Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold733
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1111331
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.28
Warning! 184803 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:10592 original size:2 final size:2
Alignment explanation
Indices: 10585--10622 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10575 CAAATCAATT
10585 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10623 AGAGAGAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10627 original size:2 final size:2
Alignment explanation
Indices: 10622--10676 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
10612 GTGTGTGTGT
10622 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10664 GA GA GA GA GA GA G
1 GA GA GA GA GA GA G
10677 TCTTTGAAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10792 original size:11 final size:11
Alignment explanation
Indices: 10776--10806 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10766 GTTAAATGTC
10776 ATAATATAATA
1 ATAATATAATA
10787 ATAATATAATA
1 ATAATATAATA
*
10798 GTAATATAA
1 ATAATATAA
10807 CAATGGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
ATAATATAATA
Found at i:14005 original size:11 final size:11
Alignment explanation
Indices: 13989--14020 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
13979 TTTCGTTTGT
13989 AAAATAAAAAA
1 AAAATAAAAAA
14000 AAAATAAAAAA
1 AAAATAAAAAA
14011 AAAA-AAAAAA
1 AAAATAAAAAA
14021 CCCAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.94, C:0.00, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:14013 original size:16 final size:16
Alignment explanation
Indices: 13988--14019 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13978 TTTTCGTTTG
*
13988 TAAAATAAAAAAAAAA
1 TAAAAAAAAAAAAAAA
14004 TAAAAAAAAAAAAAAA
1 TAAAAAAAAAAAAAAA
14020 ACCCAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (16 bp):
TAAAAAAAAAAAAAAA
Found at i:27720 original size:9 final size:9
Alignment explanation
Indices: 27706--27736 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27696 TGATCATGGA
27706 GTTGTTGCT
1 GTTGTTGCT
*
27715 GTTGTTGTT
1 GTTGTTGCT
27724 GTTGTTGCT
1 GTTGTTGCT
27733 GTTG
1 GTTG
27737 CTGTGGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.06, G:0.35, T:0.58
Consensus pattern (9 bp):
GTTGTTGCT
Found at i:30946 original size:33 final size:33
Alignment explanation
Indices: 30903--30996 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
30893 TGTTTACCTT
30903 TATTCAGACGCCATTTTGGATTTGACCTAAATAA
1 TATTC-GACGCCATTTTGGATTTGACCTAAATAA
30937 TATTCGACGCCATTTTGGATTTGACCTAAATAA
1 TATTCGACGCCATTTTGGATTTGACCTAAATAA
30970 TATTCGACGCCATTTTGGATTTGACCT
1 TATTCGACGCCATTTTGGATTTGACCT
30997 CACTTGACCC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 55 0.92
34 5 0.08
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (33 bp):
TATTCGACGCCATTTTGGATTTGACCTAAATAA
Found at i:32453 original size:78 final size:78
Alignment explanation
Indices: 32321--32483 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
32311 TTTGCTGTAT
* *
32321 TTCTTGAATTTTTTTCAAGATGAGATCAGTATGAGTACTAATTTCACTGGTCATGACTT-CGA-G
1 TTCTTGAAGTTTTTTCAAGATGAGATCAGTATGAGTACTAATTTCACTGCTCATGACTTGC-ATG
32384 GATATCCAGAATTCC
65 G-TATCCAGAATTCC
* * * *
32399 TTTTTGAAGTTTTTTCAAGATGACG-TCGGTATGATTAGC-AATTTCATTGCTCATGACTTGCAT
1 TTCTTGAAGTTTTTTCAAGATGA-GATCAGTATGAGTA-CTAATTTCACTGCTCATGACTTGCAT
*
32462 GGTATTCAGAATTCC
64 GGTATCCAGAATTCC
32477 TTCTTGA
1 TTCTTGA
32484 GTGGTAGTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 68 0.93
79 5 0.07
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (78 bp):
TTCTTGAAGTTTTTTCAAGATGAGATCAGTATGAGTACTAATTTCACTGCTCATGACTTGCATGG
TATCCAGAATTCC
Found at i:37294 original size:166 final size:166
Alignment explanation
Indices: 36887--37520 Score: 1046
Period size: 166 Copynumber: 3.8 Consensus size: 166
36877 CAAAAATTTG
36887 TTTGCTAAAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATA
1 TTTGCTAAAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATA
* *
36952 TCCCACGATATGGCATGCCTATACAAATAC---GTAAAAATTACAAGCATCTGCGATGAACAGTT
66 TCCCACGATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTT
*
37014 GCTGAGAATTCTTTGACGAAAATTTGTTAG-AAATT
131 GCTGAGAATTCTTTGACGAAAATTTGTTTGAAAATT
37049 TTTGCTAAAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATA
1 TTTGCTAAAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATA
* *
37114 TCCCACGATATGGCATGCCAATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAACAGTT
66 TCCCACGATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTT
37179 GCTGAGAATTCTTTGACGAAAATTTGTTTGAAAATT
131 GCTGAGAATTCTTTGACGAAAATTTGTTTGAAAATT
* **
37215 TTTGCTAAAAATAAACAAAGTCGTCATTAAACAAAAAGTTGACGTCTGATTGGTACAAAAATATA
1 TTTGCTAAAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATA
*
37280 TACCACGATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTT
66 TCCCACGATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTT
37345 GCTGAGAATTCTTTGACGAAAATTTGTTTGAAAA-T
131 GCTGAGAATTCTTTGACGAAAATTTGTTTGAAAATT
*
37380 TTTGGTAAAAAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATA
1 TTTGCT--AAAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATA
* ** *
37445 TATCCCCCACGGTATGATATGCCT-TAACAAACACTGTGTAAAAATTTCAAGCATCTGCGATAAA
64 TAT--CCCACGATATGGCATGCCTAT-ACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAA
*
37509 TAGTTGCTGAGA
126 CAGTTGCTGAGA
37521 TAAATGCGAC
Statistics
Matches: 442, Mismatches: 21, Indels: 11
0.93 0.04 0.02
Matches are distributed among these distances:
162 94 0.21
165 64 0.14
166 163 0.37
167 57 0.13
168 1 0.00
169 63 0.14
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (166 bp):
TTTGCTAAAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATA
TCCCACGATATGGCATGCCTATACAAATACTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTT
GCTGAGAATTCTTTGACGAAAATTTGTTTGAAAATT
Found at i:37573 original size:20 final size:20
Alignment explanation
Indices: 37544--37585 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
37534 AAATTTTGTT
*
37544 ACGGATGGACAGACAGACAG
1 ACGGACGGACAGACAGACAG
*
37564 ACGGACGGACGGACAGACAG
1 ACGGACGGACAGACAGACAG
37584 AC
1 AC
37586 ACACAAGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.36, T:0.02
Consensus pattern (20 bp):
ACGGACGGACAGACAGACAG
Found at i:44429 original size:41 final size:39
Alignment explanation
Indices: 44370--44457 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 39
44360 TAAGGAATAT
* * *
44370 AGGAGAAAAAAGCCAGATTTTAAAATGCCACTTTCGTTTA
1 AGGAAAAAAAACCCAGATTTTAAAATGCCACTTGCG-TTA
* *
44410 AGGAAAAAAAACCCAAGATTTTTAAATGCCAGTTGCGTTA
1 AGGAAAAAAAACCC-AGATTTTAAAATGCCACTTGCGTTA
*
44450 AAGAAAAA
1 AGGAAAAA
44458 GGTTCCTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 22 0.54
41 19 0.46
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (39 bp):
AGGAAAAAAAACCCAGATTTTAAAATGCCACTTGCGTTA
Found at i:44456 original size:40 final size:40
Alignment explanation
Indices: 44375--44457 Score: 105
Period size: 41 Copynumber: 2.1 Consensus size: 40
44365 AATATAGGAG
* * *
44375 AAAAAAGCCAGATTTTAAAATGCCACTTTCGTTTAAGGAA
1 AAAAAACCCAGATTTTAAAATGCCACTTGCGTTTAAAGAA
* *
44415 AAAAAACCCAAGATTTTTAAATGCCAGTTGCG-TTAAAGAA
1 AAAAAACCC-AGATTTTAAAATGCCACTTGCGTTTAAAGAA
44455 AAA
1 AAA
44458 GGTTCCTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 18 0.49
41 19 0.51
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (40 bp):
AAAAAACCCAGATTTTAAAATGCCACTTGCGTTTAAAGAA
Found at i:45618 original size:164 final size:164
Alignment explanation
Indices: 45213--45954 Score: 796
Period size: 164 Copynumber: 4.6 Consensus size: 164
45203 CGCATTCATG
*
45213 TTATCGCAAATGCCT-AAAATTTTAACACACTATTTGCTTAGGCATGCCATATCGTTGGATATAT
1 TTATCGCAGATG-CTGAAAATTTTAACACACTATTTGCTTAGGCATGCCATATCGTTGGATATAT
*
45277 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGATGACTTTGTTTATTTTTACCCAAAATTT
65 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAAGAC--TGTTTATTTTTACCCAAAATTT
* **
45342 TCAAACAAATTTTCGTCAAAGACTTCTTGGCAACTAT
128 TCAAACAAATTTCCGTCAAAGACTTCTCAGCAACTAT
* * *
45379 TTATCGCAGATGCTGACAATTTTAACACACTTTTTGCTTAGGCATGCCATATCGTGGGATATATT
1 TTATCGCAGATGCTGAAAATTTTAACACACTATTTGCTTAGGCATGCCATATCGTTGGATATATT
** * *
45444 TTCATACCAATCGGATGTCAACTTCCTGTTAAATGAAGACTGTTTAATTTTT-GCCAAAATTTTC
66 TTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAAGACTGTTT-ATTTTTACCCAAAATTTTC
*
45508 AAACAAATTTCCGTCAAAGATTTCTCAGCAACTAT
130 AAACAAATTTCCGTCAAAGACTTCTCAGCAACTAT
* * * * * * * *
45543 TTATTGCAGATGCTTGAAAATTTT-ACACAGTGTTTG-TTAAGGCATACCACATTGTTGAATTTA
1 TTATCGCAGATGC-TGAAAATTTTAACACACTATTTGCTT-AGGCATGCCATATCGTTGGATATA
* * *
45606 TTTTTGTACCAATCGGGCGTCAACTTCCTGTTAAAT---GAC-G---A-CTTT--------GTTT
64 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAAGACTGTTTATTTTTACCCAAAATTTT
* * *
45655 CAAACAAATTTCCCTCAAAGATTTCTCAGCAATTAT
129 CAAACAAATTTCCGTCAAAGACTTCTCAGCAACTAT
* * * * * * *
45691 GTATCGCAGATGCTTG-AAATTTT--TACAGTGTTTG-TCAAGGCATGCCATATCCTGGGATATA
1 TTATCGCAGATGC-TGAAAATTTTAACACACTATTTGCT-TAGGCATGCCATATCGTTGGATATA
* **
45752 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGATGACTGTTTATTTTTACCCAAAAAATT
64 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAAGACTGTTTATTTTTACCCAAAATTTT
* * *
45817 CAAACAAATTTTCGTCAAAGAATTCTCAGTAACTAT
129 CAAACAAATTTCCGTCAAAGACTTCTCAGCAACTAT
* * * * *
45853 TTATCGCAGATGCTTG-AAATTATAACACACTTTTTGTTTAGGCATGCCCATATTGTGGGATATA
1 TTATCGCAGATGC-TGAAAATTTTAACACACTATTTGCTTAGGCATG-CCATATCGTTGGATATA
* *
45917 TTTTTGTACCAATCGAACGCCAACTTCCTGTTAAATGA
64 TTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGA
45955 CAACTTTGCT
Statistics
Matches: 490, Mismatches: 61, Indels: 51
0.81 0.10 0.08
Matches are distributed among these distances:
146 63 0.13
147 7 0.01
148 51 0.10
149 3 0.01
150 1 0.00
153 1 0.00
154 3 0.01
155 3 0.01
156 1 0.00
160 1 0.00
161 3 0.01
162 54 0.11
163 2 0.00
164 134 0.27
165 69 0.14
166 94 0.19
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (164 bp):
TTATCGCAGATGCTGAAAATTTTAACACACTATTTGCTTAGGCATGCCATATCGTTGGATATATT
TTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAAGACTGTTTATTTTTACCCAAAATTTTCA
AACAAATTTCCGTCAAAGACTTCTCAGCAACTAT
Found at i:49364 original size:1 final size:1
Alignment explanation
Indices: 49360--49393 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
49350 TCGATTGTGA
*
49360 TTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
49394 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:53122 original size:6 final size:6
Alignment explanation
Indices: 53106--53137 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
53096 GAATGTCGTT
53106 ATGAT- ATGATA ATGATA ATGAT- ATGATA ATGA
1 ATGATA ATGATA ATGATA ATGATA ATGATA ATGA
