Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016652.1 Corchorus olitorius cultivar O-4 contig16685, 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: 75049
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1914 original size:30 final size:30
Alignment explanation
Indices: 1749--2854 Score: 1194
Period size: 30 Copynumber: 36.1 Consensus size: 30
1739 TTATTACACG
1749 AAGCAATGATCCTAAACCAGGATTGAAATGAATA
1 AAGCAATGATCCTAAACCAGGATT--AA--AATA
* * *
1783 AAGTAAAGATCCTAAACCAGGATTAAAATG
1 AAGCAATGATCCTAAACCAGGATTAAAATA
1813 AA-CAATGATCCTAAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
* *
1842 AA-CAAAGATTCTAAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
1871 AA-CAAAT-ATCCTAAACCAGGATTAAAATA
1 AAGC-AATGATCCTAAACCAGGATTAAAATA
* *
1900 AAGCAAAGATCCTAAACCATGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
*
1930 AAACAATGATCCTCAAA-CAGGATTAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
**
1960 AAGCAATGATCCTCCACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
*
1990 AAGCAATGATCTTCAAA-CAGGATTAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
* *
2020 AAGCCATGATCCTCAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
2050 AAGCAATGATCCTCAAA-CAGGATTAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
** * *
2080 AAGTTATGATCATCAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
2110 AAGCAATGATCCTCAAA-CAGGATTAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
* *
2140 AAGCTATGATCCTCAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
*
2170 AAGCAATGATTCTCAAA-CAGGATTAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
2200 AA-CAATGATCCTCAAA-CAGGATTAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
* *
2229 AAGCGATGATCCTCAAA-CAGGATAAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
*
2259 AAGCGAAT-ATCCTCAACCAGGATTAAAATA
1 AAGC-AATGATCCTAAACCAGGATTAAAATA
* * *
2289 AAGTAACGATCCTCAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
*
2319 AAGCAATGATCCTCAAA-CAGGATTAAAAATG
1 AAGCAATGATCCT-AAACCAGGATT-AAAATA
*
2350 AAGCAATGATCCTCAAA-CAGGATTAAAAATG
1 AAGCAATGATCCT-AAACCAGGATT-AAAATA
* *
2381 AAGCAATGATCCTCAAA-CAAGATTAAAATG
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
* *
2411 AAGCGATGATCCTCAAA-CAGGATTAAAACAA
1 AAGCAATGATCCT-AAACCAGGATTAAAA-TA
*
2442 AAGCGATGATCCTCAAA-CAGGATTAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
* *
2472 AAGCGAAT-ATCTTCAACCAGGATTAAAATA
1 AAGC-AATGATCCTAAACCAGGATTAAAATA
* * *
2502 AAGTAACGATCCTCAACCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
*
2532 AAGCAATGATCCTCAAA-CAGGATTAAAAATG
1 AAGCAATGATCCT-AAACCAGGATT-AAAATA
2563 AAGCAATGATCCTCAAA-CAGGATTAAAATA
1 AAGCAATGATCCT-AAACCAGGATTAAAATA
* *
2593 AAGCAATGATCCTAAACCAGGATAAAAATG
1 AAGCAATGATCCTAAACCAGGATTAAAATA
**
2623 AAGCAATGAAGCAAATATCCTCGACCAGGATTAAAATA
1 AAGCAAT---G-----ATCCTAAACCAGGATTAAAATA
*
2661 AAGCAATGATCCTCAAA-CAGGATTAAAAATG
1 AAGCAATGATCCT-AAACCAGGATT-AAAATA
* *
2692 AAGCAATGATCCTCAACCAGGATTAAAAATG
1 AAGCAATGATCCTAAACCAGGATT-AAAATA
*
2723 AAGCAATGATCCTAAACCAGGATTAAAAATG
1 AAGCAATGATCCTAAACCAGGATT-AAAATA
*
2754 AAGCAATGATCCTCAACCAGGATTAAAATAAAGCTGA
1 AAGCAATGATCCTAAACCAGGATT---A-AAA--T-A
2791 TAAGGCAATGATCCTAAACCAGGATTAAAATA
1 -AA-GCAATGATCCTAAACCAGGATTAAAATA
* *
2823 AAGCAATGATCCTCAAGCAGGATTAAAATA
1 AAGCAATGATCCTAAACCAGGATTAAAATA
2853 AA
1 AA
2855 ACTGATAAAG
Statistics
Matches: 944, Mismatches: 84, Indels: 92
0.84 0.08 0.08
Matches are distributed among these distances:
29 125 0.13
30 511 0.54
31 222 0.24
