Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3159
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: 142596
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:4622 original size:39 final size:40
Alignment explanation
Indices: 4577--4744 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
4567 CGGGGTTTAG
* * *
4577 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
4616 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
4656 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
4696 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
4737 CCGGATAT
1 CCGGATAT
4745 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:4727 original size:41 final size:40
Alignment explanation
Indices: 4600--4744 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
4590 CTCGCACAAG
* * * * *
4600 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
4640 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
4680 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
4721 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
4745 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:5974 original size:38 final size:38
Alignment explanation
Indices: 5932--6007 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
5922 CAAGAACTCC
5932 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
5970 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
6008 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:16158 original size:20 final size:20
Alignment explanation
Indices: 16133--16171 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16123 TGTATCCATA
16133 AAATTTCAAAAATTTTCATC
1 AAATTTCAAAAATTTTCATC
* *
16153 AAATTTTATAAATTTTCAT
1 AAATTTCAAAAATTTTCAT
16172 TTTAGTCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATTTCAAAAATTTTCATC
Found at i:18890 original size:18 final size:16
Alignment explanation
Indices: 18858--18901 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 16
18848 GTCACACAAT
18858 AAAATAAAAACAACTA
1 AAAATAAAAACAACTA
18874 AAAATAAAAGTACAACTA
1 AAAATAAAA--ACAACTA
18892 AAAATAAAAA
1 AAAATAAAAA
18902 TAAATGAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.38
18 16 0.62
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAATAAAAACAACTA
Found at i:19611 original size:24 final size:24
Alignment explanation
Indices: 19584--19632 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
19574 TGGCATGAAT
19584 CACATGAGTGATACACTTGTAAAC
1 CACATGAGTGATACACTTGTAAAC
* *
19608 CACATGAGTGATGCAGTTGTAAAC
1 CACATGAGTGATACACTTGTAAAC
19632 C
1 C
19633 TATTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
CACATGAGTGATACACTTGTAAAC
Found at i:21704 original size:17 final size:17
Alignment explanation
Indices: 21665--21715 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
21655 TTATTTATTT
*
21665 AATTTAATTAATTT-T-
1 AATTAAATTAATTTCTC
*
21680 ATTTAAATTAATTTCTC
1 AATTAAATTAATTTCTC
*
21697 AATTAAATTTATTTCTC
1 AATTAAATTAATTTCTC
21714 AA
1 AA
21716 CCTAATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 17 0.57
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTAAATTAATTTCTC
Found at i:23907 original size:208 final size:208
Alignment explanation
Indices: 23544--23965 Score: 745
Period size: 208 Copynumber: 2.0 Consensus size: 208
23534 AGTTTCCATG
* *
23544 TATTCCACATATATTTATTTTCCTCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
1 TATTTCACATATATTTATTTTCATCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
* *
23609 CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCGCATCAAACTGTCCACATGAGTCATAG
66 CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAG
** *
23674 TCACTTAATTATTTATAATTCGATCTACGGAGCTCCAAATTAAGATCCGTAAATGTCCTCTGAAA
131 TCACTTAATTATTTATAATTCGATCTAAAGAGCTCCAAATTAAGATCCGTAAATGTCCCCTGAAA
*
23739 CTAGACTCACATA
196 CTACACTCACATA
*
