Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014241.1 Corchorus olitorius cultivar O-4 contig14274, 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: 244063
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:7926 original size:37 final size:37
Alignment explanation
Indices: 7885--7956 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
7875 TCTTAATAAC
7885 TTTGAAAGGCTTGTGGGGTTTTCTTTTCTTACATTAA
1 TTTGAAAGGCTTGTGGGGTTTTCTTTTCTTACATTAA
*
7922 TTTGAAAGGCTTGTGGGGTTTTGTTTTCTTACATT
1 TTTGAAAGGCTTGTGGGGTTTTCTTTTCTTACATT
7957 TGTCCTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.17, C:0.10, G:0.24, T:0.50
Consensus pattern (37 bp):
TTTGAAAGGCTTGTGGGGTTTTCTTTTCTTACATTAA
Found at i:18940 original size:15 final size:15
Alignment explanation
Indices: 18920--18952 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
18910 GATAGTCAGG
18920 TTTTTTATTTGGTTA
1 TTTTTTATTTGGTTA
18935 TTTTTTATTTGGTTA
1 TTTTTTATTTGGTTA
18950 TTT
1 TTT
18953 AATTATAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTTTTATTTGGTTA
Found at i:29000 original size:93 final size:91
Alignment explanation
Indices: 28716--29122 Score: 575
Period size: 93 Copynumber: 4.5 Consensus size: 91
28706 ATTTGAACTG
* * ** *
28716 GCACCACTACACCTTTATGTATAATAGGAATGCCATTGTTTGCGTCTTTTACTGCGTATTAAGAA
1 GCACCATTATACCTTTATGTATAATAGGAATGCCACGGTTTGCGTCTTTTACTGCATATTAAGAA
*
28781 TT-CCATTACCAACTTTTGTTCCAAT
66 TTCCCATTACCAACTTTTATTCCAAT
*
28806 GCACCATTATACCTTTATGTATAATAGGAATGCCACGGTTTGCTTCTTTTACTGCATATTAAGAA
1 GCACCATTATACCTTTATGTATAATAGGAATGCCACGGTTTGCGTCTTTTACTGCATATTAAGAA
* *
28871 TTTCCATTACCAACTTTAATTCCAAT
66 TTCCCATTACCAACTTTTATTCCAAT
* *
28897 GCACCATTATACCTTTATGTATAATAGGAATGCCACTGTTTGCGCGTCTTTTACTGCATATTTAG
1 GCACCATTATACCTTTATGTATAATAGGAATGCCACGGTTT--GCGTCTTTTACTGCATATTAAG
* *
28962 AATTCCCATAACCAACTTTTATTCCGAT
64 AATTCCCATTACCAACTTTTATTCCAAT
* * * *
28990 GCACCATTATACCTTGATGTATAATAGGAATGCCACGGTTTATGCGTCTTTTATTGAATATTTAG
1 GCACCATTATACCTTTATGTATAATAGGAATGCCACGG-TT-TGCGTCTTTTACTGCATATTAAG
* * * *
29055 -ATTCCCATTGCCATCTTTGATTCCGAT
64 AATTCCCATTACCAACTTTTATTCCAAT
29082 GCACCATTATACCTTTATGTATAATAGGAATGCCACGGTTT
1 GCACCATTATACCTTTATGTATAATAGGAATGCCACGGTTT
29123 AAGAATTCCC
Statistics
Matches: 288, Mismatches: 24, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
90 62 0.22
91 63 0.22
92 60 0.21
93 100 0.35
94 2 0.01
95 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (91 bp):
GCACCATTATACCTTTATGTATAATAGGAATGCCACGGTTTGCGTCTTTTACTGCATATTAAGAA
TTCCCATTACCAACTTTTATTCCAAT
Found at i:29155 original size:72 final size:72
Alignment explanation
Indices: 29055--29194 Score: 253
Period size: 72 Copynumber: 1.9 Consensus size: 72
29045 GAATATTTAG
* *
29055 ATTCCCATTGCCATCTTTGATTCCGATGCACCATTATACCTTTATGTATAATAGGAATGCCACGG
1 ATTCCCATTACCAACTTTGATTCCGATGCACCATTATACCTTTATGTATAATAGGAATGCCACGG
29120 TTTAAGA
66 TTTAAGA
*
29127 ATTCCCATTACCAACTTTTATTCCGATGCACCATTATACCTTTATGTATAATAGGAATGCCACGG
1 ATTCCCATTACCAACTTTGATTCCGATGCACCATTATACCTTTATGTATAATAGGAATGCCACGG
29192 TTT
66 TTT
29195 GCGCATCTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (72 bp):
ATTCCCATTACCAACTTTGATTCCGATGCACCATTATACCTTTATGTATAATAGGAATGCCACGG
TTTAAGA
Found at i:29334 original size:93 final size:90
Alignment explanation
Indices: 29122--29311 Score: 242
Period size: 93 Copynumber: 2.1 Consensus size: 90
29112 TGCCACGGTT
* *
29122 TAAGAATTCCCATTACCAACTTTTATTCCGATGCACCATTATACCTTTATGTATAATAGGAATGC
1 TAAGAATTCCCATTACAAACTTTTATTCCGATGCACCATTATACCTTGATGTATAATAGGAATGC
* *
29187 CACGGTTTGCGCATCTTTTACTGCATAT
66 CAC-GTTAGCGCA-CTTTTAC-GCATAA
* *
29215 TCAGAATTCCCATTACCAACTTTTATTCCGATGCACCATTATACCTTGATGTATAATAGGAATGC
1 TAAGAATTCCCATTACAAACTTTTATTCCGATGCACCATTATACCTTGATGTATAATAGGAATGC
*
29280 CAC-TATAGTGC-CTTTTA-GCATTCAA
66 CACGT-TAGCGCACTTTTACGCA-T-AA
29305 TAAGAAT
1 TAAGAAT
29312 GCCATGTATC
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
88 3 0.03
89 1 0.01
90 13 0.15
91 1 0.01
92 4 0.05
93 66 0.75
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (90 bp):
TAAGAATTCCCATTACAAACTTTTATTCCGATGCACCATTATACCTTGATGTATAATAGGAATGC
CACGTTAGCGCACTTTTACGCATAA
Found at i:30394 original size:62 final size:62
Alignment explanation
Indices: 30327--30448 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
30317 GGCTATTTAA
30327 AAAAAAAAAAGGAAAAATGAATATGGAGACTATAAACTATAGGCAAATTATACAATACACAAC
1 AAAAAAAAAA-GAAAAATGAATATGGAGACTATAAACTATAGGCAAATTATACAATACACAAC
*
30390 AAAAAAAAAAGAAAAATGAATATGGAGACTATAAACTATAGGTAAATTATACAATACAC
1 AAAAAAAAAAGAAAAATGAATATGGAGACTATAAACTATAGGCAAATTATACAATACAC
30449 CGACGGTGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 48 0.83
63 10 0.17
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.19
Consensus pattern (62 bp):
AAAAAAAAAAGAAAAATGAATATGGAGACTATAAACTATAGGCAAATTATACAATACACAAC
Found at i:30995 original size:2 final size:2
Alignment explanation
Indices: 30952--30984 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
30942 ATGCATAACG
30952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30985 GTTCATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34824 original size:21 final size:22
Alignment explanation
Indices: 34784--34827 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
34774 AAAAGAAGAT
34784 ATATAGAAGCACACGGACCACAA
1 ATATAGAAG-ACACGGACCACAA
*
34807 ATATAGAAG-CATGGACCACAA
1 ATATAGAAGACACGGACCACAA
34828 TTCCAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (22 bp):
ATATAGAAGACACGGACCACAA
Found at i:47949 original size:24 final size:24
Alignment explanation
Indices: 47917--47965 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47907 GCAATTCTTC
47917 TCACTAGTTTTTTATTATTAGAAT
1 TCACTAGTTTTTTATTATTAGAAT
47941 TCACTAGTTTTTTATTATTAGAAT
1 TCACTAGTTTTTTATTATTAGAAT
47965 T
1 T
47966 TATTATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (24 bp):
TCACTAGTTTTTTATTATTAGAAT
Found at i:47969 original size:13 final size:13
Alignment explanation
Indices: 47951--48042 Score: 64
Period size: 13 Copynumber: 7.2 Consensus size: 13
47941 TCACTAGTTT
47951 TTTATTATTAGAA
1 TTTATTATTAGAA
*
47964 TTTATTATTTGAA
1 TTTATTATTAGAA
* ** **
47977 TTTTTTGCTAGTT
1 TTTATTATTAGAA
47990 TTTATTATTAGAA
1 TTTATTATTAGAA
* * *
48003 TTCACTAGTT---T
1 TTTATTA-TTAGAA
48014 TTTATTATTAGAA
1 TTTATTATTAGAA
*
48027 TTTATTATTTGAA
1 TTTATTATTAGAA
48040 TTT
1 TTT
48043 TTTGCTATTG
Statistics
Matches: 56, Mismatches: 19, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
10 2 0.04
11 5 0.09
13 47 0.84
14 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.60
Consensus pattern (13 bp):
TTTATTATTAGAA
Found at i:48010 original size:23 final size:24
Alignment explanation
Indices: 47984--48028 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
47974 GAATTTTTTG
47984 CTAG-TTTTTATTATTAGAATTCA
1 CTAGTTTTTTATTATTAGAATTCA
48007 CTAGTTTTTTATTATTAGAATT
1 CTAGTTTTTTATTATTAGAATT
48029 TATTATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.56
Consensus pattern (24 bp):
CTAGTTTTTTATTATTAGAATTCA
Found at i:48020 original size:63 final size:64
Alignment explanation
Indices: 47920--48049 Score: 253
Period size: 63 Copynumber: 2.0 Consensus size: 64
47910 ATTCTTCTCA
47920 CTAGTTTTTTATTATTAGAATTCACTAGTTTTTTATTATTAGAATTTATTATTTGAATTTTTTG
1 CTAGTTTTTTATTATTAGAATTCACTAGTTTTTTATTATTAGAATTTATTATTTGAATTTTTTG
47984 CTAG-TTTTTATTATTAGAATTCACTAGTTTTTTATTATTAGAATTTATTATTTGAATTTTTTG
1 CTAGTTTTTTATTATTAGAATTCACTAGTTTTTTATTATTAGAATTTATTATTTGAATTTTTTG
48047 CTA
1 CTA
48050 TTGAAATTAA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 62 0.94
64 4 0.06
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.58
Consensus pattern (64 bp):
CTAGTTTTTTATTATTAGAATTCACTAGTTTTTTATTATTAGAATTTATTATTTGAATTTTTTG
Found at i:48112 original size:51 final size:52
Alignment explanation
Indices: 48024--48127 Score: 201
Period size: 51 Copynumber: 2.0 Consensus size: 52
48014 TTTATTATTA
48024 GAATTTATTATTTGAATTTTTTGCTATTGAAATTAAAAACAGAAAAAATGCG
1 GAATTTATTATTTGAATTTTTTGCTATTGAAATTAAAAACAGAAAAAATGCG
48076 GAATTTATTATTTGAA-TTTTTGCTATTGAAATTAAAAACAGAAAAAATGCG
1 GAATTTATTATTTGAATTTTTTGCTATTGAAATTAAAAACAGAAAAAATGCG
48127 G
1 G
48128 TGAGCGTGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 36 0.69
52 16 0.31
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (52 bp):
GAATTTATTATTTGAATTTTTTGCTATTGAAATTAAAAACAGAAAAAATGCG
Found at i:72512 original size:18 final size:18
Alignment explanation
Indices: 72484--72526 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
72474 AAAACAGTTT
*
72484 CTGCTGAGGCAACAAAGC
1 CTGCTGTGGCAACAAAGC
*
72502 CTTCTGTGGCAACAAAGC
1 CTGCTGTGGCAACAAAGC
72520 CTGCTGT
1 CTGCTGT
72527 AGATGCTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.21
Consensus pattern (18 bp):
CTGCTGTGGCAACAAAGC
Found at i:73958 original size:36 final size:36
Alignment explanation
Indices: 73886--73958 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
73876 AACCGGAGCC
* *
73886 AGCAAGCCTCAAACAGCTTCCCCAGTTCCGTTGGCA
1 AGCAAGCCTCAAACAGCTTCCCCAGTTCCATCGGCA
* *
73922 AGCAAGCCTCAATCAGCTTCCCCAGTTTCATCGGCA
1 AGCAAGCCTCAAACAGCTTCCCCAGTTCCATCGGCA
73958 A
1 A
73959 ATTCTTCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.36, G:0.18, T:0.21
Consensus pattern (36 bp):
AGCAAGCCTCAAACAGCTTCCCCAGTTCCATCGGCA
Found at i:80397 original size:7 final size:7
Alignment explanation
Indices: 80385--80413 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
80375 TGGCTTCATC
80385 TTCTGAG
1 TTCTGAG
80392 TTCTGAG
1 TTCTGAG
80399 TTCTGA-
1 TTCTGAG
80405 TTCTGAG
1 TTCTGAG
80412 TT
1 TT
80414 TGTCCCAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (7 bp):
TTCTGAG
Found at i:80410 original size:13 final size:14
Alignment explanation
Indices: 80385--80413 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
80375 TGGCTTCATC
80385 TTCTGAGTTCTGAG
1 TTCTGAGTTCTGAG
80399 TTCTGA-TTCTGAG
1 TTCTGAGTTCTGAG
80412 TT
1 TT
80414 TGTCCCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (14 bp):
TTCTGAGTTCTGAG
Found at i:91289 original size:130 final size:131
Alignment explanation
Indices: 91051--91292 Score: 459
Period size: 130 Copynumber: 1.9 Consensus size: 131
91041 TGTGATAGGC
91051 AGCTAAAAAATGGAAGCTAATTAAACATCATAGTTGTTTGAATAGTCTCCAGATAAGAAATAGTG
1 AGCTAAAAAATGGAAGCTAATTAAACATCATAGTTGTTTGAATAGTCTCCAGATAAGAAATAGTG
*
91116 TGTATATACATGTACAAGCATATGTATAGCAAGAATACATGGAACTTTGTGTAGTCTCCAGATGG
66 TGTATATACATGTACAAGCATATGCATAGCAAGAATACATGGAACTTTGTGTAGTCTCCAGATGG
91181 A
131 A
*
91182 AGCT-AAAAATGGAAGCTAATTAAACATCATAGTTGTTTGAATAGTCTCCAGATAAGAAATATTG
1 AGCTAAAAAATGGAAGCTAATTAAACATCATAGTTGTTTGAATAGTCTCCAGATAAGAAATAGTG
91246 TGTATATACATGTACAAGCATATGCATAGCAAGAATACATGGAACTT
66 TGTATATACATGTACAAGCATATGCATAGCAAGAATACATGGAACTT
91293 AAATTCCTTA
Statistics
Matches: 109, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
130 105 0.96
131 4 0.04
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (131 bp):
AGCTAAAAAATGGAAGCTAATTAAACATCATAGTTGTTTGAATAGTCTCCAGATAAGAAATAGTG
TGTATATACATGTACAAGCATATGCATAGCAAGAATACATGGAACTTTGTGTAGTCTCCAGATGG
A
Found at i:120608 original size:32 final size:33
Alignment explanation
Indices: 120528--120621 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
120518 CCCTCTAAAT
120528 TTGGACGGTAGAGATTTGAAGAGAGTAATATAA
1 TTGGACGGTAGAGATTTGAAGAGAGTAATATAA
120561 TTGGACGGTAGAGATTTGAAGAGAGTAATATAA
1 TTGGACGGTAGAGATTTGAAGAGAGTAATATAA
120594 TTGGA-GGTAGAGATTTGAAG-GAGTAATA
1 TTGGACGGTAGAGATTTGAAGAGAGTAATA
120622 AAAGAATTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.13
32 15 0.25
33 38 0.62
ACGTcount: A:0.38, C:0.02, G:0.32, T:0.28
Consensus pattern (33 bp):
TTGGACGGTAGAGATTTGAAGAGAGTAATATAA
Found at i:134347 original size:654 final size:647
Alignment explanation
Indices: 132968--134459 Score: 2260
Period size: 648 Copynumber: 2.3 Consensus size: 647
132958 AAAATCAGGC
* * *
132968 AAAATTGACTCGAAAATTTTTTCTCAATTTTTTGCCACAATACTTAGAAAAAATATATAATTCAA
1 AAAACTGACCCGAAAATTTTTTCTCAATTTTTCGCCACAATACTTAGAAAAAATATATAATTCAA
* * * *
133033 CGACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTAACCCATTTTTTTCCGAATTAAT
66 TGCCAAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTCCGAATTAAT
*
133098 TTCTAATTAAATTGAAACAAGATTCAGATGCTCGTAAAAA-AAATCTTTAAATCCAATGTGGTTG
131 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGTTG
133162 AGATTTGGTTCATTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGGCAAAACTGAG
196 AGATTTGGTTCATTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGGCAAAACTGAG
*
133227 CCGAGGCCCAGGAACACGTTTTTAGCGAAAACCCGTGATGGTACACGATTTTCGACTAAAATTTT
261 CCGAGGCCCAGGAACACGTTTTTAGCAAAAACCCGTGATGGTACACGATTTTCGACTAAAATTTT
*
133292 GCAAAAACTGACTCGAGAAATTTTTCTTCAATTCTTTGCCACAATACTCAGAAAAAATATATAAT
326 GCAAAAACTGACTCGAGAAATTTTTCCTCAATTCTTTGCCACAATACTCAGAAAAAATATATAAT
*
133357 TCAACTACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCAATTTTTCAAGAAT
391 TCAACGACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCAATTTTTCAAGAAT
* * *
133422 TTACTTCTAATTAAATCGAAATAAGATTCAGATGCTCGTTAAAATAAATCCTTAAATCCACTGTG
456 TTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAAATCCTTAAATCCACTGTG
* * *
133487 ACTGAGATTTGGTTAGATGAATAATGATATTTCAATGATCTTTATGCCAAAAACATACAAAACTG
521 ACTAAGATTTGGTTAGATGAATAAAGATATTTCAATGATCTTCATGCCAAAAACATACAAAACTG
* * * * *
133552 AGTTGAGGCTCCGAAACGCGTTTTTAACCAAAAACCGTGACGGTTAATACATGATTTCGGCAA
586 AATCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGACGG-TAATACACGATTTCGACAA
* * * *
133615 AAAACAT-ATCCGAAATTTTTTTTCACAATTTTTCGCCACAATACTTAGAAGAAATATATAATTC
1 AAAAC-TGACCCGAAA-ATTTTTTCTCAATTTTTCGCCACAATACTTAGAAAAAATATATAATTC
* * * *
133679 AATGCCAAAAAAATTGAAAGGTTTTTCAAGCTTTTAAAATGGTTTACCCA-TTTTTTCCGAATTA
64 AATGCCAAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTCCGAATTA
133743 ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGT
129 ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGT
* * *
133808 TGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGTCAAAAATCAGGCAAAATTG
194 TGAGATTTGGTTCATTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGGCAAAACTG
* * * * * *
133873 AGCTGGGGCCCCGGAACGCGTTTTTAGGCAAAAACCCGTGATGGTTAGTAC-ATGATTTCGGCT-
259 AGCCGAGGCCCAGGAACACGTTTTTA-GCAAAAACCCGTGATGG-TA-CACGAT--TTTCGACTA
*
133936 AAATTTTGCAAAAACTGACTCGAGAAATTTTTCCTCAATTCTTTGCCACAATGCTCAGAAAAAAT
319 AAATTTTGCAAAAACTGACTCGAGAAATTTTTCCTCAATTCTTTGCCACAATACTCAGAAAAAAT
134001 ATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTTCACGCTTCTAATATC-TCTTTTCCAATT
384 ATATAATTCAACGACAAAAAAATTGAAGGG--TTTTTCACGCTTCTAATATCGT-TTTTCCAA-T
* *
134065 TTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTTAGATGCTCGTAAAAATAAATCCTTA
445 TTTTCAAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAAATCCTTA
* * *
134130 AATTCAGTGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGCCAAAAC
510 AATCCACTGTGACTAAGATTTGGTTAGATGAATAAAGATATTTCAATGA-TCTTCATGCCAAAA-
* * * *
134195 CCATACAAAACTGAATCGAGGCCCCGAAACGCGTTTTTAACCGAAAACCGTGATGG-AGTACACG
573 ACATACAAAACTGAATCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGACGGTAATACACG
134259 ATTTCGACAA
638 ATTTCGACAA
** * *
134269 AAAACTGACCCGAAAAAATTTTCTCAATTTTTCGCCACAATACTAAGAAAAAATTTATAATTCAA
1 AAAACTGACCCGAAAATTTTTTCTCAATTTTTCGCCACAATACTTAGAAAAAATATATAATTCAA
* * * *
134334 TGCCAAAAAAAATTGAATGGTTTTTCACGCTTCTAATATCGTCTACCCATTTTTTTTCGATTTAA
66 TGCC-AAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTCCGAATTAA
* * *
134399 TTTATAAATAAATCGAAACAAGATTCAGCTGCTCGTAAAAAGAAATCTTTAAATCCAATGT
130 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGT
134460 TGATGCGGAT
Statistics
Matches: 760, Mismatches: 68, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
647 65 0.09
648 193 0.25
649 16 0.02
650 4 0.01
651 94 0.12
652 8 0.01
653 76 0.10
654 170 0.22
655 84 0.11
656 50 0.07
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (647 bp):
AAAACTGACCCGAAAATTTTTTCTCAATTTTTCGCCACAATACTTAGAAAAAATATATAATTCAA
TGCCAAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTCCGAATTAAT
TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGTTG
AGATTTGGTTCATTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGGCAAAACTGAG
CCGAGGCCCAGGAACACGTTTTTAGCAAAAACCCGTGATGGTACACGATTTTCGACTAAAATTTT
GCAAAAACTGACTCGAGAAATTTTTCCTCAATTCTTTGCCACAATACTCAGAAAAAATATATAAT
TCAACGACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCAATTTTTCAAGAAT
TTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAAATCCTTAAATCCACTGTG
ACTAAGATTTGGTTAGATGAATAAAGATATTTCAATGATCTTCATGCCAAAAACATACAAAACTG
AATCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGACGGTAATACACGATTTCGACAA
Found at i:135457 original size:24 final size:24
Alignment explanation
Indices: 135400--135448 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
135390 ATGATTTCGG
135400 CAAAAAATTTACCCAGATAATTTT
1 CAAAAAATTTACCCAGATAATTTT
135424 CAAAAAATTTACCCAGATAATTTT
1 CAAAAAATTTACCCAGATAATTTT
135448 C
1 C
135449 TCACAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (24 bp):
CAAAAAATTTACCCAGATAATTTT
Found at i:136512 original size:331 final size:330
Alignment explanation
Indices: 134936--136710 Score: 1765
Period size: 331 Copynumber: 5.4 Consensus size: 330
134926 CGCTGTGTCA
* *
134936 AATGTCGCTGAGATTTGGATCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
1 AATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCA-G
* * * * * *
135001 CAAAACTGAGGCGGGGCCCCGGAACGCGTTTATAGCAAAAACCAGTGATGGTTAATACACGATTT
65 AAAAACTGAGTCGGGGCCCCGGAACGCGTTTTTAGCCAAAACCCGTGATGGTTAGTACACGATTT
* * *
135066 CGGCTAAAATTTTGCAAAAACTGACTCGAGAAATTTTTCCTCAATTCTTTGACACAATACTCAGA
130 CGGCTAAAATTTTGCAAAAACTAACCCGAGAAATTTTTCCTCAATTCTTTGCCACAATACTCAGA
* * * **
135131 AAAAATATATAATTCAACTACAAAAAAGTTGAAGGGTTTTTCACGC-TCTAATATCGTTTTTCCA
195 AAAAATATATAATTCAACTACAAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTCTACCCA
* * * *
135195 ATTTTTCAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAGATGCTCGAAAAAATAAATCCT
260 ATTTTTC-AGAATTTACTTCTAAATAAATCGAAACAAGATTCAGATGCTTGTAAAAAGAAATCCT
135260 TAAATCC
324 TAAATCC
* * * * * *
135267 AATGTGGCTGAGATTTGGTTAGATGAATA-ATGATAT-TCCAATGAGTCTTTATGCCAAAAACCA
1 AATGTGGCTGAGATTTGGTTCGTTAAATATA-GATATCT-CAAGGAGTCTTTACGCCAAAAATCA
* * * * * * *
135330 TACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCATGATGGTTAGTACATGAT
64 GA-AAAACTGAGTCGGGGCCCCGGAACGCGTTTTTAGCCAAAACCCGTGATGGTTAGTACACGAT
* * *
135395 TTCGGCAAAAAATTTACCCAGATAATTTT-CAAAAAATTTACCC-AGATAA-TTTTCTCACAATT
128 TTCGGC--------T----A-A-AATTTTGC-AAAAACTAACCCGAGA-AATTTTTC-CTCAATT
* * * * *
135457 -TTTCGCCACAATACTTAGAAGAAATTTATAATTCAA-TGCCAAAAAAATTGAAAGGTTTTTCAG
176 CTTT-GCCACAATACTCAGAAAAAATATATAATTCAACT-ACAAAAAAATTGAAAGGTTTTTCAC
* * * *
135520 GCTTTTAATATCATCTACCCATTTTTTTC-G-ATTTAATTTCTAAATAAATCGAAACAAGATTCA
239 GCTTCTAATATCGTCTACCCA-ATTTTTCAGAATTT-ACTTCTAAATAAATCGAAACAAGATTCA
* *
135583 GATGCTTGTAAAAAGAAATCTTTAAGTCC
302 GATGCTTGTAAAAAGAAATCCTTAAATCC
** *
135612 AATGTGTTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGT
1 AATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGA
* * * ** *
135677 AAAA-TGAATCGGGGTCCCAGAACATGTTTTTAGCGAAAACCCGTGATGGTTAGTACACGATTTC
66 AAAACTGAGTCGGGGCCCCGGAACGCGTTTTTAGCCAAAACCCGTGATGGTTAGTACACGATTTC
*
135741 GGCTAAAATTTTGCAAAAACTAACTCGAGAAATTTTTCCTCAATTCTTTGCCACAATACTCAGAA
131 GGCTAAAATTTTGCAAAAACTAACCCGAGAAATTTTTCCTCAATTCTTTGCCACAATACTCAGAA
* * * **
135806 AAAATATATAATTCAACTACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCAA
196 AAAATATATAATTCAACTACAAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTCTACCCAA
* * * *
135871 TTTTTCAAGAATTTACTTCTAATTAAATCGAAATAAGATTCAGATGCTTGTCAAAATAAATCCTT
261 TTTTTC-AGAATTTACTTCTAAATAAATCGAAACAAGATTCAGATGCTTGTAAAAAGAAATCCTT
135936 AAATCC
325 AAATCC
* * * * * * * * *
135942 AATGTGGCTGAAATTTGGTTAGATGAATA-ATGATATTTCAATGA-TCTTTATGCCAAAAACCAT
1 AATGTGGCTGAGATTTGGTTCGTTAAATATA-GATATCTCAAGGAGTCTTTACGCCAAAAATCAG
* * * * * * * *
136005 ACAAAACTGAGTTGAGGCTCCGAAACGCGTTTTTAACCAAAAACCGTGATGATTAGTACATGATT
65 A-AAAACTGAGTCGGGGCCCCGGAACGCGTTTTTAGCCAAAACCCGTGATGGTTAGTACACGATT
* * * * *
136070 TCGGC----A------AAAAATTTACCCG-GATAATTTTTTCACAATT-TTTCGCCACAATACTT
129 TCGGCTAAAATTTTGCAAAAACTAACCCGAGA-AATTTTTCCTCAATTCTTT-GCCACAATACTC
* * * *
136123 AGAAGAAATTTATAATTCAA-TACCAAAAAAATTGAAAGGTTTTTCAGGCTTTTAATATCGTCTA
192 AGAAAAAATATATAATTCAACTA-CAAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTCTA
* * * *
136187 CCCATTTTTTTC-G-ATTTAATTTCTAAATAAATCGAAACAAGATTCATATACTTGTAAAAAGAA
256 CCCA-ATTTTTCAGAATTT-ACTTCTAAATAAATCGAAACAAGATTCAGATGCTTGTAAAAAGAA
*
136250 ATCTTTAAATCC
319 ATCCTTAAATCC
** * *
136262 AATGTGTTTGAGATTTGATTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCAAAAAATCAGG
1 AATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCA-G
** ** *
136327 AAAAACTGAACCGGGGCCCCGGAACAAGTTTTTAGCGAAAACCCGTGATGGTTAGTACACGATTT
65 AAAAACTGAGTCGGGGCCCCGGAACGCGTTTTTAGCCAAAACCCGTGATGGTTAGTACACGATTT
*
136392 CGGCTAAAATTTTGCAAAAACTAACCCGAGAAATTTTTCCTCAATTCTTTGCAACAATACTCAGA
130 CGGCTAAAATTTTGCAAAAACTAACCCGAGAAATTTTTCCTCAATTCTTTGCCACAATACTCAGA
* * ** *
136457 AAAAATATATAATTCAACTACAAACAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTTTCTA
195 AAAAATATATAATTCAACTACAAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTCTACCCA
** * * * * * * *
136522 AAATTTCAAGAATTTACTTCTAATTAAATCGAAATAAGATTTAGATACTCGTCAAAATAAATCCT
260 ATTTTTC-AGAATTTACTTCTAAATAAATCGAAACAAGATTCAGATGCTTGTAAAAAGAAATCCT
136587 TAAATCC
324 TAAATCC
* * * * * * * *
136594 AATATGGCTGAGATTTGGTTAGATGAATAATA-ATATTTCAATGG-GTCTTTATGCCCAAAACCA
1 AATGTGGCTGAGATTTGGTTCGTTAAAT-ATAGATATCTCAA-GGAGTCTTTACGCCAAAAATCA
* * * * * * *
136657 CACAAAATTGAGTCGAGGCCCCGAAACGCATTTTTAACCAAAAACCGTGATGGT
64 GA-AAAACTGAGTCGGGGCCCCGGAACGCGTTTTTAGCCAAAACCCGTGATGGT
136711 AAAATAATCA
Statistics
Matches: 1162, Mismatches: 217, Indels: 129
0.77 0.14 0.09
Matches are distributed among these distances:
319 4 0.00
320 90 0.08
321 161 0.14
322 7 0.01
325 1 0.00
327 1 0.00
328 6 0.01
329 108 0.09
330 109 0.09
331 253 0.22
332 140 0.12
333 9 0.01
335 1 0.00
339 1 0.00
343 52 0.04
344 22 0.02
345 176 0.15
346 15 0.01
347 6 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (330 bp):
AATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGA
AAAACTGAGTCGGGGCCCCGGAACGCGTTTTTAGCCAAAACCCGTGATGGTTAGTACACGATTTC
GGCTAAAATTTTGCAAAAACTAACCCGAGAAATTTTTCCTCAATTCTTTGCCACAATACTCAGAA
AAAATATATAATTCAACTACAAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTCTACCCAA
TTTTTCAGAATTTACTTCTAAATAAATCGAAACAAGATTCAGATGCTTGTAAAAAGAAATCCTTA
AATCC
Found at i:137309 original size:97 final size:95
Alignment explanation
Indices: 137199--137508 Score: 274
Period size: 97 Copynumber: 3.2 Consensus size: 95
137189 AGGGTGCTAG
*
137199 AAGAAAAATATTATAATTTAAGGCGGAGTGATGATGTGTCCCGGAATTTTTCAAATAAGTTTGAA
1 AAGAAAAAAATTATAA-TTAAGGCGGAGTGATGATGTGTCCCGGAATTTTTCAAATAAGTTTGAA
137264 ATATCCAAACTAATCTGAATGTAGTGTGTTAT
65 ATAT-CAAACTAATCTGAATGTAGTGTGTTAT
* * * ** * * *
137296 ACGAAAAAAATTATAATTAA---GGAAT-AGCGATGTGTCGTGG-ATTTTTACAGATGAGTGTGT
1 AAGAAAAAAATTATAATTAAGGCGGAGTGA-TGATGTGTCCCGGAATTTTT-CAAATAAGTTTG-
* ** * * *
137356 ATAATAT-AAAATAATCAAAACT-TAGGGTGCTAG
63 A-AATATCAAACTAATCTGAA-TGTAGTGTGTTAT
* * * * *
137389 AAGAAAAATATTATAATTTAAGGCGTAGTGATGATGTGTACCGGAATTTTACAAATAAGCTTGAA
1 AAGAAAAAAATTATAA-TTAAGGCGGAGTGATGATGTGTCCCGGAATTTTTCAAATAAGTTTGAA
*
137454 ATATTCAAACTATTCTGAATGTAGTGTGTTAT
65 ATA-TCAAACTAATCTGAATGTAGTGTGTTAT
** *
137486 ATTAAAACAATTATAATTAAGGC
1 AAGAAAAAAATTATAATTAAGGC
137509 AGAGAGATCA
Statistics
Matches: 160, Mismatches: 39, Indels: 29
0.70 0.17 0.13
Matches are distributed among these distances:
92 7 0.04
93 55 0.34
94 6 0.04
95 9 0.06
96 14 0.09
97 63 0.39
98 6 0.04
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (95 bp):
AAGAAAAAAATTATAATTAAGGCGGAGTGATGATGTGTCCCGGAATTTTTCAAATAAGTTTGAAA
TATCAAACTAATCTGAATGTAGTGTGTTAT
Found at i:137395 original size:93 final size:93
Alignment explanation
Indices: 137127--137411 Score: 267
Period size: 93 Copynumber: 3.0 Consensus size: 93
137117 TTGTAGTTAG
* * *
137127 GGAATAGC-ATGTGTCGTGGATTTTTACAGATTAGTGTGAATGATACAAAATAATCAAAACTTAG
1 GGAATAGCGATGTGTCGTGGATTTTTACAGATAAGTGTG-ATAATATAAAATAATCAAAACTTAG
*
137191 GGTGCTAGAAGAAAAATATTATAATTTAA
65 GGTGCTAGAAGAAAAAAATTATAATTTAA
* * ** * * * **
137220 GGCGGAGT-GATGATGTGTCCCGGAATTTTT-CAAATAAGTTTGA-AATATCCAAACTAATCTGA
1 ---GGAATAG-CGATGTGTCGTGG-ATTTTTACAGATAAGTGTGATAATAT--AAAATAATCAAA
* * * *
137282 A-TGTAGTGTGTTATACGAAAAAAATTATAA-TTAA
59 ACT-TAGGGTGCTAGAAGAAAAAAATTATAATTTAA
*
137316 GGAATAGCGATGTGTCGTGGATTTTTACAGATGAGTGTGTATAATATAAAATAATCAAAACTTAG
1 GGAATAGCGATGTGTCGTGGATTTTTACAGATAAGTGTG-ATAATATAAAATAATCAAAACTTAG
*
137381 GGTGCTAGAAGAAAAATATTATAATTTAA
65 GGTGCTAGAAGAAAAAAATTATAATTTAA
137410 GG
1 GG
137412 CGTAGTGATG
Statistics
Matches: 145, Mismatches: 32, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
92 6 0.04
93 55 0.38
94 9 0.06
95 9 0.06
96 10 0.07
97 50 0.34
98 6 0.04
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (93 bp):
GGAATAGCGATGTGTCGTGGATTTTTACAGATAAGTGTGATAATATAAAATAATCAAAACTTAGG
GTGCTAGAAGAAAAAAATTATAATTTAA
Found at i:137465 original size:190 final size:189
Alignment explanation
Indices: 137113--137507 Score: 637
Period size: 190 Copynumber: 2.1 Consensus size: 189
137103 TTAGTGTAGT
* * * * *
137113 AAAATTGTAGTTAGGGAATAGCATGTGTCGTGGATTTTTACAGATTAGTGTGAATGATACAAAAT
1 AAAATTATAATTAAGGAATAGCATGTGTCGTGGATTTTTACAGATGAGTGTGAATAATACAAAAT
*
137178 AATCAAAACTTAGGGTGCTAGAAGAAAAATATTATAATTTAAGGCGGAGTGATGATGTGTCCCGG
66 AATCAAAACTTAGGGTGCTAGAAGAAAAATATTATAATTTAAGGCGGAGTGATGATGTGTACCGG
* *
137243 AATTTTTCAAATAAGTTTGAAATATCCAAACTAATCTGAATGTAGTGTGTTATACGAAA
131 AATTTTACAAATAAGCTTGAAATATCCAAACTAATCTGAATGTAGTGTGTTATACGAAA
* *
137302 AAAATTATAATTAAGGAATAGCGATGTGTCGTGGATTTTTACAGATGAGTGTGTATAATATAAAA
1 AAAATTATAATTAAGGAATAGC-ATGTGTCGTGGATTTTTACAGATGAGTGTGAATAATACAAAA
*
137367 TAATCAAAACTTAGGGTGCTAGAAGAAAAATATTATAATTTAAGGCGTAGTGATGATGTGTACCG
65 TAATCAAAACTTAGGGTGCTAGAAGAAAAATATTATAATTTAAGGCGGAGTGATGATGTGTACCG
* * **
137432 GAATTTTACAAATAAGCTTGAAATATTCAAACTATTCTGAATGTAGTGTGTTATATTAAA
130 GAATTTTACAAATAAGCTTGAAATATCCAAACTAATCTGAATGTAGTGTGTTATACGAAA
*
137492 ACAATTATAATTAAGG
1 AAAATTATAATTAAGG
137508 CAGAGAGATC
Statistics
Matches: 189, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
189 19 0.10
190 170 0.90
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (189 bp):
AAAATTATAATTAAGGAATAGCATGTGTCGTGGATTTTTACAGATGAGTGTGAATAATACAAAAT
AATCAAAACTTAGGGTGCTAGAAGAAAAATATTATAATTTAAGGCGGAGTGATGATGTGTACCGG
AATTTTACAAATAAGCTTGAAATATCCAAACTAATCTGAATGTAGTGTGTTATACGAAA
Found at i:139281 original size:649 final size:642
Alignment explanation
Indices: 138141--139321 Score: 1366
Period size: 649 Copynumber: 1.8 Consensus size: 642
138131 TTTTAGCCAT
* *
138141 ACGATTTCGGCTAAAATTTTGCAAAAAATAACCCAAATTATTTTTCCTCAATTTTTGGTCACGAT
1 ACGATTTCGGCTAAAATTTTGCAAAAAATAACCCAAA-TATTTTTCCTCAATTTTTGGCCACAAT
*
138206 ACTTATAAAAAAATATATAATTCAACGCCAAAAAGTCTAAAGGGCTTTTATCGTTTCAAATATCG
65 ACTTATAAAAAAATATATAATTCAACGCCAAAAAGTCTAAAGGGCTTTTATCGCTTCAAATATCG
* * * * *
138271 TTTTTCCAAATTTTTCCTAAATTAAAATCTAATTAAATCGAAATAAGATTTAGATGCTTGTAAAA
130 CTTTTCCAAATTTTTCCTAAATTAAAATCTAATTAAATCGAAACAAAATTTAGATACTCGTAAAA
* * * * *
138336 ACAAATCTTTAAATCCAATATGGCTGACATTTGGTTAGATGAATATAGTTATTTTAACGACTCTC
195 ACAAATCCTTAAATCCAATATGGCTAACATTTGGTTAGATGAATAAAGATATTTCAACGACTCTC
* * * * * *** *
138401 GGAGCCAAAAATCATGCAAAACTGGGCCGGTGCCCCGGAACGCTTTTTTTTGTCAAAAATCGTGA
260 -GAGCCAAAAACCATACAAAACTGAGCCGGTGCCCCGAAACGCTGTTTTTAACCAAAAACCGTGA
* * * *
138466 TGATTAGTACATGATTTCGGCAAAAAACTTACCCGAAAATTTTTTTCACAATTTTTCGCCACAAT
324 TG---AGTACACGATTTCGACAAAAAACTGACACGAAAATTTTTTTCACAATTTTTCGCCACAAT
* * * * *
138531 ACTTAGAAGAAATATCAATGCCAAAAAAATTGAAAGGGTTTTCAAGCTTTTAAAATGGTTTACCC
