Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014691.1 Corchorus olitorius cultivar O-4 contig14724, 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: 114819
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Found at i:70 original size:31 final size:30
Alignment explanation
Indices: 2--110 Score: 139
Period size: 31 Copynumber: 3.6 Consensus size: 30
1 G
** ***
2 CAAGCAATTAAGGATATAACG-TTACAAAA
1 CAAGCAATTAAGGATATAACGTTTTTATTT
31 CAAGCAATTAAGGATATAACGTTTTTGATTT
1 CAAGCAATTAAGGATATAACGTTTTT-ATTT
* *
62 TAAGCAATTAAGGATATGACGTTTTTATTT
1 CAAGCAATTAAGGATATAACGTTTTTATTT
92 CAAGCAATTAAGGATATAA
1 CAAGCAATTAAGGATATAA
111 TCAGTAAGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
29 21 0.30
30 23 0.33
31 25 0.36
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (30 bp):
CAAGCAATTAAGGATATAACGTTTTTATTT
Found at i:306 original size:29 final size:31
Alignment explanation
Indices: 240--306 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
230 CCTAACGGAC
240 TATATCCTTAATTGCTCGTTTTTCGTAACGT
1 TATATCCTTAATTGCTCGTTTTTCGTAACGT
* *
271 TATATCCTTAATTGTTTG-TTTT-GTAACGT
1 TATATCCTTAATTGCTCGTTTTTCGTAACGT
300 TATATCC
1 TATATCC
307 CAAATTGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 14 0.41
30 4 0.12
31 16 0.47
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (31 bp):
TATATCCTTAATTGCTCGTTTTTCGTAACGT
Found at i:7097 original size:31 final size:31
Alignment explanation
Indices: 7059--7126 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
7049 AAAAAGATTT
7059 AAATTATTTTTATCTTATGGATGATGTAATG
1 AAATTATTTTTATCTTATGGATGATGTAATG
7090 AAATTATTTTTATCTTATGGATGATGTAATG
1 AAATTATTTTTATCTTATGGATGATGTAATG
*
7121 GAATTA
1 AAATTA
7127 AAGGGTAGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (31 bp):
AAATTATTTTTATCTTATGGATGATGTAATG
Found at i:29488 original size:20 final size:20
Alignment explanation
Indices: 29450--29490 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
29440 AAAATAAAAT
*
29450 AAAATCAACCCAATGTAATA
1 AAAATCAACCAAATGTAATA
29470 AAAATCAAGCCAAAT-TAATA
1 AAAATCAA-CCAAATGTAATA
29490 A
1 A
29491 GCTAGAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.59, C:0.17, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAATCAACCAAATGTAATA
Found at i:30632 original size:51 final size:51
Alignment explanation
Indices: 30551--30647 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
30541 TGGTAAAAAT
* * *
30551 GTCTGAGGGTGTTTCTGAAATAACTTCAACTGATGCATGGAATTGGCCTGA
1 GTCTAAGGGTGATTCTGAAATAACCTCAACTGATGCATGGAATTGGCCTGA
30602 GTCTAAGGGTGATTCTGAAATAACCTCAACTGATGCATGGAATTGG
1 GTCTAAGGGTGATTCTGAAATAACCTCAACTGATGCATGGAATTGG
30648 TCTTGGTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
GTCTAAGGGTGATTCTGAAATAACCTCAACTGATGCATGGAATTGGCCTGA
Found at i:43808 original size:32 final size:32
Alignment explanation
Indices: 43771--43854 Score: 123
Period size: 32 Copynumber: 2.6 Consensus size: 32
43761 GTCATACTGT
*
43771 TGACGTGACATTGCCATGTCAAACCAAATTGA
1 TGACGTGACATTGCCACGTCAAACCAAATTGA
*
43803 TGACGTGACATTGCCACGTCAGACCAAATTGA
1 TGACGTGACATTGCCACGTCAAACCAAATTGA
* * *
43835 TGATGTGGCATTGACACGTC
1 TGACGTGACATTGCCACGTC
43855 GGACCAAACC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (32 bp):
TGACGTGACATTGCCACGTCAAACCAAATTGA
Found at i:43978 original size:29 final size:30
Alignment explanation
Indices: 43908--43986 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
43898 TCTCGCTTGA
*
43908 AAGGGGACAAAACATCCAAAATTGAGAGTTC
1 AAGGGG-CAAAACATCCAAAATTGAGAATTC