32 3 0.00
33 4 0.00
34 25 0.03
35 4 0.00
36 2 0.00
38 27 0.03
39 21 0.02
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (30 bp):
AAGCAATGATCCTAAACCAGGATTAAAATA
Found at i:1962 original size:60 final size:60
Alignment explanation
Indices: 1749--2854 Score: 1356
Period size: 60 Copynumber: 18.0 Consensus size: 60
1739 TTATTACACG
* * * *
1749 AAGCAATGATCCT-AAACCAGGATTGAAATGAATAAAGTAAAGATCCTAAACCAGGATTAAAATG
1 AAGCAATGATCCTCAAA-CAGGATT--AA--AATAAAGCAATGATCCTCAACCAGGATTAAAATA
* * *
1813 AA-CAATGATCCT-AAACCAGGATTAAAATAAA-CAAAGATTCTAAACCAGGATTAAAATA
1 AAGCAATGATCCTCAAA-CAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
* * *
1871 AA-CAAAT-ATCCT-AAACCAGGATTAAAATAAAGCAAAGATCCTAAACCATGATTAAAATA
1 AAGC-AATGATCCTCAAA-CAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
* *
1930 AAACAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCCACCAGGATTAAAATA
1 AAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
* *
1990 AAGCAATGATCTTCAAACAGGATTAAAATAAAGCCATGATCCTCAACCAGGATTAAAATA
1 AAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
** *
2050 AAGCAATGATCCTCAAACAGGATTAAAATAAAGTTATGATCATCAACCAGGATTAAAATA
1 AAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
*
2110 AAGCAATGATCCTCAAACAGGATTAAAATAAAGCTATGATCCTCAACCAGGATTAAAATA
1 AAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
* *
2170 AAGCAATGATTCTCAAACAGGATTAAAATAAA-CAATGATCCTCAAACAGGATTAAAATA
1 AAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
* *
2229 AAGCGATGATCCTCAAACAGGATAAAAATAAAGCGAAT-ATCCTCAACCAGGATTAAAATA
1 AAGCAATGATCCTCAAACAGGATTAAAATAAAGC-AATGATCCTCAACCAGGATTAAAATA
* * * * *
2289 AAGTAACGATCCTCAACCAGGATTAAAATAAAGCAATGATCCTCAAACAGGATTAAAAATG
1 AAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATT-AAAATA
* * * *
2350 AAGCAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAAACAAGATTAAAATG
1 AAGCAATGATCCTCAAACAGGATT-AAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
* * * *
2411 AAGCGATGATCCTCAAACAGGATTAAAACAAAAGCGATGATCCTCAAACAGGATTAAAATA
1 AAGCAATGATCCTCAAACAGGATTAAAA-TAAAGCAATGATCCTCAACCAGGATTAAAATA
* * * *
2472 AAGCGAAT-ATCTTCAACCAGGATTAAAATAAAGTAACGATCCTCAACCAGGATTAAAATA
1 AAGC-AATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
* *
2532 AAGCAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAAACAGGATTAAAATA
1 AAGCAATGATCCTCAAACAGGATT-AAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
* * *
2593 AAGCAATGATCCT-AAACCAGGATAAAAATGAAGCAATGAAGCAAATATCCTCGACCAGGATTAA
1 AAGCAATGATCCTCAAA-CAGGATTAAAATAAAGCAAT---G-----ATCCTCAACCAGGATTAA
2657 AATA
57 AATA
* *
2661 AAGCAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAACCAGGATTAAAAATG
1 AAGCAATGATCCTCAAACAGGATT-AAAATAAAGCAATGATCCTCAACCAGGATT-AAAATA
*
2723 AAGCAATGATCCT-AAACCAGGATTAAAAATGAAGCAATGATCCTCAACCAGGATTAAAATAAAG
1 AAGCAATGATCCTCAAA-CAGGATT-AAAATAAAGCAATGATCCTCAACCAGGATT---A-AAA-
2787 CTGA
59 -T-A
*
2791 TAAGGCAATGATCCT-AAACCAGGATTAAAATAAAGCAATGATCCTCAAGCAGGATTAAAATA
1 -AA-GCAATGATCCTCAAA-CAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
2853 AA
1 AA
2855 ACTGATAAAG
Statistics
Matches: 940, Mismatches: 67, Indels: 73
0.87 0.06 0.07
Matches are distributed among these distances:
58 51 0.05
59 99 0.11
60 377 0.40
61 183 0.19
62 87 0.09
63 23 0.02
64 4 0.00
65 6 0.01
66 2 0.00
67 1 0.00
68 39 0.04
69 46 0.05
70 22 0.02
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (60 bp):
AAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATA
Found at i:2635 original size:38 final size:38
Alignment explanation