386 ACTAAGAAAAAATATCAATGCCAAAAAAATTGAAAGGGTTTTCAAGCTTCTAAAATCGTCTACCC
* * * *
138596 ATTTTTTTCGAATTAATTTCTAATTAAATCGAAACAAGATTCATATGCTCGTAAAAATAAATCTT
451 ATTTTTTT---ATTAATTTATAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTT
138661 TAAATCCAATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACACCAAA
513 TAAATCCAATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACACCAAA
138726 AATTAGGTAAAACTGAGTAGGGGTCCCAGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAATAC
578 AATTAGGTAAAACTGAGTAGGGGTCCCAGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAATAC
* *
138791 ACGATTTCGGCT-AAATTTTGCAAAAACTGACCCGAGAA-ATTTTTCCTCAATTCTTT-GCCACA
1 ACGATTTCGGCTAAAATTTTGCAAAAAATAACCC-A-AATATTTTTCCTCAATT-TTTGGCCACA
* * * * * *
138853 ATGC-TA-AGAAAAAATATATAATTTAACGACGAAAAA-T-TGAAGGG-TTTTTTCACGCTTCTA
63 ATACTTATA-AAAAAATATATAATTCAACG-CCAAAAAGTCTAAAGGGCTTTTAT--CGCTTCAA
* ** * **
138913 ATATCGCTTTTCCAATTTTTTTTTAGAATTTACTTCTAATTAAATCGAAACAAAATTTAGATACT
124 ATATCGCTTTTCCAAATTTTTCCTA-AATTAAAATCTAATTAAATCGAAACAAAATTTAGATACT
* * * * * * *
138978 CGTAAAAATAAATCCTTAAGTTCAATGTGGCTAAGATTTGGTTAGATTAATAAAGATATTTCAAT
188 CGTAAAAACAAATCCTTAAATCCAATATGGCTAACATTTGGTTAGATGAATAAAGATATTTCAAC
* * * *
139043 GAGTCTTC-ATGCCAAAACCCATACAAAACTGAGTCGAG-G-CCCGAAACGC-GTTTTTAACCGA
253 GACTC-TCGA-GCCAAAAACCATACAAAACTGAGCCG-GTGCCCCGAAACGCTGTTTTTAACCAA
* *
139104 AAACCGTGATG-GTACACGATTTCGACAAAAAAACTGACACG-GAATTTTTTTTATCAATTTTTC
315 AAACCGTGATGAGTACACGATTTCGAC-AAAAAACTGACACGAAAATTTTTTTCA-CAATTTTTC
* * * *
139167 GTCACAATACTAAGAAAAAATTTATAATTCAATGCCAAAAAAAAATTGAATGGTTTTTCACGCTT
378 GCCACAATACTAAG-AAAAA---AT-A-TCAATGCC--AAAAAAATTGAAAGGGTTTTCAAGCTT
* * *
139232 CTAATATCGTCTACCCATTTTTTT-TTCGATTTATAAATAAATCGAAACAAGATTCAGGTGCTCG
435 CTAAAATCGTCTACCCATTTTTTTATT-AATTTATAAATAAATCGAAACAAGATTCAGATGCTCG
139296 TAAAAAGAAATCTTTAAATCCAATGT
499 TAAAAAGAAATCTTTAAATCCAATGT
139322 TGATACGGAT
Statistics
Matches: 440, Mismatches: 69, Indels: 45
0.79 0.12 0.08
Matches are distributed among these distances:
643 23 0.05
644 33 0.08
645 4 0.01
646 5 0.01
647 24 0.05
648 63 0.14
649 215 0.49
650 27 0.06
651 2 0.00
652 44 0.10
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (642 bp):
ACGATTTCGGCTAAAATTTTGCAAAAAATAACCCAAATATTTTTCCTCAATTTTTGGCCACAATA
CTTATAAAAAAATATATAATTCAACGCCAAAAAGTCTAAAGGGCTTTTATCGCTTCAAATATCGC
TTTTCCAAATTTTTCCTAAATTAAAATCTAATTAAATCGAAACAAAATTTAGATACTCGTAAAAA
CAAATCCTTAAATCCAATATGGCTAACATTTGGTTAGATGAATAAAGATATTTCAACGACTCTCG
AGCCAAAAACCATACAAAACTGAGCCGGTGCCCCGAAACGCTGTTTTTAACCAAAAACCGTGATG
AGTACACGATTTCGACAAAAAACTGACACGAAAATTTTTTTCACAATTTTTCGCCACAATACTAA
GAAAAAATATCAATGCCAAAAAAATTGAAAGGGTTTTCAAGCTTCTAAAATCGTCTACCCATTTT
TTTATTAATTTATAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCA
ATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACACCAAAAATTAGGT
AAAACTGAGTAGGGGTCCCAGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAATAC
Found at i:141185 original size:657 final size:651
Alignment explanation
Indices: 139800--144797 Score: 4158
Period size: 655 Copynumber: 7.7 Consensus size: 651
139790 CGCTGCGTCA
* * *
139800 AATGTGGTTGAGATTTGGATCGTTAAATATAGAAATCTCAAGGAGTCTTTACACCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
* ** * * *
139865 TAAAACTGAGTAGGGGCCCCAGAACGCGTTTTTAGCAAAAACCCGTGATGATTAGTACACGATTT
66 CAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAGTACAAGATTT
*
139930 CGGCT-AAATTTTGCAAAAACTGACCCGAGAAATTTTTCTCTCAATTCTTTGACACAATACTCAA
131 CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTC-CTCAATTCTTTGACACAATACTC-A
* * *
139994 AAAAAATATATAATTCAACTACAAAAAAATAT-AAGGG-TTTTTCACGCTTCTAATATTGTTTTT
194 GAAAAATATATAATTCAACTACAAAAAAAT-TGAAGGGTTTTTTCACGCTTCTAATATCGCTTTT
* ** *
140057 CCAATTTTTCAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAG-TTTTCGTCAAAATAAAT
258 CCAATTTTT-AAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAAAT
* * * * * *
140121 CCTTAAATCCAATGCGGCTGAGATTTGATTAGATGAATAATGATATTTCAATGAGTGTTTATGCC
322 CCTTAAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGCC
* * * * *
140186 AAAAACCATACAAAAATGAATCGAGTCCCCGAAACGCGTTTTTAACTAAAAACCGTGATTGTTAG
387 AAAAACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATGGTTAG
* * ** *
140251 TACATGATTTCGACAAAAAACTTACCCGAAATTTTTTTTTCACAATTTTTCGCCACAATACTTAG
452 TACACGATTTCGACAAAAAACTTACTCGAAA--AATTTTTCACAATTTTTCGCCACAATACTAAG
* * * *
140316 AAGAAATATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCAGGCATATAATATCGTTTACCC
515 AAAAAATATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCACGCTTATAATATCGTCTACCC
* * *
140381 ATTTTTTCCGAATTAATTTC----TAAATCGAAACAAGATTCTGATGCTCGTAAAAAGAATTCTT
580 ATTTTTTTCGAATTAATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTT
*
140442 TAAATCA
645 TAAATCC
* *
140449 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGCAGTTTTTACGCCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
* * * *
140514 CAAAACTGAGCCGGGGCCTCGGAACACGTTTTTAGCAATAACCCGTGATGGTTATTACAAGATTT
66 CAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAGTACAAGATTT
* * * * *
140579 CGGCTAAAATTTTTCAAAAACTGACACGATAAATTTTTCCTCAATTCTTTGCCACAACT-CTCAG
131 CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGACACAA-TACTCAG
* * * *
140643 AAGAAATATATAATTTAACGACAACAAAATTGAAGGGTTTTTTTCACGCTTCTAATATGGCTTTT
195 AA-AAATATATAATTCAACTACAAAAAAATTGAAGGG-TTTTTTCACGCTTCTAATATCGCTTTT
* * *
140708 CTAATTCTTTTAAAGAATTTACTTCTAATTAAATCGAAATAAAATTTAGATGCTCGTAAAAATAA
258 CCAA-T-TTTT-AAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAA
* * * * *
140773 ATCCTTAAATTCAAAGTGGTTAAGATTTGGTTAGATGAATAAACAAATTTCAATGAGTCTTCATG
320 ATCCTTAAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATG
* *
140838 CCAAAAACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCGAAAACTGTGATGGTT
385 CCAAAAACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATGGTT
* * *
140903 AGTATACGATTTCGACAAAAAA-TTGACTCGAAAAAATTTTCACAATTTTTCGCCAGAATACTAA
450 AGTACACGATTTCGACAAAAAACTT-ACTCGAAAAATTTTTCACAATTTTTCGCCACAATACTAA
* * * *
140967 GAAAAAATTTATAATTCAATGCCAAAAAAAATCGAATGGTTTTTCACGCTTATAATATCGTCTGC
514 GAAAAAATATATAATTCAATGCC-AAAAAAATTGAAAGGTTTTTCACGCTTATAATATCGTCTAC
* *
141032 CCATTTTTTTCGATTTAATTTCTAAATAAATCGAAACAAGACTCAGATGCTCGTAAAAAGAAATC
578 CCATTTTTTTCGAATTAATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATC
141097 TTTAAATCC
643 TTTAAATCC
* *
141106 AATGTGGTTGAGATTTGGTTCCTTAAATATAGATATCTCAAGGAGTCTTTACACCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
* * * * *
141171 CAAAACTGAGCCGGGGCCCCGGTACGAGTTTTTATCGAAAACCCGTGA----T-GTACATGATTT
66 CAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAGTACAAGATTT
* *
141231 CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTTCTCAATTCTTTTACACAATACTCAGT
131 CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGACACAATACTCAG-
* *
141296 AAAAATATATAATTGAACTACAACAAAATTGAAGGGTTTTTTCACGCTTCTAATATCGCTTTTCC
195 AAAAATATATAATTCAACTACAAAAAAATTGAAGGGTTTTTTCACGCTTCTAATATCGCTTTTCC
* * *
141361 ----------AATTT-C-TCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAATAAATCGT
260 AATTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAAATCCT
* * * *
141414 TAAATCCAATGTGGTTGAA-ATTTGGTTAGATGAATAATGATTTTTCAATGAGTCTTTATGCCAA
325 TAAATCCAATGTGGCT-AAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGCCAA
* * *
141478 AAACCATACAAAACTGAGTTGAGGGCCCGAAACGCGTTTATAACCAAAAACCGTGATGGTTAGTA
389 AAACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTA
* * * * * *
141543 CATGATTTCGGCAAAAAACTTACTCGAAAATTTTTTTCAAAATTTTTCGCCACAATACTTAGAAG
454 CACGATTTCGACAAAAAACTTACTCGAAAA-ATTTTTCACAATTTTTCGCCACAATACTAAGAAA
* * * *
141608 AAATATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCAGGCTTTTAATATCGTTTACACATT
518 AAATATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCACGCTTATAATATCGTCTACCCA-T
* * * * *
141673 TTTTTTCGAATTAGTTTCTAATTAAATCGAAACAAGATTCAAATGCTCATAAAAAGAAATCTCTA
582 TTTTTTCGAATTAATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTA
*
141738 AATTC
647 AATCC
** *
141743 AATGTGGTTGAGATTTGGTTTATTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
* * * ***
141808 CAAAACTGAGCCGGGGCCTCGGAGCGCGTTTTTAGCAAAAACCAGTGATGCCACAATGCT-CAA-
66 CAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCAAAAACCCGTGATG--GTTA-G-TACAAG
* * * *
141871 ATTTTGGC-CAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGCCACAATGCT
127 ATTTCGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGACACAATACT
* * * *
141935 CAGAAAAAATATATAATTCAACGACAAATAAATTTAAGGGTTTTTTCACGCTT-TCAATATCGTT
192 CAG-AAAAATATATAATTCAACTACAAAAAAATTGAAGGGTTTTTTCACGCTTCT-AATATCGCT
*
141999 TTTCCAATTTTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTTAGATGCTCGTAAAAAT
255 TTTCCAA--TTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAAT
* *
142064 AAATCCTTAAATTCAATGTGGCTAAGATTTGGTTGGATGAATAAAGATATTTCAATGAGTCTTCA
318 AAATCCTTAAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCA
* * *
142129 TGCCAAAAACCATACAAAACTGATTCGAGGTCCCGAAACGCGTTTTTAACCGAAAACCGTGATGG
383 TGCCAAAAACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATGG
* *
142194 TTAGTACACGATTTCGACAAAAAACTGACTCGAAAAATTTTTCTCAA-TTTTCGCCACAATACTA
448 TTAGTACACGATTTCGACAAAAAACTTACTCGAAAAATTTTTCACAATTTTTCGCCACAATACTA
* *
142258 AGAAAAAA-ATTATAATTCAATGCCATAATAAATTGAATGGTTTTTCACGCTTATAATATCGTCT
513 AGAAAAAATA-TATAATTCAATGCCA-AAAAAATTGAAAGGTTTTTCACGCTTATAATATCGTCT
*
142322 ACCCATTTTTTTC-AATTTAATTTCTAAATAAATCGAAACAAGATTCATATGCTCGTAAAAAGAA
576 ACCCATTTTTTTCGAA-TTAATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAA
142386 ATCTTTAAATCC
640 ATCTTTAAATCC
* * * * *
142398 AATGTAGTTGAGATGTGGTTCGTTAAATATAGATATTTCCAGGAGTCTTTACGCCAAAAATTAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
* * * *
142463 CAAAACTGAGCCGAGGCCCCGGTACGCGTTTTTATCAAAAACCCGTGATGGTTAGTACATGATTT
66 CAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAGTACAAGATTT
* *
142528 CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTTCTCAATTCTTTTACACAATACTCAGT
131 CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGACACAATACTCAG-
* * *
142593 AAAAATATATAATTGAACTACAAAAAAATTGAAGGG-TTTTTCACGCTTCTAATATTGTTTTTCC
195 AAAAATATATAATTCAACTACAAAAAAATTGAAGGGTTTTTTCACGCTTCTAATATCGCTTTTCC
* * *
142657 ------T----ATTT-C-TCTAATTAAATCCAAACAAGATTCAGATGCTCGTAAAAAGAAAT-CT
260 AATTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAAATCCT
** * * * * * * * * * * **
142709 CTAAATTTAATGTGGTTGAGATTTGCTTCGTTAAATATAGATATCTCAAGGAGTCTTTACACCAA
325 -TAAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGCCAA
* ** * * ** ** * * * *
142774 AAATCAGGCAAAACTGAGCCGTGGTTCCGGTACGCAGTTTTTATCGAAAACCCGTGATGGGTAGT
389 AAACCATACAAAACTGAGTCGAGGCCCCGAAACGC-GTTTTTAACCAAAAACCGTGATGGTTAGT
* * * * * **
142839 ACATGATTTCGGCTAATATTTTGCAAAACCTGAC-CTGAGAAATTTTTTCTCAATTCTTT-TACA
453 ACACGATTTCGAC--A-A------AAAA-CTTACTC-GA-AAAATTTTTCACAATT-TTTCGCCA
* * * * *
142902 CAATACTCAGTAAAAATATATAATTGAACT-ACAAAAAAATTG-AAGGATTTTTCACGCTTCTAA
505 CAATACTAAGAAAAAATATATAATTCAA-TGCCAAAAAAATTGAAAGG-TTTTTCACGCTTATAA
* * * *
142965 TA-----T-----TGTTTTTCCAATT--TCTCTAATTAAATCGAAACAAGATTCAGATGCTCGTA
568 TATCGTCTACCCATTTTTTTCGAATTAATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTA
* *
143018 AAAATAAATCGTTAAATCC
633 AAAAGAAATCTTTAAATCC
* * * * * * * * * * *
143037 AATGTGGCTGAAATTTGGTTAGATGAATA-ATGATTTTTCAATGAGTCTTTATGCCAAAAACCAT
1 AATGTGGTTGAGATTTGGTTCGTTAAATATA-GATATCTCAAGGAGTCTTTACGCCAAAAATCAG
* * ** * * * * *
143101 ACAAAAATGAGTTGAGGG-CCCGAAACGTGTTTATAACCAAAAA-CCGTGATGGTTAGTACATGA
65 GCAAAACTGAGCCG-GGGCCCCGGAACGCGTTT-TTAGCAAAAACCCGTGATGGTTAGTACAAGA
* * * *
143164 TTTCGGC--AAA------AAAA-CTTACTCGA-AAATTTTT-TTCAAAATT-TTTCGCCACAATA
128 TTTCGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTC--AATTCTTT-GACACAATA
* * * * *
143217 CTTAGAAGAAATATATAATTCAA-TGCCAAAAAAATTGAAAGG-TTTTTCAGGCTTTTAATATCG
190 CTCAGAA-AAATATATAATTCAACT-ACAAAAAAATTGAAGGGTTTTTTCACGCTTCTAATATCG
* * * * * * * * *
143280 -TTTACCCATTTTTTTCCA-AATTAATTTCTAATTAAATCGAAACAAGATTAAAATGCTCATAAA
253 CTTT-TCCA-ATTTTT-AAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAA
* * * * * * * * * *
143343 AAGAAAT-CTCTAAATTCAATGTGGTTGAGATTTGATTTA-TTAAATATAGATATCTCAAGGAGT
315 AATAAATCCT-TAAATCCAATGTGGCTAAGATTTG-GTTAGATGAATAAAGATATTTCAATGAGT
* * ** * * * * * * *
143406 CTTTATGCCAAAAATCAGGCAAAACTGAGCCGGGGACTCGTAGCGCGTTTTT-AGCAAAAACCAG
378 CTTCATGCCAAAAACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAACC-G
* * * * * *
143470 TGATGGTTTGTACACGATTTCGGCCAAATTTTGCAAAATTGACCCGAGAAAATTTTCCTCAATTC
442 TGATGGTTAGTACACGATTTC-GACAAA------AAACTT-ACTCGA-AAAATTTTTCACAATT-
* * * * * * *
143535 TTT-GCCACAATGCTCAGAAAAAATATATAATTCAACGACAAATAAATTTAAGGGTTTTTTCACG
497 TTTCGCCACAATACTAAGAAAAAATATATAATTCAATGCCAAAAAAATTGAAAGG-TTTTTCACG
* * * * * * * * *
143599 CTT-TCAATATCGTTTTTCCAATTTTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTTA
561 CTTAT-AATATCG-TCTACCCATTTTTTT-CGAATTAATTTCTAAATAAATCGAAACAAGATTCA
* * * *
143663 GATGCTCGAAAAAATAAATCCTTAAATTC
623 GATGCTCGTAAAAAGAAATCTTTAAATCC
* * * * * * * * * * * **
143692 AATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGCCAAAAACCATA
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
* ** * * * *
143757 CAAAACTGAGTC-GAACCCCGAAACGCGTTTTTAACCGAAAA-CCGTGATGGTTAGTACACGATT
66 CAAAACTGAGCCGGGGCCCCGGAACGCGTTTTT-AGCAAAAACCCGTGATGGTTAGTACAAGATT
* * * * * *
143820 TC-G--ACAA------AAAA-CTGACTCGA-AAATTTTTTCTCAATT-TTCGCCACAATACTAAG
130 TCGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGACACAATACTCAG
* * * * * *
143873 AAAAAAATTATAATTCAA-TGCCATAATAAATTGAATGG-TTTTTCACGCTTATAATATCG-TCT
195 AAAAATA-TATAATTCAACT-ACA-AAAAAATTGAAGGGTTTTTTCACGCTTCTAATATCGCTTT
* * *** * * * * *
143935 ACCCATTTTTTTCAATTTAATTTCTAAATAAATCGAAACAAGATTCATATGCTCGTAAAAAGAAA
257 TCCAATTTTTAAGAATTT-ACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAAA
* * * * * * * * * * * * *
144000 TCTTTAAATCCAATGTAGTTGAGATGTGGTTCGTTAAATATAGATATTTCCAGGAGTCTTTACGC