* * **
43939 AAGAGGTAAAATGTCCAAAATTGA-AATTC
1 AAGGGGCAAAACATCCAAAATTGAGAATTC
43968 AAGGGGCAAAACATCCAAA
1 AAGGGGCAAAACATCCAAA
43987 TGCTACAAGT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 19 0.49
30 15 0.38
31 5 0.13
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.16
Consensus pattern (30 bp):
AAGGGGCAAAACATCCAAAATTGAGAATTC
Found at i:65525 original size:2 final size:2
Alignment explanation
Indices: 65518--65543 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65508 GATATGAACC
65518 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
65544 GTTCTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82033 original size:81 final size:81
Alignment explanation
Indices: 81895--82053 Score: 255
Period size: 81 Copynumber: 2.0 Consensus size: 81
81885 TATAACAAAG
* *
81895 AAGGGTAATTATTTAATACATCGACGGTGTAAATTTTGGACTCCATAAGCGGATTGTGGAGTTAA
1 AAGGGTAATTATTTAATACACCGACGGTGTAAATTTTGGACTCCACAAGCGGATTGTGGAGTTAA
81960 CACATGTCCATTTTTT
66 CACATGTCCATTTTTT
* ** * *
81976 AAGGGTAATTATTTGATACACCGGTGGTGTAAATTTTGGACTCCACAAGCGGGTTGTGGAGTTGA
1 AAGGGTAATTATTTAATACACCGACGGTGTAAATTTTGGACTCCACAAGCGGATTGTGGAGTTAA
82041 CACATGTCCATTT
66 CACATGTCCATTT
82054 ATTGAATTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (81 bp):
AAGGGTAATTATTTAATACACCGACGGTGTAAATTTTGGACTCCACAAGCGGATTGTGGAGTTAA
CACATGTCCATTTTTT
Found at i:82271 original size:120 final size:120
Alignment explanation
Indices: 82058--82290 Score: 360
Period size: 120 Copynumber: 1.9 Consensus size: 120
82048 CCATTTATTG
* *
82058 AATTAATTAAGTTTTAAATATTTCAATATAATCCCTAAAGGACACATGTCACCCTTCAGGACCCA
1 AATTAATTAAGTTTTAAATATTTCAATATAATCCCTAAAAGACACATATCACCCTTCAGGACCCA
* * *
82123 CTTGTGTAGTCTGCTAAACTCCACCGCCGGTGTATTGTATAATTTGCCTTTTTTT
66 CTTGTATAGTATGCTAAACTCCACCGCCGCTGTATTGTATAATTTGCCTTTTTTT
* * *
82178 AATTAATTAAGTTTTAAATA-TTCTAATCTAGTCCCTAAAAGACACATATCACCTTTCAGGACCC
1 AATTAATTAAGTTTTAAATATTTC-AATATAATCCCTAAAAGACACATATCACCCTTCAGGACCC
* *
82242 GCTTGTATAGTATGCTAAACTCCACCGCCGCTGTGTTGTATAATTTGCC
65 ACTTGTATAGTATGCTAAACTCCACCGCCGCTGTATTGTATAATTTGCC
82291 AACAAAAAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 3 0.03
120 99 0.97
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (120 bp):
AATTAATTAAGTTTTAAATATTTCAATATAATCCCTAAAAGACACATATCACCCTTCAGGACCCA
CTTGTATAGTATGCTAAACTCCACCGCCGCTGTATTGTATAATTTGCCTTTTTTT
Found at i:92216 original size:41 final size:41
Alignment explanation
Indices: 92159--92240 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
92149 CGGGAAAAGT
92159 GCAAGGATACGAACCCCTGTCTTCCGAGTGAACTTTTGAGC
1 GCAAGGATACGAACCCCTGTCTTCCGAGTGAACTTTTGAGC
92200 GCAAGGATACGAACCCCTGTCTTCCGAGTGAACTTTTGAGC
1 GCAAGGATACGAACCCCTGTCTTCCGAGTGAACTTTTGAGC
92241 ACTTGACCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (41 bp):
GCAAGGATACGAACCCCTGTCTTCCGAGTGAACTTTTGAGC
Found at i:93111 original size:17 final size:17
Alignment explanation
Indices: 93091--93124 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
93081 CATGCAACCA
93091 AAATTTTGCCATAGGGT
1 AAATTTTGCCATAGGGT
93108 AAATTTTGCCATAGGGT
1 AAATTTTGCCATAGGGT
93125 CTCGGGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (17 bp):
AAATTTTGCCATAGGGT
Found at i:95602 original size:91 final size:91
Alignment explanation
Indices: 95447--95629 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
95437 GGAAAATTAC
*
95447 CAATTTCTTCTCTCTCTCTAAAATCTCTCTTCTCCTATCTGCTTCACTCCATTTTCGTGCACCAG
1 CAATTTCTTCTCTCTCTCTAAAATCTCTATTCTCCTATCTGCTTCACTCCATTTTCGTGCACCAG