23752 TATTTCACATATATTTATTTTCATCCTCCTCCTCTCCATTTCACATCCTTAATGTATATAGCATT
1 TATTTCACATATATTTATTTTCATCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
23817 CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAG
66 CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAG
*
23882 TCACTTAATTATTTATAATTCGATCTAAAGAGCTCCAAATTAAGATCCGTAAATTTCCCCTGAAA
131 TCACTTAATTATTTATAATTCGATCTAAAGAGCTCCAAATTAAGATCCGTAAATGTCCCCTGAAA
23947 CTACACTCACATA
196 CTACACTCACATA
*
23960 TCTTTC
1 TATTTC
23966 CACCATAAAA
Statistics
Matches: 203, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
208 203 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (208 bp):
TATTTCACATATATTTATTTTCATCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAG
TCACTTAATTATTTATAATTCGATCTAAAGAGCTCCAAATTAAGATCCGTAAATGTCCCCTGAAA
CTACACTCACATA
Found at i:29189 original size:52 final size:50
Alignment explanation
Indices: 29107--29204 Score: 133
Period size: 52 Copynumber: 1.9 Consensus size: 50
29097 GTATCTGACA
**
29107 ATATATCTACAATTTTGGTGGCTTGACCACAATATTCTGTATCTGGAAAT
1 ATATATCTACAATTTTGGTGGCTCAACCACAATATTCTGTATCTGGAAAT
* * *
29157 ATATATCTGCAATTATCTGGTGGCTCAACCACAATATTTTGTTTCTGG
1 ATATATCTACAATT-T-TGGTGGCTCAACCACAATATTCTGTATCTGG
29205 CGACTCAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 13 0.32
51 1 0.02
52 27 0.66
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (50 bp):
ATATATCTACAATTTTGGTGGCTCAACCACAATATTCTGTATCTGGAAAT
Found at i:31280 original size:134 final size:134
Alignment explanation
Indices: 31040--31305 Score: 442
Period size: 134 Copynumber: 2.0 Consensus size: 134
31030 GGGGTAATAC
* * * *
31040 TAGTTAATTAATAGCTAATTCATATTACAGCTCAAATTATGAAATTAGTTAATCTTCTGTTCATT
1 TAGTTAACTAATAGCTAATTCATATTACAACCCAAATTATGAAATTAGTTAATCTTCTATTCATT
* * *
31105 AATTAGGAATTTAATCGATCATTGGCTAGAGGCTCGCATTGTAAACTCTAGGAATAGGAAAGTCC
66 AATTAGAAATTTAATCGATCATGGGCTAGAGGCTCGCATTGTAAACACTAGGAATAGGAAAGTCC
31170 ATAT
131 ATAT
*
31174 TAGTTAACTAATAGCTAATTCATATTACAACCCAAATTATGAAATTAGTTAATCTTCTATTTATT
1 TAGTTAACTAATAGCTAATTCATATTACAACCCAAATTATGAAATTAGTTAATCTTCTATTCATT
* *
31239 AATTAGAAATTTAATCGATCATGGGCTAGAGGCTTGCATTGTCAACACTAGGAATAGGAAAGTCC
66 AATTAGAAATTTAATCGATCATGGGCTAGAGGCTCGCATTGTAAACACTAGGAATAGGAAAGTCC
31304 AT
131 AT
31306 TAGGTTAATT
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 122 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (134 bp):
TAGTTAACTAATAGCTAATTCATATTACAACCCAAATTATGAAATTAGTTAATCTTCTATTCATT
AATTAGAAATTTAATCGATCATGGGCTAGAGGCTCGCATTGTAAACACTAGGAATAGGAAAGTCC
ATAT
Found at i:35717 original size:20 final size:19
Alignment explanation
Indices: 35667--35717 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
35657 GACCACATAT
35667 TACTGATAGCTTGTCTCAA
1 TACTGATAGCTTGTCTCAA
* * *
35686 TACAGGTGGCTTGTC-CATGA
1 TACTGATAGCTTGTCTCA--A
35706 TACTGATAGCTT
1 TACTGATAGCTT
35718 ATCTGTAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
18 2 0.08
19 12 0.50
20 10 0.42
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (19 bp):
TACTGATAGCTTGTCTCAA
Found at i:35747 original size:20 final size:20
Alignment explanation
Indices: 35724--35791 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
35714 GCTTATCTGT
35724 AATATTGGTGGCTTGTCCAC
1 AATATTGGTGGCTTGTCCAC
* *** **
35744 AATAATGGCAACTTGTCTGC
1 AATATTGGTGGCTTGTCCAC
*
35764 AATACTGGTGGCTTGTCCAC
1 AATATTGGTGGCTTGTCCAC
35784 AATATTGG
1 AATATTGG
35792 CAGTTTATCT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (20 bp):
AATATTGGTGGCTTGTCCAC
Found at i:35773 original size:40 final size:40
Alignment explanation
Indices: 35629--35830 Score: 183
Period size: 40 Copynumber: 5.0 Consensus size: 40
35619 AGGAAGTAAC
* * *
35629 GGCAGCTTGTCTGCAACACTAGTGGCTTGACCACATATTACT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACA-A-TACT
** * **
35671 GATAGCTTGTCT-CAATACAGGTGGCTTGTCCATGATACT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
