Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019563.1 Corchorus olitorius cultivar O-4 contig19596, 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: 12577
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Found at i:1565 original size:29 final size:29
Alignment explanation
Indices: 1533--1597 Score: 69
Period size: 32 Copynumber: 2.1 Consensus size: 29
1523 AGGGGCATTG
* *
1533 TGGCGCAATTATT-AGTTCAGGGGGCAAAT
1 TGGCCCAATT-TTAAGTTCAGGGGGCAAAA
1562 TGGCCCAATTTTGCAAAGTTCAGGGGGCAAAA
1 TGGCCCAATTTT---AAGTTCAGGGGGCAAAA
1594 TGGC
1 TGGC
1598 TATTTAGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 2 0.07
29 9 0.30
32 19 0.63
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCCCAATTTTAAGTTCAGGGGGCAAAA
Found at i:1662 original size:2 final size:2
Alignment explanation
Indices: 1655--1686 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1645 ACGGGATGAT
*
1655 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1687 ATAAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3444 original size:105 final size:106
Alignment explanation
Indices: 3265--3526 Score: 440
Period size: 107 Copynumber: 2.5 Consensus size: 106
3255 AATTTTTCTA
* **
3265 ACCCTTAAAATAAAATTTTAATTTTAATTT-GGGCTAAACTTAGTG-AATTAGTTTTATATTTTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTATATTTTA
*
3328 TTTCTAAAACCCTATAACAAT-ATTATTAATTATGGAATTT
66 TTTCTAAAACCCTATAACAATAATTATTAATTATGAAATTT
*
3368 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTATATTTTA
*
3433 TTTCTAAAACCCTATAACAATAAATTATTAATTTTGAAATTT
66 TTTCTAAAACCCTATAACAAT-AATTATTAATTATGAAATTT
3475 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTA
1 ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTA
3527 AGGCTAAACT
Statistics
Matches: 149, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
103 27 0.18
104 15 0.10
105 38 0.26
107 69 0.46
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (106 bp):
ACCCTTAAAATAAAAATAAAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTATATTTTA
TTTCTAAAACCCTATAACAATAATTATTAATTATGAAATTT
Found at i:3993 original size:2 final size:2
Alignment explanation
Indices: 3986--4012 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3976 CTCTTATAGA
3986 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4013 CACGTTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7208 original size:97 final size:95
Alignment explanation
Indices: 7091--7325 Score: 334
Period size: 94 Copynumber: 2.5 Consensus size: 95
7081 TCTCTGTTTA
* * *
7091 CTTCTTCTTTTCCT-CTTTAGTTTAATTA-CTCAGGATTAAACTAATTATTTATTCTTCATTC-G
1 CTTCTTCTTTTACTAC-TTAGTTTAATTACCT-AGAATTAAACTAA--ATCTATTCTTC-TTCTG
* * **
7153 CTACTTAGTTTAATTTTCTAGAATTAAACTAATCT
61 CTACTCAGTTCAATTACCTAGAATTAAACTAATCT
7188 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACT-AATCTATTCTTCTTCTGCTACT
1 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAAATCTATTCTTCTTCTGCTACT
7252 CAGTTCAATTACCTAGAATTAAACTAATCT
66 CAGTTCAATTACCTAGAATTAAACTAATCT
7282 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAA
1 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAA
7326 CCTCTGTTTA
Statistics
Matches: 127, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
93 3 0.02
94 84 0.66
95 1 0.01
96 1 0.01
97 35 0.28
98 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (95 bp):
CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAAATCTATTCTTCTTCTGCTACT
CAGTTCAATTACCTAGAATTAAACTAATCT
Found at i:7211 original size:47 final size:47
Alignment explanation
Indices: 7091--7330 Score: 288
Period size: 47 Copynumber: 5.0 Consensus size: 47
7081 TCTCTGTTTA
* *
7091 CTTCTTCTTTTCCT-CTTTAGTTTAATTA-CTCAGGATTAAACTAAT-T
