Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold547
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: 67614
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.33
Warning! 2262 characters in sequence are not A, C, G, or T
Found at i:3288 original size:19 final size:20
Alignment explanation
Indices: 3264--3310 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
3254 TGGTAGACTT
* *
3264 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
3283 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
3303 -AATGCAAA
1 TAATGCAAA
3311 AAGAGACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:5845 original size:26 final size:25
Alignment explanation
Indices: 5778--5849 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
5768 GTTTTTTAAA
5778 AGAAATAAAT--TATATAT-AT-AT
1 AGAAATAAATAATATATATAATAAT
5799 AGAAATAAATAATA-ATAATAATAAT
1 AGAAATAAATAATATAT-ATAATAAT
*
5824 ATGAAATCAATAATATATATAA-AAT
1 A-GAAATAAATAATATATATAATAAT
5849 A
1 A
5850 AAAAATATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
21 10 0.23
22 2 0.05
23 4 0.09
24 2 0.05
25 7 0.16
26 16 0.37
27 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (25 bp):
AGAAATAAATAATATATATAATAAT
Found at i:5848 original size:18 final size:18
Alignment explanation
Indices: 5780--5858 Score: 55
Period size: 18 Copynumber: 4.8 Consensus size: 18
5770 TTTTTAAAAG
*
5780 AAATAAATTATATATAT-
1 AAATAAATAATATATATA
* *
5797 ATAGAAATAA-ATA-AT-
1 AAATAAATAATATATATA
*
5812 -AAT-AATAATA-ATATG
1 AAATAAATAATATATATA
*
5827 AAATCAATAATATATATA
1 AAATAAATAATATATATA
*
5845 AAATAAAAAATATA
1 AAATAAATAATATA
5859 AACTATGTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
13 6 0.12
14 4 0.08
15 2 0.04
16 6 0.12
17 14 0.29
18 16 0.33
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATAAATAATATATATA
Found at i:6092 original size:23 final size:23
Alignment explanation
Indices: 6009--6164 Score: 111
Period size: 23 Copynumber: 6.8 Consensus size: 23
5999 TGCATAAAAC
* *
6009 AATACATGCTAAATTTAAATAAC
1 AATACATGATAAATTTAAATAAT
* ** * * *
6032 CATAGTTGATAAGTTCAAAATACT
1 AATACATGATAAATT-TAAATAAT
*
6056 AATACATGATAACTTTAAATAA-
1 AATACATGATAAATTTAAATAAT
*
6078 AATACATGATAAACTTAAAATAAT
1 AATACATGATAAA-TTTAAATAAT
**
6102 GTTA-ATGATAAATTTAAAATAAT
1 AATACATGATAAATTT-AAATAAT
* * *
6125 AATATATTATAAATTAAAATAAT
1 AATACATGATAAATTTAAATAAT
**
6148 -ATTGATGATAAATTTAA
1 AATACATGATAAATTTAA
6165 GAATATATTA
Statistics
Matches: 101, Mismatches: 27, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
22 27 0.27
23 47 0.47
24 27 0.27
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (23 bp):
AATACATGATAAATTTAAATAAT
Found at i:6121 original size:69 final size:70
Alignment explanation
Indices: 6038--6169 Score: 158
Period size: 69 Copynumber: 1.9 Consensus size: 70
6028 TAACCATAGT
* * * *
6038 TGATAAGTTCAAAATACTAATACATGATAACTTTAAATAAAATACATGATAAACTTAA-AATAAT
1 TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATAAT
6102 GTTAA
66 GTTAA
* * * * ** *
6107 TGATAAATTTAAAATAATAATATATTATAAATTAAAATAATATTGATGATAAATTTAAGAATA
1 TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATA
6170 TATTAAGCTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
69 47 0.92
70 4 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (70 bp):
TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATAAT
GTTAA
Found at i:6122 original size:46 final size:46
Alignment explanation
Indices: 6038--6169 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 46
6028 TAACCATAGT
* * * *
6038 TGATAAGTTCAAAATACTAATACATGATAACTTT-AAATAA-AATACA
1 TGATAAATT-AAAATAATATTA-ATGATAAATTTAAAATAATAATACA
* *