53138 AGGGATAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (6 bp):
ATGATA
Found at i:53122 original size:11 final size:11
Alignment explanation
Indices: 53105--53137 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
53095 TGAATGTCGT
53105 TATGAT-ATGA
1 TATGATAATGA
53115 TAATGATAATGA
1 T-ATGATAATGA
53127 TATGATAATGA
1 TATGATAATGA
53138 AGGGATAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 15 0.71
12 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36
Consensus pattern (11 bp):
TATGATAATGA
Found at i:54048 original size:32 final size:32
Alignment explanation
Indices: 54007--54073 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
53997 TAGCGTTTTA
54007 TATCACTCAGAACATAACACTGTCTGAAATCT
1 TATCACTCAGAACATAACACTGTCTGAAATCT
54039 TATCACTCAGAACATAACACTGTCTGAAATCT
1 TATCACTCAGAACATAACACTGTCTGAAATCT
54071 TAT
1 TAT
54074 AATATACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (32 bp):
TATCACTCAGAACATAACACTGTCTGAAATCT
Found at i:54475 original size:2 final size:2
Alignment explanation
Indices: 54468--54494 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
54458 TCATTAATAT
54468 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
54495 GTGCACTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:54935 original size:19 final size:19
Alignment explanation
Indices: 54911--54950 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
54901 GCTTTTGGAG
54911 AAAGAAGAGGAGTCAAACT
1 AAAGAAGAGGAGTCAAACT
54930 AAAGAAGAGGAGTCAAACT
1 AAAGAAGAGGAGTCAAACT
54949 AA
1 AA
54951 GGAGTCATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.10, G:0.25, T:0.10
Consensus pattern (19 bp):
AAAGAAGAGGAGTCAAACT
Found at i:56019 original size:4 final size:4
Alignment explanation
Indices: 56005--56059 Score: 92
Period size: 4 Copynumber: 13.8 Consensus size: 4
55995 GGAATCACCT
* *
56005 TGTC CGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGGC TGTC TGTC
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC
56053 TGTC TGT
1 TGTC TGT
56060 GCAATCGTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.00, C:0.25, G:0.27, T:0.47
Consensus pattern (4 bp):
TGTC
Found at i:56328 original size:146 final size:146
Alignment explanation
Indices: 56064--56626 Score: 916
Period size: 146 Copynumber: 3.9 Consensus size: 146
56054 GTCTGTGCAA
56064 TCGTGTCCGGTCCATATCTTTCTTAT-GGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTG
1 TCGTGTCCGGTCCATATCTTTCTTATGGGA-AAACATTGGAAGTTCTTACTTCACACAAAGATTG
* *
56128 CTTATGACCTAAGGGTGTGTCATGACCCTGA-CCACAGATCATTTGGGCAAGGTCAAGGTCACTG
65 CTTATGACCTAAGGGTGTGTCATGACCTTGACCCA-AGGTCATTTGGGCAAGGTCAAGGTCACTG
56192 GCAGAAAAAGTGCAAAAT
129 GCAGAAAAAGTGCAAAAT
*
56210 TCGTGTCCGGTCCATATCTTTCTTATTGGAAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGGAAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* * *
56275 TGATGACTTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
56340 AGAAAAAGTGCAAAAT
131 AGAAAAAGTGCAAAAT
* *
56356 TCGTGTCCGGTCCATATCTTTCTTATGGGAAAACATTGGAAGTTCTAACTTCATACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGGAAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* *
56421 TTATGACCTAAGGGTGTGTAATGACCTTGACCAAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
*
56486 AGAAAAAATGCAAAAT
131 AGAAAAAGTGCAAAAT
*
56502 TCGTGTCCGGTCCATATCTTTCTTATGGGGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTATGGGAAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* * * * * *
56567 TTATGA-TTAAAGGGTGTGTCATGACCTTGGCCCAAGGTCAATTGAGAAAGTTCAAGGTCA
66 TTATGACCT-AAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCA
56627 TTGTTTAAAA
Statistics
Matches: 389, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
145 1 0.00
146 382 0.98
147 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (146 bp):
TCGTGTCCGGTCCATATCTTTCTTATGGGAAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
AGAAAAAGTGCAAAAT
Found at i:57695 original size:11 final size:11
Alignment explanation
Indices: 57679--57718 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
57669 TAAGCAAGTC
57679 CTTAAAGGTGG
1 CTTAAAGGTGG
*
57690 CTTAAAGGTGA
1 CTTAAAGGTGG
*
57701 CTTAAAGG-AG
1 CTTAAAGGTGG
57711 CTTAAAGG
1 CTTAAAGG
57719 CTATACAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:59486 original size:11 final size:11
Alignment explanation
Indices: 59470--59501 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
59460 GCAATACATA
59470 TAGCTTAAAGG
1 TAGCTTAAAGG
59481 TAGCTTAAAGG
1 TAGCTTAAAGG
*
59492 TGGCTTAAAG
1 TAGCTTAAAG
59502 ATCGTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (11 bp):
TAGCTTAAAGG
Found at i:59523 original size:11 final size:11
Alignment explanation
Indices: 59507--59545 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
59497 TAAAGATCGT
59507 CTTTAAGCTAC
1 CTTTAAGCTAC
*
59518 CTTTAAAC-AC
1 CTTTAAGCTAC
*
59528 CTTTAAGCTAT
1 CTTTAAGCTAC
59539 CTTTAAG
1 CTTTAAG
59546 GAGGACTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (11 bp):
CTTTAAGCTAC
Found at i:59612 original size:19 final size:18
Alignment explanation
Indices: 59576--59619 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
59566 TCATCCTGTG
59576 TTATATTTTATTAAAAAT
1 TTATATTTTATTAAAAAT
59594 TTATATTTTATTAAAAA-
1 TTATATTTTATTAAAAAT
*
59611 ATATATTTT
1 TTATATTTT
59620 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATTTTATTAAAAAT
Found at i:64541 original size:2 final size:2
Alignment explanation
Indices: 64534--64577 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
64524 TTAAGCTTGA
64534 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
64576 TC
1 TC
64578 AGATTACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:65202 original size:165 final size:165
Alignment explanation
Indices: 64847--65290 Score: 620
Period size: 165 Copynumber: 2.7 Consensus size: 165
64837 GTCGCATTTA
64847 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAATATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAATATTTGTATAGGCATGCCATAT
*
64912 CGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTTTGTATATTTT
66 CGTGGGATATA-TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTATATTTT
* * *
64977 AAGCAAAAATTTTTAAACAAATTTTTGTCAAAGAAT
130 AAGCAAAAATTGTCAAACAAATTTTCGTCAAAGAAT
* * *
65013 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCTATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAATATTTGTATAGGCATGCCATAT
* * * *
65078 CGTGGGATATATTTTGTACTAATCGGACGTCAACTTCCTTTTTAATGA-GTACTTTGTTTATTTT
66 CGTGGGATATATTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACG-ACTTTGTATATTTT
* * *
65142 TAGCCAAAATTGTCAAACAAATTTTCGTCAAAGATT
130 AAGCAAAAATTGTCAAACAAATTTTCGTCAAAGAAT
** * * * * *
65178 TCTCAGCAGTTATTTATTGCAGATGCTTGAAATTTTAACCCACTATTTGTTTAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAATATTTGTATAGGCATGCCATAT
* * * * *
65243 TGTGGGATATATTTCTGTACCAATCGGATGCCAGCTTTCTGTTAAATG
66 CGTGGGATATATTT-TGTACCAATCGGACGTCAACTTCCTGTTAAATG
65291 TCTTTTTTTG
Statistics
Matches: 245, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
164 1 0.00
165 145 0.59
166 99 0.40
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (165 bp):
TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAATATTTGTATAGGCATGCCATAT
CGTGGGATATATTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGTATATTTTA
AGCAAAAATTGTCAAACAAATTTTCGTCAAAGAAT
Found at i:71707 original size:2 final size:2
Alignment explanation
Indices: 71700--71752 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
71690 AGCAAGTTTC
71700 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
71742 AG AG AG AG AG A
1 AG AG AG AG AG A
71753 AAAGAGTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:72851 original size:15 final size:15
Alignment explanation
Indices: 72831--72860 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72821 CTTAACTTGC
*
72831 TTGACTGTTCTCTTT
1 TTGACTGTTCCCTTT
72846 TTGACTGTTCCCTTT
1 TTGACTGTTCCCTTT
72861 CTATATAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.13, T:0.57
Consensus pattern (15 bp):
TTGACTGTTCCCTTT
Found at i:80377 original size:64 final size:64
Alignment explanation
Indices: 80231--80550 Score: 525
Period size: 64 Copynumber: 5.0 Consensus size: 64
80221 AAAGAAAGAA
* * * * * * *
80231 GTATTATAAATAGGCATTAAATGCAAAGGACAACCAGGAAACATACCTGTC-CTAGTAATAGAT
1 GTATTATAAACAGACATTAAAGGCAAATGACAACCACGAAACATACCTGTCAATAATAATAGAT
* *
80294 GTATTATAAACAGGCATTAAAGGCGAATGACAACCACGAAACATACCTGTCAATAATAATAGAT
1 GTATTATAAACAGACATTAAAGGCAAATGACAACCACGAAACATACCTGTCAATAATAATAGAT
*
80358 GTATTATAAACAGACATTAAAGGCAAATGACAACCACAAAACATACCTGTCAATAATAATAGAT
1 GTATTATAAACAGACATTAAAGGCAAATGACAACCACGAAACATACCTGTCAATAATAATAGAT
80422 GTATTATAAACAGACATTAAAGGCAAATGACAACCACGAAACATACCTGTCAATAATAATAGAT
1 GTATTATAAACAGACATTAAAGGCAAATGACAACCACGAAACATACCTGTCAATAATAATAGAT
* *
80486 GTATTATAAACAGACATTAAAGGCAAATGACAACCACAAAACATACCTGTCAATGATAATAGAT
1 GTATTATAAACAGACATTAAAGGCAAATGACAACCACGAAACATACCTGTCAATAATAATAGAT
80550 G
1 G
80551 CCAGACCAAG
Statistics
Matches: 243, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
63 46 0.19
64 197 0.81
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (64 bp):
GTATTATAAACAGACATTAAAGGCAAATGACAACCACGAAACATACCTGTCAATAATAATAGAT
Found at i:82586 original size:2 final size:2
Alignment explanation
Indices: 82579--82603 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
82569 TACTATTCAG
82579 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
82604 CCTAAAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87213 original size:15 final size:15
Alignment explanation
Indices: 87193--87222 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87183 GTAACCTGAA
*
87193 GCGTCCGGTTATCTG
1 GCGTCCGGATATCTG
87208 GCGTCCGGATATCTG
1 GCGTCCGGATATCTG
87223 AGGCCCCACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (15 bp):
GCGTCCGGATATCTG
Found at i:93113 original size:32 final size:32
Alignment explanation
Indices: 93077--93140 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
93067 GTCAGAGTGT
*
93077 TTACTTTTTCGTCAGGACAGAACGAGTGGAAG
1 TTACTTTTTCGTCAGGACAGAACGAGAGGAAG
93109 TTACTTTTTCGTCAGGACAGAACGAGAGGAAG
1 TTACTTTTTCGTCAGGACAGAACGAGAGGAAG
93141 CAACGTTGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (32 bp):
TTACTTTTTCGTCAGGACAGAACGAGAGGAAG
Found at i:96003 original size:19 final size:19
Alignment explanation
Indices: 95979--96019 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
95969 AAAAAAGCAC
95979 CAAGAAAACGAATAAATAA
1 CAAGAAAACGAATAAATAA
*
95998 CAAGAACACGAATAAATAA
1 CAAGAAAACGAATAAATAA
96017 CAA
1 CAA
96020 TGTCAATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.66, C:0.15, G:0.10, T:0.10
Consensus pattern (19 bp):
CAAGAAAACGAATAAATAA