321 TCCTTAAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGC
** ** * * *
144065 CAAAAATTAGGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTT-AGCAAAAACCCGTGATGGTT
386 CAAAAACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAA-CCGTGATGGTT
* * * * *
144129 AGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAGAAATTTTTTCCTCAATTCTTT-G
450 AGTACACGATTTC-G---ACA------AAAAACTTACTCGA-AAAATTTTT-CACAATT-TTTCG
* * * * * *
144193 CCACAGTGCTTAGAAAAAATATATAATTCAA--CAACAAAAAATTGAAGGGCTTTTTCACGCTTC
502 CCACAATACTAAGAAAAAATATATAATTCAATGCCA-AAAAAATTGAAAGG-TTTTTCACGCTTA
* * * * ** * * * **
144256 TAATTTCGCTTTTCCAATTTTTTTAATAATTTACTTCTAATTAAATCGAAACGAA-ATTTTGATG
565 TAATATCG-TCTACCCATTTTTTT-CGAATTAATTTCTAAATAAATCGAAAC-AAGATTCAGATG
*
144320 CTCGTAAAAATAAAT-TCTTAAA-CTC
627 CTCGTAAAAAGAAATCT-TTAAATC-C
* * * * * * * * * * * * * * **
144345 AATGTGGCTAAGATTTTGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGACTAAAACCATA
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
* * * * * * * * * *
144410 CAAAACTGAGTCGAGTCCTCGAAACGCGTTTTTAACCGAAAA-CCGTGATAGTTAGTATACGATT
66 CAAAACTGAGCCGGGGCCCCGGAACGCGTTTTT-AGCAAAAACCCGTGATGGTTAGTACAAGATT
* * *
144474 TCGG-T-AAA------AAAA--TG-CCCGA-AAATTTTTTTCTCAATT-TTTCGCCGCAATACTC
130 TCGGCTAAAATTTTGCAAAACCTGACCCGAGAAA-TTTTTCCTCAATTCTTT-GACACAATACTC
* * * *
144526 AGAAAAAATTTATAATTC--CTTGCCAAAAAAATTGAAAGG-ATTTTCACGCTTCTAATATCG-T
193 AG-AAAAATATATAATTCAAC-T-ACAAAAAAATTGAAGGGTTTTTTCACGCTTCTAATATCGCT
* ** * * * * * * *
144587 TTACCTAATTTTTTTCGAATTAATTTCTAAATAAATTGAAACAATATTCAGATGGTCGTAAAAAG
255 TTTCC-AA-TTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAAT
* * * * * * * * * *
144652 AAATCTTTAAATCCAATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTA
318 AAATCCTTAAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCA
* * ** * * * ** *
144717 CGCCAAAAATCAGGCAAAACTGAGGCGAGGCCCCGGAACGTGTTTTT-AGTAAAAACTCGTTATG
383 TGCCAAAAACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAAC-CGTGATG
*
144781 GTCAGTACACGATTTCG
447 GTTAGTACACGATTTCG
144798 GCTAAAATTT
Statistics
Matches: 3714, Mismatches: 474, Indels: 317
0.82 0.11 0.07
Matches are distributed among these distances:
628 2 0.00
629 17 0.00
630 71 0.02
631 4 0.00
634 1 0.00
636 217 0.06
637 220 0.06
638 8 0.00
639 265 0.07
640 111 0.03
641 43 0.01
642 29 0.01
643 241 0.06
644 9 0.00
645 4 0.00
646 2 0.00
647 1 0.00
648 4 0.00
649 174 0.05
650 56 0.02
651 288 0.08
652 224 0.06
653 360 0.10
654 437 0.12
655 529 0.14
656 64 0.02
657 331 0.09
660 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (651 bp):
AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
CAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAGTACAAGATTT
CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGACACAATACTCAGA
AAAATATATAATTCAACTACAAAAAAATTGAAGGGTTTTTTCACGCTTCTAATATCGCTTTTCCA
ATTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAATAAATCCTT
AAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGCCAAAA
ACCATACAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATGGTTAGTACA
CGATTTCGACAAAAAACTTACTCGAAAAATTTTTCACAATTTTTCGCCACAATACTAAGAAAAAA
TATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCACGCTTATAATATCGTCTACCCATTTTT
TTCGAATTAATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATC
C
Found at i:142511 original size:320 final size:319
Alignment explanation
Indices: 139800--144910 Score: 4131
Period size: 320 Copynumber: 15.7 Consensus size: 319
139790 CGCTGCGTCA
* * * **
139800 AATGTGGTTGAGATTTGGATCGTTAAATATAGAAATCTCAAGGAGTCTTTACACCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * * * *
139865 TAAAACTGAGTAGGGGCCCCAGAACGCGTTTTTAGCAAAAACCCGTGATGATTAGTACACGATTT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATGGTTAGTACACGATTT
* * *
139930 CGGCTAAATTTTGCAAAAACTGACCCGAGAAATTTTTCTCTCAATTCTTTGACACAATACTCAAA
131 C-G--ACA------AAAAACTGACCCGA-AAATTTTT-TCTCAATTCTTTGCCACAATACTCAGA
* * **
139995 AAAAATATATAATTCAACT-ACAAAAAAATAT-AAGGGTTTTTCACGCTTCTAATATTGTTTTTC
185 AAAAATATATAATTCAA-TGCCAAAAAAAT-TGAAGGGTTTTTCACGCTTCTAATATCGTTTACC
* * ** * *
140058 CA-ATTTTTCAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAG-TTTTCGTCAAAATAAAT
248 CATTTTTTTC---AATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAAT
*
140121 CCTTAAATCC
310 CTTTAAATCC
* * * * * * * * * *
140131 AATGCGGCTGAGATTTGATTAGATGAATA-ATGATATTTCAATGAGTGTTTATGCCAAAAACCAT
1 AATGTGGTTGAGATTTGGTTCGTTAAATATA-GATATTTCAAGGAGTCTTTATGCCAAAAATCAG
* * * * * * * *
140195 ACAAAAATGAATCGAGTCCCCGAAACGCGTTTTTAACTAAAAA-CCGTGATTGTTAGTACATGAT
65 GCAAAACTGAGTCGAGGCCCCGGAACGCGTTTTT-ACCAAAAACCCGTGATGGTTAGTACACGAT
* * * * *
140259 TTCGACAAAAAACTTACCCGAAATTTTTTTTTCACAATT-TTTCGCCACAATACTTAGAAGAAAT
129 TTCGACAAAAAACTGACCCGAAA--ATTTTTTCTCAATTCTTT-GCCACAATACTCAGAAAAAAT
* * * *
140323 ATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCAGGCATATAATATCGTTTACCCATTTTTT
191 ATATAATTCAATGCCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTT
* * * * *
140388 CCGAATTAATTTC----TAAATCGAAACAAGATTCTGATGCTCGTAAAAAGAATTCTTTAAATCA
256 TC-AATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCC
* * * *
140449 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGCAGTTTTTACGCCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * * * * * *
140514 CAAAACTGAGCCGGGGCCTCGGAACACGTTTTTAGCAATAACCCGTGATGGTTATTACAAGATTT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATGGTTAGTACACGATTT
* * *
140579 CGGCTAAAATTTTTCAAAAACTGACACGATAAATTTTTCCTCAATTCTTTGCCACAACT-CTCAG
131 C-G---ACA------AAAAACTGACCCGA-AAATTTTTTCTCAATTCTTTGCCACAA-TACTCAG
* * * * * * *
140643 AAGAAATATATAATTTAACGACAACAAAATTGAAGGGTTTTTTTCACGCTTCTAATATGGCTTTT
184 AAAAAATATATAATTCAATGCCAAAAAAATTGAAGGG--TTTTTCACGCTTCTAATATCG-TTTA
** ** * * * * *
140708 CTAATTCTTTTAAAGAATTTACTTCTAATTAAATCGAAATAAAATTTAGATGCTCGTAAAAATAA
246 CCCATT-TTTT--TCAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAA
* *
140773 ATCCTTAAATTC
308 ATCTTTAAATCC
* * * * * * * * * * * **
140785 AAAGTGGTTAAGATTTGGTTAGATGAATAAACAAATTTCAATGAGTCTTCATGCCAAAAACCATA
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * *
140850 CAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCGAAAA-CTGTGATGGTTAGTATACGATT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTT-ACCAAAAACCCGTGATGGTTAGTACACGATT
* * ** * * * *
140914 TCGACAAAAAATTGACTCGAAAAAATTTTCACAATT-TTTCGCCAGAATACTAAGAAAAAATTTA
130 TCGACAAAAAACTGACCCGAAAATTTTTTCTCAATTCTTT-GCCACAATACTCAGAAAAAATATA
* * * * *
140978 TAATTCAATGCCAAAAAAAATCGAATGGTTTTTCACGCTTATAATATCGTCTGCCCATTTTTTTC
194 TAATTCAATGCC-AAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTC
* * *
141043 GATTTAATTTCTAAATAAATCGAAACAAGACTCAGATGCTCGTAAAAAGAAATCTTTAAATCC
258 AATTT-ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCC
* * **
141106 AATGTGGTTGAGATTTGGTTCCTTAAATATAGATATCTCAAGGAGTCTTTACACCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * * * * *
141171 CAAAACTGAGCCGGGGCCCCGGTACGAGTTTTTATCGAAAACCCGTGA----T-GTACATGATTT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATGGTTAGTACACGATTT
* ** *
141231 CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTTCTCAATTCTTTTACACAATACTCAGT
131 C-G--ACAA------AAAA-CTGACCCGA-AAATTTTTTCTCAATTCTTTGCCACAATACTCAGA
* * *
141296 AAAAATATATAATTGAACT-ACAACAAAATTGAAGGGTTTTTTCACGCTTCTAATATCG------
185 AAAAATATATAATTCAA-TGCCAAAAAAATTGAAGGG-TTTTTCACGCTTCTAATATCGTTTACC
* * * * *
141354 C---TTTTCCAA-TT-TCTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAATAAATCGT
248 CATTTTTTTCAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTT
141414 TAAATCC
313 TAAATCC
* * * * * * * *
141421 AATGTGGTTGAAATTTGGTTAGATGAATA-ATGATTTTTCAATGAGTCTTTATGCCAAAAACCAT
1 AATGTGGTTGAGATTTGGTTCGTTAAATATA-GATATTTCAAGGAGTCTTTATGCCAAAAATCAG
* * * * * *
141485 ACAAAACTGAGTTGAGGGCCCGAAACGCGTTTATAACCAAAAA-CCGTGATGGTTAGTACATGAT
65 GCAAAACTGAGTCGAGGCCCCGGAACGCGTTT-TTACCAAAAACCCGTGATGGTTAGTACACGAT
* * * * *
141549 TTCGGCAAAAAACTTACTCGAAAATTTTTT-TCAAAATT-TTTCGCCACAATACTTAGAAGAAAT
129 TTCGACAAAAAACTGACCCGAAAATTTTTTCTC--AATTCTTT-GCCACAATACTCAGAAAAAAT
* * * *
141612 ATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCAGGCTTTTAATATCGTTTACACATTTTTT
191 ATATAATTCAATGCCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCCA-TTTTT
* * *
141677 TTCGAA-TTAGTTTCTAATTAAATCGAAACAAGATTCAAATGCTCATAAAAAGAAATCTCTAAAT
255 TTC-AATTTA-TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAAT
*
141741 TC
318 CC
** *
141743 AATGTGGTTGAGATTTGGTTTATTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * * * * *** * * * *
141808 CAAAACTGAGCCGGGGCCTCGGAGCGCGTTTTTAGCAAAAACCAGTGATGCCACAATGCTCAAAT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATG-GTTAGTACAC-GA-
* * * *
141873 TTTGGCCAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGCCACAATGCTCAG
128 TTTCGAC-AA------AAAA-CTGACCCGA-AAATTTTTTCTCAATTCTTTGCCACAATACTCAG
* * * * *
141938 AAAAAATATATAATTCAACGACAAATAAATTTAAGGGTTTTTTCACGCTT-TCAATATCGTTTTT
184 AAAAAATATATAATTCAATGCCAAAAAAATTGAAGGG-TTTTTCACGCTTCT-AATATCG-TTTA
* * * * * *
142002 CCAATTTTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTTAGATGCTCGTAAAAATAAA
246 CCCATTTTTTT--CAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAA
* *
142067 TCCTTAAATTC
309 TCTTTAAATCC
* * * * * * * * * **
142078 AATGTGGCTAAGATTTGGTTGGATGAATAAAGATATTTCAATGAGTCTTCATGCCAAAAACCATA
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * *
142143 CAAAACTGATTCGAGGTCCCGAAACGCGTTTTTAACCGAAAA-CCGTGATGGTTAGTACACGATT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTT-ACCAAAAACCCGTGATGGTTAGTACACGATT
* * * *
142207 TCGACAAAAAACTGACTCGAAAAATTTTTCTCAATT-TTCGCCACAATACTAAGAAAAAA-ATTA
130 TCGACAAAAAACTGACCCGAAAATTTTTTCTCAATTCTTTGCCACAATACTCAGAAAAAATA-TA
* * * *
142270 TAATTCAATGCCATAATAAATTGAATGGTTTTTCACGCTTATAATATCGTCTACCCATTTTTTTC
194 TAATTCAATGCCA-AAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTC
* *
142335 AATTTAATTTCTAAATAAATCGAAACAAGATTCATATGCTCGTAAAAAGAAATCTTTAAATCC
258 AATTT-ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCC
* * * * *
142398 AATGTAGTTGAGATGTGGTTCGTTAAATATAGATATTTCCAGGAGTCTTTACGCCAAAAATTAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * *
142463 CAAAACTGAGCCGAGGCCCCGGTACGCGTTTTTATCAAAAACCCGTGATGGTTAGTACATGATTT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATGGTTAGTACACGATTT
* ** *
142528 CGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTTCTCAATTCTTTTACACAATACTCAGT
131 C-G--ACAA------AAAA-CTGACCCGA-AAATTTTTTCTCAATTCTTTGCCACAATACTCAGA
* *
142593 AAAAATATATAATTGAACT-ACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATA----TT----
185 AAAAATATATAATTCAA-TGCCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCC
* * * * * *
142649 -GTTTTTCCTA-TT-TCTCTAATTAAATCCAAACAAGATTCAGATGCTCGTAAAAAGAAATCTCT
249 ATTTTTTTCAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTT
**
142711 AAATTT
314 AAATCC
* * **
142717 AATGTGGTTGAGATTTGCTTCGTTAAATATAGATATCTCAAGGAGTCTTTACACCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * ** * * * * *
142782 CAAAACTGAGCCGTGGTTCCGGTACGCAGTTTTTATCGAAAACCCGTGATGGGTAGTACATGATT
66 CAAAACTGAGTCGAGGCCCCGGAACGC-GTTTTTACCAAAAACCCGTGATGGTTAGTACACGATT
* * **
142847 TCGGCTAATATTTTGCAAAACCTGACCTGAGAAATTTTTTCTCAATTCTTTTACACAATACTCAG
130 TCGAC--A-A------AAAA-CTGACCCGA-AAATTTTTTCTCAATTCTTTGCCACAATACTCAG
* * * *
142912 TAAAAATATATAATTGAACT-ACAAAAAAATTGAAGGATTTTTCACGCTTCTAATA----TT---
184 AAAAAATATATAATTCAA-TGCCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACC
* * * * *
142969 --GTTTTTCCAA-TT-TCTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCGT
248 CATTTTTTTCAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTT
143030 TAAATCC
313 TAAATCC
* * * * * * * * *
143037 AATGTGGCTGAAATTTGGTTAGATGAATA-ATGATTTTTCAATGAGTCTTTATGCCAAAAACCAT
1 AATGTGGTTGAGATTTGGTTCGTTAAATATA-GATATTTCAAGGAGTCTTTATGCCAAAAATCAG
* * * * * * * *
143101 ACAAAAATGAGTTGAGGGCCCGAAACGTGTTTATAACCAAAAA-CCGTGATGGTTAGTACATGAT
65 GCAAAACTGAGTCGAGGCCCCGGAACGCGTTT-TTACCAAAAACCCGTGATGGTTAGTACACGAT
* * * * *
143165 TTCGGCAAAAAAACTTACTCGAAAATTTTTT-TCAAAATT-TTTCGCCACAATACTTAGAAGAAA
129 TTCGAC-AAAAAACTGACCCGAAAATTTTTTCTC--AATTCTTT-GCCACAATACTCAGAAAAAA
* * *
143228 TATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCAGGCTTTTAATATCGTTTACCCATTTTT
190 TATATAATTCAATGCCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTT
* * * * *
143293 TTCCAAATTAATTTCTAATTAAATCGAAACAAGATTAAAATGCTCATAAAAAGAAATCTCTAAAT
255 TT-C-AATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAAT
*
143358 TC
318 CC
* ** *
143360 AATGTGGTTGAGATTTGATTTATTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * * * * * * *
143425 CAAAACTGAGCCGGGGACTCGTAGCGCGTTTTTAGCAAAAACCAGTGATGGTTTGTACACGATTT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATGGTTAGTACACGATTT
* * * * *
143490 CGGCCAAATTTTGCAAAATTGACCCGAGAAAATTTTCCTCAATTCTTTGCCACAATGCTCAGAAA
131 C-GAC-AA------AAAACTGACCCGA-AAATTTTTTCTCAATTCTTTGCCACAATACTCAGAAA
* * * * * *
143555 AAATATATAATTCAACGACAAATAAATTTAAGGGTTTTTTCACGCTT-TCAATATCGTTTTTCCA
187 AAATATATAATTCAATGCCAAAAAAATTGAAGGG-TTTTTCACGCTTCT-AATATCG-TTTACCC
* * * * * * *
143619 ATTTTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTTAGATGCTCGAAAAAATAAATCC
249 ATTTTTTT--CAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCT
*
143684 TTAAATTC
312 TTAAATCC
* * * * * * * * * **
143692 AATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGCCAAAAACCATA
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * *
143757 CAAAACTGAGTCGA-ACCCCGAAACGCGTTTTTAACCGAAAA-CCGTGATGGTTAGTACACGATT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTT-ACCAAAAACCCGTGATGGTTAGTACACGATT
* * *
143820 TCGACAAAAAACTGACTCGAAAATTTTTTCTCAATT-TTCGCCACAATACTAAGAAAAAA-ATTA
130 TCGACAAAAAACTGACCCGAAAATTTTTTCTCAATTCTTTGCCACAATACTCAGAAAAAATA-TA
* * * *
143883 TAATTCAATGCCATAATAAATTGAATGGTTTTTCACGCTTATAATATCGTCTACCCATTTTTTTC