** * * * *
35710 GATAGCTTATCTGTAATATTGGTGGCTTGTCCACAATAAT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
* *
35750 GGCAACTTGTCTGCAATACTGGTGGCTTGTCCACAATATT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
* * * * *
35790 GGCAGTTTATCTGTAATACTGGCGGCTTATCCACAA-ACT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
35829 GG
1 GG
35831 TGTGTTATTG
Statistics
Matches: 130, Mismatches: 29, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 19 0.15
40 85 0.65
41 16 0.12
42 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
Found at i:36774 original size:46 final size:46
Alignment explanation
Indices: 36706--36834 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
36696 AATATTCCGA
*
36706 TATTCTCAAGTCCGCAACATATGCAGGAGCTCGGAACCTAAAT-TTG
1 TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAACCT-AATCTTG
** * * * *
36752 TATTCTTGAGTTCGCAAGATATGCAGGATCTCAGAACCTATTCTTG
1 TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAACCTAATCTTG
36798 TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAAC
1 TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAAC
36835 TTGGGCAAGA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
45 2 0.03
46 68 0.97
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (46 bp):
TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAACCTAATCTTG
Found at i:40563 original size:39 final size:39
Alignment explanation
Indices: 40510--40595 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
40500 AAAACTAAGA
* *
40510 AAAACATTTCCCACTACCAATTTTTCTCTTAACTATATC
1 AAAATATTTACCACTACCAATTTTTCTCTTAACTATATC
40549 AAAATATTTACCACTACCAATTTTTCTCTTAACTATATC
1 AAAATATTTACCACTACCAATTTTTCTCTTAACTATATC
40588 AAAATATT
1 AAAATATT
40596 CTCCTATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (39 bp):
AAAATATTTACCACTACCAATTTTTCTCTTAACTATATC
Found at i:44739 original size:20 final size:20
Alignment explanation
Indices: 44700--44739 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44690 AAAAGTGATA
*
44700 TGAAATTATGGTCTTTGGAT
1 TGAAATTATGGTCTTGGGAT
*
44720 TGAAATTATGGTGTTGGGAT
1 TGAAATTATGGTCTTGGGAT
44740 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.30, T:0.42
Consensus pattern (20 bp):
TGAAATTATGGTCTTGGGAT
Found at i:52051 original size:22 final size:23
Alignment explanation
Indices: 52019--52065 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
52009 AATATGAATG
52019 AAATTGAAATGATGGTTTCAATA
1 AAATTGAAATGATGGTTTCAATA
52042 AAATT-AAATGATGGTTTCAATA
1 AAATTGAAATGATGGTTTCAATA
52064 AA
1 AA
52066 GATGGTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (23 bp):
AAATTGAAATGATGGTTTCAATA
Found at i:54316 original size:11 final size:12
Alignment explanation
Indices: 54288--54325 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
54278 TCACACAAGT
54288 TTTTAATAGTAGAA
1 TTTTAATAG-A-AA
54302 TTTTAAT-GAAA
1 TTTTAATAGAAA
54313 TTTTAATAGAAA
1 TTTTAATAGAAA
54325 T
1 T
54326 AATTGACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.39
12 6 0.26
13 1 0.04
14 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (12 bp):
TTTTAATAGAAA
Found at i:60611 original size:51 final size:51
Alignment explanation
Indices: 60535--60636 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
60525 CAAGATTTTA
**
60535 CGCAAAACCTAGGGCAGATTTCTTTTCCTCGTCTTTACGTCTATGATCTTT
1 CGCAAAACCTAGGGCAGATTTCTTTTCCTCGTCTCCACGTCTATGATCTTT
* *
60586 CGCAAAACCTAGGGCAGATTTCTTTTCCTTGTCTCCGCGTCTATGATCTTT
1 CGCAAAACCTAGGGCAGATTTCTTTTCCTCGTCTCCACGTCTATGATCTTT
60637 TCTTTTTAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (51 bp):
CGCAAAACCTAGGGCAGATTTCTTTTCCTCGTCTCCACGTCTATGATCTTT
Found at i:62185 original size:43 final size:43
Alignment explanation
Indices: 62094--62252 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
62084 CAATGCTATA