1 CTTCTTCTTTTACTAC-TTAGTTTAATTACCT-AGAATTAAACTAATCT
* * * **
7137 ATTTATTCTTCATTCGCTACTTAGTTTAATTTTCTAGAATTAAACTAATCT
1 -CTTCTTCTT--TT-ACTACTTAGTTTAATTACCTAGAATTAAACTAATCT
7188 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAATCT
1 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAATCT
* * * * *
7235 ATTCTTCTTCTGCTACTCAGTTCAATTACCTAGAATTAAACTAATCT
1 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAATCT
*
7282 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAACCT
1 CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAATCT
7329 CT
1 CT
7331 GTTTACTTCA
Statistics
Matches: 166, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
47 125 0.75
48 2 0.01
49 2 0.01
50 33 0.20
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.46
Consensus pattern (47 bp):
CTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAATCT
Found at i:7406 original size:76 final size:76
Alignment explanation
Indices: 7275--7422 Score: 217
Period size: 76 Copynumber: 1.9 Consensus size: 76
7265 TAGAATTAAA
* * * *
7275 CTAATCTCTTCTTCTTTTACTACTTAGTTTAATTACCTAGAATTAAACTAACCTCTGTTTACTTC
1 CTAAACTCTTCCTATTTTACTACTTAGTTTAATTACCCAGAATTAAACTAACCTCTGTTTACTTC
7340 ATCTTTTTCCT
66 ATCTTTTTCCT
* *
7351 CTAAACTCTTCCTATTTTACT-CTTTAGTTTAATTACCCGGAATTAAACTACCCTCTGTTTACTT
1 CTAAACTCTTCCTATTTTACTAC-TTAGTTTAATTACCCAGAATTAAACTAACCTCTGTTTACTT
*
7415 CTTCTTTT
65 CATCTTTT
7423 GCTCCTTAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
75 1 0.02
76 63 0.98
ACGTcount: A:0.23, C:0.24, G:0.05, T:0.48
Consensus pattern (76 bp):
CTAAACTCTTCCTATTTTACTACTTAGTTTAATTACCCAGAATTAAACTAACCTCTGTTTACTTC
ATCTTTTTCCT
Found at i:7433 original size:54 final size:54
Alignment explanation
Indices: 7365--7772 Score: 404
Period size: 47 Copynumber: 8.1 Consensus size: 54
7355 ACTCTTCCTA
* * *
7365 TTTTACTCTTTAGTTTAATTACCCGGAATTAAACTACCCTCTGTTTACTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
* ** * * *
7419 TTTTGCTCCTTAGTTTAATTACCCAGAGTTAAACTATCTTCTGTTTATTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
* * * *
7473 TCTTACTATTTAGTTTAATTACCCAGAATTAAACTATCTTCTGCTTACTTTTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
* *
7527 TTTTTCTATTTAGTTTAATTACCCAGAATTAAACTA-AC-C----T-CTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
*
7574 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTA-GC-C----T-CTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
* * * *
7621 TTTCACTATTTAGTTTAATCACCCAGAATTAAACTA---AC---AT-CTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
* *
7668 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTA---AC---AT-CTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
* *
7715 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTGTTTACTTCATC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
7769 TTTT
1 TTTT
7773 TCTCTAAACT
Statistics
Matches: 316, Mismatches: 29, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
46 1 0.00
47 174 0.55
48 1 0.00
50 1 0.00
52 1 0.00
53 1 0.00
54 137 0.43
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.46
Consensus pattern (54 bp):
TTTTACTATTTAGTTTAATTACCCAGAATTAAACTATCCTCTGTTTACTTCTTC
Found at i:7593 original size:47 final size:47
Alignment explanation
Indices: 7524--8006 Score: 477
Period size: 47 Copynumber: 10.5 Consensus size: 47
7514 TGCTTACTTT
*
7524 TTCTTTTTCTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
1 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
*
7571 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTTC
1 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
* * *
7618 TTCTTTCACTATTTAGTTTAATCACCCAGAATTAAACTAACATCTTC
1 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