194 TAATTCAATGCCA-AAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTC
* *
143948 AATTTAATTTCTAAATAAATCGAAACAAGATTCATATGCTCGTAAAAAGAAATCTTTAAATCC
258 AATTT-ATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCC
* * * * *
144011 AATGTAGTTGAGATGTGGTTCGTTAAATATAGATATTTCCAGGAGTCTTTACGCCAAAAATTAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* *
144076 CAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAGTACACGATTT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATGGTTAGTACACGATTT
* * * *
144141 CGGCTAAAATTTTGCAAAAACTGACCCGAGAAATTTTTTCCTCAATTCTTTGCCACAGTGCTTAG
131 C-G---ACA------AAAAACTGACCCGA-AAATTTTTT-CTCAATTCTTTGCCACAATACTCAG
* * *
144206 AAAAAATATATAATTCAA--CAACAAAAAATTGAAGGGCTTTTTCACGCTTCTAATTTCGCTTTT
184 AAAAAATATATAATTCAATGCCA-AAAAAATTGAAGGG-TTTTTCACGCTTCTAATATCG-TTTA
* * * ** *
144269 CCAATTTTTTTAATAATTTACTTCTAATTAAATCGAAACGAA-ATTTTGATGCTCGTAAAAATAA
246 CCCATTTTTTT--CAATTTATTTCTAATTAAATCGAAAC-AAGATTCAGATGCTCGTAAAAAGAA
144333 AT-TCTTAAA-CTC
308 ATCT-TTAAATC-C
* * * * * * * * * * * * **
144345 AATGTGGCTAAGATTTTGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGACTAAAACCATA
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * * * *
144410 CAAAACTGAGTCGAGTCCTCGAAACGCGTTTTTAACCGAAAA-CCGTGATAGTTAGTATACGATT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTT-ACCAAAAACCCGTGATGGTTAGTACACGATT
** * * *
144474 TCGGTAAAAAAATG-CCCGAAAATTTTTTTCTCAATT-TTTCGCCGCAATACTCAGAAAAAATTT
130 TCGACAAAAAACTGACCCGAAAA-TTTTTTCTCAATTCTTT-GCCACAATACTCAGAAAAAATAT
** * * *
144537 ATAATTCCTTGCCAAAAAAATTGAAAGGATTTTCACGCTTCTAATATCGTTTACCTAATTTTTTT
193 ATAATTCAATGCCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACC-CATTTTTTT
* * * * *
144602 CGAATTAATTTCTAAATAAATTGAAACAATATTCAGATGGTCGTAAAAAGAAATCTTTAAATCC
257 C-AATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCC
* *
144666 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
* * ** * * *
144731 CAAAACTGAGGCGAGGCCCCGGAACGTGTTTTTAGTAAAAACTCGTTATGGTCAGTACACGATTT
66 CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATGGTTAGTACACGATTT
* * * * * * *
144796 CGGCTAAAATTTTGCAATAACTGACCCAAAAAAATTTTCCTCAATTCTTTGCCATATTACTCTG-
131 C-G--ACAA------AA-AACTGACCC-GAAAATTTTTTCTCAATTCTTTGCCACAATACTCAGA
* *
144860 AAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTCACGCTTCT
185 AAAAATATATAATTCAATGCCAAAAAAATTGAAGGG-TTTTTCACGCTTCT
144911 CGCTTCTATT
Statistics
Matches: 3811, Mismatches: 757, Indels: 423
0.76 0.15 0.08
Matches are distributed among these distances:
308 4 0.00
309 45 0.01
310 117 0.03
311 8 0.00
314 3 0.00
315 131 0.03
316 17 0.00
317 31 0.01
318 128 0.03
319 308 0.08
320 520 0.14
321 376 0.10
322 383 0.10
323 226 0.06
324 51 0.01
325 52 0.01
326 45 0.01
327 114 0.03
328 22 0.01
329 25 0.01
330 93 0.02
331 263 0.07
332 253 0.07
333 109 0.03
334 182 0.05
335 156 0.04
336 144 0.04
337 5 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (319 bp):
AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATTTCAAGGAGTCTTTATGCCAAAAATCAGG
CAAAACTGAGTCGAGGCCCCGGAACGCGTTTTTACCAAAAACCCGTGATGGTTAGTACACGATTT
CGACAAAAAACTGACCCGAAAATTTTTTCTCAATTCTTTGCCACAATACTCAGAAAAAATATATA
ATTCAATGCCAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTCAAT
TTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCC
Found at i:144497 original size:974 final size:964
Alignment explanation
Indices: 139800--144908 Score: 4206
Period size: 974 Copynumber: 5.2 Consensus size: 964
139790 CGCTGCGTCA
* * * **
139800 AATGTGGTTGAGATTTGGATCGTTAAATATAGAAATCTCAAGGAGTCTTTACACCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTAGTTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
* ** * * * * *
139865 TAAAACTGAGTAGGGGCCCCAGAACGCGTTTTTAGCAAAAACCCGTGATGATTAGTACACGATTT
66 CAAAACTGAG-CCGAGCCCCGGAACGCGTTTTTACCGAAAA-CCGTGATGGTTAGTACACGATTT
* * * * *
139930 CGGCTAAATTTTGCAAAAACTGACCCGAGAAATTTTTCTCTCAATTCTTTGACACAATACTCAA-
129 CGAC-AAA---T--AAAACCTGACTCGAGAAATTTTT-TCTCAATTCTTCGCCACAATACT-AAG
* * * *
139994 AAAAAATATATAATTCAACT-ACAAAAAAATAT-AA-GGGTTTTTCACGCTTCTAATATTGTTTT
186 AAAAAATATATAATTCAA-TGACAAAAAAAT-TGAATGGATTTTTCACGCTTATAATATCG-TCT
* * * * ** * *
140056 TCCA-ATTTTTCAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAG-TTTTCGTCAAAATAA
248 CCCATTTTTTTC---AATTTATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAA
* * * * * * * *
140119 ATCCTTAAATCCAATGCGGCTGAGATTTGATTAGATGAATA-ATGATATTTCAATGAGTGTTTAT
310 ATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGATAAATATA-GATATTTCAAGGAGTCTTTAC
* * ** * * *
140183 GCCAAAAACCATACAAAAATGAATCGAGTCCCCGAAACGCGTTTTTAACTAAAAACCGTGATTGT
374 GCCAAAAACCAGACAAAACTGAGCCGAGGCCCCGAAACGCGTTTTT-ACCAAAAACCGTGATGGT
* * * * *
140248 TAGTACATGATTTC-G-ACAAAAAACTTACCCGAAATTTTTTTTTCACAATTTTTCGCCACAATA
438 TAGTACACGATTTCGGCAAAAAAAACTGACCCGAAA--ATTTTTTCTCAATTTTT-GCCACAATA
* * * * *
140311 CTTAGAAGAAATATATAATTCAATGCCA-AAAAAATTGAAAGGTTTTTCAGGCATATAATATCGT
500 CTTAGAAAAAATATATAATTCAA-GCCACAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGT
** * **
140375 TTACCCA-TTTTTTCCGAATTAA-TT-T--CTAAATCGAAACAAGATTCTGATGCTCGTAAAAAG
564 TTACCCATTTTTTTCAAAATTAACTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAAG
* * * * * * * * * *
140435 AATTCTTTAAATCAAATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGCAGTTTTTA
629 AAATCGTTAAATCCAATGTGGTTAAGATTTGGTTAGATAAATAAAGATATTTCAAGGAGTCTTTA
* * * * * * * *
140500 CGCCAAAAATCAGGCAAAACTGAGCCGGGGCCTCGGAACACGTTTTTAGCAATAACCCGTGATGG
694 TGCCAAAAACCAGACAAAACTGAGCCGAGGCCTCGAAACGCGTTTTTACCAA-AAACCGTGATGG
* * * * *
140565 TTATTACAAGATTTCGGCTAAAATTTTTCAAAAACTGACACGATAAATTTTTCCTCAATTCTTTG
758 TTAGTACACGATTTCGGC-CAAA----T--AAAACTGACCCGA-AAATTTTTTCTCAATTCTTTG
* * *
140630 CCACAACT-CTCAGAAGAAATATATAATTTAACGACAACAAAATTGAAGGGTTTTTTTCACGCTT
815 CCACAA-TACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGG--TTTTTCACGCTT
* * * * *
140694 CTAATATGGCTTTTCTAATTCTTTTAAAGAATTTACTTCTAATTAAATCGAAATAAAATTTAGAT
877 CTAATATCG-TTTTCCAATT-TTTT-TAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGAT
*
140759 GCTCGTAAAAATAAATCCTTAAATTC
939 GCTCGTAAAAAGAAATCCTTAAATTC
* * * * * * * * * * * **
140785 AAAGTGGTTAAGATTTGGTTAGATGAATAAACAAATTTCAATGAGTCTTCATGCCAAAAACCATA
1 AATGTGGTTGAGATTTGGTTAGTTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
* * * *
140850 CAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAACCGAAAACTGTGATGGTTAGTATACGATTT
66 CAAAACTGAGCCGA-GCCCCGGAACGCGTTTTT-ACCGAAAACCGTGATGGTTAGTACACGATTT
* ** * * * *
140915 CGAC-AA-AAAA-TTGACTCGA-AAAAATTTTCACAATTTTTCGCCAGAATACTAAGAAAAAATT
129 CGACAAATAAAACCTGACTCGAGAAATTTTTTCTCAATTCTTCGCCACAATACTAAGAAAAAATA
* *
140976 TATAATTCAATGCCAAAAAAAATCGAATGG-TTTTTCACGCTTATAATATCGTCTGCCCATTTTT
194 TATAATTCAATGAC-AAAAAAATTGAATGGATTTTTCACGCTTATAATATCGTCT-CCCATTTTT
* *
141040 TTCGATTTAATTTCTAAATAAATCGAAACAAGACTCAGATGCTCGTAAAAAGAAATCTTTAAATC
257 TTCAATTT-ATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATC
* ** * * *
141105 CAATGTGGTTGAGATTTGGTTCCTTAAATATAGATATCTCAAGGAGTCTTTACACCAAAAATCAG
321 CAATGTGGCTGAGATTTGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACGCCAAAAACCAG
* * ** * * * *
141170 GCAAAACTGAGCCGGGGCCCCGGTACGAGTTTTTATCGAAAACCCGTGA----T-GTACATGATT
386 ACAAAACTGAGCCGAGGCCCCGAAACGCGTTTTTA-CCAAAAACCGTGATGGTTAGTACACGATT
** *
141230 TCGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTTCTCAATTCTTTTACACAATACTCAG
450 TCGGC-AAAA------AAAA-CTGACCCGA-AAATTTTTTCTCAATT-TTTGCCACAATACTTAG
* * *
141295 TAAAAATATATAATTGAA-CTACAACAAAATTGAAGGGTTTTTTCACGCTTCTAATATCG-----
505 AAAAAATATATAATTCAAGCCACAA-AAAATTGAAGGG-TTTTTCACGCTTCTAATATCGTTTAC
* * * * *
141354 -C----TTTTC-CAATT-TC-TCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAATAAAT
568 CCATTTTTTTCAAAATTAACTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAAGAAAT
* * * *
141411 CGTTAAATCCAATGTGGTTGAA-ATTTGGTTAGATGAATAATGATTTTTCAATGAGTCTTTATGC
633 CGTTAAATCCAATGTGGTT-AAGATTTGGTTAGATAAATAAAGATATTTCAAGGAGTCTTTATGC
* ** *
141475 CAAAAACCATACAAAACTGAGTTGAGGGCC-CGAAACGCGTTTATAACCAAAAACCGTGATGGTT
697 CAAAAACCAGACAAAACTGAGCCGA-GGCCTCGAAACGCGTTT-TTACCAAAAACCGTGATGGTT
* * *
141539 AGTACATGATTTCGG-C-AA-AAAACTTACTCGAAAATTTTTT-TCAAAATT-TTTCGCCACAAT
760 AGTACACGATTTCGGCCAAATAAAACTGACCCGAAAATTTTTTCTC--AATTCTTT-GCCACAAT
* * * * * * *
141599 ACTTAGAAGAAATATATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCAGGCTTTTAATATCGT
822 ACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGT
* * * * * * *
141664 TTACACATTTTTTTTCGAA-TTAGTTTCTAATTAAATCGAAACAAGATTCAAATGCTCATAAAAA
887 TTTC-CAATTTTTTTAGAATTTA-CTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAA
141728 GAAAT-CTCTAAATTC
950 GAAATCCT-TAAATTC
141743 AATGTGGTTGAGATTTGGTTTA-TTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAG
1 AATGTGGTTGAGATTTGG-TTAGTTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAG
* * * * * *** * * * *
141807 GCAAAACTGAGCCGGGGCCTCGGAGCGCGTTTTTAGCAAAAACCAGTGATGCCACAATGCTCAAA
65 GCAAAACTGAGCC-GAGCCCCGGAACGCGTTTTTACCGAAAACC-GTGATG-GTTAGTACAC-GA
* * * * * * *
141872 TTTTGGCCAAATTTTGCAAAACCTGACCCGAGAAATTTTTCCTCAATTCTTTGCCACAATGCTCA
126 -TTTCGACAAA---T--AAAACCTGACTCGAGAAATTTTTTCTCAATTCTTCGCCACAATACTAA
* * * * * *
141937 GAAAAAATATATAATTCAACGACAAATAAATTTAAGGGTTTTTTCACGCTT-TCAATATCGTTTT
185 GAAAAAATATATAATTCAATGACAAAAAAATTGAATGGATTTTTCACGCTTAT-AATATCG--TC
* * * * * * *
142001 TCCAATTTTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTTAGATGCTCGTAAAAATAA
247 TCCCATTTTTTT--CAATTTATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAA
* * * * * * * * *
142066 ATCCTTAAATTCAATGTGGCTAAGATTTGGTTGGATGAATAAAGATATTTCAATGAGTCTTCATG
310 ATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACG
* ** * *
142131 CCAAAAACCATACAAAACTGATTCGAGGTCCCGAAACGCGTTTTTAACCGAAAACCGTGATGGTT
375 CCAAAAACCAGACAAAACTGAGCCGAGGCCCCGAAACGCGTTTTT-ACCAAAAACCGTGATGGTT
* * * * *
142196 AGTACACGATTTC-G-ACAAAAAACTGACTCGAAAAATTTTTCTCAATTTTCGCCACAATACTAA
439 AGTACACGATTTCGGCAAAAAAAACTGACCCGAAAATTTTTTCTCAATTTTTGCCACAATACTTA
* * * * *
142259 GAAAAAA-ATTATAATTCAATGCCATAATAAATTGAATGGTTTTTCACGCTTATAATATCGTCTA
504 GAAAAAATA-TATAATTCAA-GCCACAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTA
* * * * *
142323 CCCATTTTTTTC-AATTTAATTTCTAAATAAATCGAAACAAGATTCATATGCTCGTAAAAAGAAA
567 CCCATTTTTTTCAAAATTAACTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAAGAAA
* * * * * * * * *
142387 TCTTTAAATCCAATGTAGTTGAGATGTGGTTCGTTAAATATAGATATTTCCAGGAGTCTTTACGC
632 TCGTTAAATCCAATGTGGTTAAGATTTGGTTAGATAAATAAAGATATTTCAAGGAGTCTTTATGC
** * * ** *
142452 CAAAAATTAGGCAAAACTGAGCCGAGGCCCCGGTACGCGTTTTTATCAAAAACCCGTGATGGTTA
697 CAAAAACCAGACAAAACTGAGCCGAGGCCTCGAAACGCGTTTTTACCAAAAA-CCGTGATGGTTA
* * **
142517 GTACATGATTTCGGCTAAAATTTTGCAAAACCTGACCCGAGAAATTTTTTCTCAATTCTTTTACA
761 GTACACGATTTCGGC-CAAA---T--AAAA-CTGACCCGA-AAATTTTTTCTCAATTCTTTGCCA
* * *
142582 CAATACTCAGTAAAAATATATAATTGAACTACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATA
818 CAATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATA
* * *
142647 TTGTTTTTCC--------T---ATTT-C-TCTAATTAAATCCAAACAAGATTCAGATGCTCGTAA
883 TCG-TTTTCCAATTTTTTTAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAA
*
142699 AAAGAAAT-CTCTAAATTT
947 AAAGAAATCCT-TAAATTC
* * **
142717 AATGTGGTTGAGATTTGCTTCGTTAAATATAGATATCTCAAGGAGTCTTTACACCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTAGTTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
* ** * * * *
142782 CAAAACTGAGCCGTGGTTCCGGTACGCAGTTTTTATCGAAAACCCGTGATGGGTAGTACATGATT
66 CAAAACTGAGCCG-AGCCCCGGAACGC-GTTTTTACCGAAAA-CCGTGATGGTTAGTACACGATT
* *** *
142847 TCGGCTAATATTTTGCAAAACCTGAC-CTGAGAAATTTTTTCTCAATTCTTTTACACAATACTCA
128 TCGAC-AA-A---T--AAAACCTGACTC-GAGAAATTTTTTCTCAATTCTTCGCCACAATACTAA
* * *
142911 GTAAAAATATATAATTGAACT-ACAAAAAAATTGAA-GGATTTTTCACGCTTCTAATA---T-T-
185 GAAAAAATATATAATTCAA-TGACAAAAAAATTGAATGGATTTTTCACGCTTATAATATCGTCTC
* * * * * *
142969 ---GTTTTTCCAA-TT-TCTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCG
249 CCATTTTTTTCAATTTATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCT
* * * * * *
143029 TTAAATCCAATGTGGCTGAAATTTGGTTAGATGAATA-ATGATTTTTCAATGAGTCTTTATGCCA
314 TTAAATCCAATGTGGCTGAGATTTGGTTCGATAAATATA-GATATTTCAAGGAGTCTTTACGCCA
* * ** * * *
143093 AAAACCATACAAAAATGAGTTGAGGGCCCGAAACGTGTTTATAACCAAAAACCGTGATGGTTAGT
378 AAAACCAGACAAAACTGAGCCGAGGCCCCGAAACGCGTTT-TTACCAAAAACCGTGATGGTTAGT
* * *
143158 ACATGATTTCGGC-AAAAAAACTTACTCGAAAATTTTTT-TCAAAATTTTTCGCCACAATACTTA
442 ACACGATTTCGGCAAAAAAAACTGACCCGAAAATTTTTTCTC--AATTTTT-GCCACAATACTTA
* * * *
143221 GAAGAAATATATAATTCAATGCCA-AAAAAATTGAAAGGTTTTTCAGGCTTTTAATATCGTTTAC
504 GAAAAAATATATAATTCAA-GCCACAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTAC
* * * *
143285 CCATTTTTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTAAAATGCTCATAAAAAGAAAT
568 CCATTTTTTTCAAAATTAACTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAAGAAAT
* * * * * *
143350 C-TCTAAATTCAATGTGGTTGAGATTTGATTTA-TTAAATATAGATATCTCAAGGAGTCTTTATG
633 CGT-TAAATCCAATGTGGTTAAGATTTG-GTTAGATAAATAAAGATATTTCAAGGAGTCTTTATG
* * * * * * *
143413 CCAAAAATCAGGCAAAACTGAGCCGGGGACTCGTAGCGCGTTTTTAGCAAAAACCAGTGATGGTT
696 CCAAAAACCAGACAAAACTGAGCCGAGGCCTCGAAACGCGTTTTTACCAAAAACC-GTGATGGTT
* * * *
143478 TGTACACGATTTCGGCCAAATTTTGCAAAATTGACCCGAGAAAATTTTCCTCAATTCTTTGCCAC
760 AGTACACGATTTCGGCCAAA---T--AAAACTGACCCGA-AAATTTTTTCTCAATTCTTTGCCAC
* * *
143543 AATGCTCAGAAAAAATATATAATTCAACGACAAATAAATTTAAGGGTTTTTTCACGCTT-TCAAT
819 AATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGG-TTTTTCACGCTTCT-AAT
* *
143607 ATCGTTTTTCCAATTTTTTTAAGAATTTACTTCTAATTAAATCGAAACAAAATTTAGATGCTCGA
882 ATCG-TTTTCCAATTTTTTT-AGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGT
*
143672 AAAAATAAATCCTTAAATTC
945 AAAAAGAAATCCTTAAATTC
* * * * * * * * * **
143692 AATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTCATGCCAAAAACCATA
1 AATGTGGTTGAGATTTGGTTAGTTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