Indices: 2593--2669 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
2583 GATTAAAATA
*
2593 AAGC-AATGATCCTAAACCAGGATAAAAATGAAGCAATG
1 AAGCAAAT-ATCCTAAACCAGGATAAAAATAAAGCAATG
** *
2631 AAGCAAATATCCTCGACCAGGATTAAAATAAAGCAATG
1 AAGCAAATATCCTAAACCAGGATAAAAATAAAGCAATG
2669 A
1 A
2670 TCCTCAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 31 0.91
39 3 0.09
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (38 bp):
AAGCAAATATCCTAAACCAGGATAAAAATAAAGCAATG
Found at i:2668 original size:68 final size:68
Alignment explanation
Indices: 2559--2787 Score: 283
Period size: 62 Copynumber: 3.5 Consensus size: 68
2549 CAGGATTAAA
*
2559 AATGAAGCAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTAAACCAGGA-TAAAAATG
1 AATGAAGCAAT-ATCCTCAACCAGGATTAAAATAAAGCAATGATCCTAAACCAGGATTAAAAATG
2623 AAGC
65 AAGC
*
2627 AATGAAGCAAATATCCTCGACCAGGATTAAAATAAAGCAATGATCCTCAAA-CAGGATTAAAAAT
1 AATGAAGC-AATATCCTCAACCAGGATTAAAATAAAGCAATGATCCT-AAACCAGGATTAAAAAT
2691 GAAGC
64 GAAGC
*
2696 AAT---G----ATCCTCAACCAGGATTAAAAATGAAGCAATGATCCTAAACCAGGATTAAAAATG
1 AATGAAGCAATATCCTCAACCAGGATT-AAAATAAAGCAATGATCCTAAACCAGGATTAAAAATG
2754 AAGC
65 AAGC
2758 AAT---G----ATCCTCAACCAGGATTAAAATAAAGC
1 AATGAAGCAATATCCTCAACCAGGATTAAAATAAAGC
2788 TGATAAGGCA
Statistics
Matches: 151, Mismatches: 5, Indels: 17
0.87 0.03 0.10
Matches are distributed among these distances:
61 27 0.18
62 56 0.37
66 1 0.01
68 46 0.30
69 21 0.14
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (68 bp):
AATGAAGCAATATCCTCAACCAGGATTAAAATAAAGCAATGATCCTAAACCAGGATTAAAAATGA
AGC
Found at i:2762 original size:39 final size:38
Alignment explanation
Indices: 2719--2926 Score: 134
Period size: 39 Copynumber: 5.9 Consensus size: 38
2709 CAGGATTAAA
2719 AATGAAGCAATGATCCTAAACCAGGA-T----TAAA--
1 AATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGC
*
2750 AATGAAGCAATGATCCTCAACCAGGATTAAAATAAAGC
1 AATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGC
*
2788 TGAT-AAGGCAATGATCCTAAACCAGGATTAAAAT-----
1 -AATGAA-GCAATGATCCTAAACCAGGATTAAAATAAAGC
* * *
2822 -A--AAGCAATGATCCTCAAGCAGGATTAAAATAAAAC
1 AATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGC
* * *
2857 TGATAAAGCAACGATCCTAAACCAGGATT---A-AAA-C
1 -AATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGC
* * **
2891 AATCACGCAATGATCCTAAACCAGGATCGAAATAAA
1 AATGAAGCAATGATCCTAAACCAGGATTAAAATAAA
2927 CTGATAAAGT
Statistics
Matches: 142, Mismatches: 13, Indels: 38
0.74 0.07 0.20
Matches are distributed among these distances:
30 25 0.18
31 27 0.19
32 2 0.01
33 23 0.16
34 1 0.01
35 3 0.02
36 6 0.04
37 4 0.03
38 2 0.01
39 49 0.35
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (38 bp):
AATGAAGCAATGATCCTAAACCAGGATTAAAATAAAGC
Found at i:2844 original size:69 final size:68
Alignment explanation
Indices: 2723--2935 Score: 300
Period size: 69 Copynumber: 3.0 Consensus size: 68
2713 ATTAAAAATG
*
2723 AAGCAATGATCCTAAACCAGGATTAAAAATGAAGCAATGATCCTCAACCAGGATTAAAATAAAGC
1 AAGCAATGATCCTAAACCAGGATT-AAAATAAAGCAATGATCCTCAACCAGGATTAAAATAAA-C
2788 TGATA
64 TGATA
* *
2793 AGGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTCAAGCAGGATTAAAATAAAACT
1 AAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAAT-AAACT
2858 GATA
65 GATA
* * * **
2862 AAGCAACGATCCTAAACCAGGATTAAAACAATCACGCAATGATCCTAAACCAGGATCGAAATAAA
1 AAGCAATGATCCTAAACCAGGATTAAAATAA--A-GCAATGATCCTCAACCAGGATTAAAATAAA
2927 CTGATA
63 CTGATA
2933 AAG
1 AAG
2936 TACAATAGTT
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
69 67 0.52
