Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2926
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: 76709
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:11955 original size:15 final size:15
Alignment explanation
Indices: 11937--11967 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11927 TTCTTTATCG
11937 TTGTTGTTGTTATTA
1 TTGTTGTTGTTATTA
*
11952 TTGTTGTTGTTGTTA
1 TTGTTGTTGTTATTA
11967 T
1 T
11968 CTGATTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.68
Consensus pattern (15 bp):
TTGTTGTTGTTATTA
Found at i:11957 original size:18 final size:18
Alignment explanation
Indices: 11931--11967 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11921 AGCTTTTTCT
11931 TTATCGTTGTTGTTGTTA
1 TTATCGTTGTTGTTGTTA
*
11949 TTATTGTTGTTGTTGTTA
1 TTATCGTTGTTGTTGTTA
11967 T
1 T
11968 CTGATTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.03, G:0.22, T:0.65
Consensus pattern (18 bp):
TTATCGTTGTTGTTGTTA
Found at i:17606 original size:15 final size:15
Alignment explanation
Indices: 17586--17617 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17576 ATTGTTCGTG
17586 AAGATAAACGAACCA
1 AAGATAAACGAACCA
17601 AAGATAAACGAACCA
1 AAGATAAACGAACCA
17616 AA
1 AA
17618 CACATCTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.19, G:0.12, T:0.06
Consensus pattern (15 bp):
AAGATAAACGAACCA
Found at i:17968 original size:31 final size:31
Alignment explanation
Indices: 17932--18003 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
17922 TACAAAATGA
*
17932 TCACTGAATTATTCGAAAGTTTTCATTTAAG
1 TCACTGAACTATTCGAAAGTTTTCATTTAAG
* * *
17963 TCACTGAACTATTTGAAATTTTTTATTTAAG
1 TCACTGAACTATTCGAAAGTTTTCATTTAAG
* *
17994 GCACTAAACT
1 TCACTGAACT
18004 GATAAGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (31 bp):
TCACTGAACTATTCGAAAGTTTTCATTTAAG
Found at i:18292 original size:72 final size:71
Alignment explanation
Indices: 18159--18301 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 71
18149 TTAGTTAATA
18159 AATTTGTGAATTCAAAGTTGCTTGATAAAAAAAAAACTAAATTGTAAAAGGGAAAAGAAAGCTTT
1 AATTTGTGAATTCAAAGTTGCTTGATAAAAAAAAAACTAAATTGTAAAAGGGAAAAGAAAGCTTT
18224 AGATTG
66 AGATTG
18230 AATTTGTGAATTCAAAGTTGCTTGATAAAAAAAAAAACTAAATTGTAAAAGGGAAAAGAAAGCTT
1 AATTTGTGAATTCAAAGTTGCTTGAT-AAAAAAAAAACTAAATTGTAAAAGGGAAAAGAAAGCTT
18295 TAGATTG
65 TAGATTG
18302 GTCTAGGTAA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 26 0.37
72 45 0.63
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (71 bp):
AATTTGTGAATTCAAAGTTGCTTGATAAAAAAAAAACTAAATTGTAAAAGGGAAAAGAAAGCTTT
AGATTG
Found at i:26206 original size:18 final size:17
Alignment explanation
Indices: 26161--26210 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
26151 TCTGGAAGAA
26161 TTATTATTTTTATAAAAT
1 TTATTATTTTT-TAAAAT
*
26179 ATATTA--TTTTAAAAT
1 TTATTATTTTTTAAAAT
26194 TTATTCATTTTTTAAAA
1 TTATT-ATTTTTTAAAA
26211 CATAAGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
18 13 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTATTTTTTAAAAT
Found at i:32694 original size:23 final size:23
Alignment explanation
Indices: 32664--32709 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
32654 GCAGTGGCAA
32664 TGAATTATTACTATCAAGTTACT
1 TGAATTATTACTATCAAGTTACT
32687 TGAATTATTACTATCAAGTTACT
1 TGAATTATTACTATCAAGTTACT
32710 GACAGGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (23 bp):
TGAATTATTACTATCAAGTTACT
Found at i:45967 original size:2 final size:2
Alignment explanation
Indices: 45960--46006 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
45950 AAGAAGTCTA
45960 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
46002 A- AG AG
1 AG AG AG
46007 GCAGTGCAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:55198 original size:13 final size:13
Alignment explanation
Indices: 55180--55205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55170 ATAAATAACA
55180 AAGTTGGTTTCAT
1 AAGTTGGTTTCAT
55193 AAGTTGGTTTCAT
1 AAGTTGGTTTCAT
55206 TTATTTTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
AAGTTGGTTTCAT
Found at i:60505 original size:14 final size:15
Alignment explanation
Indices: 60486--60522 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
60476 ATAATAAATT
60486 TTTTATTC-TTTTAA
1 TTTTATTCATTTTAA
60500 TTTTA-TCATTTTAA
1 TTTTATTCATTTTAA
60514 TTTTCATTC
1 TTTT-ATTC
60523 CTCTCAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.10
14 15 0.75
15 1 0.05
16 2 0.10
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTATTCATTTTAA
Found at i:66879 original size:18 final size:18
Alignment explanation
Indices: 66858--66919 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
66848 ATATATAGAT
66858 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
66876 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
66895 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
66910 ATA-ATAATAA
1 ATATATAATAA
66920 TAATAATAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:66910 original size:35 final size:33
Alignment explanation
Indices: 66855--66919 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