6084 TGATAAACTTAAAATAATGTTAATGATAAATTTAAAATAATAATATA
1 TGATAAA-TTAAAATAATATTAATGATAAATTTAAAATAATAATACA
* *
6131 TTATAAATTAAAATAATATTGATGATAAATTTAAGAATA
1 TGATAAATTAAAATAATATTAATGATAAATTTAA-AATA
6170 TATTAAGCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 10 0.14
46 46 0.63
47 17 0.23
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (46 bp):
TGATAAATTAAAATAATATTAATGATAAATTTAAAATAATAATACA
Found at i:6189 original size:46 final size:45
Alignment explanation
Indices: 6061--6194 Score: 107
Period size: 46 Copynumber: 2.9 Consensus size: 45
6051 ATACTAATAC
* * * *
6061 ATGATAACTTT-AAATAA-AATACATGATAAACTTAAAATAATGTTA
1 ATGATAAATTTAAAATAATAATATAT--TAAACATAAAATAATATTA
*
6106 ATGATAAATTTAAAATAATAATATATTATAA-ATTAAAATAATATTG
1 ATGATAAATTTAAAATAATAATATATTA-AACA-TAAAATAATATTA
*
6152 ATGATAAATTTAAGAAT-ATATTA-AGCTTAAACATAAAAATAAT
1 ATGATAAATTTAA-AATAATAATATA--TTAAACAT-AAAATAAT
6195 TTTAGATTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
45 13 0.18
46 40 0.54
47 21 0.28
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (45 bp):
ATGATAAATTTAAAATAATAATATATTAAACATAAAATAATATTA
Found at i:9879 original size:16 final size:16
Alignment explanation
Indices: 9860--9905 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
9850 CTATTACGCA
9860 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
9876 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
9892 TCTATTCCATTACA
1 TCTATTCCATTACA
9906 TCGAACCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.39
Consensus pattern (16 bp):
TCTATTCCATTACAGC
Found at i:10909 original size:39 final size:41
Alignment explanation
Indices: 10853--10956 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 41
10843 TTTCCTTATG
* *
10853 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
10893 C-ATTACGCTTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGC--C---TCTATTCCATTCAACCAAACAAAAGAATTAC
10938 CTATTACGCCTCTATTCCA
1 CTATTACGCCTCTATTCCA
10957 ATACGCATCT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
39 6 0.11
40 1 0.02
41 9 0.17
44 26 0.49
45 4 0.08
46 7 0.13
ACGTcount: A:0.36, C:0.32, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:10933 original size:44 final size:46
Alignment explanation
Indices: 10866--10956 Score: 150
Period size: 44 Copynumber: 2.0 Consensus size: 46
10856 TTACACCTCT
* *
10866 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCTTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
10910 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
10956 A
1 A
10957 ATACGCATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 23 0.53
45 4 0.09
46 16 0.37
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.27
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:10989 original size:16 final size:16
Alignment explanation
Indices: 10940--10993 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
10930 AGAATTACCT
*
10940 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
* * *
10956 AATACGCATCTATTCC
1 ATTACACCTCTATTCC
10972 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
10988 ATTACA
1 ATTACA
10994 GCGAACTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.28, C:0.33, G:0.04, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:11308 original size:26 final size:25
Alignment explanation
Indices: 11272--11322 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
11262 TTTATTATTT
*
11272 TTTTAATAAAATATATTTAACAATAA
1 TTTTAATAAAATATA-ATAACAATAA
* *
11298 TTTTATTAAAATTTAATAACAATAA
1 TTTTAATAAAATATAATAACAATAA
11323 CAATAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTAATAAAATATAATAACAATAA
Found at i:11452 original size:16 final size:16