95512 ATACTAATTTATCTTCCGTTTTAGAT
66 ATACTAATTTATCTTCCGTTTTAGAT
95538 CAATTTCTTCTCTCTCTCTAAAATCTCTATTCTCCTATCTGCTTCACTCCATTTTCGTGCACCAG
1 CAATTTCTTCTCTCTCTCTAAAATCTCTATTCTCCTATCTGCTTCACTCCATTTTCGTGCACCAG
95603 ATACTAATTTATCTTCCGTTTTAGAT
66 ATACTAATTTATCTTCCGTTTTAGAT
95629 C
1 C
95630 CATCTTCAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.44
Consensus pattern (91 bp):
CAATTTCTTCTCTCTCTCTAAAATCTCTATTCTCCTATCTGCTTCACTCCATTTTCGTGCACCAG
ATACTAATTTATCTTCCGTTTTAGAT
Found at i:97657 original size:25 final size:25
Alignment explanation
Indices: 97627--97678 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
97617 AGTTTTCTGT
97627 TTTGGTTATTTAATTATAAAAAGTA
1 TTTGGTTATTTAATTATAAAAAGTA
97652 TTTGGTTATTTAATTATAAAAAGTA
1 TTTGGTTATTTAATTATAAAAAGTA
97677 TT
1 TT
97679 AACTTTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
TTTGGTTATTTAATTATAAAAAGTA
Found at i:99305 original size:22 final size:21
Alignment explanation
Indices: 99280--99322 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
99270 ATTCACTCTG
*
99280 TTATTCTTTATTTCATAGTTTT
1 TTATTCTTTATTTAAT-GTTTT
*
99302 TTATTTTTTATTTAATGTTTT
1 TTATTCTTTATTTAATGTTTT
99323 CAATTTGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (21 bp):
TTATTCTTTATTTAATGTTTT
Found at i:99328 original size:21 final size:22
Alignment explanation
Indices: 99286--99328 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
99276 TCTGTTATTC
* **
99286 TTTATTTCATAGTTTTTTATTT
1 TTTATTTAATAGTTTTCAATTT
99308 TTTATTTAAT-GTTTTCAATTT
1 TTTATTTAATAGTTTTCAATTT
99329 GCAGGTGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTATTTAATAGTTTTCAATTT
Found at i:99944 original size:2 final size:2
Alignment explanation
Indices: 99937--99976 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
99927 TTCACTTGGG
99937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99977 GCTGTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102740 original size:3 final size:3
Alignment explanation
Indices: 102732--102800 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
102722 TGATCATTTA
102732 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
102780 TCT TCT TCT TCT CCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT
102801 GTGATCCGTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:107193 original size:52 final size:52
Alignment explanation
Indices: 107031--107566 Score: 849
Period size: 52 Copynumber: 10.4 Consensus size: 52
107021 CCTGTTATAA
* * *
107031 TTTAAAAATTTTAGTAATTA-AGAGACCGATGAGGGCTGTCCCTTCAAACA-
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
107081 TTTAAAAAATTTTAGTAATTA-GGAGACC-AGTGAGGGCTGTCCCTCCAAACAT
1 TTTAAAAAA-TTTAGTAATTAGGGAGACCGA-TGAGGGCTGTCCCTCCAAACAT
*
107133 TTTAAAAAAATGTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
1 TTT-AAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
* *
107186 TTTAAAAATTTTAGTAATTA-GGAGACCAATGAGGGCTGTCCCTCCAAACA-
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
107236 TTTAAAAAATTTTAGTAATTA-GGAGACCGATGAGGGCTGTCCCTCCAAACA-
1 TTTAAAAAA-TTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
107287 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
*
107339 TTTAAAATATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
*
107391 TTTTAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
*
107443 TTTAAAAAATTTAGTGATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
* * *
107495 TTTAAAAAATTTAGTAATTA-GGAGACCTATGAGAGCTGTCTCTCCAAACATT