* * * ** * *
62094 TCCCAGATATGGTCTTACATGTTATCACATATCGGTGCCAATAG
1 TCCCAGACATGGTATTACACGAAATCACATAACGATGCCAAT-G
** *
62138 -CCCAGGTATGGTATTACACGAAATTA-ATTAACGATGCCAATG
1 TCCCAGACATGGTATTACACGAAATCACA-TAACGATGCCAATG
* * * *
62180 TCCCAGACATGGTCTTACATGTAATCACATAATGATGCCAATG
1 TCCCAGACATGGTATTACACGAAATCACATAACGATGCCAATG
* *
62223 TCCCATACATGGTCTTACAC-ATAATCACAT
1 TCCCAGACATGGTATTACACGA-AATCACAT
62253 CTCGTTAATC
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 90 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTATTACACGAAATCACATAACGATGCCAATG
Found at i:69780 original size:43 final size:43
Alignment explanation
Indices: 69729--69824 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 43
69719 GCCCAGCTAT
69729 GGTCTTACACGAAATTA-ATTAATGATGCAAATGTCCCAAAAAA
1 GGTCTTACACGAAATTACA-TAATGATGCAAATGTCCCAAAAAA
* * * * *
69772 GGTTTTACACGTAATTACATAATGATGCCAATGTCCCAGAAAT
1 GGTCTTACACGAAATTACATAATGATGCAAATGTCCCAAAAAA
69815 GGTCTTACAC
1 GGTCTTACAC
69825 ATAATCACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGAAATTACATAATGATGCAAATGTCCCAAAAAA
Found at i:70565 original size:17 final size:17
Alignment explanation
Indices: 70540--70573 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
70530 AGAATACAAA
* *
70540 GTAACAATATTAAAAAC
1 GTAAAAATATCAAAAAC
70557 GTAAAAATATCAAAAAC
1 GTAAAAATATCAAAAAC
70574 TGAGCTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (17 bp):
GTAAAAATATCAAAAAC
Found at i:74651 original size:23 final size:24
Alignment explanation
Indices: 74625--74679 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
74615 AGAGACTTAT
74625 TATTCA-G-CTCATGCTTTCTTACA
1 TATTCACGTCTCATG-TTTCTTACA
*
74648 TATTCATCGTTTTCATGTTTCTTACA
1 TATTCA-CG-TCTCATGTTTCTTACA
74674 TATTCA
1 TATTCA
74680 TCGTTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.22
25 1 0.04
26 15 0.56
27 5 0.19
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (24 bp):
TATTCACGTCTCATGTTTCTTACA
Found at i:74663 original size:27 final size:27
Alignment explanation
Indices: 74633--74704 Score: 119
Period size: 26 Copynumber: 2.7 Consensus size: 27
74623 ATTATTCAGC
74633 TCATGCTTTCTTACATATTCATCGTTT
1 TCATGCTTTCTTACATATTCATCGTTT
74660 TCATG-TTTCTTACATATTCATCGTTT
1 TCATGCTTTCTTACATATTCATCGTTT
*
74686 TCATACTTTCTCTACATAT
1 TCATGCTTTCT-TACATAT
74705 CAGAGGCACA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 25 0.60
27 10 0.24
28 7 0.17
ACGTcount: A:0.21, C:0.22, G:0.06, T:0.51
Consensus pattern (27 bp):
TCATGCTTTCTTACATATTCATCGTTT
Found at i:76872 original size:29 final size:29
Alignment explanation
Indices: 76839--76912 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
76829 GTTGTGAGAT
* *
76839 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
76868 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
76897 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
76913 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:85012 original size:29 final size:29
Alignment explanation
Indices: 84979--85052 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
84969 GTTGTGAGAT
* *
84979 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
85008 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
85037 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85053 GTTGATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:88044 original size:51 final size:51
Alignment explanation
Indices: 87968--88086 Score: 238
Period size: 51 Copynumber: 2.3 Consensus size: 51
87958 TATTCGTACA
87968 TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
1 TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
88019 TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
1 TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
88070 TTTCATTTAATATCTCA
1 TTTCATTTAATATCTCA
88087 TTTACTATCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (51 bp):
TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
Found at i:88089 original size:12 final size:12
Alignment explanation
Indices: 88072--88110 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
88062 TCTCAACTTT
88072 TCATTTAATATC
1 TCATTTAATATC
*
88084 TCATTTACTATC
1 TCATTTAATATC
88096 TCATTTAATATC
1 TCATTTAATATC
88108 TCA
1 TCA
88111 ATTTGAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (12 bp):
TCATTTAATATC
Found at i:89767 original size:21 final size:21
Alignment explanation
Indices: 89741--89794 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
89731 AAACCTCTAT
89741 CTGTCAGTTCTTGCAACTGAG
1 CTGTCAGTTCTTGCAACTGAG
89762 CTGTCAGTTCTTGCAACTGAG
1 CTGTCAGTTCTTGCAACTGAG
* *
89783 CTTTCAATTCTT
1 CTGTCAGTTCTT
89795 TTAACTCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (21 bp):
CTGTCAGTTCTTGCAACTGAG
Found at i:92162 original size:13 final size:13
Alignment explanation
Indices: 92132--92169 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
92122 ACTGAATAGG
*
92132 GATAAGGACAC-A
1 GATAAGGACACGT
92144 GATAAGGACACGT
1 GATAAGGACACGT
92157 GATAAGGACACGT
1 GATAAGGACACGT
92170 CCGTGTGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.42, C:0.16, G:0.29, T:0.13
Consensus pattern (13 bp):
GATAAGGACACGT
Found at i:103217 original size:23 final size:23
Alignment explanation
Indices: 103191--103234 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
103181 TTCCATGTAA
*
103191 CTTAGTTG-GATTAATATTTATAC
1 CTTAATTGAGATTAA-ATTTATAC
*
103214 CTTAATTGAGTTTAAATTTAT
1 CTTAATTGAGATTAAATTTAT
103235 GTCTCAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (23 bp):
CTTAATTGAGATTAAATTTATAC
Found at i:107446 original size:15 final size:15
Alignment explanation
Indices: 107404--107446 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
107394 TGTGTTGTTG
*
107404 GATTAAATTGAATGA
1 GATTAATTTGAATGA
* *
107419 AATTATGTTTGAATGA
1 GATTA-ATTTGAATGA
107435 GATTAATTTGAA
1 GATTAATTTGAA
107447 ATTGTATAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (15 bp):
GATTAATTTGAATGA
Found at i:110361 original size:27 final size:26
Alignment explanation
Indices: 110320--110424 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 26
110310 AGGAAGCATC
110320 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
* *
110347 CTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
110374 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
110402 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
110425 ATTCTAGCAG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.04
27 48 0.71
28 17 0.25
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:110424 original size:54 final size:54
Alignment explanation
Indices: 110320--110429 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 54
110310 AGGAAGCATC
* * *
110320 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* *
110374 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
110428 CT
1 CT
110430 AGCAGGCATG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 31 0.63
55 17 0.35
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:130078 original size:19 final size:19
Alignment explanation
Indices: 130054--130168 Score: 166
Period size: 19 Copynumber: 6.2 Consensus size: 19
130044 AATCTTTAAG
130054 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
130073 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
130092 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
130109 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
130128 GATA--CAATCTTAGATGT
1 GATATGCAATCTTAGATAT
130145 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
130166 GAT
1 GAT
130169 CTTGTAATCT
Statistics
Matches: 86, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
17 32 0.37
19 46 0.53
21 8 0.09