66845 GAGATATATA
66855 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
66890 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
66920 TAATAATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:67692 original size:9 final size:9
Alignment explanation
Indices: 67678--67703 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
67668 AAAAGGTATT
67678 TTTTTTTTA
1 TTTTTTTTA
67687 TTTTTTTTA
1 TTTTTTTTA
67696 TTTTTTTT
1 TTTTTTTT
67704 GCAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:68199 original size:54 final size:54
Alignment explanation
Indices: 68141--68256 Score: 232
Period size: 54 Copynumber: 2.1 Consensus size: 54
68131 TAGATTTTGG
68141 GTTTAGGTTAATTAGGTTTGGTTGTAATTTGGGCTCTGCTGGTTGTGGGTTAGT
1 GTTTAGGTTAATTAGGTTTGGTTGTAATTTGGGCTCTGCTGGTTGTGGGTTAGT
68195 GTTTAGGTTAATTAGGTTTGGTTGTAATTTGGGCTCTGCTGGTTGTGGGTTAGT
1 GTTTAGGTTAATTAGGTTTGGTTGTAATTTGGGCTCTGCTGGTTGTGGGTTAGT
68249 GTTTAGGT
1 GTTTAGGT
68257 GGGTTGGTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.13, C:0.05, G:0.35, T:0.47
Consensus pattern (54 bp):
GTTTAGGTTAATTAGGTTTGGTTGTAATTTGGGCTCTGCTGGTTGTGGGTTAGT
Found at i:68238 original size:26 final size:26
Alignment explanation
Indices: 68155--68238 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
68145 AGGTTAATTA
68155 GGTTTGGTTGTAATTTGGGCTCTGCT
1 GGTTTGGTTGTAATTTGGGCTCTGCT
* * **
68181 GGTTGTGGGTTAGT-GTTTAGG-T-TAATT
1 GGTT-T-GGTT-GTAATTTGGGCTCT-GCT
68208 AGGTTTGGTTGTAATTTGGGCTCTGCT
1 -GGTTTGGTTGTAATTTGGGCTCTGCT
68235 GGTT
1 GGTT
68239 GTGGGTTAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
25 2 0.05
26 18 0.43
27 6 0.14
28 14 0.33
29 2 0.05
ACGTcount: A:0.11, C:0.07, G:0.36, T:0.46
Consensus pattern (26 bp):
GGTTTGGTTGTAATTTGGGCTCTGCT
Found at i:68986 original size:44 final size:44
Alignment explanation
Indices: 68839--69262 Score: 235
Period size: 44 Copynumber: 9.8 Consensus size: 44
68829 GACTTGATGC
* * * * ***
68839 GATCTACTCTACTGTAACCTCAGAGAGATAAGATCTTTTATTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTT
* * * * * ** * *
68883 AATCCGCTCTACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTT
* * *
68926 GATCTGTTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTT
* **
68970 AATCTGCTCCACTGTAACCTCAGGGAGATAAGA--TCTGAAATTCT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTG-GCTT-T
* * * * *
69014 CCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA-C-CT-GATGT
1 --GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTT
* * * * *
69057 GATCTTCTCTACTGTAACTTCAGAGAGATAAGA--TC---ATTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTT
* * * * * * **
69096 AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-CTGGCTTT
* * *
69140 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTT
* * * *
69184 AATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTT
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTT
* * *
69230 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 GATCTGCTCCACTGTAACCTCAGGGAGATAAGA
69263 CCTGTATAAT
Statistics
Matches: 291, Mismatches: 73, Indels: 30
0.74 0.19 0.08
Matches are distributed among these distances:
39 26 0.09
40 1 0.00
41 29 0.10
42 4 0.01
43 32 0.11
44 135 0.46
45 1 0.00
46 62 0.21
47 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
GATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTT
Found at i:69201 original size:214 final size:215
Alignment explanation
Indices: 68799--69266 Score: 672
Period size: 214 Copynumber: 2.2 Consensus size: 215
68789 GTTGTTTTCA
* * * *
68799 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTACTGTAACCTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* * * *
68864 AGATAAGATCTTTTATTTTAATCCGCTCTACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGAT
66 AGATAAGATC---TATTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGAT
* *
68929 CTGTTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTTAATCTGCTCCACTGTAACCTCAGG
128 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
68994 GAGATAAGATCTGAAATTCTCCG
193 GAGATAAGATCTGAAATTCTCCG
* * * *
69017 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
69082 AGATAAGATC-A-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATC
66 AGATAAGATCTATTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATC
*
69144 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAACCTCAGGG
129 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGG
**
69209 AGATAAGATCTGAAATTCTTTG
194 AGATAAGATCTGAAATTCTCCG
* * *
69231 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTG
69267 TATAATAAAC
Statistics
Matches: 225, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
212 1 0.00
213 31 0.14
214 126 0.56
218 67 0.30
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (215 bp):
GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCTATTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTG
CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
ATAAGATCTGAAATTCTCCG
Found at i:72387 original size:37 final size:36
Alignment explanation
Indices: 72286--72428 Score: 220