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACA-T
107547 TTTAAAAAA-TTAGTAATTAG
1 TTTAAAAAATTTAGTAATTAG
107567 CATAGTGACA
Statistics
Matches: 457, Mismatches: 18, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
50 28 0.06
51 182 0.40
52 208 0.46
53 38 0.08
54 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (52 bp):
TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
Found at i:107983 original size:229 final size:224
Alignment explanation
Indices: 107586--107999 Score: 668
Period size: 229 Copynumber: 1.8 Consensus size: 224
107576 AGATGCGGAA
* * * *
107586 GATACAAGGCAGACATGGAGGGTACTTTGACAACATAGATAATAATGGTAGTGACAGACGCGGAA
1 GATACAAGGCAGACATGGAGGGCACTTTGACAACATAGACAACAATCGTAGTGACAGACGCGGAA
*
107651 GATACAGTAAATGGCCAGCAGCTGCAAATGAAGTAAGTTTATCATATTCTTAAATTTCCATTCTT
66 GATACAGCAAATGGCCAGCAGCTGCAAATGAAGTAAGTTTATCATATTCTTAAATTTCCATTCTT
** *
107716 TATGATAAAATGTTTTATTTGTGAATATTCCGTTGCATGTGGCTGATAAAATCTTTTTCTTGTTC
131 TACAATAAAATGTTTTATTTGTGAATATTCCATTGCATGTGGCTGATAAAATCTTTTTCTTGTTC
107781 GTTTTTTGTCCCAGGTAGTTCTTGTGGCT
196 GTTTTTTGTCCCAGGTAGTTCTTGTGGCT
* *
107810 GATACAAGGCAGACATTGAGGGCACTTTGACAACATATACAACAATCGTAGTGACAGACGCGGAA
1 GATACAAGGCAGACATGGAGGGCACTTTGACAACATAGACAACAATCGTAGTGACAGACGC-G--
*
107875 CCAGAAGATACAGCAAATGGCCA-TAGCTGCAAATGAAGTAAGTTTATCATATTCTTAAATTTCC
63 ---GAAGATACAGCAAATGGCCAGCAGCTGCAAATGAAGTAAGTTTATCATATTCTTAAATTTCC
107939 ATTCTTTACAATAAAATGTTTTATTTGTGAATATTCCATTGCATGTGGCTGATAAAATCTT
125 ATTCTTTACAATAAAATGTTTTATTTGTGAATATTCCATTGCATGTGGCTGATAAAATCTT
108000 CCTTTTTTTT
Statistics
Matches: 173, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
224 55 0.32
225 1 0.01
229 98 0.57
230 19 0.11
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (224 bp):
GATACAAGGCAGACATGGAGGGCACTTTGACAACATAGACAACAATCGTAGTGACAGACGCGGAA
GATACAGCAAATGGCCAGCAGCTGCAAATGAAGTAAGTTTATCATATTCTTAAATTTCCATTCTT
TACAATAAAATGTTTTATTTGTGAATATTCCATTGCATGTGGCTGATAAAATCTTTTTCTTGTTC
GTTTTTTGTCCCAGGTAGTTCTTGTGGCT
Found at i:108285 original size:51 final size:52
Alignment explanation
Indices: 108204--108483 Score: 458
Period size: 52 Copynumber: 5.4 Consensus size: 52
108194 ATTTAAAGAG
* * * *
108204 TTTAAAAATTTTAGTAATTA-GGAGATCGATGAGGGTTGTCCCTCCAAATAT
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
108255 TTTAAAAAATTTAGTAATTA-GGAGACCGATGAGGGCTGTCCCTCCAAACAT
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
*
108306 TTTAAAAATTTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
1 TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
108358 TTTAAAAAATCTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACA-
1 TTTAAAAAAT-TTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
*
108410 TTTAAAAAGATTTAGTAATTAGGGAGACCGATGAGGGATGTCCCTCCAAACAT
1 TTTAAAAA-ATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
*
108463 TTTCAAAAATTTAGTAATTAG
1 TTTAAAAAATTTAGTAATTAG
108484 CATAGTGACA
Statistics
Matches: 217, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
51 66 0.30
52 101 0.47
53 50 0.23
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (52 bp):
TTTAAAAAATTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
Found at i:108424 original size:105 final size:104
Alignment explanation
Indices: 108204--108483 Score: 467
Period size: 105 Copynumber: 2.7 Consensus size: 104
108194 ATTTAAAGAG
* * *
108204 TTTAAAAATTTTAGTAATTA-GGAGATCGATGAGGGTTGTCCCTCCAAATATTTTAAAAAATTTA
1 TTTAAAAATTTTAGTAATTAGGGAGACCGATGAGGGATGTCCCTCCAAACATTTTAAAAAATTTA
108268 GTAATTA-GGAGACCGATGAGGGCTGTCCCTCCAAACAT