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:130083 original size:36 final size:34
Alignment explanation
Indices: 130054--130167 Score: 149
Period size: 36 Copynumber: 3.2 Consensus size: 34
130044 AATCTTTAAG
*
130054 GATATG-CAATCTTAGATATGATATGTAATCTTA
1 GATATGACAATCTTAGATATGATATGCAATCTTA
130087 GATATGATACAATCTTAGATATGATATGCAATCTTA
1 GATATG--ACAATCTTAGATATGATATGCAATCTTA
*
130123 GATATGATACAATCTTAGATGTGATATGCAATCTTGAA
1 GATATG--ACAATCTTAGATATGATATGCAATCTT--A
130161 GATATGA
1 GATATGA
130168 TCTTGTAATC
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
33 6 0.08
36 61 0.82
38 7 0.09
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (34 bp):
GATATGACAATCTTAGATATGATATGCAATCTTA
Found at i:130117 original size:55 final size:55
Alignment explanation
Indices: 130054--130168 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 55
130044 AATCTTTAAG
*
130054 GATATGCAATCTTAGATATGATATGTAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATA--CAATCTTAGATATGATAGCAATCTTAAGATAT
*
130109 GATATGCAATCTTAGATATGATACAATCTTAGATGTGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATACAATCTTAGATATGATA-GCAATCTT-AAGATAT
130166 GAT
1 GAT
130169 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
53 15 0.28
55 30 0.56
57 9 0.17
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (55 bp):
GATATGCAATCTTAGATATGATACAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:135788 original size:16 final size:15
Alignment explanation
Indices: 135766--135810 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
135756 TTTATTTCAA
135766 AAAAAAAGGAAAAAA-
1 AAAAAAA-GAAAAAAG
135781 ATAAAAAAGAAAAAAG
1 A-AAAAAAGAAAAAAG
135797 AAAAAAAAGAAAAA
1 -AAAAAAAGAAAAA
135811 TGGAGAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.30
16 18 0.67
17 1 0.04
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:135801 original size:23 final size:23
Alignment explanation
Indices: 135767--135810 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
135757 TTATTTCAAA
* *
135767 AAAAAAGGAAAAAAATAAAAAAG
1 AAAAAAGAAAAAAAAGAAAAAAG
135790 AAAAAAGAAAAAAAAGAAAAA
1 AAAAAAGAAAAAAAAGAAAAA
135811 TGGAGAGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAAAAAGAAAAAAG
Found at i:136888 original size:44 final size:44
Alignment explanation
Indices: 136707--136889 Score: 174
Period size: 44 Copynumber: 4.1 Consensus size: 44
136697 ATTTGGCATC
*
136707 CCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTGACACT
1 CCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCTGACATT
* * * ** *
136752 CCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG--CATGGCATT
1 CCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGATC-TGACATT
* * ** * * *
136796 CCTATGTTTATAAGGAACA-AGTTAAAGATAGCAGATTTGGCATC
1 CCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATT
*
136840 CCTGTTTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
1 CCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
136884 CCTGTG
1 CCTGTG
136890 CTTACAGCGA
Statistics
Matches: 105, Mismatches: 27, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
42 1 0.01
43 12 0.11
44 64 0.61
45 28 0.27
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
CCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
Found at i:136925 original size:88 final size:87
Alignment explanation
Indices: 136833--136999 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 87
136823 ATAGCAGATT
* *
136833 TGGCATCCCTGTTTTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACATTCCTGTGCTTAC-A
1 TGGCATCCCTATGTTTATAGGGAACGAG-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAA
136896 GCGAAACAAATCAAAGATTTTAACA
65 G-G-AACAAATCAAAGATTTTAACA
* * * * * * *
136921 TGGCATCCCTATGTTTATAGGGAACGAGTTGAAGATAGTATATTTGGCATTCTTGTGTTTACAAG
1 TGGCATCCCTATGTTTATAGGGAACGAGTCGAAGATAGCAGATCTGACATTCCTGTGCTTACAAG
136986 GAACAAATCAAAGA
66 GAACAAATCAAAGA