Period size: 37 Copynumber: 4.0 Consensus size: 36
72276 TACGTATGAT
* *
72286 CACTTATCAC-TTGTCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTCTTGATCAGATAAGTGTAGC
*
72321 CACCTATCACTTT-TTC-TGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTCTTGATCAGATAAGTGTAGC
72355 CACTTATCACTGTTGTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACT-TTGTTCTTGATCAGATAAGTGTAGC
72392 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGT-TCTTGATCAGATAAGTGTAGC
72429 TAAAGCTATC
Statistics
Matches: 100, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
34 28 0.28
35 13 0.13
36 9 0.09
37 50 0.50
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTTCTTGATCAGATAAGTGTAGC
Found at i:72400 original size:71 final size:72
Alignment explanation
Indices: 72286--72428 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
72276 TACGTATGAT
72286 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTT-T-TC-TGATCAGATAA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCAGATAA
72348 GTGTAGC
66 GTGTAGC
* * *
72355 CACTTATCACTGTTGTTCTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGAT
1 CACTTATCAC--TTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCAGAT
72420 AAGTGTAGC
64 AAGTGTAGC
72429 TAAAGCTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
69 10 0.15
71 35 0.53
72 1 0.02
73 2 0.03
74 18 0.27
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (72 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACCTATCACTTTGTCTCTTGATCAGATAA
GTGTAGC
Found at i:72445 original size:46 final size:46
Alignment explanation
Indices: 72392--72704 Score: 403
Period size: 46 Copynumber: 6.6 Consensus size: 46
72382 TAAGTGTAGC
* * **
72392 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
72438 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
72484 CACTTATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
72535 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
72581 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
72627 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
72679 CACTTATCACTTT-TCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
72705 AGTACTCAAA
Statistics
Matches: 240, Mismatches: 16, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
45 13 0.05
46 142 0.59
48 2 0.01
49 1 0.00
50 1 0.00
51 42 0.17
52 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:72538 original size:97 final size:97
Alignment explanation
Indices: 72392--72698 Score: 408
Period size: 97 Copynumber: 3.1 Consensus size: 97
72382 TAAGTGTAGC
* * *
72392 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACT
72457 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
72491 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTG
72556 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
72588 CACTTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC--T----TTGT
* ** *
72648 CACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
60 CACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
72686 CACTTTTCACTTG
1 CAC-TTTCACTTG
72699 ATCAGAAGTA
Statistics
Matches: 186, Mismatches: 10, Indels: 19
0.87 0.05 0.09
Matches are distributed among these distances:
92 39 0.21
94 1 0.01
96 1 0.01
97 91 0.49
98 45 0.24
99 8 0.04
100 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:72606 original size:143 final size:144
Alignment explanation
Indices: 72391--72704 Score: 533
Period size: 143 Copynumber: 2.2 Consensus size: 144
72381 ATAAGTGTAG
* * * * *
72391 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTC
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCAC
72456 TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT-CACTTGTCACTTGATCAGATAAG
66 TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
*
72520 TGTAGCTGAAGCTA
131 TGTAGCTAAAGCTA
* *
72534 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCAC
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCAC
*
72599 TTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
66 TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
72664 TGTAGCTAAAGCTA
131 TGTAGCTAAAGCTA
72678 CCACTTATCACTTT-TCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
72705 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
143 111 0.69
144 49 0.31
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (144 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCAC
TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
TGTAGCTAAAGCTA
Found at i:72659 original size:52 final size:51
Alignment explanation
Indices: 72578--72698 Score: 152
Period size: 52 Copynumber: 2.3 Consensus size: 51
72568 TAGCCGAAGC
* * **
72578 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCAC-TTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* *
72631 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
72683 TATCACTTTTCACTTG
1 TATCAC-TTTCACTTG
72699 ATCAGAAGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
52 46 0.77
53 14 0.23
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (51 bp):
TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Done.