70 26 0.20
71 13 0.10
72 23 0.18
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.19
Consensus pattern (68 bp):
AAGCAATGATCCTAAACCAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAAATAAACTG
ATA
Found at i:3403 original size:168 final size:169
Alignment explanation
Indices: 2964--3416 Score: 643
Period size: 168 Copynumber: 2.7 Consensus size: 169
2954 AAATATGAAA
* * * * *
2964 TGCCTGGAGGTCCTATCAATGCAAACTTTAAATTGAAACCTTAAACAAGGA---T---CTGAAAC
1 TGCCTGGAGGACTTACCAATGCAAACTTTGAATTGAAACCTTAAACAAGGATTTTAAACTTAAAC
*
3023 ATGAATTTTTGATGAAAAACTTGATGAAATCAAATGGTACCCGGAGGTTTTATCAATTGCCCGGA
66 ATGAA-TTTTGATGAAAAACTTGATGAAATGAAATGGTACCCGGAGGTTTTATCAATTGCCCGGA
* *
3088 GGACCTATCAAAATTAATACTCGGAGGTTTCTGACTTTTG
130 GGACCTATCAAAATTAATACCCGGAGGTTTCTGACATTTG
* * * *
3128 TGCCCGGAGGACTTACCAATGCGAACTTTGAAATGAGACCTTAAACAAGGATTTTAAACTTAAAC
1 TGCCTGGAGGACTTACCAATGCAAACTTTGAATTGAAACCTTAAACAAGGATTTTAAACTTAAAC
* *
3193 ATGAATTTTGATGAAAAACTTGATGATATGAAATGATACCCGGAGGTTTTATCAATTGCCCGGAG
66 ATGAATTTTGATGAAAAACTTGATGAAATGAAATGGTACCCGGAGGTTTTATCAATTGCCCGGAG
* *
3258 GACTTATTAAAATTAATACCCGGAGGTTTCTGA-ATTTG
131 GACCTATCAAAATTAATACCCGGAGGTTTCTGACATTTG
* * *
3296 TGCCTGGAGGACTTACCAATGCAAACTTCGAATTGAAACCTTGAACAAGGATTTTAAACTTAAAT
1 TGCCTGGAGGACTTACCAATGCAAACTTTGAATTGAAACCTTAAACAAGGATTTTAAACTTAAAC
* *
3361 ATGAATCTTTGATG-AGAACTTGATAAAATGAAATGGTACCCGGAGGTTTTATCAAT
66 ATGAAT-TTTGATGAAAAACTTGATGAAATGAAATGGTACCCGGAGGTTTTATCAAT
3417 GCAAACTCTG
Statistics
Matches: 255, Mismatches: 27, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
164 43 0.17
167 1 0.00
168 106 0.42
169 94 0.37
170 11 0.04
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (169 bp):
TGCCTGGAGGACTTACCAATGCAAACTTTGAATTGAAACCTTAAACAAGGATTTTAAACTTAAAC
ATGAATTTTGATGAAAAACTTGATGAAATGAAATGGTACCCGGAGGTTTTATCAATTGCCCGGAG
GACCTATCAAAATTAATACCCGGAGGTTTCTGACATTTG
Found at i:3518 original size:102 final size:102
Alignment explanation
Indices: 3312--3619 Score: 462
Period size: 102 Copynumber: 3.0 Consensus size: 102
3302 GAGGACTTAC
* * * *
3312 CAATGCAAACT-TCGAATTGAAACCTTGAACAAGGATTTTAAACTTAAATATGAATCTTTGATG-
1 CAATGCAAACTCT-GAATAGAGACCTTGAACAAGGATTTTAAACTTAAACATGAATTTTTGATGA
*
3375 AGAACTTGATAAAATGAAATGGTACCCGGAGGTTTTAT
65 AAAACTTGATAAAATGAAATGGTACCCGGAGGTTTTAT
* * *
3413 CAATGCAAACTCTGAATAGAGACCTCG-ACTAAGGATTTTAAATTTAAACATGGATTTTTGATGA
1 CAATGCAAACTCTGAATAGAGACCTTGAAC-AAGGATTTTAAACTTAAACATGAATTTTTGATGA
*
3477 AAAACTTGATGAAATGAAA-GGATACCCGGAGGTTTTAT
65 AAAACTTGATAAAATGAAATGG-TACCCGGAGGTTTTAT
*
3515 CAATGCAAACTCTGAATAGAGACCTTGAACAAGGATTTTAAACTTAAACATGAATTTTTGATAAA
1 CAATGCAAACTCTGAATAGAGACCTTGAACAAGGATTTTAAACTTAAACATGAATTTTTGATGAA
*
3580 AAACTTGATAAAATGAAATGGTACCCAGAGGTTTTAT
66 AAACTTGATAAAATGAAATGGTACCCGGAGGTTTTAT
3617 CAA
1 CAA
3620 ATAAGCTTAA
Statistics
Matches: 186, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
100 2 0.01
101 53 0.28
102 127 0.68
103 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.30
Consensus pattern (102 bp):
CAATGCAAACTCTGAATAGAGACCTTGAACAAGGATTTTAAACTTAAACATGAATTTTTGATGAA
AAACTTGATAAAATGAAATGGTACCCGGAGGTTTTAT
Found at i:3985 original size:35 final size:35
Alignment explanation
Indices: 3920--4320 Score: 460
Period size: 35 Copynumber: 11.4 Consensus size: 35
3910 ATTTGCGGTA
* * *
3920 AACTGAAATAAACTGCAGAAAAGATCGCCCTGGATC
1 AACTGAAATAAATTGAAG-AAAGACCGCCCTGGATC
*
3956 AACAGAAATAAATTGAAGAAAGACCGCCCTGGATC
1 AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
*
3991 AACTGAAATAAATTGAAGAAAGATCGCCCTGGATC