Alignment explanation
Indices: 11431--11482 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
11421 CAAGAACATT
11431 ATTACAGTTCTATTCA
1 ATTACAGTTCTATTCA
*
11447 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCA
*
11463 ATTACA-ATCTTATTCA
1 ATTACAGTTC-TATTCA
11479 ATTA
1 ATTA
11483 TAGTCAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 2 0.06
16 30 0.94
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (16 bp):
ATTACAGTTCTATTCA
Found at i:12173 original size:6 final size:6
Alignment explanation
Indices: 12164--12197 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
12154 ATATTTTATT
*
12164 TATAAA TATAAA TATAAA AATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATA
12198 GATTTATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TATAAA
Found at i:17875 original size:21 final size:21
Alignment explanation
Indices: 17849--17890 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17839 TACCAAGAAG
*
17849 AAATAGGTTTTTGAAGCTTAA
1 AAATAGGTTTTTAAAGCTTAA
17870 AAATAGGTTTTTAAAGCTTAA
1 AAATAGGTTTTTAAAGCTTAA
17891 TCGAGCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
AAATAGGTTTTTAAAGCTTAA
Found at i:23853 original size:3 final size:3
Alignment explanation
Indices: 23845--23890 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
23835 CTTTGCCTTA
23845 AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23891 AGCTAGCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:27584 original size:31 final size:31
Alignment explanation
Indices: 27546--27607 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
27536 ATTAGAGACA
*
27546 TAGAGCGGTGAGGATAAGATAGGGAATGATC
1 TAGAGCGGTGAGAATAAGATAGGGAATGATC
27577 TAGAGCGGTGAGAATAAGATAGGGAATGATC
1 TAGAGCGGTGAGAATAAGATAGGGAATGATC
27608 AAAGCACCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.19
Consensus pattern (31 bp):
TAGAGCGGTGAGAATAAGATAGGGAATGATC
Found at i:37118 original size:28 final size:29
Alignment explanation
Indices: 37062--37124 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
37052 TTAACTAAGA
*
37062 GTTTGAACAGAAACATGTTGGCAAGCTGG
1 GTTTGAACAGAAACATATTGGCAAGCTGG
*
37091 GTTTGAACAG-AACTTATTGGCAAGCTGG
1 GTTTGAACAGAAACATATTGGCAAGCTGG
37119 GTTTGA
1 GTTTGA
37125 TTAACATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (29 bp):
GTTTGAACAGAAACATATTGGCAAGCTGG
Found at i:37267 original size:30 final size:30
Alignment explanation
Indices: 37233--37316 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
37223 CTAATCTCAG
*
37233 TTACTGATTATTAGGAAATTAGGATATCAA
1 TTACTGATTCTTAGGAAATTAGGATATCAA
37263 TTACTGATTCTTAGGAAATTAGGATATCAA
1 TTACTGATTCTTAGGAAATTAGGATATCAA
37293 TTACTGATTCTTAGG-AATTAGGAT
1 TTACTGATTCTTAGGAAATTAGGAT
37317 TTATTTCCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 9 0.17
30 44 0.83
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (30 bp):
TTACTGATTCTTAGGAAATTAGGATATCAA
Found at i:38703 original size:19 final size:21
Alignment explanation
Indices: 38679--38717 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
38669 AGAAATCATT
*
38679 GGAATTTAT-TGG-ATTTTAG
1 GGAATTGATATGGCATTTTAG
38698 GGAATTGATATGGCATTTTA
1 GGAATTGATATGGCATTTTA
38718 AGGTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.44
Consensus pattern (21 bp):
GGAATTGATATGGCATTTTAG
Found at i:49689 original size:30 final size:30
Alignment explanation
Indices: 49652--49749 Score: 135
Period size: 30 Copynumber: 3.3 Consensus size: 30
49642 TCCTTTTATT
*
49652 AAAAAAAAGGGTGCATTTCACATTAATCGAG
1 AAAAAAAA-GGTGTATTTCACATTAATCGAG
* * *
49683 AAAAAAAAGTTATATTTCACATTAATTGAG
1 AAAAAAAAGGTGTATTTCACATTAATCGAG
*