66 GTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
*
108306 TTTAAAAATTTTAGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACATTTTAAAAAATCTT
1 TTTAAAAATTTTAGTAATTAGGGAGACCGATGAGGGATGTCCCTCCAAACATTTTAAAAAAT-TT
108371 AGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACA-
65 AGTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
* *
108410 TTTAAAAAGATTTAGTAATTAGGGAGACCGATGAGGGATGTCCCTCCAAACATTTTCAAAAATTT
1 TTTAAAAA-TTTTAGTAATTAGGGAGACCGATGAGGGATGTCCCTCCAAACATTTTAAAAAATTT
108475 AGTAATTAG
65 AGTAATTAG
108484 CATAGTGACA
Statistics
Matches: 168, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
102 20 0.12
103 38 0.23
104 29 0.17
105 81 0.48
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (104 bp):
TTTAAAAATTTTAGTAATTAGGGAGACCGATGAGGGATGTCCCTCCAAACATTTTAAAAAATTTA
GTAATTAGGGAGACCGATGAGGGCTGTCCCTCCAAACAT
Found at i:109860 original size:35 final size:35
Alignment explanation
Indices: 109821--109894 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
109811 ACGGATGAGA
*
109821 TTAAAAGATGGAGATAATCCTACTTGCCTTTGTTT
1 TTAAAAGATGGAGATAACCCTACTTGCCTTTGTTT
109856 TTAAAAGATGGAGATAACCCTACTTGCCTTTGTTT
1 TTAAAAGATGGAGATAACCCTACTTGCCTTTGTTT
109891 TTAA
1 TTAA
109895 CAATTAACGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (35 bp):
TTAAAAGATGGAGATAACCCTACTTGCCTTTGTTT
Found at i:111104 original size:15 final size:15
Alignment explanation
Indices: 111084--111113 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
111074 GCAATGGGCC
111084 CATTTTGTTGCATTT
1 CATTTTGTTGCATTT
*
111099 CATTTTTTTGCATTT
1 CATTTTGTTGCATTT
111114 TCAATAGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.63
Consensus pattern (15 bp):
CATTTTGTTGCATTT
Found at i:113584 original size:324 final size:320
Alignment explanation
Indices: 112689--114437 Score: 1788
Period size: 324 Copynumber: 5.5 Consensus size: 320
112679 CGAAATCGTG
* *
112689 TTGTTTCGATTTAATTAGAAATTAAGTCAGAAAATAAATGGAAAAACGATATTAGAAACGTG-AA
1 TTGTTTCGATTTAATTAGAAATTAATTC-GAAAA-AAA-GGAAAAACGATATTAGAAGCGTGAAA
* * * * *
112753 AA-CCGTGTAATGTTTTTGCCGTTGAATTATAT-TTTTTT-TGAATATTGTGGCAAAAAATTGAG
63 AACCCGT-CAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTG-G
* * * * *
112815 AAAAAAATTTTTC-GTGTC-GTTTTTAACCGAAATCTTGTACTAACCATCATTGTTTTTC-GCTA
126 AAAAAAACTTTTCTG-GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCA-CGGTTTTCGGCTA
* * * * * * * * * * * *
112877 AAAACGCGTTTTGGGTCTCC-ACTCAGTTTTGCATGGTTCTTAGCATACAGACCCCATGAAAAAT
189 AAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATAT
* * * * *
112941 GTATATTCATGTAACCAAATATCAGGCACATTGGATTTAAAGATTTGTTTTTACGAGAATCTGAA
254 CTATATTCATGTAACCAAATGTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAA
113006 TC
319 TC
* * * * **
113008 TTGTTTTGATTTTATTAGAAATAAATTCAGAAAAAAAGGAAAAACGATATT-GTTAGTTTGAAAA
1 TTGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAAGGAAAAACGATATTAG-AAGCGTGAAAA
* * *
113072 ACCCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATT-GAGG
64 ACCCGTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGGA-A
* *
113136 AAAAACTTTTCGGGTCAATTTTTGCAAAATTTTGGCCGAAATCGTGTACTAACCATCACGGTTTT
128 AAAAACTTTTCTGGTCAGTTTTT-----A-----GCCGAAATCGTGTACTAACCATCACGGTTTT
* * * ** ** * *
113201 TGGTTAAAAACGCGTTACGAAGTGCCGGCCCAATTTTGCATGATTTTTGGC-GCAAAGACTCCTT
183 CGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTT
* * * *
113265 GAAATATCAATATTCATCG-AACCAAATGTCAGCCACATTGGATATAAAGATTTGTTTTTACAAG