1 AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
* * *
4026 AACTGAAGTAAATTGAAGAAAGACCACCCTGGGTC
1 AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
* *
4061 AACTGAAATAAAGTGAAGAGAGACCGCCCTGGATC
1 AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
* * * * *
4096 AATTGAAATGAATTAAAGAAAGACCGCCTTGGGTC
1 AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
* * *
4131 AACTGAAATAACTTGAAGAATGACCGCCCTGGGTC
1 AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
* * *
4166 AGCTAAAATAAATTGAAGGAAAGATCGCCCTGGATC
1 AACTGAAATAAATTGAA-GAAAGACCGCCCTGGATC
* * *
4202 GACTGAAATAAATTGAATAAAAGATCGCCCTGGATC
1 AACTGAAATAAATTGAA-GAAAGACCGCCCTGGATC
*** * * * *
4238 CGTTAAAATGAATTGAAGAAGGACCGCCCTGGGTC
1 AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
** * *
4273 AACTGAAGCAAAATGAAGAAAGACCGCCCTGGGTC
1 AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
4308 AACTGAAATAAAT
1 AACTGAAATAAAT
4321 CTTTAGCAAC
Statistics
Matches: 304, Mismatches: 60, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
35 231 0.76
36 73 0.24
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (35 bp):
AACTGAAATAAATTGAAGAAAGACCGCCCTGGATC
Found at i:4636 original size:12 final size:13
Alignment explanation
Indices: 4614--4646 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4604 GTTCTAACTC
4614 CTTGTCTTCTTTT
1 CTTGTCTTCTTTT
4627 CTTG-CTTCTTTT
1 CTTGTCTTCTTTT
*
4639 CATGTCTT
1 CTTGTCTT
4647 ATCCTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.03, C:0.24, G:0.09, T:0.64
Consensus pattern (13 bp):
CTTGTCTTCTTTT
Found at i:5528 original size:6 final size:6
Alignment explanation
Indices: 5514--5546 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
5504 AATCAATTCT
5514 TTTTG- TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
5547 TTCTTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:5579 original size:15 final size:15
Alignment explanation
Indices: 5561--5612 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
5551 TTCTTCTCTT
5561 TTTTTTTTTGATTGA
1 TTTTTTTTTGATTGA
* *
5576 TTTTTTTTCGGTTGA
1 TTTTTTTTTGATTGA
*
5591 -TTTTTTTT-ATTTA
1 TTTTTTTTTGATTGA
5604 TTTTTTTTT
1 TTTTTTTTT
5613 TTGAATTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 3 0.10
14 15 0.48
15 13 0.42
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.79
Consensus pattern (15 bp):
TTTTTTTTTGATTGA
Found at i:5910 original size:14 final size:15
Alignment explanation
Indices: 5886--5923 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5876 TGAAAACAAA
5886 TTTTG-AAAACC-TT
1 TTTTGAAAAACCATT
5899 TTTTGAAAAACCATT
1 TTTTGAAAAACCATT
*
5914 TTTTTAAAAA
1 TTTTGAAAAA
5924 AAAAAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.23
14 6 0.27
15 11 0.50
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (15 bp):
TTTTGAAAAACCATT
Found at i:8886 original size:16 final size:16
Alignment explanation
Indices: 8861--8891 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8851 CAGATACTTA
8861 TGATGATTTGCATGAC
1 TGATGATTTGCATGAC
*
8877 TGATGCTTTGCATGA
1 TGATGATTTGCATGA
8892 ATGCATTTGC
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:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (16 bp):
TGATGATTTGCATGAC
Found at i:12953 original size:16 final size:17
Alignment explanation
Indices: 12923--12954 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12913 AATCTTTTTG
12923 TATTTTTTTGCTATTTC
1 TATTTTTTTGCTATTTC
12940 TATTTTTTTG-TATTT
1 TATTTTTTTGCTATTT
12955 TTCCTTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.75