49713 AAAAAAAAGGTGTATTTCATATTAATCGA-
1 AAAAAAAAGGTGTATTTCACATTAATCGAG
49742 AAAAAAAA
1 AAAAAAAA
49750 TTGTATCCAG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
29 8 0.14
30 43 0.73
31 8 0.14
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (30 bp):
AAAAAAAAGGTGTATTTCACATTAATCGAG
Found at i:50342 original size:3 final size:3
Alignment explanation
Indices: 50334--50366 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
50324 AATTAGGGTT
50334 ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
50367 CTAAAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:51730 original size:420 final size:420
Alignment explanation
Indices: 50951--52019 Score: 2129
Period size: 420 Copynumber: 2.5 Consensus size: 420
50941 CAGAAGCAAG
50951 CCCAAAACGACGTCGTTTTGGGATGTCTATATAAGTAAAAAAAACCCTAAAAAACGTTTGTAGCC
1 CCCAAAACGACGTCGTTTTGGGATGTCTATATAAGTAAAAAAAACCCTAAAAAACGTTTGTAGCC
51016 TCTATTTTCTTTTATTTTTTTTAAAAAAACTCTCTTTTCTCTCAACTCTCTCTCAGCCCTCCCCT
66 TCTATTTTCTTTTATTTTTTTTAAAAAAACTCTCTTTTCTCTCAACTCTCTCTCAGCCCTCCCCT
51081 CCGGTCAAGGATTCGATCATTGGCCCCCGTGGCGGCCACCGGTCACTGGCGACGGCGACGCCATC
131 CCGGTCAAGGATTCGATCATTGGCCCCCGTGGCGGCCACCGGTCACTGGCGACGGCGACGCCATC
51146 CGCAGTGGCCGAAAAAGTAAAAAAATATTTTTTTACTTTTTCGGCCACTGCGGATGGCGTCGCCG
196 CGCAGTGGCCGAAAAAGTAAAAAAATATTTTTTTACTTTTTCGGCCACTGCGGATGGCGTCGCCG
51211 TCGCCAGTGCCCGGGGGCCGCCACGGTGGCCAATGATCGAATCCTTGACTGGAGGGGAGGGCTGA
261 TCGCCAGTGCCCGGGGGCCGCCACGGTGGCCAATGATCGAATCCTTGACTGGAGGGGAGGGCTGA
51276 GAGAGAGTTGAGAGAAAAGAGAGTTTTTTTAAAAAAAATAAAAGAAAATAGAGGCTACAAACGTT
326 GAGAGAGTTGAGAGAAAAGAGAGTTTTTTTAAAAAAAATAAAAGAAAATAGAGGCTACAAACGTT
51341 TTTTAGGGTTTTTTTTACTTATATAGACAT
391 TTTTAGGGTTTTTTTTACTTATATAGACAT
51371 CCCAAAACGACGTCGTTTTGGGATGTCTATATAAGTAAAAAAAACCCTAAAAAACGTTTGTAGCC
1 CCCAAAACGACGTCGTTTTGGGATGTCTATATAAGTAAAAAAAACCCTAAAAAACGTTTGTAGCC
51436 TCTATTTTCTTTTATTTTTTTTAAAAAAACTCTCTTTTCTCTCAACTCTCTCTCAGCCCTCCCCT
66 TCTATTTTCTTTTATTTTTTTTAAAAAAACTCTCTTTTCTCTCAACTCTCTCTCAGCCCTCCCCT
51501 CCGGTCAAGGATTCGATCATTGGCCCCCGTGGCGGCCACCGGTCACTGGCGACGGCGACGCCATC
131 CCGGTCAAGGATTCGATCATTGGCCCCCGTGGCGGCCACCGGTCACTGGCGACGGCGACGCCATC
51566 CGCAGTGGCCGAAAAAGTAAAAAAATATTTTTTTACTTTTTCGGCCACTGCGGATGGCGTCGCCG
196 CGCAGTGGCCGAAAAAGTAAAAAAATATTTTTTTACTTTTTCGGCCACTGCGGATGGCGTCGCCG
51631 TCGCCAGTGCCCGGGGGCCGCCACGGTGGCCAATGATCGAATCCTTGACTGGAGGGGAGGGCTGA
261 TCGCCAGTGCCCGGGGGCCGCCACGGTGGCCAATGATCGAATCCTTGACTGGAGGGGAGGGCTGA
51696 GAGAGAGTTGAGAGAAAAGAGAGTTTTTTTAAAAAAAATAAAAGAAAATAGAGGCTACAAACGTT
326 GAGAGAGTTGAGAGAAAAGAGAGTTTTTTTAAAAAAAATAAAAGAAAATAGAGGCTACAAACGTT
51761 TTTTAGGGTTTTTTTTACTTATATAGACAT
391 TTTTAGGGTTTTTTTTACTTATATAGACAT
51791 CCCAAAACGACGTCGTTTTGGGATGTCTATATAAGTAAAAAAAACCCTAAAAAACGTTTGTAGCC
1 CCCAAAACGACGTCGTTTTGGGATGTCTATATAAGTAAAAAAAACCCTAAAAAACGTTTGTAGCC
51856 TCTATTTTCTTTTATTTTTTTTAAAAAAACTCTCTTTTCTCTCAACTCTCTCTCAGCCCTCCCCT
66 TCTATTTTCTTTTATTTTTTTTAAAAAAACTCTCTTTTCTCTCAACTCTCTCTCAGCCCTCCCCT
*
51921 CCGGTCAAGGATTCGATCATTGGCCACCGTGGCGGCCACCGGTCACTGGCGACGGCGACGCCATC
131 CCGGTCAAGGATTCGATCATTGGCCCCCGTGGCGGCCACCGGTCACTGGCGACGGCGACGCCATC
51986 CGCAGTGGCCGAAAAAGTAAAAAAATATTTTTTT
196 CGCAGTGGCCGAAAAAGTAAAAAAATATTTTTTT
52020 CGAGCCTTTT
Statistics
Matches: 648, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
420 648 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (420 bp):
CCCAAAACGACGTCGTTTTGGGATGTCTATATAAGTAAAAAAAACCCTAAAAAACGTTTGTAGCC
TCTATTTTCTTTTATTTTTTTTAAAAAAACTCTCTTTTCTCTCAACTCTCTCTCAGCCCTCCCCT
CCGGTCAAGGATTCGATCATTGGCCCCCGTGGCGGCCACCGGTCACTGGCGACGGCGACGCCATC
CGCAGTGGCCGAAAAAGTAAAAAAATATTTTTTTACTTTTTCGGCCACTGCGGATGGCGTCGCCG
TCGCCAGTGCCCGGGGGCCGCCACGGTGGCCAATGATCGAATCCTTGACTGGAGGGGAGGGCTGA