* * *
143757 CAAAACTGAGTCGAACCCCGAAACGCGTTTTTAACCGAAAACCGTGATGGTTAGTACACGATTTC
66 CAAAACTGAGCCGAGCCCCGGAACGCGTTTTT-ACCGAAAACCGTGATGGTTAGTACACGATTTC
143822 GAC-AA-AAAA-CTGACTCGA-AAATTTTTTCTCAATT-TTCGCCACAATACTAAGAAAAAA-AT
130 GACAAATAAAACCTGACTCGAGAAATTTTTTCTCAATTCTTCGCCACAATACTAAGAAAAAATA-
* *
143881 TATAATTCAATGCCATAATAAATTGAATGG-TTTTTCACGCTTATAATATCGTCTACCCATTTTT
194 TATAATTCAATGACA-AAAAAATTGAATGGATTTTTCACGCTTATAATATCGTCT-CCCATTTTT
*
143945 TTCAATTTAATTTCTAAATAAATCGAAACAAGATTCATATGCTCGTAAAAAGAAATCTTTAAATC
257 TTCAATTT-ATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATC
* * * * * **
144010 CAATGTAGTTGAGATGTGGTTCGTTAAATATAGATATTTCCAGGAGTCTTTACGCCAAAAATTAG
321 CAATGTGGCTGAGATTTGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACGCCAAAAACCAG
* * *
144075 GCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCAAAAACCCGTGATGGTTAGTACACGATT
386 ACAAAACTGAGCCGAGGCCCCGAAACGCGTTTTTACCAAAAA-CCGTGATGGTTAGTACACGATT
* *
144140 TCGGCTAAAATTTTGCAAAAACTGACCCGAGAAATTTTTTCCTCAATTCTTTGCCACAGTGCTTA
450 TCGGC--AAA------AAAAACTGACCCGA-AAATTTTTT-CTCAATT-TTTGCCACAATACTTA
* * *
144205 GAAAAAATATATAATTCAA-CAACAAAAAATTGAAGGGCTTTTTCACGCTTCTAATTTCGCTTTT
504 GAAAAAATATATAATTCAAGCCACAAAAAATTGAAGGG-TTTTTCACGCTTCTAATATCG-TTTA
* * ** *
144269 CCAATTTTTTT-AATAATTTACTTCTAATTAAATCGAAACGAA-ATTTTGATGCTCGTAAAAATA
567 CCCATTTTTTTCAA-AATTAACTTCTAATTAAATCGAAAC-AAGATTAAGATGCTCGTAAAAAGA
* * * * *
144332 AATTC-TTAAA-CTCAATGTGGCTAAGATTTTGTTAGATGAATAAAGATATTTCAATGAGTCTTC
630 AA-TCGTTAAATC-CAATGTGGTTAAGATTTGGTTAGATAAATAAAGATATTTCAAGGAGTCTTT
* * * * * * *
144395 ATGACTAAAACCATACAAAACTGAGTCGAGTCCTCGAAACGCGTTTTTAACCGAAAACCGTGATA
693 ATGCCAAAAACCAGACAAAACTGAGCCGAGGCCTCGAAACGCGTTTTT-ACCAAAAACCGTGATG
* * *
144460 GTTAGTATACGATTTCGG-TAAA-AAAA-TG-CCCGAAAATTTTTTTCTCAATT-TTTCGCCGCA
757 GTTAGTACACGATTTCGGCCAAATAAAACTGACCCGAAAA-TTTTTTCTCAATTCTTT-GCCACA
* *** * * *
144520 ATACTCAGAAAAAATTTATAATTCCTTGCCAAAAAAATTGAAAGGATTTTCACGCTTCTAATATC
820 ATACTCAGAAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATC
* * * * * * * *
144585 GTTTACCTAATTTTTTTCGAATTAATTTCTAAATAAATTGAAACAATATTCAGATGGTCGTAAAA
885 GTTTTCC-AATTTTTTTAGAATTTACTTCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAA
* *
144650 AGAAATCTTTAAATCC
949 AGAAATCCTTAAATTC
* *
144666 AATGTGGTTGAGATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGCCAAAAATCAGG
1 AATGTGGTTGAGATTTGGTTAGTTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
* * *** * *
144731 CAAAACTGAGGCGAGGCCCCGGAACGTGTTTTTAGTAAAAACTCGTTATGGTCAGTACACGATTT
66 CAAAACTGAGCCGA-GCCCCGGAACGCGTTTTTACCGAAAAC-CGTGATGGTTAGTACACGATTT
* * * * * * * * * **
144796 CGGCTAAAATTTTGCAATAA-CTGACCCAAAAAAATTTTCCTCAATTCTTTGCCATATTACTCTG
129 CGAC--AAA---T--AA-AACCTGACTCGAGAAATTTTTTCTCAATTCTTCGCCACAATACTAAG
* * *
144860 -AAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTTCACGCTT
186 AAAAAATATATAATTCAATGACAAAAAAATTGAATGGATTTTTCACGCTT
144909 CTCGCTTCTA
Statistics
Matches: 3333, Mismatches: 589, Indels: 403
0.77 0.14 0.09
Matches are distributed among these distances:
957 12 0.00
958 130 0.04
959 181 0.05
960 123 0.04
961 141 0.04
962 302 0.09
963 17 0.01
964 6 0.00
965 48 0.01
966 26 0.01
967 13 0.00
968 9 0.00
969 23 0.01
970 81 0.02
971 27 0.01
972 281 0.08
973 92 0.03
974 572 0.17
975 349 0.10
976 94 0.03
977 167 0.05
978 8 0.00
979 54 0.02
980 31 0.01
981 2 0.00
982 2 0.00
983 27 0.01
984 70 0.02
985 274 0.08
986 69 0.02
987 84 0.03
988 16 0.00
989 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (964 bp):
AATGTGGTTGAGATTTGGTTAGTTAAATATAGATATCTCAAGGAGTCTTTATGCCAAAAATCAGG
CAAAACTGAGCCGAGCCCCGGAACGCGTTTTTACCGAAAACCGTGATGGTTAGTACACGATTTCG
ACAAATAAAACCTGACTCGAGAAATTTTTTCTCAATTCTTCGCCACAATACTAAGAAAAAATATA
TAATTCAATGACAAAAAAATTGAATGGATTTTTCACGCTTATAATATCGTCTCCCATTTTTTTCA
ATTTATTTCTAAATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATG
TGGCTGAGATTTGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACGCCAAAAACCAGACAAA
ACTGAGCCGAGGCCCCGAAACGCGTTTTTACCAAAAACCGTGATGGTTAGTACACGATTTCGGCA
AAAAAAACTGACCCGAAAATTTTTTCTCAATTTTTGCCACAATACTTAGAAAAAATATATAATTC
AAGCCACAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTCAAAATTA
ACTTCTAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAAGAAATCGTTAAATCCAATGTGGT
TAAGATTTGGTTAGATAAATAAAGATATTTCAAGGAGTCTTTATGCCAAAAACCAGACAAAACTG
AGCCGAGGCCTCGAAACGCGTTTTTACCAAAAACCGTGATGGTTAGTACACGATTTCGGCCAAAT
AAAACTGACCCGAAAATTTTTTCTCAATTCTTTGCCACAATACTCAGAAAAAATATATAATTCAA
CGACAAAAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTCCAATTTTTTTAGAATTTACT
TCTAATTAAATCGAAACAAAATTCAGATGCTCGTAAAAAGAAATCCTTAAATTC
Found at i:145072 original size:11 final size:11
Alignment explanation
Indices: 145056--145089 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
145046 CAAATTTATC
*
145056 TTCTCTGAGTT
1 TTCTCTAAGTT
145067 TTCTCTAAGTT
1 TTCTCTAAGTT
*
145078 TTCTCTTAGTT
1 TTCTCTAAGTT
145089 T
1 T
145090 ATCTGTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.59
Consensus pattern (11 bp):
TTCTCTAAGTT
Found at i:146050 original size:331 final size:318
Alignment explanation
Indices: 145312--146212 Score: 914
Period size: 331 Copynumber: 2.8 Consensus size: 318
145302 TTCTTTGCCA
* * *
145312 CAATGTGGCTAAGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCAT
1 CAATGTGGCTGAGATTTGGTTAGATAAATAAAGATATTTCAATGAGTCTTTATGCTAAAAACCAT
* *
145377 ACAAAACTGAGTCGAGACCCCGAAACGCGTTTTTAACCGAAAACCATGATGGTACACGATTTCAA
66 ACAAAACTTAGTCGAGGCCCCGAAACGCGTTTTTAA-CGAAAACCATGATGGTACACGATTTCAA
* * *
145442 ACAAAAAACTGACCCGAAAAATTTTTCTCAATTTTTCGCCACAATAGTCAGAAAAAATTTATAAT
130 ACAAAAAACTGACCCGAAAAATTTTTCTCAATTATTCGCCACAATACTCAGAAAAAATATATAAT
* * * **
145507 TCAATGCAAAAAAAAAAAATTGAATGATTTTTCACGCTTTTAATATCGTTTACCCATTTTTTTCG
195 TCAA-GC-AAAAAAAAAAATTGAATGAGTTTTCACGCTTCTAATATCGTTTACCAATTTTTTAAG
* *
145572 ATTTAATTTCTAAATAAATCGAAACAAGATTCAAATGCTCGTAAAAAGAAATCTTTAAATC
258 ATTTAAGTTCTAAATAAATCGAAACAAGATTCAAATGCTCGTAAAAAGAAATCCTTAAATC
* * * * * * * *
145633 CAATGTGGCTGATATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACG-TGAAAAATCA
1 CAATGTGGCTGAGATTTGGTTAGATAAATAAAGATATTTCAATGAGTCTTTATGCT-AAAAACCA
** * * * *
145697 GGCAAAA-TTAAGTCGGGGCCCCGGAACGCGTTTATAAC-AAAAGCCCGTGATGTTCAGTAC-CG
65 TACAAAACTT-AGTCGAGGCCCCGAAACGCGTTTTTAACGAAAA--CCATGATG----GTACACG
145759 ATTTTGGCTAAA-ATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAATTCATT-GCCACAATA
123 A-TTT--C-AAACA------AAAAACTGACCCGAAAAATTTTT-CTCAATT-ATTCGCCACAATA
* * * *
145822 CTCTA-AAAAAATATATAATTCAA-C-GACAAAAAAATTGAATGGGTTTTCATGCTTCTAATATC
176 CTC-AGAAAAAATATATAATTCAAGCAAAAAAAAAAATTGAATGAGTTTTCACGCTTCTAATATC
* * *
145884 GTTTTTCCAATTTTTTAAGAATTT-AGTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA
240 G-TTTACCAATTTTTTAAG-ATTTAAGTTCTAAATAAATCGAAACAAGATTCAAATGCTCGTAAA
* *
145948 AATAAATCCTTGAATC
303 AAGAAATCCTTAAATC
* *
145964 CAATGTGACTGAGATTTGGTTAGATAAATAAAGATATTTCAATGAGTCTTTATGCTTAAAACCAT
1 CAATGTGGCTGAGATTTGGTTAGATAAATAAAGATATTTCAATGAGTCTTTATGCTAAAAACCAT
**
146029 ACAAAACTTAGTCGAGGCCCCGAAACGCGTTTTTAACCGAAAATAATGATAGTTAGTACACGATT
66 ACAAAACTTAGTCGAGGCCCCGAAACGCGTTTTTAA-CGAAAACCATGAT-G---GTACACGATT
** * * * * *
146094 TCGGA-AAAAAATTGACCCGAAAAGTTTTTTCTCAATTTTTCGCCATAATACTCAGAAAAAATTT
126 TCAAACAAAAAACTGACCCGAAAA-ATTTTTCTCAATTATTCGCCACAATACTCAGAAAAAATAT
** * *
146158 ATAATTCCTTGC---CAAAAAAATTGAAAG-GATTTTCACGCTTCTAATATCGTTTACC
190 ATAATT-CAAGCAAAAAAAAAAATTGAATGAG-TTTTCACGCTTCTAATATCGTTTACC
146213 CTTGATGGTC
Statistics
Matches: 476, Mismatches: 69, Indels: 70
0.77 0.11 0.11
Matches are distributed among these distances:
319 4 0.01
320 2 0.00
321 96 0.20
322 81 0.17
323 6 0.01
324 4 0.01
325 7 0.01
327 2 0.00
328 5 0.01
329 1 0.00
330 33 0.07
331 157 0.33
332 13 0.03
333 27 0.06
334 35 0.07
335 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (318 bp):
CAATGTGGCTGAGATTTGGTTAGATAAATAAAGATATTTCAATGAGTCTTTATGCTAAAAACCAT
ACAAAACTTAGTCGAGGCCCCGAAACGCGTTTTTAACGAAAACCATGATGGTACACGATTTCAAA
CAAAAAACTGACCCGAAAAATTTTTCTCAATTATTCGCCACAATACTCAGAAAAAATATATAATT
CAAGCAAAAAAAAAAATTGAATGAGTTTTCACGCTTCTAATATCGTTTACCAATTTTTTAAGATT
TAAGTTCTAAATAAATCGAAACAAGATTCAAATGCTCGTAAAAAGAAATCCTTAAATC
Found at i:146653 original size:472 final size:471
Alignment explanation
Indices: 145744--146685 Score: 1455
Period size: 472 Copynumber: 2.0 Consensus size: 471
145734 CAAAAGCCCG
* * *
145744 TGATGTTCAGTACCGATTTTGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAATT
1 TGATGGTCAGTACCGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATATTTCCTCAATT
* *
145809 CATTGCCACAATACTCTAAAAAAATATATAATTCAACGACAAAAAAATTGAATGGGTTTTCATGC
66 CATTACCACAATACTCTAAAAAAATATATAATTCAACGACAAAAAAATTGAATGGGTTTTCACGC
* * *
145874 TTCTAATATCGTTTTTCCAATTTTTTAAGAATTTAGTTCTAATTAAATCGAAACAAGATTCAGAT
131 TTCTAATATCGTTTTTCCAATTTTTTAAGAATTTACTTCTAATTAAATCGAAAAAAAATTCAGAT
* * *
145939 GCTCGTAAAAATAAATCCTTGAATCCAATGTGACTGAGATTTGGTTAGATAAATAAAGATATTTC
196 GCTCGTAAAAATAAATCCTTAAATCCAATGTGACTAAGATTTGGTTAGATAAATAAACATATTTC
** *
146004 AATGAGTCTTTATGCTTAAAACCATACAAAACTTAGTCGAGGCCCCGAAACGCGTTTTTAACCGA
261 AATGAGTCTTTATGCCAAAAACCATACAAAACTAAGTCGAGGCCCCGAAACGCGTTTTTAACCGA
* * * * *
146069 AAATAATGATAGTTAGTACACGATTTCGGAAAAAAATTGACCCGAAAAGTTTTTTCTCAATTTTT
326 AAACAATGATAGTTAGTACACGATTTCGGAAAAAAACTAACCCGAAAAGATTTTTCTCAAATTTT
* * **
146134 CGCCATAATACTCAGAAAAAATTTATAATTCCTTGCCAAAAAAATTGAAAGGATTTTCACGCTTC
391 CACCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAAAAATTGAAAGGATTTTCACGCTTC
146199 TAATATCGTTTACCCT
456 TAATATCGTTTACCCT
* *
146215 TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAATACCTGACCCGAAAAATATTTCCTCAAT
1 TGATGGTCAGTAC-CGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATATTTCCTCAAT
*
146280 TCTTTACCACAATACTCT-AAAAAATATATAATTCAACGACAAAAAAAATTGAA-GGGTTTTTTC
65 TCATTACCACAATACTCTAAAAAAATATATAATTCAACGAC-AAAAAAATTGAATGGG--TTTTC
*
146343 ACGCTTCTAATATCGTTTTTCCAATTTTTTAAGAATTTACTTCTAATTAAATCGAAAAAAAATTT
127 ACGCTTCTAATATCGTTTTTCCAATTTTTTAAGAATTTACTTCTAATTAAATCGAAAAAAAATTC
* *
146408 AGATGCTCGTAAAAATAAATCCTTAAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAACAT
192 AGATGCTCGTAAAAATAAATCCTTAAATCCAATGTGACTAAGATTTGGTTAGATAAAT-AAACAT
* *
146473 ATTTCATTGAGTCTTTATGCCAAAAAGCATACAAAACTAAGTCGAGGCCCCGAAACGCGTTTTTA
256 ATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTAAGTCGAGGCCCCGAAACGCGTTTTTA
** *
146538 ACCGAAAACCGTGA-AGGTTAGTACACGATTTC-GACAAAAACTAACCCGAAAA-ATTTTTCTCA
321 ACCGAAAACAATGATA-GTTAGTACACGATTTCGGAAAAAAACTAACCCGAAAAGATTTTTCTCA
* *
146600 AATTTTCACCACAATACTCAGAAAAAATTTATAATTCAATG-CAAAATAAATTGAATGGTTTTTC
385 AATTTTCACCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAA-AAATTGAAAGGATTTTC
146664 ACGCTTCTAATATCGTTTACCC
449 ACGCTTCTAATATCGTTTACCC
146686 ATTTTTTTCG
Statistics
Matches: 428, Mismatches: 36, Indels: 13
0.90 0.08 0.03
Matches are distributed among these distances:
471 42 0.10
472 157 0.37
473 137 0.32
474 92 0.21
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (471 bp):
TGATGGTCAGTACCGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATATTTCCTCAATT
CATTACCACAATACTCTAAAAAAATATATAATTCAACGACAAAAAAATTGAATGGGTTTTCACGC
TTCTAATATCGTTTTTCCAATTTTTTAAGAATTTACTTCTAATTAAATCGAAAAAAAATTCAGAT
GCTCGTAAAAATAAATCCTTAAATCCAATGTGACTAAGATTTGGTTAGATAAATAAACATATTTC
AATGAGTCTTTATGCCAAAAACCATACAAAACTAAGTCGAGGCCCCGAAACGCGTTTTTAACCGA
AAACAATGATAGTTAGTACACGATTTCGGAAAAAAACTAACCCGAAAAGATTTTTCTCAAATTTT
CACCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAAAAATTGAAAGGATTTTCACGCTTC
TAATATCGTTTACCCT
Found at i:147703 original size:652 final size:652
Alignment explanation
Indices: 146215--150356 Score: 5126
Period size: 652 Copynumber: 6.4 Consensus size: 652
146205 CGTTTACCCT
* * *
146215 TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAATACCTGACCCGAAAAATATTTCCTCAAT
1 TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAAT
* *
146280 TCTTTACCACAATACTCTAAAAAATATATAATTCAACGACAAAAAAAATTGAAGGGTTTTTTCAC
66 TCTTTGCCACAATACTCTGAAAAATATATAATTCAACGAC-AAAAAAATTGAAGGG-TTTTTCAC
* * *
146345 GCTTCTAATATCGTTTTTCCAATTTTTTAAGAATTTACTTCTAATTAAATCGAAAAAAAATTTAG
129 GCTTCTAATATCGTTTTTCCAA-TTTTTAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAG
* * *
146410 ATGCTCGTAAAAATAAATCCTTAAATCCAATGTGGCTAAGATTTGGTTAGATGAATAAAACATAT
193 ATGCTCGTAAAAATAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAAT-AAAGATAT
* * * *
146475 TTCATTGAGTCTTTATGCCAAAAAGCATACAAAACTAAGTCGAGGCCCCGAAACGCGTTTTTAAC
257 TTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAGTCGAGACCCCGAAACGCGTTTTTAAC
* * *
146540 CGAAAACCGTGA-AGGTTAGTACACGATTTCGAC-AAAAACTAACCCGAAAAA--TTTTTCTCAA
322 CAAAAACCGTGATA-GTTAG-ACACGATTTCGGCAAAAAACTGACCCGAAAAATTTTTTTCTCAA
* * *
146601 ATTTTCACCACAATACTCAGAAAAAATTTATAATTCAATG-CAAAATAAATTGAATGGTTTTTCA
385 TTTTTCGCCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAA-AAATTGAAAGGTTTTTCA
*
146665 CGCTTCTAATATCGTTTACCCA-TTTTTTTCGATTTAATTTCT-ATATAAATCGAAACAAGATTC
449 CGCTTCTAATATCGTTTACCCATTTTTTTTCGAATTAATTTCTAAT-TAAATCGAAACAAGATTC
*
146728 AGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGATATTTGGTTCGTTAAATATAGATA
513 AGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGTTAAATATAGATA
* * * * * * *
146793 TCTCAAGGAGTCTTTACGTCAAAAATCAGGCAAAATTAAGTC-GGGGCCCCGAAACGCGTTTATA
578 TCTCAAGGAGTCTTTACGCCAAAAAACAGGCAAAACTGAGGCTGGGGCCCCGGAACGCGTTTTTA
*
146857 ACAAAAACCTG
643 GCAAAAACC-G
* * * **
146868 TGATGGTCAGCAC-CGATTTCGGCTAAAATTTTGCAAAAACTAACCTGAAAAATTTTTCCTTGAT
1 TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAAT
* *
146932 TCTTTGCCACAATACTCTGAAAAATATATATTTCAACGACAAAAAAATTGAAGGGTTTTTCATGC
66 TCTTTGCCACAATACTCTGAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTCACGC
146997 TTCTAATATCGTTTTTCCAATTTTTTAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAGAT
131 TTCTAATATCGTTTTTCCAA-TTTTTAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAGAT
* * * *