Consensus pattern (17 bp):
TATTTTTTTGCTATTTC
Found at i:26207 original size:234 final size:234
Alignment explanation
Indices: 25798--26265 Score: 884
Period size: 234 Copynumber: 2.0 Consensus size: 234
25788 GAACATACCT
25798 CACATTCCCAAGCATCTTGACACTACCATCATGCAAATGAAGTTTACCACTCCAATGCCTTCAAT
1 CACATTCCCAAGCATCTTGACACTACCATCATGCAAATGAAGTTTACCACTCCAATGCCTTCAAT
* *
25863 TCTTTCTTCACCATTATTAGCCCTGTAAAGATGCTTATCACACTTCTCAACCTTCGAAAAATATT
66 TCTTTCTTCACCATTATTAGCCCTATAAAGATGCTTATCACACTTCTCAACCTTCGAAAAACATT
*
25928 CTTTCTTTGTGTAAATATGTTCAGAGCAAGCAGAATCAAACACCCACATATCTCTAGTATCTTTC
131 CTTTCTTTGTGCAAATATGTTCAGAGCAAGCAGAATCAAACACCCACATATCTCTAGTATCTTTC
*
25993 TTTTCTTCTTGCACCATCAAGACAACATCTTCTTTATAA
196 TTTTCTTCTTGCACCATCAAGACAACATCTTCTTCATAA
26032 CACATTCCCAAGCATCTTGACACTACCATCATGCAAATGAAGTTT-CACACTCCAATGCCTTCAA
1 CACATTCCCAAGCATCTTGACACTACCATCATGCAAATGAAGTTTAC-CACTCCAATGCCTTCAA
26096 TTCTTTCTTCACCATTATTAGCCCTATAAAGATGCTTATCACACTTCTCAACCTTCGAAAAACAT
65 TTCTTTCTTCACCATTATTAGCCCTATAAAGATGCTTATCACACTTCTCAACCTTCGAAAAACAT
26161 TCTTTCTTTGTGCAAATATGTTCAGAGCAAGCAGAATCAAACACCCACATATCTCTAGTATCTTT
130 TCTTTCTTTGTGCAAATATGTTCAGAGCAAGCAGAATCAAACACCCACATATCTCTAGTATCTTT
26226 CTTTTCTTCTTGCACCATCAAGACAACATCTTCTTCATAA
195 CTTTTCTTCTTGCACCATCAAGACAACATCTTCTTCATAA
26266 TATTCCTCAC
Statistics
Matches: 229, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
233 1 0.00
234 228 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (234 bp):
CACATTCCCAAGCATCTTGACACTACCATCATGCAAATGAAGTTTACCACTCCAATGCCTTCAAT
TCTTTCTTCACCATTATTAGCCCTATAAAGATGCTTATCACACTTCTCAACCTTCGAAAAACATT
CTTTCTTTGTGCAAATATGTTCAGAGCAAGCAGAATCAAACACCCACATATCTCTAGTATCTTTC
TTTTCTTCTTGCACCATCAAGACAACATCTTCTTCATAA
Found at i:29122 original size:22 final size:22
Alignment explanation
Indices: 29094--29136 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
29084 TGAATTTGAT
29094 AAATTTTGAAAATTGACCCCAC
1 AAATTTTGAAAATTGACCCCAC
*
29116 AAATTTTGAAGATTGACCCCA
1 AAATTTTGAAAATTGACCCCA
29137 TTAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (22 bp):
AAATTTTGAAAATTGACCCCAC
Found at i:29332 original size:47 final size:45
Alignment explanation
Indices: 29260--29352 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 45
29250 ACACTCAAGC
*
29260 AGGACCTTGCTACTGCTGCATCTCTCATAAAGGCCCAAAAGCACACA
1 AGGACCTTGCTACTGCTGCACCTCTCATAAAGG-CC-AAAGCACACA
*
29307 AGGACCTTGCTACTGCTGCACCTCTCATGAAGGCCAAAGCACACA
1 AGGACCTTGCTACTGCTGCACCTCTCATAAAGGCCAAAGCACACA
29352 A
1 A
29353 AGGCCCAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 11 0.25
46 2 0.05
47 31 0.70
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.18
Consensus pattern (45 bp):
AGGACCTTGCTACTGCTGCACCTCTCATAAAGGCCAAAGCACACA
Found at i:31939 original size:19 final size:20
Alignment explanation
Indices: 31909--31948 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
31899 ACATCAACCG
31909 TTGACTTGCCACGTAATCCA
1 TTGACTTGCCACGTAATCCA
*
31929 TTGAC-TGCCACGTCATCCA
1 TTGACTTGCCACGTAATCCA
31948 T
1 T
31949 CAGCCACACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.30
Consensus pattern (20 bp):
TTGACTTGCCACGTAATCCA
Found at i:32020 original size:13 final size:13
Alignment explanation
Indices: 32004--32038 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
31994 CCACGTCAAT
32004 GTTGACTTTGACC
1 GTTGACTTTGACC
*
32017 GTTGACTTTGACT
1 GTTGACTTTGACC
*
32030 ATTGACTTT
1 GTTGACTTT
32039 TGAGAGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (13 bp):