Found at i:116376 original size:21 final size:21
Alignment explanation
Indices: 116346--116392 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
116336 GTGTAAATAT
*
116346 CATTATATGAGGTGCTTCCAA
1 CATTAAATGAGGTGCTTCCAA
*
116367 CATTAAATGAGGTGCTTCTAA
1 CATTAAATGAGGTGCTTCCAA
116388 CATTA
1 CATTA
116393 TATGCAGTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (21 bp):
CATTAAATGAGGTGCTTCCAA
Found at i:119159 original size:2 final size:2
Alignment explanation
Indices: 119152--119203 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
119142 CTGCACCAGC
* * *
119152 AG AG AG AG AG AG AA AG AG AG GG TG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
119194 AG AG AG AG AG
1 AG AG AG AG AG
119204 TTAAAACATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (2 bp):
AG
Found at i:124458 original size:57 final size:57
Alignment explanation
Indices: 124397--124564 Score: 262
Period size: 57 Copynumber: 3.1 Consensus size: 57
124387 TATTTTTGTA
124397 ATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTATTTCTTATGTTTTTTATT
1 ATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTATTTCTTATGTTTTTTATT
*
124454 ATTAGGTCTTTCAACCTTTCAGGTGAAAGACCTTTTGT-TCTTCTTATG-----T-TT
1 ATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTAT-TTCTTATGTTTTTTATT
124505 -TTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTATTTCTTATGTTTTTTATT
1 ATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTATTTCTTATGTTTTTTATT
124561 ATTA
1 ATTA
124565 TTATTATTTT
Statistics
Matches: 100, Mismatches: 2, Indels: 18
0.83 0.02 0.15
Matches are distributed among these distances:
50 44 0.44
51 3 0.03
52 1 0.01
55 1 0.01
56 3 0.03
57 48 0.48
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (57 bp):
ATTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTATTTCTTATGTTTTTTATT
Found at i:124510 original size:50 final size:50
Alignment explanation
Indices: 124455--124556 Score: 179
Period size: 50 Copynumber: 2.0 Consensus size: 50
124445 TTTTTTATTA
124455 TTAGGTCTTTCAACCTTTCAGGTGAAAGACCTTTTGT-TCTTCTTATGTTT
1 TTAGGTCTTTCAACCTTTCAGGTGAAAGACCTTTTGTAT-TTCTTATGTTT
*
124505 TTAGGTCTTTCCACCTTTCAGGTGAAAGACCTTTTGTATTTCTTATGTTT
1 TTAGGTCTTTCAACCTTTCAGGTGAAAGACCTTTTGTATTTCTTATGTTT
124555 TT
1 TT
124557 TATTATTATT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 49 0.98
51 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (50 bp):
TTAGGTCTTTCAACCTTTCAGGTGAAAGACCTTTTGTATTTCTTATGTTT
Found at i:125678 original size:426 final size:431
Alignment explanation
Indices: 124699--125686 Score: 1429
Period size: 433 Copynumber: 2.3 Consensus size: 431
124689 CTCCCAGAAC
* * **
124699 TTACAAAGTTATTGCCCTTA-TGTACGAAAAGCTTGTTATCGCTACTAATCTGAAACCATAAGAG
1 TTACAGAGTTATTGCCCCTATTGTACGAAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAG
* *
124763 ATATAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTCCAATCTATTCATAC
66 ATAGAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATAC
** * *
124828 CGAAAGGATCTGAGCCCTGCTTCTAGTAGTTATTGCCCCTGAAAGTATTTACATATCTATAAAAT
131 CGAAAGGATCTGAGCCCCCCTTCTAGTAGTTATTGCCCCTGAAAGTATTAACATATCTATAAAAC
* * *
124893 CACTTCCAACTTTTTTATTACTTATTATAGAGACTTCGGACCACTTGGGATGGAAGCGTCTACCT
196 CACTTCCAACTTTTTTATTACTTATCATAGAGACTTCGGACCACCTGGGATGGAAACGTCTACCT
**
124958 TGGCCGAACAAAATGACATAAAGGTCAAAGGTCAAGGTCATCTGAAAATCTCTTAATTAATGAGT
261 TGGCCGAACAAAATGACATAAAGGTCAAAGGTCAA-GT-ATCTGAAAATCTCTTAATTAATGAAA
*
125023 TTTTGTATCTCTTTTGTTTAGGATGGTAGAGAAAAACTTTTTCATGGATGTAATAGGACATCTGA
324 TTTTGTATCTCCTTTGTTTAGGATGGTAGAGAAAAACTTTTTCATGGATGTAATAGGACATCTGA
* * ** *
125088 AGACATTTCAAAATATATCCCCTTGGCTCCTTCTTTTAAATAG
389 AGACATTTAAAAATATAACCCCTTAACTCCTTCTATTAAATAG
* * *
125131 TTACAGAGTTATTGTCCCTTTTGTACGAAAAGCTTGTTATCGCTACTCCTCTGCAACCATAAGAG
1 TTACAGAGTTATTGCCCCTATTGTACGAAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAG
* *
125196 ATAGAAACTTGGACCTTTTACCCATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATAC
66 ATAGAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATAC
* *
125261 CGAAAGGATCTGAGCCCCCCTTGTAGTAGTTATTGCCCCTGAAAGTATTAACATTTCTATAAAAC
131 CGAAAGGATCTGAGCCCCCCTTCTAGTAGTTATTGCCCCTGAAAGTATTAACATATCTATAAAAC
*
125326 CACTTCCAACTTTTTTATTACTTGTCATAGAGACTTCGGACCACCTGGGATGGAAACGTCTACCT
196 CACTTCCAACTTTTTTATTACTTATCATAGAGACTTCGGACCACCTGGGATGGAAACGTCTACCT
*
125391 TGGCCGAACAAAATGACATAAAGGTC-AAGGTC-A-T-T-TGGAAATCTCTTAATTAATGAAATT
261 TGGCCGAACAAAATGACATAAAGGTCAAAGGTCAAGTATCTGAAAATCTCTTAATTAATGAAATT
* * *
125451 TTGTATCTCCTTTGTTTAGGATGGTAGAGAAAAAGTTTTTCATGGATGTAGTAGGACATCTTAAG
326 TTGTATCTCCTTTGTTTAGGATGGTAGAGAAAAACTTTTTCATGGATGTAATAGGACATCTGAAG
*
125516 ACATTTAAAAATATAACCCTTTAAC-CCTTACCTATTAACA-A-
391 ACATTTAAAAATATAACCCCTTAACTCCTT--CTATTAA-ATAG
* ** * *
125557 TTATAGAGTTATTGCCCCTATTGTAC-AAAATGCTTGTTATCGCTACTCCTCTTTAACCGTTAGA
1 TTACAGAGTTATTGCCCCTATTGTACGAAAA-GCTTGTTATCGCTACTCCTCTGAAACCATAAGA
* * * * * ***
125621 GATAGAGACTTGAAACTTTTACTAATGTTTTCAGTACACTTAGACGCCCCTTCAATCTATTCATA
65 GATAGAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATA
125686 C
130 C
125687 GGAAGAGGTC
Statistics
Matches: 500, Mismatches: 51, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
425 8 0.02
426 211 0.42
427 8 0.02
428 1 0.00
429 1 0.00
431 1 0.00
432 22 0.04
433 248 0.50
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (431 bp):