247 GAAATATCTATATTCAT-GTAACCAAATGTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAG
*
113329 CA-CATGAATT
311 CATC-TGAATC
* *
113339 TTGTTTTGATTTAATTAGAAATTAATTCGGGAAAAAAATTGGAAAAACGTTATTAGAAGCGTGAA
1 TTGTTTCGATTTAATTAGAAATTAATTC--GAAAAAAA--GGAAAAACGATATTAGAAGCGTGAA
* * * * **
113404 AAGCCCGTCAATCTTTTTGACATTGAATTATATATTTTTTCTGATTATT-TCACAATAAAATTGG
62 AAACCCGTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAA-AAAATTGG
* * **
113468 AAAAAAACTTTTCTGCTCAGTTTTTAGTCGAAATCGAT-TACTAACCATCACGGTTTTCAACTAA
126 AAAAAAACTTTTCTGGTCAGTTTTTAGCCGAAATCG-TGTACTAACCATCACGGTTTTCGGCTAA
*
113532 AAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATC
190 AAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATC
* * * *
113597 TATATTCATGTAACCAAATTTAAGCCACAATGAATTTAAGGATTTGTTTTTACGAGCATCTGAAT
255 TATATTCATGTAACCAAATGTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
113662 C
320 C
* * * *
113663 TTGTTTCAATTTAATAAGAAATAAATTC-AAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAAC
1 TTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAAC
* * * *
113727 AC-TCTATTTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATT-GAGGA
66 CCGTC-AATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGGA-AA
* * * ** * *
113790 AAAACTTTTCGGGTCAATTTTT-G-CAAAAT--T-T--T-GGCATCACGGTTTTTGGTTAAAAAC
129 AAAACTTTTCTGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAAC
* ** ** * **
113847 GCGTTCCGAAGTGCCGGCTCAATTTTGCATGATTTTTGG-AGCAAAGACTCCTTGAAATATGAAT
194 GCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTAT
* *
113911 ATTTATCG-AACCAAATGTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCA-CATGAATC
258 ATTCAT-GTAACCAAATGTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATC-TGAATC
* *
113974 TTGTTTTGATTTAGTTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAA
1 TTGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAA--GGAAAAACGATATTAGAAGCGTGAAA
* * ** *
114039 AACCCGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTGATTATT-TCACAATGAAATTGGA
63 AACCCGTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAA-AAAATTGG-
* *
114103 AAAAAAACTTTTCTGGTCAGTTTTTAGTCGAAATCGTGTACTAATCATCACGGTTTTCGGCTAAA
126 AAAAAAACTTTTCTGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAA
*
114168 AACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCT
191 AACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCT
* * * * *
114233 ATATTCATGTAACCAAATTTAAGACACAATGGATTTAAGGATTTGTTTTTACGAGAATCTGAATC
256 ATATTCATGTAACCAAATGTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC
* *
114298 TTGTTTCAATTTAATAAGAAATTAATTC---AAAAA--AAAAACGATATTAGAAGCGTGAAAAAC
1 TTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAAC
* * * * * * *
114358 ACTTTAATTTTTTTGACATTTAATTATATATTTTTTCTGAGTATTGTGCCAAAAAAATT-GAGGA
66 CCGTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTGGA-AA
*
114422 AAAACTTTTCGGGTCA
129 AAAACTTTTCTGGTCA
114438 ATTCATCTGA
Statistics
Matches: 1185, Mismatches: 184, Indels: 125
0.79 0.12 0.08
Matches are distributed among these distances:
310 3 0.00
311 147 0.12
312 2 0.00
313 7 0.01
314 6 0.01
315 71 0.06
316 107 0.09
317 31 0.03
318 43 0.04
319 140 0.12
320 36 0.03
321 8 0.01
323 3 0.00
324 312 0.26
325 7 0.01
329 6 0.01
330 39 0.03
331 113 0.10
332 9 0.01
333 4 0.00
334 88 0.07
335 3 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (320 bp):
TTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAAAC
CCGTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGGAAAAA
AACTTTTCTGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGC
GTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATT
CATGTAACCAAATGTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC
Found at i:114109 original size:635 final size:637
Alignment explanation
Indices: 112689--114440 Score: 2457
Period size: 635 Copynumber: 2.7 Consensus size: 637
112679 CGAAATCGTG
* * * *
112689 TTGTTTCGATTTAATTAGAAATTAAGTCAGAAAATAAA-TGGAAAAACGATATTAGAAACGTG-A
1 TTGTTTTGATTTAATTAGAAATTAATTCGGAAAA-AAATTGGAAAAACGATATTAGAAGCGTGAA
* * * * * **
112752 AAA-CCGTGTAATGTTTTTGCCGTTGAATTATAT-TTTTTT-TGAATATTGTGGCAA-AAAATT-
65 AAACCCGT-CAATCTTTTTGACATTGAATTATATATTTTTTCTGATTATT-TCACAATAAAATTG
* ** * * *
112812 GAGAAAAAAATTTTTCGTGTC-GTTTTTAACCGAAATCTTGTACTAACCATCATTGTTTTTCGCT
128 GA-AAAAAAACTTTTC-TGTCAGTTTTTAGTCGAAATCGTGTACTAACCATCA-CGGTTTTCGCT
* * * * * * * * * * * * *
112876 AAAAACGCGTTTTGGGTCTCC-ACTCAGTTTTGCATGGTTCTTAGCATACAGACCCCATGAAAAA
190 AAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATA
* * * * * *
112940 TGTATATTCATGTAACCAAATATCAGGCACATTGGATTTAAAGATTTGTTTTTACGAGAATCTGA
255 TCTATATTCATGTAACCAAATTTAAGACACAATGGATTTAAGGATTTGTTTTTACGAGAATCTGA
** * * * **
113005 ATCTTGTTTTGATTTTATTAGAAATAAATTCAGAAAAAAAGGAAAAACGATATT-GTTAGTTTGA
320 ATCTTGTTTCAATTTAATAAGAAATAAATTCA-AAAAAAA-GAAAAACGATATTAG-AAGCGTGA
*
113069 AAAACCCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA
382 AAAACACTT-AATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA
113134 GGAAAAACTTTTCGGGTCAATTTTTGCAAAATTTTGGCCGAAATCGTGTACTAACCATCACGGTT
446 GGAAAAACTTTTCGGGTCAATTTTTGCAAAATTTT-------ATCGTG-----A-CATCACGGTT
*
113199 TTTGGTTAAAAACGCGTTACGAAGTGCCGGCCCAATTTTGCATGATTTTTGGCGCAAAGACTCCT
498 TTTGGTTAAAAACGCGTTACGAAGTGCCGGCCCAATTTTGCATGATTTTTGGAGCAAAGACTCCT
113264 TGAAATATCAATATTCATCGAACCAAATGTCAGCCACATTGGATATAAAGATTTGTTTTTACAAG
563 TGAAATATCAATATTCATCGAACCAAATGTCAGCCACATTGGATATAAAGATTTGTTTTTACAAG
*
113329 CACATGAATT
628 CACATGAATC
*
113339 TTGTTTTGATTTAATTAGAAATTAATTCGGGAAAAAAATTGGAAAAACGTTATTAGAAGCGTGAA
1 TTGTTTTGATTTAATTAGAAATTAATTC-GGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAA
*
113404 AAGCCCGTCAATCTTTTTGACATTGAATTATATATTTTTTCTGATTATTTCACAATAAAATTGG-
65 AAACCCGTCAATCTTTTTGACATTGAATTATATATTTTTTCTGATTATTTCACAATAAAATTGGA
*
113468 AAAAAAACTTTTCTGCTCAGTTTTTAGTCGAAATCGAT-TACTAACCATCACGGTTTTCAACTAA
130 AAAAAAACTTTTCTG-TCAGTTTTTAGTCGAAATCG-TGTACTAACCATCACGGTTTTC-GCTAA
113532 AAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATC
192 AAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATC
* * *
113597 TATATTCATGTAACCAAATTTAAGCCACAATGAATTTAAGGATTTGTTTTTACGAGCATCTGAAT
257 TATATTCATGTAACCAAATTTAAGACACAATGGATTTAAGGATTTGTTTTTACGAGAATCTGAAT
113662 CTTGTTTCAATTTAATAAGAAATAAATTCAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAAC
322 CTTGTTTCAATTTAATAAGAAATAAATTCAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAAC
*
113727 ACTCTATTTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAA
387 ACT-TAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAA
113792 AACTTTTCGGGTCAATTTTTGCAAAA-TTT-T-G-G-CATCACGGTTTTTGGTTAAAAACGCGTT
451 AACTTTTCGGGTCAATTTTTGCAAAATTTTATCGTGACATCACGGTTTTTGGTTAAAAACGCGTT
* * * *
113852 CCGAAGTGCCGGCTCAATTTTGCATGATTTTTGGAGCAAAGACTCCTTGAAATATGAATATTTAT
516 ACGAAGTGCCGGCCCAATTTTGCATGATTTTTGGAGCAAAGACTCCTTGAAATATCAATATTCAT
* *
113917 CGAACCAAATGTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCACATGAATC
581 CGAACCAAATGTCAGCCACATTGGATATAAAGATTTGTTTTTACAAGCACATGAATC
*
113974 TTGTTTTGATTTAGTTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAA
1 TTGTTTTGATTTAATTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAA
* *
114039 AACCCGTCAATCTTTTTGGCATTGAATTATATATTTTTTCTGATTATTTCACAATGAAATTGGAA
66 AACCCGTCAATCTTTTTGACATTGAATTATATATTTTTTCTGATTATTTCACAATAAAATTGGAA
*
114104 AAAAAACTTTTCTGGTCAGTTTTTAGTCGAAATCGTGTACTAATCATCACGGTTTTCGGCTAAAA
131 AAAAAACTTTTCT-GTCAGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTC-GCTAAAA
114169 ACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTA
194 ACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTA
114234 TATTCATGTAACCAAATTTAAGACACAATGGATTTAAGGATTTGTTTTTACGAGAATCTGAATCT
259 TATTCATGTAACCAAATTTAAGACACAATGGATTTAAGGATTTGTTTTTACGAGAATCTGAATCT
*
114299 TGTTTCAATTTAATAAGAAATTAATTC---AAAAA-AAAAACGATATTAGAAGCGTGAAAAACAC
324 TGTTTCAATTTAATAAGAAATAAATTCAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAACAC
* * * *
114360 TTTAATTTTTTTGACATTTAATTATATATTTTTTCTGAGTATTGTGCCAAAAAAATTGAGGAAAA
389 -TTAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTGAGGAAAA
114425 ACTTTTCGGGTCAATT
452 ACTTTTCGGGTCAATT
114441 CATCTGAATT
Statistics
Matches: 1007, Mismatches: 75, Indels: 58
0.88 0.07 0.05
Matches are distributed among these distances:
631 70 0.07
632 38 0.04
634 97 0.10
635 381 0.38
636 1 0.00
642 1 0.00
643 1 0.00
644 1 0.00
650 29 0.03
651 27 0.03
652 29 0.03
653 144 0.14
654 68 0.07
655 120 0.12
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (637 bp):
TTGTTTTGATTTAATTAGAAATTAATTCGGAAAAAAATTGGAAAAACGATATTAGAAGCGTGAAA
AACCCGTCAATCTTTTTGACATTGAATTATATATTTTTTCTGATTATTTCACAATAAAATTGGAA
AAAAAACTTTTCTGTCAGTTTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTCGCTAAAAAC
GCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAGATATCTATA
TTCATGTAACCAAATTTAAGACACAATGGATTTAAGGATTTGTTTTTACGAGAATCTGAATCTTG
TTTCAATTTAATAAGAAATAAATTCAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAACACTT
AATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTT
TTCGGGTCAATTTTTGCAAAATTTTATCGTGACATCACGGTTTTTGGTTAAAAACGCGTTACGAA
GTGCCGGCCCAATTTTGCATGATTTTTGGAGCAAAGACTCCTTGAAATATCAATATTCATCGAAC
CAAATGTCAGCCACATTGGATATAAAGATTTGTTTTTACAAGCACATGAATC
Found at i:114608 original size:156 final size:153
Alignment explanation
Indices: 114298--114609 Score: 475
Period size: 156 Copynumber: 2.0 Consensus size: 153
114288 AATCTGAATC
*
114298 TTGTTTCAATTTAATAAGAAATTAATTCAAAAAAAAAACGATATTAGAAGCGTGAAAAACACTTT
1 TTGTTTCAATTTAATAAGAAATAAATTCAAAAAAAAAACGATATTAGAAGCGTGAAAAACACTTT
* *
114363 AATTTTTTTGACATTTAATTATATATTTTTTCTGAGTATTGTGCCAAAAAAATTGAGGAAAAACT
66 AATTTTTTTGACATTGAATTATATATTTTTTCTGAGTATTGTGCCAAAAAAATTAAGGAAAAACT
**
114428 TTTCGGGTCAATTCATCTGAATT
131 TTTCGGGTCAATTCATCAAAATT
114451 TTGTTTCAATTTAATAAGAAATAAATTCAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAACA
1 TTGTTTCAATTTAATAAGAAATAAATTC---AAAAA-AAAAACGATATTAGAAGCGTGAAAAACA
* * *
114516 CTTT-ATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTAAGGAAA
62 CTTTAATTTTTTTGACATTGAATTATATATTTTTTCTGAGTATTGTGCCAAAAAAATTAAGGAAA
**
114579 AACTTTTCGGGTCAATTTTTGCAAAATT
127 AACTTTTCGGGTCAATTCAT-CAAAATT
114607 TTG
1 TTG
114610 GCATCACGGT
Statistics
Matches: 144, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
153 27 0.19
155 32 0.22
156 53 0.37
157 32 0.22
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (153 bp):
TTGTTTCAATTTAATAAGAAATAAATTCAAAAAAAAAACGATATTAGAAGCGTGAAAAACACTTT
AATTTTTTTGACATTGAATTATATATTTTTTCTGAGTATTGTGCCAAAAAAATTAAGGAAAAACT
TTTCGGGTCAATTCATCAAAATT
Done.