GTTGACTTTGACC
Found at i:32225 original size:18 final size:18
Alignment explanation
Indices: 32202--32336 Score: 79
Period size: 18 Copynumber: 8.3 Consensus size: 18
32192 GTTTTCTGCA
32202 TGTTTGACCTCTTGGTCC
1 TGTTTGACCTCTTGGTCC
*
32220 TGTTTGACC-CTTTGATCC
1 TGTTTGACCTC-TTGGTCC
32238 TGTTT----TC-T-G-CC
1 TGTTTGACCTCTTGGTCC
**
32249 TGTTCAACCTCTTGGTCC
1 TGTTTGACCTCTTGGTCC
*
32267 TGTTTGATCT-TTCGGTCC
1 TGTTTGACCTCTT-GGTCC
32285 TGTTT----T-TT-G-CC
1 TGTTTGACCTCTTGGTCC
32296 TGTTTGACCTCTTGGTCC
1 TGTTTGACCTCTTGGTCC
*
32314 TGTTTGACCT-TTCGGTCT
1 TGTTTGACCTCTT-GGTCC
32332 TGTTT
1 TGTTT
32337 TCTGCCTGAT
Statistics
Matches: 92, Mismatches: 7, Indels: 36
0.68 0.05 0.27
Matches are distributed among these distances:
11 13 0.14
12 1 0.01
13 1 0.01
14 3 0.03
15 4 0.04
16 3 0.03
17 7 0.08
18 60 0.65
ACGTcount: A:0.06, C:0.25, G:0.20, T:0.49
Consensus pattern (18 bp):
TGTTTGACCTCTTGGTCC
Found at i:32365 original size:47 final size:47
Alignment explanation
Indices: 32173--32352 Score: 263
Period size: 47 Copynumber: 3.8 Consensus size: 47
32163 TATTCCGCTT
* *
32173 TGTTTGACCTTTTGGTCCTGTTTTCTGCATGTTTGACCTCTTGGTCC
1 TGTTTGACCTTTCGGTCCTGTTTTCTGCCTGTTTGACCTCTTGGTCC
* **
32220 TGTTTGACCCTTT-GATCCTGTTTTCTGCCTGTTCAACCTCTTGGTCC
1 TGTTTGA-CCTTTCGGTCCTGTTTTCTGCCTGTTTGACCTCTTGGTCC
* *
32267 TGTTTGATCTTTCGGTCCTGTTTTTTGCCTGTTTGACCTCTTGGTCC
1 TGTTTGACCTTTCGGTCCTGTTTTCTGCCTGTTTGACCTCTTGGTCC
* *
32314 TGTTTGACCTTTCGGTCTTGTTTTCTGCCTGATTGACCT
1 TGTTTGACCTTTCGGTCCTGTTTTCTGCCTGTTTGACCT
32353 TTCAGTCATG
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 4 0.03
47 109 0.92
48 5 0.04
ACGTcount: A:0.07, C:0.25, G:0.20, T:0.48
Consensus pattern (47 bp):
TGTTTGACCTTTCGGTCCTGTTTTCTGCCTGTTTGACCTCTTGGTCC
Found at i:36909 original size:22 final size:21
Alignment explanation
Indices: 36884--36943 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
36874 CATAATTAGG
**
36884 TTATCAAAGTTTCATATGG-AGT
1 TTATCAAA-TTTCATA-GGTAAA
36906 TTATCACAATTTCATAGGTAAA
1 TTATCA-AATTTCATAGGTAAA
36928 TTATCAAAATTTCATA
1 TTATC-AAATTTCATA
36944 ACATGGTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.06
22 28 0.85
23 3 0.09
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
TTATCAAATTTCATAGGTAAA
Found at i:36953 original size:22 final size:22
Alignment explanation
Indices: 36928--36988 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
36918 CATAGGTAAA
*
36928 TTATCAAAATTTCATAACATGG
1 TTATCAAAATTTCATAACATAG
* **
36950 TTATCAAAATTTAATAGGATAG
1 TTATCAAAATTTCATAACATAG
36972 TTATCAAAATTTCATAA
1 TTATCAAAATTTCATAA
36989 AAATAGTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (22 bp):
TTATCAAAATTTCATAACATAG
Found at i:36957 original size:66 final size:65
Alignment explanation
Indices: 36862--36987 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 65
36852 ATAGGAAGGT
* * * * *
36862 TTATTAAAATTTCATAATTAGGTTATCAAAGTTTCATATGGAGT-TTATCACAATTTCATAGGTA
1 TTATCAAAATTTCATAAATAGGTTATCAAAATTTAATA-GGA-TATTATCAAAATTTCATAGGTA
36926 AA
64 AA
36928 TTATCAAAATTTCATAACAT-GGTTATCAAAATTTAATAGGATAGTTATCAAAATTTCATA
1 TTATCAAAATTTCATAA-ATAGGTTATCAAAATTTAATAGGATA-TTATCAAAATTTCATA
36988 AAAATAGTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
64 1 0.02
65 3 0.06
66 47 0.90
67 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (65 bp):
TTATCAAAATTTCATAAATAGGTTATCAAAATTTAATAGGATATTATCAAAATTTCATAGGTAAA
Found at i:37053 original size:2 final size:2
Alignment explanation
Indices: 37046--37073 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37036 ATAAAACTAG