GAGAGAGTTGAGAGAAAAGAGAGTTTTTTTAAAAAAAATAAAAGAAAATAGAGGCTACAAACGTT
TTTTAGGGTTTTTTTTACTTATATAGACAT
Found at i:52125 original size:4 final size:4
Alignment explanation
Indices: 52116--52167 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
52106 TTTTCTTTAA
52116 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
52164 AAAT
1 AAAT
52168 GAGCTGAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:52995 original size:44 final size:44
Alignment explanation
Indices: 52872--53622 Score: 278
Period size: 44 Copynumber: 17.0 Consensus size: 44
52862 TGCTGCAACT
*
52872 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * *
52916 CAAGAAGGTAAGATCTGCTAT-TTC-AGTCTGCTTCGCTG-CA-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
* *
52958 CCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGATTCGCTGTCAGTA
1 -C-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * *
53004 CAGGAAGGCAAGATCTGCTATCTTC-AGTCTGC-TCTGCTG-CA-ACC
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTC-GCTGTCAGA-A
* *
53048 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTA
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * * *
53092 CAAGAAGGCAAGATCTGCTATCTTC-AGTTTGCTCCGCTGT-A-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
* * *
53135 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTTAGTA
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * * *
53181 CAAGAAGGCAAGATCTGCTATCTT-TAGTCTGCTCCGCTG-CA-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
* * * * * *
53224 CCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGTTGTTAGTA
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * ** * * * *
53270 CATGAAGGCAAGATTTGCTATCTT-TAGTCTGC-TCTGCTG-CA-ACC
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTC-GCTGTCAGA-A
* *
53314 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTA
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * ** * * * * *
53358 CAAGAAGGCAATATCTGTTATTTTC-AGTCTACTCCGCTG-CA-AA
1 CAGGGAGGCAA-GGCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
** * *
53401 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCATTGTTAGTA
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * * *
53447 CAGGAAGGCAAGATCTGCTATCTT-TAGTTTGCTCCGCTG-CA-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
* * * ** * *
53490 CCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCATTGTTAGTA
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * *
53536 CAGGAAGGCAAGCTCTGCTATCTTC-AGTCTGCTCCGCT-ACA-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
*
53579 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAG
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAG
53623 TACATGAAAA
Statistics
Matches: 488, Mismatches: 160, Indels: 116
0.64 0.21 0.15
Matches are distributed among these distances:
42 1 0.00
43 48 0.10
44 246 0.50
45 188 0.39
46 5 0.01
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (44 bp):
CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
Found at i:53176 original size:89 final size:89
Alignment explanation
Indices: 52843--53698 Score: 1224
Period size: 89 Copynumber: 9.7 Consensus size: 89
52833 AAGAAACATT
** * *
52843 TGCTATCTTCAGTCTGCTTTGCTGC-AACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
* *
52907 CTGTCAGTACAAGAAGGTAAGATC
66 CTGTTAGTACAAGAAGGCAAGATC
* * * *
52931 TGCTAT-TTCAGTCTGCTTCGCTGCAAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGATTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
* *
52995 CTGTCAGTACAGGAAGGCAAGATC
66 CTGTTAGTACAAGAAGGCAAGATC
* *
53019 TGCTATCTTCAGTCTGCTCTGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