TTACAGAGTTATTGCCCCTATTGTACGAAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAG
ATAGAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATAC
CGAAAGGATCTGAGCCCCCCTTCTAGTAGTTATTGCCCCTGAAAGTATTAACATATCTATAAAAC
CACTTCCAACTTTTTTATTACTTATCATAGAGACTTCGGACCACCTGGGATGGAAACGTCTACCT
TGGCCGAACAAAATGACATAAAGGTCAAAGGTCAAGTATCTGAAAATCTCTTAATTAATGAAATT
TTGTATCTCCTTTGTTTAGGATGGTAGAGAAAAACTTTTTCATGGATGTAATAGGACATCTGAAG
ACATTTAAAAATATAACCCCTTAACTCCTTCTATTAAATAG
Found at i:125720 original size:426 final size:429
Alignment explanation
Indices: 124699--125852 Score: 1416
Period size: 426 Copynumber: 2.7 Consensus size: 429
124689 CTCCCAGAAC
* * **
124699 TTACAAAGTTATTGCCCTTA-TGTACGAAAAGCTTGTTATCGCTACTAATCTGAAACCATAAGAG
1 TTACAGAGTTATTGCCCCTATTGTACGAAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAG
* *
124763 ATATAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTCCAATCTATTCATAC
66 ATAGAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATAC
* *
124828 CGAAAGGATCTGAGCCCTGCTTCTAGTAGTTATTGCCCCTGAAAGTATTTACATATCTATAAAAT
131 CGAAAGGATCTGAGCCCT--TTCTAGTAGTTATTGCCCCTGAAAGTATTAACATATCTATAAAAC
* * *
124893 CACTTCCAACTTTTTTATTACTTATTATAGAGACTTCGGACCACTTGGGATGGAAGCGTCTACCT
194 CACTTCCAACTTTTTTATTACTTATCATAGAGACTTCGGACCACCTGGGATGGAAACGTCTACCT
**
124958 TGGCCGAACAAAATGACATAAAGGTCAAAGGTCAAGGTCATCTGAAAATCTCTTAATTAATGAGT
259 TGGCCGAACAAAATGACATAAAGGTCAAAGGTCAA-GT-ATCTGAAAATCTCTTAATTAATGAAA
*
125023 TTTTGTATCTCTTTTGTTTAGGATGGTAGAGAAAAACTTTTTCATGGATGTAATAGGACATCTGA
322 TTTTGTATCTCCTTTGTTTAGGATGGTAGAGAAAAACTTTTTCATGGATGTAATAGGACATCTGA
* * ** *
125088 AGACATTTCAAAATATATCCCCTTGGCTCCTTCTTTTAAATAG
387 AGACATTTAAAAATATAACCCCTTAACTCCTTCTATTAAATAG
* * *
125131 TTACAGAGTTATTGTCCCTTTTGTACGAAAAGCTTGTTATCGCTACTCCTCTGCAACCATAAGAG
1 TTACAGAGTTATTGCCCCTATTGTACGAAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAG
* *
125196 ATAGAAACTTGGACCTTTTACCCATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATAC
66 ATAGAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATAC
* * *
125261 CGAAAGGATCTGAGCCCCCCTTGTAGTAGTTATTGCCCCTGAAAGTATTAACATTTCTATAAAAC
131 CGAAAGGATCTGAG--CCCTTTCTAGTAGTTATTGCCCCTGAAAGTATTAACATATCTATAAAAC
*
125326 CACTTCCAACTTTTTTATTACTTGTCATAGAGACTTCGGACCACCTGGGATGGAAACGTCTACCT
194 CACTTCCAACTTTTTTATTACTTATCATAGAGACTTCGGACCACCTGGGATGGAAACGTCTACCT
*
125391 TGGCCGAACAAAATGACATAAAGGTC-AAGGTC-A-T-T-TGGAAATCTCTTAATTAATGAAATT
259 TGGCCGAACAAAATGACATAAAGGTCAAAGGTCAAGTATCTGAAAATCTCTTAATTAATGAAATT
* * *
125451 TTGTATCTCCTTTGTTTAGGATGGTAGAGAAAAAGTTTTTCATGGATGTAGTAGGACATCTTAAG
324 TTGTATCTCCTTTGTTTAGGATGGTAGAGAAAAACTTTTTCATGGATGTAATAGGACATCTGAAG
*
125516 ACATTTAAAAATATAACCCTTTAAC-CCTTACCTATTAACA-A-
389 ACATTTAAAAATATAACCCCTTAACTCCTT--CTATTAA-ATAG
* ** * *
125557 TTATAGAGTTATTGCCCCTATTGTAC-AAAATGCTTGTTATCGCTACTCCTCTTTAACCGTTAGA
1 TTACAGAGTTATTGCCCCTATTGTACGAAAA-GCTTGTTATCGCTACTCCTCTGAAACCATAAGA
* * * * * ***
125621 GATAGAGACTTGAAACTTTTACTAATGTTTTCAGTACACTTAGACGCCCCTTCAATCTATTCATA
65 GATAGAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATA
* ** ** *
125686 CGGAAGAGG-TCCAAAGTCCCTTTCTAACAGTTATTGCCCCTGAAAGT-TTCAAACAT-TCAATA
130 CCGAA-AGGAT-CTGAG-CCCTTTCTAGTAGTTATTGCCCCTGAAAGTATT--AACATATCTATA
* **** ** * * * * * * * * * *
125748 AAAACACAAATAACTTTTGAATCAATAATCATAGATACATCGGATCACTTGGTATTGAAGCGTCT
190 AAACCACTTCCAACTTTTTTATTACTTATCATAGAGACTTCGGACCACCTGGGATGGAAACGTCT
* * * * *
125813 ACCTTGTCAGATCAGAATAACATAAAGGTCAAAGGTCAAG
255 ACCTTGGCCGAACAAAATGACATAAAGGTCAAAGGTCAAG
125853 GTCAAGCAAT
Statistics
Matches: 626, Mismatches: 82, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
425 10 0.02
426 318 0.51
427 25 0.04
428 2 0.00
429 1 0.00
431 1 0.00
432 22 0.04
433 244 0.39
435 3 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (429 bp):
TTACAGAGTTATTGCCCCTATTGTACGAAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAG
ATAGAAACTTGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCAATCTATTCATAC
CGAAAGGATCTGAGCCCTTTCTAGTAGTTATTGCCCCTGAAAGTATTAACATATCTATAAAACCA
CTTCCAACTTTTTTATTACTTATCATAGAGACTTCGGACCACCTGGGATGGAAACGTCTACCTTG
GCCGAACAAAATGACATAAAGGTCAAAGGTCAAGTATCTGAAAATCTCTTAATTAATGAAATTTT
GTATCTCCTTTGTTTAGGATGGTAGAGAAAAACTTTTTCATGGATGTAATAGGACATCTGAAGAC
ATTTAAAAATATAACCCCTTAACTCCTTCTATTAAATAG
Found at i:126991 original size:430 final size:431
Alignment explanation
Indices: 126165--126992 Score: 1270
Period size: 430 Copynumber: 1.9 Consensus size: 431
126155 ACTTACAAAT
* *
126165 TTATTGCCCTTGTGTACGAAAAGCTTGTTATCGCTACTCCTCTGAAACCATTAGAGATAGAGACT
1 TTATTGCCCTTGTGTACGAAAA-CTTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACT
* *
126230 TGGAACTTTTACCAATGTCTTCAGTACACTTAGAGGGTTCTTCTATCTACTAACACCGAAAGGAT
65 TGGAACTTTTACCAATGTCTTAAGTACACTTAGAGGGTTCTTCAATCTACTAACACCGAAAGGAT
126295 CCGAGACCCCCTTCTAGTAGTTATTGCCCCTGAAAGTATTTGAATTTCCATAAAATCACTTCCAA
130 CCGAGACCCCCTTCTAGTAGTTATTGCCCCTGAAAGTATTTGAATTTCCATAAAATCACTTCCAA
* * * * *
126360 CTTTTTTATTATTTATCATAGAGACTTCTGACCACTTCGGATGGAAGCGTCTACCTTGGCCAAAC
195 CTTTTTTATTACTTATCATACAGACTTCGGACCACTTCGGATGGAAGCGTCTACATTGGACAAAC
*
126425 AAAATTACATAAAGGTCAAAGGTCAAGGTCATCTAAAAATCTCTTAATTAATGAGTTTTTAGATC
260 AAAATAACATAAAGGTCAAAGGTCAAGGTCATCTAAAAATCTCTTAATTAATGAGTTTTTAGATC
** * *
126490 TCTTTTGTTTAGTGTAGTAAAGAAACACTTTTTCATGGATGTAATAGGACATCTTAAGACATTTT
325 TCTAATGTTTAGTGTAGTAAAGAAAAACTTTTTCATGGATGTAATAGGACATCTTAAGACATTTC
126555 AAAATATATCCCCTTGGCTCTTTCTTTTAAATAGTTGCAGAG
