTTCCTTGAAATTAAGCCAATCTTTTCTTTACCTAGT
66 CCTAATTTCCTTGAAATTAAGCC-ATCTTTTC--TACCTAAT
*
8483 TTCCTTGAAACTAAGCCA--GTCTTCTCTTACCTAATTTCCTTGAAATTAAGTCAGTCTTTTCTT
1 TTCCTTGAAACTAAGCCAGTGTCTT-T-TTACCTAATTTCCTTGAAATTAAGTCAGTCTTTCCTT
* *
8546 TACCTAATTTCCTTGAAATTAAGTCAGTCTTTTCTTTACCTAGT
64 TACCTAATTTCCTTGAAATTAAGCCA-TCTTTTC--TACCTAAT
* * *
8590 TTCCTTGAAACTAAGCCAGTCTTTTTTTTACCTAATTTCCTTGAAATTAAGTCAGTCTTTTCTTT
1 TTCCTTGAAACTAAGCCAGT-GTCTTTTTACCTAATTTCCTTGAAATTAAGTCAGTCTTTCCTTT
* * * * *
8655 ACCTAGTTTCCTTGAAACTAAGCCAGTCTTTTTTACTTAAC
65 ACCTAATTTCCTTGAAATTAAGCCA-TCTTTTCTACCTAAT
* * * * * *
8696 TTCTTTGAAATTAAGCCAGTCTATCTGTACCTAATTTCCTTGAAATTAAGTCAGTC-TTCTCTTT
1 TTCCTTGAAACTAAGCCAGTGTCTTTTTACCTAATTTCCTTGAAATTAAGTCAGTCTTTC-CTTT
* * * * * *
8760 ACGTAGTTTCCTTGAAACTAAGGCAGTCTTCTCTATACCTAGT
65 ACCTAATTTCCTTGAAATTAAGCCA-TCTT-T-TCTACCTAAT
8803 TTCCTTGAAACTAAGCCA--GTCTTCTCTTACCTAATTTCCTTGAAATTAAGTCAGTCTTT--TT
1 TTCCTTGAAACTAAGCCAGTGTCTT-T-TTACCTAATTTCCTTGAAATTAAGTCAGTCTTTCCTT
* * *
8864 TACTTAATTTCATTGAAATTAAGCCAGTCTTTTCTTTACCTAGT
64 TACCTAATTTCCTTGAAATTAAGCCA-TCTTTTC--TACCTAAT
** *
8908 TTCCTTGAAACTAAGCCAGACT-TTTTTACTTAATTTCCTTGAAATTAAG
1 TTCCTTGAAACTAAGCCAGTGTCTTTTTACCTAATTTCCTTGAAATTAAG
8957 CCAATCTTCT
Statistics
Matches: 413, Mismatches: 44, Indels: 36
0.84 0.09 0.07
Matches are distributed among these distances:
103 1 0.00
104 26 0.06
105 126 0.31
106 33 0.08
107 154 0.37
108 69 0.17
109 1 0.00
110 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.43
Consensus pattern (104 bp):
TTCCTTGAAACTAAGCCAGTGTCTTTTTACCTAATTTCCTTGAAATTAAGTCAGTCTTTCCTTTA
CCTAATTTCCTTGAAATTAAGCCATCTTTTCTACCTAAT
Found at i:8977 original size:11 final size:11
Alignment explanation
Indices: 8961--9059 Score: 117
Period size: 11 Copynumber: 8.5 Consensus size: 11
8951 ATTAAGCCAA
8961 TCTTCTTTCAG
1 TCTTCTTTCAG
8972 TCTTCTTTCAG
1 TCTTCTTTCAG
*
8983 TCTTTCTTTCGG
1 TC-TTCTTTCAG
8995 TCTTCTCTTTCAG
1 TC-T-TCTTTCAG
*
9008 TCTTGTTTCAG
1 TCTTCTTTCAG
9019 TCTTCTCTTTCAG
1 TC-T-TCTTTCAG
*
9032 TCTTTTTTCAG
1 TCTTCTTTCAG
9043 TCTTCTTTTCAG
1 TCTTC-TTTCAG
9055 TCTTC
1 TCTTC
9060 CTTTGCCTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
11 33 0.43
12 26 0.34
13 18 0.23
ACGTcount: A:0.07, C:0.26, G:0.10, T:0.57
Consensus pattern (11 bp):
TCTTCTTTCAG
Found at i:9006 original size:36 final size:35
Alignment explanation
Indices: 8963--9063 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 35
8953 TAAGCCAATC
*
8963 TTCTTTCAGTCTTCTTTCAGTCTTTCTTTCGGTCT
1 TTCTTTCAGTCTTCTTTCAGTCTTTCTTTCAGTCT
*
8998 TCTCTTTCAGTCTTGTTTCAGTCTTCTCTTTCAGTCT
1 T-TCTTTCAGTCTTCTTTCAGTCTT-TCTTTCAGTCT
*
9035 TT-TTTCAGTCTTCTTTTCAGTCTTCCTTT
1 TTCTTTCAGTCTTC-TTTCAGTCTTTCTTT
9064 GCCTAATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
35 15 0.25
36 33 0.56
37 11 0.19
ACGTcount: A:0.07, C:0.26, G:0.10, T:0.57
Consensus pattern (35 bp):
TTCTTTCAGTCTTCTTTCAGTCTTTCTTTCAGTCT
Found at i:9021 original size:24 final size:24
Alignment explanation
Indices: 8961--9059 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
8951 ATTAAGCCAA
8961 TCTTCTTTCAGTC-T-TCTTTCAG
1 TCTTCTTTCAGTCTTCTCTTTCAG
*
8983 TCTTTCTTTCGGTCTTCTCTTTCAG
1 TC-TTCTTTCAGTCTTCTCTTTCAG
*
9008 TCTTGTTTCAGTCTTCTCTTTCAG
1 TCTTCTTTCAGTCTTCTCTTTCAG
*
9032 TCTTTTTTCAGTCTTCT-TTTCAG
1 TCTTCTTTCAGTCTTCTCTTTCAG
9055 TCTTC
1 TCTTC
9060 CTTTGCCTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
22 2 0.03
23 20 0.29
24 37 0.54
25 10 0.14
ACGTcount: A:0.07, C:0.26, G:0.10, T:0.57
Consensus pattern (24 bp):
TCTTCTTTCAGTCTTCTCTTTCAG
Found at i:9163 original size:40 final size:40
Alignment explanation
Indices: 9117--9203 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
9107 CCTTTCTTGA
** *
9117 AATTAAGCCTATGCTCTGATGTTTTTACTTAATTACTATG
1 AATTAAGCCTATGAACTGATGTTTTTAATTAATTACTATG
* * * * *
9157 AATTAAGTCTTTTAACTGTTGTTTTTAATTAATTTCTATG
1 AATTAAGCCTATGAACTGATGTTTTTAATTAATTACTATG
9197 AATTAAG
1 AATTAAG
9204 ATCTTTAACC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.48
Consensus pattern (40 bp):
AATTAAGCCTATGAACTGATGTTTTTAATTAATTACTATG
Done.