53083 CTGTTAGTACAAGAAGGCAAGATC
66 CTGTTAGTACAAGAAGGCAAGATC
* *
53107 TGCTATCTTCAGTTTGCTCCGCTGTAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
53172 CTGTTAGTACAAGAAGGCAAGATC
66 CTGTTAGTACAAGAAGGCAAGATC
* * * *
53196 TGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-
* *
53261 T-TGTTAGTACATGAAGGCAAGATT
65 TCTGTTAGTACAAGAAGGCAAGATC
* * *
53285 TGCTATCTTTAGTCTGCTCTGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
*
53349 CTGTTAGTACAAGAAGGCAATATC
66 CTGTTAGTACAAGAAGGCAAGATC
* * *
53373 TGTTATTTTCAGTCTACTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-
*
53438 T-TGTTAGTACAGGAAGGCAAGATC
65 TCTGTTAGTACAAGAAGGCAAGATC
* * * * *
53462 TGCTATCTTTAGTTTGCTCCGCTGCAAACCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCA
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-
* *
53527 T-TGTTAGTACAGGAAGGCAAGCTC
65 TCTGTTAGTACAAGAAGGCAAGATC
*
53551 TGCTATCTTCAGTCTGCTCCGCTACAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTT-T
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
* * ***
53615 GCTGTCAGTACATGAAAATAAGATC
66 -CTGTTAGTACAAGAAGGCAAGATC
*
53640 TGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
53699 ACTCCACTAC
Statistics
Matches: 696, Mismatches: 63, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
87 18 0.03
88 226 0.32
89 451 0.65
90 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (89 bp):
TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
CTGTTAGTACAAGAAGGCAAGATC
Found at i:53279 original size:266 final size:266
Alignment explanation
Indices: 52843--53698 Score: 1342
Period size: 266 Copynumber: 3.2 Consensus size: 266
52833 AAGAAACATT
** * *
52843 TGCTATCTTCAGTCTGCTTTGCTGC-AACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
* * * * **
52907 CTGTCAGTACAAGAAGGTAAGATCTGCTAT-TTCAGTCTGCTTCGCTGCAAACCTAGGGAGGCAA
66 CTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAA
* * *
52971 GGCTGGTGTCTTCGATCTGA-TTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTG
131 GGTTGGTGTCTTCGATCT-ACTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTG
53035 CTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGG
195 CTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGG
53100 CAAGATC
260 CAAGATC
* *
53107 TGCTATCTTCAGTTTGCTCCGCTGTAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
53172 CTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAA
66 CTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAA
* * *
53237 GGTTGGTGTCTTCGATCTACTTCGTTGTTAGTACATGAAGGCAAGATTTGCTATCTTTAGTCTGC
131 GGTTGGTGTCTTCGATCTACTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
53302 TCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGC
196 TCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGC
*
53367 AATATC
261 AAGATC
* * *
53373 TGTTATTTTCAGTCTACTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-
* *
53438 T-TGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAGTTTGCTCCGCTGCAAACCCGGGGAGGCA
65 TCTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCA
* *
53502 AGGTTGGTGTCTTCGATCTACTTCATTGTTAGTACAGGAAGGCAAGCTCTGCTATCTTCAGTCTG
130 AGGTTGGTGTCTTCGATCTACTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTG
* * * * * *
53567 CTCCGCTACAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTACATGAAA
195 CTCTGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAG
**
53632 ATAAGATC
259 GCAAGATC
*
53640 TGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
53699 ACTCCACTAC
Statistics
Matches: 543, Mismatches: 44, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
264 21 0.04
265 66 0.12
266 344 0.63
267 112 0.21