390 AAAATATATCCCCTTGGCTCTTTCTTTTAAATAGTTGCAGAG
*
126597 TTATTGCCCCTTTTGTACG-AAA-TTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACT
1 TTATTG-CCCTTGTGTACGAAAACTTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACT
* * * *
126660 TGGAACTTTTACCAATGTCTTAAGTACACTTAGAGGGTT-TTCCAATCTATTCATACCGAAATGA
65 TGGAACTTTTACCAATGTCTTAAGTACACTTAGAGGGTTCTT-CAATCTACTAACACCGAAAGGA
* * *
126724 TCTGAGCCCCCCTTCTAGTAGTTATTGCCCCTGAAAGTATTT-ACATTTCTATAAAATCACTTCC
129 TCCGAGACCCCCTTCTAGTAGTTATTGCCCCTGAAAGTATTTGA-ATTTCCATAAAATCACTTCC
* * **
126788 AACTTTTTTATTACTTATTATACAGACTTCGGACCACTTTGGATGGAAGCGTCTACATTGGATGA
193 AACTTTTTTATTACTTATCATACAGACTTCGGACCACTTCGGATGGAAGCGTCTACATTGGACAA
* * * **
126853 ACAACATAATATAAAGGTCAAAGGTCAAGGTCATTTGGAAATCTCTTAATTAATGAGTTTTTAGA
258 ACAAAATAACATAAAGGTCAAAGGTCAAGGTCATCTAAAAATCTCTTAATTAATGAGTTTTTAGA
* * *
126918 TCTCTAATGTTTAG-GATGGTAGAGAAAAACTTTTTCATGGATGTAGTAGGACATCTTAAGACAT
323 TCTCTAATGTTTAGTG-TAGTAAAGAAAAACTTTTTCATGGATGTAATAGGACATCTTAAGACAT
126982 TTCAAAATATA
387 TTCAAAATATA
126993 ACCCTTTGAC
Statistics
Matches: 358, Mismatches: 34, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
429 4 0.01
430 334 0.93
432 9 0.03
433 11 0.03
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (431 bp):
TTATTGCCCTTGTGTACGAAAACTTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACTT
GGAACTTTTACCAATGTCTTAAGTACACTTAGAGGGTTCTTCAATCTACTAACACCGAAAGGATC
CGAGACCCCCTTCTAGTAGTTATTGCCCCTGAAAGTATTTGAATTTCCATAAAATCACTTCCAAC
TTTTTTATTACTTATCATACAGACTTCGGACCACTTCGGATGGAAGCGTCTACATTGGACAAACA
AAATAACATAAAGGTCAAAGGTCAAGGTCATCTAAAAATCTCTTAATTAATGAGTTTTTAGATCT
CTAATGTTTAGTGTAGTAAAGAAAAACTTTTTCATGGATGTAATAGGACATCTTAAGACATTTCA
AAATATATCCCCTTGGCTCTTTCTTTTAAATAGTTGCAGAG
Found at i:127316 original size:433 final size:428
Alignment explanation
Indices: 126189--127316 Score: 1026
Period size: 430 Copynumber: 2.6 Consensus size: 428
126179 TACGAAAAGC
* * * * * * *
126189 TTGTTATCGCTACTCCTCTGAAACCATTAGAGATAGAGACTTGGAACTTTTACCAATGTCTTCAG
1 TTGTTATCGCTACTCCTATGAAACCATAAGAGATAGAAACTTGAAACATTTACCAATGTATTAAG
* * * * * * ** * *
126254 TACACTTAGAGGGTTCTT-CTATCTACTAACACCGAAAGGATCCGAGACCCCCTTCTAGTAGTTA
66 TACACTTAGACGCTT-TTCCAATCTATTCATACCGAAAGGATCAAAGCCCCCCTTCTAGCAGTTA
* * * **** * ** * * *
126318 TTGCCCCTGAAAGTATTTGA-ATTTCCATAAAATCACTTCCAACTTTTTTATTATTTATCATAGA
130 TTGCCCCTGAAAGTA-TTAACATTTCAATAAAAACACAAAAAACTTGTGAATAACTAATCATAGA
* * ** *
126382 GACTTCTGACCACTTCGGATGGAAGCGTCTACCTTGGCCAAACAAAATTACATAAAGGTCAAAGG
194 GACTTCGGACCACTT-GGATGGAAGCGTCTACCTT-GCCGATGAAAATAACATAAAGGTCAAAGG
**
126447 TCAAGGTCATCTAAAAATCTCTTAATTAATGAGTTTTTAGATCTCTTTTGTTTAGTGTAGTAAAG
257 TCAAGGTCATCTAAAAATCTCTTAATTAATGAGTTTTTAGATCTCTAATGTTTAGTGTAGTAAAG
* * * * *
126512 AAACACTTTTTCATGGATGTAATAGGACATCTTAAGACATTTTAAAATATATCCCCTTGGCTCTT
322 AAAAACTTTTTCATGGATGTAATAGGACATCTTAAGACATTTCAAAATATAACCCCTTGACCCTT
* * * * * * *
126577 TCTTTTAAATAGTTGCAGAGTTATTGCCCCTTTTGTACGAAA
387 CCATGTAAATAGTTACAGAGTTATTGCCCATATTGTACAAAA
* * * *
126619 TTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACTTGGAACTTTTACCAATGTCTTAAG
1 TTGTTATCGCTACTCCTATGAAACCATAAGAGATAGAAACTTGAAACATTTACCAATGTATTAAG
* * * ** *
126684 TACACTTAGAGGGTTTTCCAATCTATTCATACCGAAATGATCTGAGCCCCCCTTCTAGTAGTTAT
66 TACACTTAGACGCTTTTCCAATCTATTCATACCGAAAGGATCAAAGCCCCCCTTCTAGCAGTTAT
* * * **** * ** * * * *
126749 TGCCCCTGAAAGTATTTACATTTCTATAAAATCACTTCCAACTTTTTTATTACTTATTATACAGA
131 TGCCCCTGAAAGTATTAACATTTCAATAAAAACACAAAAAACTTGTGAATAACTAATCATAGAGA
* *
126814 CTTCGGACCACTTTGGATGGAAGCGTCTACATTG--GATGAACAACATAATATAAAGGTCAAAGG
196 CTTCGGACCAC-TTGGATGGAAGCGTCTACCTTGCCGATG-A-AA-ATAACATAAAGGTCAAAGG
* ** * *
126877 TCAAGGTCATTTGGAAATCTCTTAATTAATGAGTTTTTAGATCTCTAATGTTTAG-GATGGTAGA
257 TCAAGGTCATCTAAAAATCTCTTAATTAATGAGTTTTTAGATCTCTAATGTTTAGTG-TAGTAAA
* *
126941 GAAAAACTTTTTCATGGATGTAGTAGGACATCTTAAGACATTTCAAAATATAACCCTTTGACCCT
321 GAAAAACTTTTTCATGGATGTAATAGGACATCTTAAGACATTTCAAAATATAACCCCTTGACCCT
*
127006 TACCATGTAACA-A-TTATAGAGTTATTGCCCATATTGTACAAAA
386 T-CCATGTAA-ATAGTTACAGAGTTATTGCCCATATTGTACAAAA
* * ** * *
127049 TGCTTGTTATCGCTACTCCTAAT-TAACCGTTGGAGATAGAGACTTGAAACATTTACTAATGTAT
1 ---TTGTTATCGCTACTCCT-ATGAAACCATAAGAGATAGAAACTTGAAACATTTACCAATGTAT
* * * * * * * *
127113 TCAGTATA-TTGAGACGCTTCTT-CAATCTATTCTTACCTACAGGGTCCAAAG-TCCCTTTCTAG
62 TAAGTACACTT-AGACGCTT-TTCCAATCTATTCATACCGAAAGGAT-CAAAGCCCCCCTTCTAG
127175 CAGTTATTGCCCCTGAAAGT-TTCGAACA-TTCAATAAAAAACACAAAAAAC-TGTGAATCAAC-
124 CAGTTATTGCCCCTGAAAGTATT--AACATTTCAAT-AAAAACACAAAAAACTTGTGAAT-AACT
* * * *
127236 AATCATAGATACATCGGACCACTTGGTATTGAAGCGTCTACCTTGTCCGATGAAAATGACATAAA
185 AATCATAGAGACTTCGGACCACTTGG-ATGGAAGCGTCTACCTTG-CCGATGAAAATAACATAAA
127301 GGTCAAAGGTCAAGGT
248 GGTCAAAGGTCAAGGT
127317 TAAGCAATAA
Statistics
Matches: 586, Mismatches: 88, Indels: 45
0.82 0.12 0.06
Matches are distributed among these distances:
427 1 0.00
428 1 0.00
429 9 0.02
430 357 0.61
431 8 0.01
432 9 0.02
433 173 0.30
434 23 0.04
435 1 0.00
436 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (428 bp):
TTGTTATCGCTACTCCTATGAAACCATAAGAGATAGAAACTTGAAACATTTACCAATGTATTAAG
TACACTTAGACGCTTTTCCAATCTATTCATACCGAAAGGATCAAAGCCCCCCTTCTAGCAGTTAT
TGCCCCTGAAAGTATTAACATTTCAATAAAAACACAAAAAACTTGTGAATAACTAATCATAGAGA
CTTCGGACCACTTGGATGGAAGCGTCTACCTTGCCGATGAAAATAACATAAAGGTCAAAGGTCAA
GGTCATCTAAAAATCTCTTAATTAATGAGTTTTTAGATCTCTAATGTTTAGTGTAGTAAAGAAAA