*
7665 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACATCTTC
1 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
*
7712 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTGT-
1 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCT-TC
* ** * * * * *
7759 TTAC-TTCATCT-TTTTCTCTAA--ACTC----TTCATCTTTTA-CTCTT-
1 TT-CTTTTA-CTATTTAGTTTAATTACCCAGAATTAAAC--TAACCTCTTC
** * * ** * * *
7800 TAGTTTAATTACTCGGAATTAAACTACTCCATG--TT----T-A---CTTC
1 TTCTTTTACTA-T-TTAGTTTAATTAC-CCA-GAATTAAACTAACCTCTTC
* *
7841 TTCTTTTACTATTTAGTTTAATAACCCAGAATTAAACTAACATCTTC
1 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
*
7888 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACATCTTC
1 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
* *
7935 TTCTTTTACTATTTAGTTTAATTAACCAAAATTAAACTAACCTCTTC
1 TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
7982 TTCTTTTACTATTTAGTTTAATTAC
1 TTCTTTTACTATTTAGTTTAATTAC
8007 TCTTCTAATT
Statistics
Matches: 365, Mismatches: 45, Indels: 52
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 9 0.02
40 5 0.01
41 16 0.04
42 6 0.02
43 6 0.02
44 1 0.00
45 5 0.01
46 1 0.00
47 306 0.84
48 4 0.01
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (47 bp):
TTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTC
Found at i:7664 original size:94 final size:94
Alignment explanation
Indices: 7467--8006 Score: 510
Period size: 94 Copynumber: 5.8 Consensus size: 94
7457 TTCTGTTTAT
* * *
7467 TTCTTCTCTTACTATTTAGTTTAATTACCCAGAATTAAACTATCTTCTGCTTACTTTTTCTTTTT
1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAAC--CT-CTT-C---TTCTTTTA
*
7532 CTATTTAGTTTAATTACCCAGAATTAAACTAACCTC
59 CTATTTAGTTTAATTACCCAGAATTAAACTAACATC
* *
7568 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTTCTTCTTTCACTATTTA
1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTCTTCTTTTACTATTTA
*
7633 GTTTAATCACCCAGAATTAAACTAACATC
66 GTTTAATTACCCAGAATTAAACTAACATC
*
7662 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTA
1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTCTTCTTTTACTATTTA
* *
7727 GTTTAATTACCCAGAATTAAACTAGCCTC
66 GTTTAATTACCCAGAATTAAACTAACATC
* ** * * * * * ** * *
7756 TGT-TTAC-TTCATCT-TTTTCTCTAA--ACTC----TTCATCTTTTA-CTCTT-TAGTTTAATT
1 T-TCTT-CTTTTA-CTATTTAGTTTAATTACCCAGAATTAAAC--TAACCTCTTCTTCTTTTACT
** * * *
7810 ACTCGGAATTAAACTACTCCATG--TT----T---A-C
61 A-T-TTAGTTTAATTAC-CCA-GAATTAAACTAACATC
* *
7838 TTCTTCTTTTACTATTTAGTTTAATAACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTA
1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTCTTCTTTTACTATTTA
7903 GTTTAATTACCCAGAATTAAACTAACATC
66 GTTTAATTACCCAGAATTAAACTAACATC
* *
7932 TTCTTCTTTTACTATTTAGTTTAATTAACCAAAATTAAACTAACCTCTTCTTCTTTTACTATTTA
1 TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTCTTCTTTTACTATTTA
7997 GTTTAATTAC
66 GTTTAATTAC
8007 TCTTCTAATT
Statistics
Matches: 356, Mismatches: 53, Indels: 67
0.75 0.11 0.14
Matches are distributed among these distances:
81 4 0.01
82 14 0.04
84 4 0.01
85 3 0.01
86 13 0.04
87 5 0.01
88 22 0.06
89 5 0.01
90 13 0.04
91 3 0.01
92 4 0.01
93 1 0.00
94 213 0.60
95 4 0.01
97 1 0.00
98 3 0.01
99 2 0.01
101 42 0.12
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (94 bp):
TTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAACCTCTTCTTCTTTTACTATTTA
GTTTAATTACCCAGAATTAAACTAACATC
Found at i:7835 original size:75 final size:75
Alignment explanation
Indices: 7707--7847 Score: 205
Period size: 75 Copynumber: 1.9 Consensus size: 75
7697 TAAACTAACA
*
7707 TCTTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTGTTTACTTCATCTTT
1 TCTTCATCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTGTTTACTTCATCTTT
7772 TTCTCTAAAC
66 TTCTCTAAAC
* * * *
7782 TCTTCATCTTTTACTCTTTAGTTTAATTACTCGGAATTAAACTA--CTCCATGTTTACTTCTTCT
1 TCTTCATCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCT-C-TGTTTACTTCATCT
7845 TTT
64 TTT
7848 ACTATTTAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
73 2 0.03
74 1 0.02
75 56 0.95
ACGTcount: A:0.23, C:0.22, G:0.06, T:0.50
Consensus pattern (75 bp):
TCTTCATCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTGTTTACTTCATCTTT
TTCTCTAAAC
Found at i:7953 original size:223 final size:216
Alignment explanation
Indices: 7560--7979 Score: 678
Period size: 223 Copynumber: 1.9 Consensus size: 216
7550 CAGAATTAAA
* *
7560 CTAACCTCTTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTTCTTCTTTC
1 CTAAACTCTTCATCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTTCTTCTTTC
*
7625 ACTATTTAGTTTAATCACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTTTAATTAC
66 ACTATTTAGTTTAATAACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTTTAATTAC
* * *
7690 CCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCT
131 CCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTTTAATTAACCAAAATTAAACTAACCT
7755 CTGTTTACTTCATCTTTTTCT
196 CTGTTTACTTCATCTTTTTCT
* * * *
7776 CTAAACTCTTCATCTTTTACTCTTTAGTTTAATTACTCGGAATTAAACTACTCCATGTTTACTTC
1 CTAAACTCTTCATCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTA-GCC-----T-CTTC
*
7841 TTCTTTTACTATTTAGTTTAATAACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTT
59 TTCTTTCACTATTTAGTTTAATAACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTT
7906 TAATTACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTTTAATTAACCAAAATTAAA
124 TAATTACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTTTAATTAACCAAAATTAAA
7971 CTAACCTCT
189 CTAACCTCT
7980 TCTTCTTTTA
Statistics
Matches: 186, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
216 45 0.24
217 2 0.01
222 1 0.01
223 138 0.74
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.45
Consensus pattern (216 bp):
CTAAACTCTTCATCTTTTACTATTTAGTTTAATTACCCAGAATTAAACTAGCCTCTTCTTCTTTC
ACTATTTAGTTTAATAACCCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTTTAATTAC
CCAGAATTAAACTAACATCTTCTTCTTTTACTATTTAGTTTAATTAACCAAAATTAAACTAACCT
CTGTTTACTTCATCTTTTTCT
Found at i:8032 original size:22 final size:22
Alignment explanation
Indices: 8007--8048 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7997 GTTTAATTAC
8007 TCTTCTAATTACTCTTTCTTTT
1 TCTTCTAATTACTCTTTCTTTT
*
8029 TCTTCTGATTACTCTTTCTT
1 TCTTCTAATTACTCTTTCTT
8049 CTACTTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.02, T:0.62
Consensus pattern (22 bp):
TCTTCTAATTACTCTTTCTTTT
Found at i:8055 original size:22 final size:22
Alignment explanation
Indices: 8008--8055 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
7998 TTTAATTACT
* *
8008 CTTCTAATTACTCTTTCTTTTT
1 CTTCTAATTACTCTTTCTTCTA
*
8030 CTTCTGATTACTCTTTCTTCTA
1 CTTCTAATTACTCTTTCTTCTA
8052 CTTC
1 CTTC
8056 CTAGCTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.12, C:0.27, G:0.02, T:0.58
Consensus pattern (22 bp):
CTTCTAATTACTCTTTCTTCTA
Found at i:12293 original size:16 final size:16
Alignment explanation
Indices: 12275--12350 Score: 91
Period size: 16 Copynumber: 4.8 Consensus size: 16
12265 AATTTTGGGT
*
12275 ACCCGAACCCGAAATT
1 ACCCGAACCCGAAATG
* *
12291 ACCCGAATCC-AAACG
1 ACCCGAACCCGAAATG
12306 ACCCGAACCCGAAAATG
1 ACCCGAACCCG-AAATG
* *
12323 ACCCAAACCCAAAATG
1 ACCCGAACCCGAAATG
12339 ACCCGAACCCGA
1 ACCCGAACCCGA
12351 TCAACCCGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
15 12 0.24
16 24 0.49
17 13 0.27
ACGTcount: A:0.41, C:0.39, G:0.13, T:0.07
Consensus pattern (16 bp):
ACCCGAACCCGAAATG
Done.