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (266 bp):
TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
CTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAA
GGTTGGTGTCTTCGATCTACTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
TCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGC
AAGATC
Found at i:53747 original size:355 final size:353
Alignment explanation
Indices: 52843--53728 Score: 1235
Period size: 355 Copynumber: 2.5 Consensus size: 353
52833 AAGAAACATT
** *
52843 TGCTATCTTCAGTCTGCTTTGCTGC-AACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
* * * *
52907 CTGTCAGTACAAGAAGGTAAGATCTGCTAT-TTCAGTCTGCTTCGCTGCAAACCTAGGGAGGCAA
66 CTGTCAGTACATGAAGGTAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
* ** * * *
52971 GGCTGGTGTCTTCGATCTGATTCGCTGTCAGTAC-AGGAAGGCAAGATCTGCTATCTTCAGTCTG
131 GGCTGGTGTCTTCGATCT-ACTC-CACT-ACTACTAGGAAGGCAAGATCTGCTATTTTCAGTCTA
* *
53035 CTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGG
193 CTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGTACAAGAAGG
*
53100 CAAGATCTGCTATCTTCAGTTTGCTCCGCTGTAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATC
258 CAAGATCTGCTATCTTCAGTTTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATC
*
53165 TGCTTCTCTGTTAGTACAAGAAGGCAAGATC
323 TACTTCTCTGTTAGTACAAGAAGGCAAGATC
* * * *
53196 TGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
* * * * *
53261 TTGTTAGTACATGAAGGCAAGATTTGCTATCTTTAGTCTGCTCTGCTGC-AACCCAGGGAGGCAA
66 CTGTCAGTACATGAAGGTAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
* ** * * * *
53325 GGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTAC-AAGAAGGCAATATCTGTTATTTTCAGTCTA
131 GGCTGGTGTCTTCGATCTAC-TC-C-ACTACTACTAGGAAGGCAAGATCTGCTATTTTCAGTCTA
* *
53389 CTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCATTGTTAGTACAGGAAG
193 CTCCGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGTACAAGAAG
* * *
53454 GCAAGATCTGCTATCTTTAGTTTGCTCCGCTGCAAACCCGGGGAGGCAAGGTTGGTGTCTTCGAT
257 GCAAGATCTGCTATCTTCAGTTTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
* *
53519 CTACTTCAT-TGTTAGTACAGGAAGGCAAGCTC
322 CTACTTC-TCTGTTAGTACAAGAAGGCAAGATC
* *
53551 TGCTATCTTCAGTCTGCTCCGCTACAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
**
53616 CTGTCAGTACATGAAAATAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
66 CTGTCAGTACATGAAGGTAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
* *
53681 GGCTGGTGTCTTCGATCTACTCCACTACTACTTAGGGAGACAAGATCT
131 GGCTGGTGTCTTCGATCTACTCCACTACTAC-TAGGAAGGCAAGATCT
53729 ACAATTTTTA
Statistics
Matches: 467, Mismatches: 57, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
353 27 0.06
354 135 0.29
355 270 0.58
356 35 0.07
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (353 bp):
TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
CTGTCAGTACATGAAGGTAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
GGCTGGTGTCTTCGATCTACTCCACTACTACTAGGAAGGCAAGATCTGCTATTTTCAGTCTACTC
CGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGTACAAGAAGGCAA
GATCTGCTATCTTCAGTTTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTAC
TTCTCTGTTAGTACAAGAAGGCAAGATC
Found at i:53931 original size:132 final size:131
Alignment explanation
Indices: 53690--54034 Score: 473
Period size: 132 Copynumber: 2.6 Consensus size: 131
53680 AGGCTGGTGT
* *
53690 CTTCGATCTACTCCACTACTACTTAGGGAGACAAGATCTACAATTTTTAACCTACTCCACTGCTG
1 CTTCGATCTACTCCACTACTATTTAGGGAGACAAGATCTACAATCTTTAACCTACTCCACTGCTG
* * *
53755 CTCAGGAAGA-AGAGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTGC
66 CTCAGGAAGATAG-GACTGGTGGCTTAAATCTGCTTCACTACTACCTTGGGAAGATAAGATTCG-
53819 TAC-
129 T-CG
* * *