147062 ACTTGTAAAAATAAATCCTTGAATCCAATGTTACTGAGATTTGGTTAGATGAATAAAGATATTTC
195 GCTCGTAAAAATAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATAAAGATATTTC
* ** * *
147127 AATGAGTATTTATGCTTAAAACCATACAAAACTGAGTCGAGACCCCAAAACGCGTTTTTAACCGA
260 AATGAGTCTTTATGCCAAAAACCATACAAAACTGAGTCGAGACCCCGAAACGCGTTTTTAACCAA
* *
147192 AAACCGTGATAG-TA-ACACGATTTCGGTAAAAAACTGACCCGAAAAACTTTTTTCTCAATTTTT
325 AAACCGTGATAGTTAGACACGATTTCGGCAAAAAACTGACCCGAAAAATTTTTTTCTCAATTTTT
* * ** * *
147255 CGCCATAATACTCATAAAAAATTTATAATTCCTTGCCAAAACAATTGAAAGGTTTTGCACGCTTC
390 CGCCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCACGCTTC
* * * * *
147320 TAATATCATTTACCTAATTTTTTTTCGAATTAATTTCT-ATATAAATTGAAACAATATTCTGATG
455 TAATATCGTTTACC-CATTTTTTTTCGAATTAATTTCTAAT-TAAATCGAAACAAGATTCAGATG
* * * * * *
147384 GTTGTAAAAAGAAATCTTTAAATTCAATGTGGCTGAGATTTGGTTTGTTGAATATAAATATCTCA
518 CTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCTCA
147449 AGGAGTCTTTACGCCAAAAAACAGGCAAAACTGAGGC-GGGGCCCCGGAACGCGTTTTTAGCAAA
583 AGGAGTCTTTACGCCAAAAAACAGGCAAAACTGAGGCTGGGGCCCCGGAACGCGTTTTTAGCAAA
147513 AACC-
648 AACCG
* *
147517 TAGGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAATAACTGACCCGAAAAATTTTTCCTCA
1 T--GATGGTCAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCA
* *
147582 ATTTTTTGCCACAATACTCTGAAAAATATATAATTCAACGACAAAAGAATTGAAGGGTTTTTCAC
64 ATTCTTTGCCACAATACTCTGAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTCAC
* * *
147647 GCTTCCAATATAGTTTTTACAATTTTATAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAG
129 GCTTCTAATATCGTTTTTCCAATTTT-TAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAG
* * *
147712 ATGCTCGTAAAAATAAATCCTTAAATCTAAT-TTATCTGAGATTTAGACATTTAGTTAGAAGAAT
193 ATGCTCGTAAAAATAAATCCTTAAATCCAATGTGA-CTGAGATTT-G-------GTTAGATGAAT
* * ** * * *
147776 AAAGATATTTTAAAT-AGTCTTAATGCTTAAAACCATACAAAACTAAGTTGAGGCCCCGAAACGC
249 AAAGATA-TTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAGTCGAGACCCCGAAACGC
*
147840 GTTTTTAA-CAAAAACCGTGATAGTTATAGTACACGATTTCGGCAAAAAACTGACCCGAAAATTT
313 GTTTTTAACCAAAAACCGTGATAG-T-TAG-ACACGATTTCGGCAAAAAACTGACCCGAAAAATT
* *
147904 TTTTTCTCAATTTTTCACCACAATACTCAAAAAAGAATTTATAATTCAATGCCCAAAAAAATTGA
375 TTTTTCTCAATTTTTCGCCACAATACTCAGAAAA-AATTTATAATTCAATG-CCAAAAAAATTGA
* * * * * *
147969 AAGATTTTTCCCGCTTTTAATATCGTTTACCCATTTTTTTGCGAATTAAATTCTAACTAAATCGA
438 AAGGTTTTTCACGCTTCTAATATCGTTTACCCATTTTTTTTCGAATTAATTTCTAATTAAATCGA
* * *
148034 AACAAGATTTAGATACTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGATATTTGGTTCGTTA
503 AACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGTTA
* *
148099 AATATAGGTATATCTCAAGGAGTCGTTACG-CAAAAAATCAAGCAAAACTGA-GCTGGGGCCTCC
568 AATATA-G-ATATCTCAAGGAGTCTTTACGCCAAAAAA-CAGGCAAAACTGAGGCTGGGGCC-CC
148162 -GAACGCGTTTTTAGCAAAAACCCG
629 GGAACGCGTTTTTAGCAAAAA-CCG
* * *
148186 TGATGGTCAATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAATTTTTTCCTCAAT
1 TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAAT
* * ** *
148251 TCTTGGCCACAATACTTTGAAAAAATATATAATTCAACTTCAAAAAAATTGAAGGGTTCTTCACG
66 TCTTTGCCACAATACTCTG-AAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTCACG
**
148316 CTTCTAATATCGTTTTTCCAAAACTTTAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAGA
130 CTTCTAATATCGTTTTTCC-AATTTTTAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAGA
* * * * *
148381 TGCTCGTAAAAATAAACCCTCAAATCCATTGTGACTGAGATTTAGTTAGATGAATTAAGATATTT
194 TGCTCGTAAAAATAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATAAAGATATTT
* * *
148446 CAATGAGACTTTATGCCAAAAACCATACAAAACTCAGTCGAGGCCCCGAAACGCGTTTTTAACCA
259 CAATGAGTCTTTATGCCAAAAACCATACAAAACTGAGTCGAGACCCCGAAACGCGTTTTTAACCA
* *
148511 AAAACC------G-T-G--ACGGTTTCGGCAAAAAACTGACCCAAAAAATTTTTTTCTCAATTTT
324 AAAACCGTGATAGTTAGACACGATTTCGGCAAAAAACTGACCCGAAAAATTTTTTTCTCAATTTT
* * *
148566 TCGCCACAATACTCAGAAAAAATATATAATTCAATGCCAAAAAAATTGAAAGGATTTTCACGCAT
389 TCGCCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCACGCTT
* *
148631 CTAATATCGTTTACCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATTC
454 CTAATATCGTTTACCCATTTTTTTTCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGC
* * * *
148696 TCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTCATTAAGTATATATATTTCAA
519 TCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCTCAA
* * *
148761 GGAGTCTTTACGCCAAAAAATCAGGCAAAACTGA-TCTGGAGCCCCGAAACGCGTTTTTAGCAAA
584 GGAGTCTTTACGCCAAAAAA-CAGGCAAAACTGAGGCTGGGGCCCCGGAACGCGTTTTTAGCAAA
148825 AACCCG
648 AA-CCG
* * *
148831 TGATGGTTAGTACACGATTTCGGCTAAAATCTTGCAAAAACTGACTCGAAAAATTTTTCCTCAAT
1 TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAAT
* * * *
148896 TCTTTGCCACAATACTCAGAAATAATATACAACTCAACAAC-AAAAAATTGAAGGG-TTTTCTAC
66 TCTTTGCCACAATACTCTGAAA-AATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTC-AC
*
148959 GCTTCTAATATCGTTTTTCCAATTTTTTAAGAATTTACTTCT-ATTAAATCGAATCAAGATTCAG
129 GCTTCTAATATCGTTTTTCCAA-TTTTTAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAG
* * * * *
149023 ATACTCGTAAAGATAAATTCTTAAATCCAATGTGACTAAGATTTGGTTAGACGAATAAAGATATT
193 ATGCTCGTAAAAATAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATAAAGATATT
* * * * * *
149088 GCAATGACTCTTTATGCCATAAACCATTCAAAACTGAATCGA-AGCCCGAAACGCGTTTTTAACC
258 TCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAGTCGAGACCCCGAAACGCGTTTTTAACC
* * * * *
149152 AAAAACTGTGATAGTTAGTACACTATTTCAGCAAAAAACTGATCCGAAAATTTTTTTTCTCAATT
323 AAAAACCGTGATAGTTAG-ACACGATTTCGGCAAAAAACTGACCCGAAAAATTTTTTTCTCAATT
*
149217 TTTCGCCACAATACTCAGAAAAAATTTATAATTCAATGCC-AAAAAATTGAAAGATTTTTCACGC
387 TTTCGCCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCACGC
* * * * * *
149281 TTCTAATACCGTTTACCCATTTTTTTACGATTTAATTTCTAATTTAATCGAAACAAGATCCAAAT
452 TTCTAATATCGTTTACCCATTTTTTTTCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGAT
* * *
149346 GCTTGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGCTTTGTTAAATATAGATATCTC
517 GCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCTC
* * * * *
149411 AAGGAGTCTTTATGCTAAAAATCAGGCAAAACTGA-GCCGGGGCCCCGGAACGTGTTTTTAGCAA
582 AAGGAGTCTTTACGCCAAAAAACAGGCAAAACTGAGGCTGGGGCCCCGGAACGCGTTTTTAGCAA
149475 AAA-C-
647 AAACCG
*
149479 ------TC-GT----GA-------TAAAATTTTGCAAAAACTGAACCGAAAAATTTTTCCTCAAT
1 TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAAT
* *
149526 TCTTTGCCACAATACTCTAAAAAAAATATATAATTCAACGAC-CAAAAATTGAAGGGTTTTTCAC
66 TCTTTGCCACAATACTCT--GAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTCAC
*
149590 GCTTCTAATATCGTTTTTCCAATTTTT-----TTTACTTTTAATTAAATCGAAACAAGATTCAGA
129 GCTTCTAATATCGTTTTTCCAATTTTTAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAGA
* * * *
149650 TGATCGTAAAAATAAACCCTTAAATCCAATGTGGCTGAGATTTGGTTGGATGAATAAAGATATTT
194 TGCTCGTAAAAATAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATAAAGATATTT
* *
149715 CAATGAGTCTTTATGCCAAAAACCATACAAAATTGAGTCGA-AGCCCCGAAACGCGTTTTTAACG
259 CAATGAGTCTTTATGCCAAAAACCATACAAAACTGAGTCGAGA-CCCCGAAACGCGTTTTTAACC
* * * * *
149779 AAAAACCGTGATGGTTAGTACACGGTTTCGGTAAAAAACTGACTCG-AAAATTTTTTTCTCGATC
323 AAAAACCGTGATAGTTAG-ACACGATTTCGGCAAAAAACTGACCCGAAAAATTTTTTTCTCAAT-
* * ** *
149843 TTTT-TCCACAATACTCAAAAAAAAAATATAATTCAATGCCAAAAAAATTGAAAGGATTTTCACG
386 TTTTCGCCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCACG
* * * *
149907 CTTCTAATATCGTTTACCCATTTCTTCT-GAATTAATTTCTAATTAAATCGAAACCAGATTCAGT
451 CTTCTAATATCGTTTACCCATTTTTTTTCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGA
*
149971 TGCTCGTCAAAAGAAATCTTTAAATCCAATGT-GCTGAGATTTGGTTCGTTAAATATAGATATCT
516 TGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCT
* * * * * * * *
150035 CTAGGAGTCTTTACGCCCAAAATCAAGCAAAA-TTAAGCTGGGGTCCCGGAACGTGTTTTTAAG-
581 CAAGGAGTCTTTACGCCAAAAAACAGGCAAAACTGAGGCTGGGGCCCCGGAACGCGTTTTT-AGC
*
150098 AGAAATCCG
645 A-AAAACCG
* * * * *
150107 TGATGGTCAATAC-CAATTTCAGCTAAAATTTTG--TAAA-T-----G----ATATTTCCTCAAT
1 TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAAT
* * * * * * * *
150159 T-TTGAGCTAAAATACTCAT-AAAAAT-TATATATATCAATGCCAGAAAGATTGAAGGGTTTTTG
66 TCTT-TGCCACAATACTC-TGAAAAATATATA-AT-TCAACGACAAAAAAATTGAAGGGTTTTTC
* * * * ** * *
150221 TCGTTTCCAATATCGTTTTTCCTATTTCTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTC
127 ACGCTTCTAATATCGTTTTTCCAATTT-TTAAGAATTTACTTCTAATTAAATCGAAACAAGATTC
* * * * * *
150286 AGATGCTCGTGAAAACAAATCCTTAAATCCAATGCGGCTGAGATTTGATTAGATGAATATAGATA
191 AGATGCTCGTAAAAATAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATAAAGATA
150351 TTTCAA
256 TTTCAA
150357 GTACTCTCGG
Statistics
Matches: 3048, Mismatches: 344, Indels: 208
0.85 0.10 0.06
Matches are distributed among these distances:
624 2 0.00
625 88 0.03
626 226 0.07
627 107 0.04
630 64 0.02
631 60 0.02
632 16 0.01
633 63 0.02
634 5 0.00
635 1 0.00
637 3 0.00
638 1 0.00
639 90 0.03
641 2 0.00
642 28 0.01
643 120 0.04
644 77 0.03
645 149 0.05
646 147 0.05
647 32 0.01
648 64 0.02
649 158 0.05
650 127 0.04
651 233 0.08
652 436 0.14
653 90 0.03
655 1 0.00
659 20 0.01
660 135 0.04
661 14 0.00
662 2 0.00
664 62 0.02
665 102 0.03
666 48 0.02
667 133 0.04
668 135 0.04
669 7 0.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (652 bp):
TGATGGTCAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTTCCTCAAT
TCTTTGCCACAATACTCTGAAAAATATATAATTCAACGACAAAAAAATTGAAGGGTTTTTCACGC
TTCTAATATCGTTTTTCCAATTTTTAAGAATTTACTTCTAATTAAATCGAAACAAGATTCAGATG
CTCGTAAAAATAAATCCTTAAATCCAATGTGACTGAGATTTGGTTAGATGAATAAAGATATTTCA
ATGAGTCTTTATGCCAAAAACCATACAAAACTGAGTCGAGACCCCGAAACGCGTTTTTAACCAAA
AACCGTGATAGTTAGACACGATTTCGGCAAAAAACTGACCCGAAAAATTTTTTTCTCAATTTTTC
GCCACAATACTCAGAAAAAATTTATAATTCAATGCCAAAAAAATTGAAAGGTTTTTCACGCTTCT
AATATCGTTTACCCATTTTTTTTCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
GTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGATTTGGTTCGTTAAATATAGATATCTCAAGG
AGTCTTTACGCCAAAAAACAGGCAAAACTGAGGCTGGGGCCCCGGAACGCGTTTTTAGCAAAAAC
CG
Found at i:149388 original size:321 final size:321
Alignment explanation
Indices: 146255--150356 Score: 3363
Period size: 321 Copynumber: 12.7 Consensus size: 321
146245 TTTGCAATAC
* * * * * *
146255 CTGACCCGAAAAATATTTCCTCAATTCTTT-ACCACAATACTC-TAAAAAATATATAATTCAACG
1 CTGACCCGAAAATTTTTTTCTCAATT-TTTCGCCACAATACTCAGAAAAAATATATAATTCAATG
* * ** *
146318 ACAAAAAAAATTGAAGGGTTTTTTCACGCTTCTAATATCGTTTTTCCAATTTTTTAAGAATTT-A
65 -C-CAAAAAATTGAAAGG-TTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACG-ATTTAA
* * * * * *
146382 CTTCTAATTAAATCGAAAAAAAATTTAGATGCTCGTAAAAATAAATCCTTAAATCCAATGTGGCT
126 TTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCT
* * * *
146447 AAGATTTGGTTAGATGAATAAAACATATTTCATTGAGTCTTTATGCCAAAAAGCATACAAAACT-
191 GAGATTTGGTTAGATGAAT-AAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTG
* *
146511 AAGTCGAGGCCCCGAAACGCGTTTTTAACCGAAAACCGTGA-AGGTTAGTACACGATTTCGAC-A
255 AA-TCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATA-GTTAGTACACGATTTCGGCAA
146574 AAAA
318 AAAA
* * * * *
146578 CTAACCCGAAAA-ATTTTTCTCAAATTTTCACCACAATACTCAGAAAAAATTTATAATTCAATGC
1 CTGACCCGAAAATTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAATGC
* * *
146642 AAAATAAATTGAATGGTTTTTCACGCTTCTAATATCGTTTACCC-ATTTTTTTCGATTTAATTTC
66 CAAA-AAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACGATTTAATTTC
*
146706 T-ATATAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAT
130 TAAT-TAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAG
* * * * * * * * * ** *
146770 ATTTGGTTCGTTAAATATAGATATCTCAAGGAGTCTTTACGTCAAAAATCAGGCAAAA-TTAAGT
194 ATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAA-T
* * * * *
146834 CGGGGCCCCGAAACGCGTTTATAA-CAAAAACCTGTGATGGTCAGCAC-CGATTTCGGCTAAAAT
258 CGAGGCCCCGAAACGCGTTTTTAACCAAAAACC-GTGATAGTTAGTACACGATTTCGGC----A-
146897 TTTGCAAAAA
317 -----AAAAA
* * * * ** * * *
146907 CTAACCTGAAAAATTTTTCCTTGATTCTTT-GCCACAATACTCTG-AAAAATATATATTTCAACG
1 CTGACCCGAAAATTTTTTTCTCAATT-TTTCGCCACAATACTCAGAAAAAATATATAATTCAATG
* * * ** * *
146970 ACAAAAAAATTGAAGGGTTTTTCATGCTTCTAATATCGTTTTTCCAATTTTTTAAGAATTT-ACT
65 -CCAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACG-ATTTAATT
* * * * * **
147034 TCTAATTAAATCGAAACAAGATTCAGATACTTGTAAAAATAAATCCTTGAATCCAATGTTACTGA
128 TCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGA
* ** *
147099 GATTTGGTTAGATGAATAAAGATATTTCAATGAGTATTTATGCTTAAAACCATACAAAACTGAGT
193 GATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAAT
* * * *
147164 CGAGACCCCAAAACGCGTTTTTAACCGAAAACCGTGATAG-TA--ACACGATTTCGGTAAAAAA
258 CGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATAGTTAGTACACGATTTCGGCAAAAAA
* * * * **
147225 CTGACCCGAAAAACTTTTTTCTCAATTTTTCGCCATAATACTCATAAAAAATTTATAATTCCTTG
1 CTGACCCG-AAAATTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAATG
* * * * *
147290 CCAAAACAATTGAAAGGTTTTGCACGCTTCTAATATCATTTACCTAATTTTTTTTCGAATTAATT
65 CCAAAA-AATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAA-TTTTTTACGATTTAATT
* * * * * *
147355 TCT-ATATAAATTGAAACAATATTCTGATGGTTGTAAAAAGAAATCTTTAAATTCAATGTGGCTG
128 TCTAAT-TAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTG
* * * * * * **
147419 AGATTTGGTTTGTTGAATATAA-ATATCTCAAGGAGTCTTTACGCCAAAAAACAGGCAAAACTGA
192 AGATTTGGTTAGATGAATA-AAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGA
** * * * *
147483 GGCGGGGCCCCGGAACGCGTTTTT-AGCAAAAACC-TAGGATGGTTAGTACACGATTTCGGCTAA
256 ATCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGT--GATAGTTAGTACACGATTTCGGC---
147546 AATTTTGCAATAA
316 AA------AA-AA
* * * * * *
147559 CTGACCCGAAAAATTTTTCCTCAATTTTTTGCCACAATACTCTG-AAAAATATATAATTCAACGA
1 CTGACCCGAAAATTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAATGC
* * * *** * * *
147623 CAAAAGAATTGAAGGGTTTTTCACGCTTCCAATATAGTTTTTACAATTTTATAAGAATTT-ACTT
66 CAAAA-AATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACG-ATTTAATTT
* * * * **
147687 CTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTTAAATCTAATTTATCTGAG
129 CTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAG
* * * **