37046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37074 AAGGTGTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43913 original size:21 final size:22
Alignment explanation
Indices: 43889--43931 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
43879 AAAAATTGTG
43889 TTTTGCGTTTT-GAAAAAAAAA
1 TTTTGCGTTTTCGAAAAAAAAA
*
43910 TTTTGCGTTTTCTAAAAAAAAA
1 TTTTGCGTTTTCGAAAAAAAAA
43932 AGAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (22 bp):
TTTTGCGTTTTCGAAAAAAAAA
Found at i:47126 original size:15 final size:16
Alignment explanation
Indices: 47106--47135 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47096 TTATTTTCTA
47106 TTTTTGTTTT-TATTT
1 TTTTTGTTTTCTATTT
47121 TTTTTGTTTTCTATT
1 TTTTTGTTTTCTATT
47136 GCATATTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (16 bp):
TTTTTGTTTTCTATTT
Found at i:54305 original size:21 final size:20
Alignment explanation
Indices: 54260--54305 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
54250 CTTTTTAGTC
*
54260 AACTCCTTCTTCTTCCTCGA
1 AACTCCTTCTTCTTCCTCCA
*
54280 CACTCTCTTCTTCTTCCTCCA
1 AACTC-CTTCTTCTTCCTCCA
54301 AACTC
1 AACTC
54306 GACCTAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.15, C:0.43, G:0.02, T:0.39
Consensus pattern (20 bp):
AACTCCTTCTTCTTCCTCCA
Found at i:56984 original size:19 final size:19
Alignment explanation
Indices: 56957--56999 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
56947 TTAAAATGAC
* * *
56957 CAAAATGCCCCTGAATATG
1 CAAATTGCCCATGAACATG
*
56976 CAAATTGCCCATGGACATG
1 CAAATTGCCCATGAACATG
56995 CAAAT
1 CAAAT
57000 GACTAAAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (19 bp):
CAAATTGCCCATGAACATG
Found at i:58232 original size:23 final size:23
Alignment explanation
Indices: 58200--58248 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
58190 ACTGTCCAGA
58200 CTTTATTTTTCCTAAAAAAAAACC
1 CTTTATTTTTCCT-AAAAAAAACC
*
58224 CTTT-TTTTTGCTAAAAAAAACC
1 CTTTATTTTTCCTAAAAAAAACC
58246 CTT
1 CTT
58249 CCACTTCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 13 0.54
23 7 0.29
24 4 0.17
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (23 bp):
CTTTATTTTTCCTAAAAAAAACC
Found at i:72770 original size:11 final size:11
Alignment explanation
Indices: 72756--72793 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
72746 ATTCATAACA
72756 AATTTATAATT
1 AATTTATAATT
72767 AATTTATAATT
1 AATTTATAATT
72778 -ATTTGATAATT
1 AATTT-ATAATT
*
72789 TATTT
1 AATTT
72794 TATATAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
AATTTATAATT
Found at i:73943 original size:42 final size:44
Alignment explanation
Indices: 73892--73985 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 44
73882 AGTGCATTAC
**
73892 CTAA-ATTCTACT-C-CATCTCTAGGTAATTCATCAAAATAAAA
1 CTAATATTCTACTCCTCATCTCTAAATAATTCATCAAAATAAAA
*
73933 CTAATATTCTACTCCTTCATCTCTAAATAATTCATCAAAATAAAG
1 CTAATATTCTACTCC-TCATCTCTAAATAATTCATCAAAATAAAA
73978 CTAATATT
1 CTAATATT
73986 AATTGTTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
41 4 0.09
42 8 0.17
43 1 0.02
45 33 0.72
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.35
Consensus pattern (44 bp):
CTAATATTCTACTCCTCATCTCTAAATAATTCATCAAAATAAAA
Found at i:74960 original size:2 final size:2
Alignment explanation
Indices: 74947--74983 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
74937 ACTAAAAATA
74947 AT AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74984 CGATTCTAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Done.