137000 CATAGCAGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
87 13 0.19
88 51 0.75
89 4 0.06
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (87 bp):
TGGCATCCCTATGTTTATAGGGAACGAGTCGAAGATAGCAGATCTGACATTCCTGTGCTTACAAG
GAACAAATCAAAGATTTTAACA
Found at i:136989 original size:132 final size:132
Alignment explanation
Indices: 136695--137014 Score: 433
Period size: 132 Copynumber: 2.4 Consensus size: 132
136685 TAAAGAAACA
136695 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
* * * * *
136760 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATTCCTATGTTTATAAGGAACAAGTTAAAGAT
65 TACAGCGAAACAAATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTAAAGAT
136825 AGC
130 AGC
* *
136828 AGATTTGGCATCCCTGTTTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * * *
136893 ACAGCGAAACAAATCAAAGATTTTAACATGGCATCCCTATGTTTATAGGGAACGAGTTGAAGATA
66 ACAGCGAAACAAATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTAAAGATA
*
136958 GT
131 GC
* * * * * * * *
136960 ATATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAAGACATAGCAGATTTGAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATCTGAC
137015 TTTCGGATGT
Statistics
Matches: 164, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
132 125 0.76
133 26 0.16
134 13 0.08
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAACAAATCAAAGATTTCAACATGGCATCCCTATGTTTATAAGGAACAAGTTAAAGATA
GC
Found at i:137374 original size:173 final size:175
Alignment explanation
Indices: 136962--137540 Score: 909
Period size: 174 Copynumber: 3.3 Consensus size: 175
136952 AAGATAGTAT
136962 ATTTGGCATTCTTGTGTTTACAAGGAACAAATC-AAAGACATAGCAGATTTGACTTTCGGATGTT
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAA-ACATAGCAGATTTGACTTTCGGATGTT
* * * **
137026 CTTCAC-CAAAAGCATATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAAAACAGGTACA
65 C-TCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACA
137090 TAGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATG
129 TAGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATG
* * *
137137 A-TTGGCATTCTTGTGTTTACAAGGAACAAATTGAAGACATAGCAGATTTGACTTTCGAATGTTC
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAAACATAGCAGATTTGACTTTCGGATGTTC
*
137201 TCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGA-TGAGAGTAGGTACATA
66 TCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACATA
137265 GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATG
131 GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATG
*
137310 ATTTGGCATTCTTATGTTTACAAGG-ACAAATCGAAAACATAGCAGATTTGACTTTCGGATGTTC
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAAACATAGCAGATTTGACTTTCGGATGTTC
* * *
137374 TTACACCAAAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGTAGATACATA
66 TCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACATA
* *
137439 GCAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCTAAGATG
131 GCAGGTCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGATG
* * * * *
137484 ATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACATAGCAGATTTGGCTTTC
1 ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAAACATAGCAGATTTGACTTTC
137541 ACGTGTTATG
Statistics
Matches: 373, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
173 144 0.39
174 195 0.52
175 34 0.09
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
ATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAAACATAGCAGATTTGACTTTCGGATGTTC
TCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACATA
GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATG
Found at i:137848 original size:3 final size:3
Alignment explanation
Indices: 137840--137865 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
137830 AAGTCCAAAA
137840 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
137866 ACAAAGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.