147752 ATTTAGACATTTAGTTAGAAGAATAAAGATATTTTAAAT-AGTCTTAATGCTTAAAACCATACAA
194 ATTT-G-------GTTAGATGAATAAAGATA-TTTCAATGAGTCTTTATGCCAAAAACCATACAA
*
147816 AACT-AAGTTGAGGCCCCGAAACGCGTTTTTAA-CAAAAACCGTGATAGTTATAGTACACGATTT
250 AACTGAA-TCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATAG-T-TAGTACACGATTT
147879 CGGCAAAAAA
312 CGGCAAAAAA
* * *
147889 CTGACCCGAAAATTTTTTTTCTCAATTTTTCACCACAATACTCAAAAAAGAATTTATAATTCAAT
1 CTGACCCGAAAA-TTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAA-AATATATAATTCAAT
* * * * * * *
147954 GCCCAAAAAAATTGAAAGATTTTTCCCGCTTTTAATATCGTTTACCCATTTTTTTGCGAATTAAA
64 G-CC-AAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACGATTTAAT
* * *
148019 TTCTAACTAAATCGAAACAAGATTTAGATACTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTG
127 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTG
* * * * * * * * * * *
148084 ATATTTGGTTCGTTAAATATAGGTATATCTCAAGGAGTCGTTACGCAAAAAATCA-AGCAAAACT
192 AGATTTGGTTAGATGAATA-AAG-ATATTTCAATGAGTCTTTATGCCAAAAACCATA-CAAAACT
* * * * * *
148148 G-AGCTGGGGCCTCCG-AACGCGTTTTT-AGCAAAAACCCGTGATGGTCAATACACGATTTCGGC
254 GAATC-GAGGCC-CCGAAACGCGTTTTTAACCAAAAA-CCGTGATAGTTAGTACACGATTTCGGC
148210 TAAAATTTTGCAAAAA
316 ----A------AAAAA
* * * * ** *
148226 TTGACCCGAAAATTTTTTCCTCAATTCTTGGCCACAATACTTTGAAAAAATATATAATTCAACTT
1 CTGACCCGAAAATTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAA-TG
* * * ** *** * *
148291 CAAAAAAATTGAAGGGTTCTTCACGCTTCTAATATCGTTTTTCCAAAACTTTAAGAATTT-ACTT
65 CCAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACG-ATTTAATTT
* * * * * *
148355 CTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAACCCTCAAATCCATTGTGACTGAG
129 CTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAG
* * * * *
148420 ATTTAGTTAGATGAATTAAGATATTTCAATGAGACTTTATGCCAAAAACCATACAAAACTCAGTC
194 ATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAATC
*
148485 GAGGCCCCGAAACGCGTTTTTAACCAAAAACC------G-T-G---ACGGTTTCGGCAAAAAA
259 GAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATAGTTAGTACACGATTTCGGCAAAAAA
*
148537 CTGACCCAAAAAATTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAATG
1 CTGACCC-GAAAATTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAATG
* * * * *
148602 CCAAAAAAATTGAAAGGATTTTCACGCATCTAATATCGTTTACCCATTTTTTTCCGAATTAATTT
65 CC-AAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACGATTTAATTT
*
148667 CTAATTAAATCGAAACAAGATTCAGATTCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAG
129 CTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAG
* * * * * * * **
148732 ATTTGGTT-CATTAAGTATATATATTTCAAGGAGTCTTTACGCCAAAAAATCAGGCAAAACTG-A
194 ATTTGGTTAGATGAA-TAAAGATATTTCAATGAGTCTTTATGCC-AAAAACCATACAAAACTGAA
* *
148795 TCTG-GAGCCCCGAAACGCGTTTTT-AGCAAAAACCCGTGATGGTTAGTACACGATTTCGGCTAA
257 TC-GAG-GCCCCGAAACGCGTTTTTAACCAAAAA-CCGTGATAGTTAGTACACGATTTCGGC---
148858 AATCTTGCAAAAA
316 -A------AAAAA
* * * * * * **
148871 CTGACTCGAAAAATTTTTCCTCAATTCTTT-GCCACAATACTCAGAAATAATATACAACTCAACA
1 CTGACCCGAAAATTTTTTTCTCAATT-TTTCGCCACAATACTCAGAAAAAATATATAATTCAATG
* * ** * *
148935 ACAAAAAATTG-AAGGGTTTTCTACGCTTCTAATATCGTTTTTCCAATTTTTTAAGAATTT-ACT
65 CCAAAAAATTGAAAGGTTTTTC-ACGCTTCTAATATCGTTTACCCAATTTTTTACG-ATTTAATT
* * * * * *
148998 TCT-ATTAAATCGAATCAAGATTCAGATACTCGTAAAGATAAAT-TCTTAAATCCAATGTGACTA
128 TCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCT-TTAAATCCAATGTGGCTG
* * * * *
149061 AGATTTGGTTAGACGAATAAAGATATTGCAATGACTCTTTATGCCATAAACCATTCAAAACTGAA
192 AGATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAA
* * * *
149126 TCGAAG-CCCGAAACGCGTTTTTAACCAAAAACTGTGATAGTTAGTACACTATTTCAGCAAAAAA
257 TCGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATAGTTAGTACACGATTTCGGCAAAAAA
* *
149190 CTGATCCGAAAATTTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATTTATAATTCAATG
1 CTGACCCGAAAA-TTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAATG
* * *
149255 CCAAAAAATTGAAAGATTTTTCACGCTTCTAATACCGTTTACCCATTTTTTTACGATTTAATTTC
65 CCAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACGATTTAATTTC
* * * *
149320 TAATTTAATCGAAACAAGATCCAAATGCTTGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGA
130 TAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGA
* * * * * * * * * ** **
149385 TTTGCTTTGTTAAATATAGATATCTCAAGGAGTCTTTATGCTAAAAATCAGGCAAAACTGAGCCG
195 TTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAATCG
* * * * *
149450 GGGCCCCGGAACGTGTTTTT-AGCAAAAACTCGTG--A--TA--A-A--ATTT-TGC-AAAAA
260 AGGCCCCGAAACGCGTTTTTAACCAAAAAC-CGTGATAGTTAGTACACGATTTCGGCAAAAAA
* * * * *
149501 CTGAACCGAAAAATTTTTCCTCAATTCTTT-GCCACAATACTCTAAAAAAAATATATAATTCAAC
1 CTGACCCGAAAATTTTTTTCTCAATT-TTTCGCCACAATACTC-AGAAAAAATATATAATTCAAT
* ** *
149565 GACC-AAAAATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCAA-TTTTT----TTTACTT
64 G-CCAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACGATTTAATT
* * * *
149624 T-TAATTAAATCGAAACAAGATTCAGATGATCGTAAAAATAAACCCTTAAATCCAATGTGGCTGA
128 TCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGA
* * *
149688 GATTTGGTTGGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAATTGAGT
193 GATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAAT
* * * * *
149753 CGAAGCCCCGAAACGCGTTTTTAACGAAAAACCGTGATGGTTAGTACACGGTTTCGGTAAAAAA
258 CGAGGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATAGTTAGTACACGATTTCGGCAAAAAA
* * * * *
149817 CTGACTCGAAAATTTTTTTCTCGATCTTTT-TCCACAATACTCAAAAAAAAAATATAATTCAATG
1 CTGACCCGAAAATTTTTTTCTCAAT-TTTTCGCCACAATACTCAGAAAAAATATATAATTCAATG
* * *
149881 CCAAAAAAATTGAAAGGATTTTCACGCTTCTAATATCGTTTACCC-ATTTCTT-CTGAATTAATT
65 CC-AAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTAC-GATTTAATT
* * *
149944 TCTAATTAAATCGAAACCAGATTCAGTTGCTCGTCAAAAGAAATCTTTAAATCCAATGT-GCTGA
128 TCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGA
* * * * * * * * * * *
150008 GATTTGGTTCGTTAAATATAGATATCTCTAGGAGTCTTTACGCCCAAAATCA-AGCAAAA-TTAA
193 GATTTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATA-CAAAACTGAA
* * * * * * * * * * * * *
150071 GCTGGGGTCCCGGAACGTGTTTTTAA-GAGAAATCCGTGATGGTCAATAC-CAATTTCAGC-TAA
257 TC-GAGGCCCCGAAACGCGTTTTTAACCA-AAAACCGTGATAGTTAGTACACGATTTCGGCAAAA
150133 AA
320 AA
*** * * * ** * * * *
150135 -T--TTTGTAAATGATATTTCCTCAATTTTGAGCTAAAATACTCATAAAAATTATAT-ATATCAA
1 CTGACCCGAAAAT--TTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAAT-TCAA
* * ** * * ** * * * *
150196 TGCCAGAAAGATTGAAGGGTTTTTGTCGTTTCCAATATCGTTTTTCCTATTTCTTCCGAATTAAT
63 TGCCA-AAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACGATTTAAT
* * * *
150261 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTGAAAACAAATCCTTAAATCCAATGCGGCTG
127 TTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTG
* *
150326 AGATTTGATTAGATGAATATAGATATTTCAA
192 AGATTTGGTTAGATGAATAAAGATATTTCAA
150357 GTACTCTCGG
Statistics
Matches: 3015, Mismatches: 585, Indels: 362
0.76 0.15 0.09
Matches are distributed among these distances:
305 129 0.04
306 14 0.00
309 2 0.00
310 29 0.01
311 96 0.03
312 195 0.06
313 39 0.01
314 5 0.00
315 29 0.01
316 87 0.03
317 71 0.02
318 106 0.04
319 170 0.06
320 317 0.11
321 342 0.11
322 54 0.02
323 29 0.01
324 23 0.01
325 1 0.00
326 9 0.00
327 27 0.01
328 58 0.02
329 118 0.04
330 199 0.07
331 209 0.07
332 153 0.05
333 110 0.04
334 233 0.08
335 21 0.01
336 30 0.01
337 18 0.01
338 7 0.00
339 62 0.02
340 23 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (321 bp):
CTGACCCGAAAATTTTTTTCTCAATTTTTCGCCACAATACTCAGAAAAAATATATAATTCAATGC
CAAAAAATTGAAAGGTTTTTCACGCTTCTAATATCGTTTACCCAATTTTTTACGATTTAATTTCT
AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAGAAATCTTTAAATCCAATGTGGCTGAGAT
TTGGTTAGATGAATAAAGATATTTCAATGAGTCTTTATGCCAAAAACCATACAAAACTGAATCGA
GGCCCCGAAACGCGTTTTTAACCAAAAACCGTGATAGTTAGTACACGATTTCGGCAAAAAA
Found at i:151042 original size:15 final size:15
Alignment explanation
Indices: 151014--151054 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
151004 GTTTCATGAC
* *
151014 TATAAATAATTATAT
1 TATAATTAAATATAT
151029 TATAATTAAATATAT
1 TATAATTAAATATAT
151044 TATAATCTAAA
1 TATAAT-TAAA
151055 AATAATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATTAAATATAT
Found at i:153280 original size:2 final size:2
Alignment explanation
Indices: 153229--153262 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
153219 ACGCATATGC
153229 AT AT AT AT 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 AT AT AT AT
153263 NTGAGCATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:156224 original size:32 final size:30
Alignment explanation
Indices: 156151--156227 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
156141 CCTAAACTTC
* *
156151 AAATAAGACATTTTGTCTCATAAAATTCTA
1 AAATAAGACATTTTGTCCCATAAAATTCCA
* * *
156181 AAATTATGACATTTTGTCCCATGAACTTCCCA
1 AAA-TAAGACATTTTGTCCCATAAAATT-CCA
156213 AAATCAAGACATTTT
1 AAAT-AAGACATTTT
156228 CAAATTAACG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 3 0.08
31 21 0.55
32 14 0.37
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (30 bp):
AAATAAGACATTTTGTCCCATAAAATTCCA
Found at i:157442 original size:21 final size:22
Alignment explanation
Indices: 157388--157442 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
157378 AGATGACGAC
*
157388 GAAGAACAAGAA-TTGGATGAA
1 GAAGAAGAAGAAGTTGGATGAA
* *
157409 GAAGATGACGAAGTT-GATGAA
1 GAAGAAGAAGAAGTTGGATGAA
157430 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
157443 AAGAAACTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.51, C:0.04, G:0.33, T:0.13
Consensus pattern (22 bp):
GAAGAAGAAGAAGTTGGATGAA
Found at i:160353 original size:2 final size:2
Alignment explanation
Indices: 160342--160371 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
160332 ATAGTAGTGC
160342 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
160372 GTTGAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:161089 original size:3 final size:3
Alignment explanation
Indices: 161081--161118 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
161071 TAGTATAGTT
161081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
161119 GTTTGACTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:165996 original size:12 final size:12
Alignment explanation
Indices: 165979--166006 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
165969 AAAATTCTTC
165979 CTACTTCACTTT
1 CTACTTCACTTT
165991 CTACTTCACTTT
1 CTACTTCACTTT
166003 CTAC
1 CTAC
166007 AAAATTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (12 bp):
CTACTTCACTTT
Found at i:174190 original size:24 final size:25
Alignment explanation
Indices: 174143--174191 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
174133 CTGGCGATCA
*
174143 AATATTGCATCAGAAAAAACGAGGC
1 AATATTGCATCAGAAAAAAAGAGGC
174168 AATATTGCATC-GAAAAAAAGAGGC
1 AATATTGCATCAGAAAAAAAGAGGC
174192 TAAACACCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.16
Consensus pattern (25 bp):
AATATTGCATCAGAAAAAAAGAGGC
Found at i:181080 original size:5 final size:5
Alignment explanation
Indices: 181070--181095 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
181060 AATTAATTTG
181070 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
181096 CAATCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:182790 original size:20 final size:21
Alignment explanation
Indices: 182743--182783 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
182733 GATCCTTCAA
*
182743 TGCTTCCACCACTCCAATGCT
1 TGCTGCCACCACTCCAATGCT
182764 TGCTGCCACCA-TCC-ATGCT
1 TGCTGCCACCACTCCAATGCT
182783 T
1 T
182784 TTCTGCCGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 3 0.16
21 10 0.53
ACGTcount: A:0.17, C:0.41, G:0.12, T:0.29
Consensus pattern (21 bp):
TGCTGCCACCACTCCAATGCT
Found at i:198143 original size:2 final size:2
Alignment explanation
Indices: 198136--198168 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
198126 ATTTTCATGA
198136 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
198169 GTGTAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:200711 original size:15 final size:17
Alignment explanation
Indices: 200681--200716 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
200671 ATAGTAAAAT
200681 TTTCAATATAATTTTGC
1 TTTCAATATAATTTTGC
200698 TTTCAATA-AA-TTTGC
1 TTTCAATATAATTTTGC
200713 TTTC
1 TTTC
200717 CCTTTCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 2 0.11
17 8 0.42
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTCAATATAATTTTGC
Found at i:231895 original size:7 final size:7
Alignment explanation
Indices: 231883--231908 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
231873 GATATTAGGC
231883 AAACTGG
1 AAACTGG
231890 AAACTGG
1 AAACTGG
231897 AAACTGG
1 AAACTGG
231904 AAACT
1 AAACT
231909 AACCTTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (7 bp):
AAACTGG
Found at i:233192 original size:17 final size:18
Alignment explanation
Indices: 233159--233193 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
233149 GCTTCCCCAC
233159 ACCCCACAAAGCCCAGAA
1 ACCCCACAAAGCCCAGAA
*
233177 ACCCCACAGA-CCCAGAA
1 ACCCCACAAAGCCCAGAA
233194 GCAACTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.46, G:0.11, T:0.00
Consensus pattern (18 bp):
ACCCCACAAAGCCCAGAA
Found at i:239089 original size:3 final size:3
Alignment explanation
Indices: 239081--239113 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
239071 TAGATTAATT
239081 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT
239114 TTTTTTATTT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:239123 original size:9 final size:9
Alignment explanation
Indices: 239074--239122 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
239064 TCTAAATTAG
*
239074 ATTAATTTT
1 ATTATTTTT
*
239083 ATTATTATT
1 ATTATTTTT
*
239092 ATTATTATT
1 ATTATTTTT
239101 ATTATTTATT
1 ATTATTT-TT
*
239111 ATTTTTTTT
1 ATTATTTTT
239120 ATT
1 ATT
239123 TGAATGTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 27 0.77
10 8 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTATTTTT
Done.