53822 CTTCGATCTACTCCACTACTATTTAGGGAGATAGGATCTACAATCTTTAACCTACTCCATTGCTG
1 CTTCGATCTACTCCACTACTATTTAGGGAGACAAGATCTACAATCTTTAACCTACTCCACTGCTG
* *
53887 CTCAGGAAGATAGGACTGGTGGCTTAAATCTGCTTCATTGCTACCTTGGGAAGATAAGATTCGTC
66 CTCAGGAAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACCTTGGGAAGATAAGATTCGTC
53952 G
131 G
* * * *
53953 TCTTCAATCTACTCCACTACT-TCTTA-GGAAACATGATCTACAATCTTCAACCTACTCCACTGC
1 -CTTCGATCTACTCCACTACTAT-TTAGGGAGACAAGATCTACAATCTTTAACCTACTCCACTGC
* *
54016 TGCTCAGGGAGATAAGACT
64 TGCTCAGGAAGATAGGACT
54035 AGTATCTTCG
Statistics
Matches: 191, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
130 1 0.01
131 51 0.27
132 137 0.72
133 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (131 bp):
CTTCGATCTACTCCACTACTATTTAGGGAGACAAGATCTACAATCTTTAACCTACTCCACTGCTG
CTCAGGAAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACCTTGGGAAGATAAGATTCGTC
G
Found at i:54092 original size:45 final size:45
Alignment explanation
Indices: 54037--54310 Score: 413
Period size: 45 Copynumber: 6.1 Consensus size: 45
54027 ATAAGACTAG
* *
54037 TATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * *
54082 TATATTCGATCTACTTCACTGCCAATACAAGAAGACAATATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
*
54127 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* *
54172 TATCTTCGATCTACTTCGCTGCAAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
54217 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* ** * * *
54262 TATTTTTTATCCTTCTTCACTGCCAATACAAGAAGACAATATCTGC
1 TATCTTCGAT-CTACTTCACTGCCAATACAGGAAGACAAGATCTGC
54308 TAT
1 TAT
54311 TTTTTAACCT
Statistics
Matches: 210, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
45 175 0.83
46 35 0.17
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
Found at i:58930 original size:19 final size:20
Alignment explanation
Indices: 58906--58952 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
58896 TAATAGTCTT
* *
58906 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
58925 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
58945 -AATGCAAA
1 TAATGCAAA
58953 AAGAGGCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:64806 original size:83 final size:83
Alignment explanation
Indices: 64662--64820 Score: 248
Period size: 83 Copynumber: 1.9 Consensus size: 83
64652 ATCTTGTGCA
**
64662 GCCAACCTTGATTGGGATCTCTAACAATTTGATATTAAAAATGCTTTTTTATGTGGAGACTTAGA
1 GCCAACCTTGATTGGGATCTCTAACAATTTGATATTAAAAATGCTTTTTTACATGGAGACTTAGA
64727 AGAAATATACACGAAGAT
66 AGAAATATACACGAAGAT
* * *
64745 GCCAACCTTGATTGGGATTTCTAACAATTTGATGTTAGAAATGCTTTTTTACAT-GATGACTTAG
1 GCCAACCTTGATTGGGATCTCTAACAATTTGATATTAAAAATGCTTTTTTACATGGA-GACTTAG
*
64809 AAGAAGTATACA
65 AAGAAATATACA
64821 TGGAGATTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
82 2 0.03
83 67 0.97
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (83 bp):
GCCAACCTTGATTGGGATCTCTAACAATTTGATATTAAAAATGCTTTTTTACATGGAGACTTAGA
AGAAATATACACGAAGAT
Found at i:66189 original size:43 final size:43
Alignment explanation
Indices: 66128--66251 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
66118 ATTTCTGATA
**
66128 TGTGTTTTTGTGTAAGACCACATCTGGGACGTTGGCATCGA-C
1 TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCATCGATC
66170 TTGTGTTTACGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATC
1 -TGTGTTTACGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATC
* * * * *
66214 TGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
1 TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCAT
66252 TGTACGAGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 1 0.01
43 65 0.94
44 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCATCGATC
Done.