ACTTTTTCATGGATGTAATAGGACATCTTAAGACATTTCAAAATATAACCCCTTGACCCTTCCAT
GTAAATAGTTACAGAGTTATTGCCCATATTGTACAAAA
Found at i:128472 original size:432 final size:432
Alignment explanation
Indices: 127683--128701 Score: 1475
Period size: 432 Copynumber: 2.4 Consensus size: 432
127673 ATTGCCCTTG
* *
127683 TGTACGAAAAGCTTGTTATCGCAACTCCTGTGAAACCATAAGAGATAGAAACTTGGAACTTTTAC
1 TGTAC-AAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACTTGGAACTTTTAC
* *
127748 CAATGTCTTCAGTACACTTAGAGGGTTCTCCAATCTATTCATACCGAAAGGATTTGAGCCCCCCT
65 CAATGTCTTCAGTACACTTAGAGGATTCTCCAATCTATTCATACCGAAAGGATCTGAGCCCCCCT
*
127813 TCTAGTAGTTATTGCCCCTGAAAGTATTTACATTTCTATAAAATCACTTCCAACTTTTTTATTAT
130 TCTAGTAGTTATTGCCCCTGAAAGTATTTACATTTCTATAAAATCACTTACAACTTTTTTATTAT
* * *
127878 TTGTCATAGAGACTTTGGACCACTTGGGATTGAAGCGTCTACCTTGGCCAAACAAAATGACACAA
195 TTATCATAGAGACTTCGGACCACTTGGGATTAAAGCGTCTACCTTGGCCAAACAAAATGACACAA
* *
127943 AGGTCAAAGGTCAAGGTCATCTGCAAATCTCTTAATTAATGAGTTTTTAGATCTCTTTTGTTTAG
260 AGGTCAAAGATCAAGGTCATCTGCAAAGCTCTTAATTAATGAGTTTTTAGATCTCTTTTGTTTAG
*
128008 GGTGGTAGAGAAAAACTTTTTCATGGATGTAGTAGGACA-TCTTGAGACATTTTAAAATATAGCC
325 GGTGGTAGAGAAAAACTTTTTCATGGATGTAGTAGGACATTC-TAAGACATTTTAAAATATAGCC
* *
128072 C-CTTGGCTCCTT-CC-TTTAA-ATAGTTACAGAGTTATTACCCCTAT
389 CTC-TGAC-CCTTACCATGTAACA-A-TTACAGAGTTATTACCCCTAT
128116 T-TACATAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACTTGGAACTTTTAC
1 TGTACA-AAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACTTGGAACTTTTAC
*
128180 CAATGTCTTCAGTACACTTAGAGGATTCTCCAATTTATTCATACCGAAAGGATCTGAGCCCCCCT
65 CAATGTCTTCAGTACACTTAGAGGATTCTCCAATCTATTCATACCGAAAGGATCTGAGCCCCCCT
*
128245 TCTAGTAGTTATTGCCCCTGAAAGTATTTACATTTCTATATAATCACTTACAACTTTTTTATTAT
130 TCTAGTAGTTATTGCCCCTGAAAGTATTTACATTTCTATAAAATCACTTACAACTTTTTTATTAT
* * *
128310 TTATCATAGAGACTTCGGACCATTTGGGATTAAAGCGTCTACCTTGGCCGAACAAAATGACATAA
195 TTATCATAGAGACTTCGGACCACTTGGGATTAAAGCGTCTACCTTGGCCAAACAAAATGACACAA
* * *
128375 AGGTCAAAGATCAAGGTCATTTG-AGAAGCTGTTAATTAATGAGTTTTTATATCTCTTTTGTTTA
260 AGGTCAAAGATCAAGGTCATCTGCA-AAGCTCTTAATTAATGAGTTTTTAGATCTCTTTTGTTTA
* *
128439 GGGTTGTAGAGAAAAACTTTTTCATGGATGTAGTAGGACATTCTAATACATTTTAAAATATAGCC
324 GGGTGGTAGAGAAAAACTTTTTCATGGATGTAGTAGGACATTCTAAGACATTTTAAAATATAGCC
*
128504 CTCTGACCCTTACCATGTAACAATTACAGAGTTATTTCCCCTAT
389 CTCTGACCCTTACCATGTAACAATTACAGAGTTATTACCCCTAT
* * * * * * *
128548 TGTACAAAATGCTTGTTATCGCTACTCCTCAT-TAACCGTCAGAAATAGAGACTTGAAACGTTTA
1 TGTACAAAA-GCTTGTTATCGCTACTCCTC-TGAAACCATAAGAGATAGAAACTTGGAACTTTTA
* * * * * * * *
128612 CTAATGTATTCAGTACACTTAGACGCTCCTTCAATCTA-TCATACCGAAAAGG-TCTAAAG-TCC
64 CCAATGTCTTCAGTACACTTAGAGGATTCTCCAATCTATTCATACCG-AAAGGATCT-GAGCCCC
* * *
128674 CTTTCTAGCAGTTATTGCCTCTGAAAGT
127 CCTTCTAGTAGTTATTGCCCCTGAAAGT
128702 TTCGAACATT
Statistics
Matches: 531, Mismatches: 43, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
431 6 0.01
432 427 0.80
433 96 0.18
434 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (432 bp):
TGTACAAAAGCTTGTTATCGCTACTCCTCTGAAACCATAAGAGATAGAAACTTGGAACTTTTACC
AATGTCTTCAGTACACTTAGAGGATTCTCCAATCTATTCATACCGAAAGGATCTGAGCCCCCCTT
CTAGTAGTTATTGCCCCTGAAAGTATTTACATTTCTATAAAATCACTTACAACTTTTTTATTATT
TATCATAGAGACTTCGGACCACTTGGGATTAAAGCGTCTACCTTGGCCAAACAAAATGACACAAA
GGTCAAAGATCAAGGTCATCTGCAAAGCTCTTAATTAATGAGTTTTTAGATCTCTTTTGTTTAGG
GTGGTAGAGAAAAACTTTTTCATGGATGTAGTAGGACATTCTAAGACATTTTAAAATATAGCCCT
CTGACCCTTACCATGTAACAATTACAGAGTTATTACCCCTAT
Found at i:129662 original size:4 final size:4
Alignment explanation
Indices: 129653--129706 Score: 81
Period size: 4 Copynumber: 13.5 Consensus size: 4
129643 GTTACCCTGT
* * *
129653 TCCG TCCG TCTG TCCG TCCG TCTG TCCG TCCG TCCA TCCG TCCG TCCG
1 TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG
129701 TCCG TC
1 TCCG TC
129707 TGTCACTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.02, C:0.46, G:0.22, T:0.30
Consensus pattern (4 bp):
TCCG
Found at i:130470 original size:165 final size:163
Alignment explanation
Indices: 130280--130599 Score: 489
Period size: 165 Copynumber: 2.0 Consensus size: 163
130270 GGGGCTGTCC
* * *
130280 TATAGATTTGCAATAAGGTTTTAAAAAGTTAAATTTCATCCAGGGAGTCAAATAGTAGTAGAAAA
1 TATAGATGTGCAATAAGGTTTTAAAAAGTTAAATTTCATCCAGGGAGTCAAAAAGTAGCAGAAAA
* *
130345 TTGACGTTTATCACTAAAAAAAACAAAACATAAATCCAAGAGCTCCTCTTATGATTTAATGGATA
66 TTGACGTTAATCACT--AAAAAA-AAAACATAAATCCAAGAACTCCTCTTATGATTTAATGGATA
130410 GACA-ATCATACCTTGGGATATGATAGGGACTGTTT
128 GACACATCATACCTTGGGATATGATAGGGACTGTTT
* * *
130445 TATAGATGTGCAGTAAGGTTTTAAAAATTTAAATTTCATCCAGGGAGTCAAAAAGTAGCAGAATA
1 TATAGATGTGCAATAAGGTTTTAAAAAGTTAAATTTCATCCAGGGAGTCAAAAAGTAGCAGAAAA
* * * *
130510 TTGACGTTAATCACTTAAAAAAAAACATAGATCCTAGAACTCCTTTTATGATTTAATGGATAGAC
66 TTGACGTTAATCACTAAAAAAAAAACATAAATCCAAGAACTCCTCTTATGATTTAATGGATAGAC
*
130575 ACATCATATCTTGGGATATGATAGG
131 ACATCATACCTTGGGATATGATAGG
130600 AACTTAAATT
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
162 41 0.29
163 27 0.19
165 73 0.52
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (163 bp):
TATAGATGTGCAATAAGGTTTTAAAAAGTTAAATTTCATCCAGGGAGTCAAAAAGTAGCAGAAAA
TTGACGTTAATCACTAAAAAAAAAACATAAATCCAAGAACTCCTCTTATGATTTAATGGATAGAC
ACATCATACCTTGGGATATGATAGGGACTGTTT
Found at i:132738 original size:3 final size:3
Alignment explanation
Indices: 132732--132757 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
132722 AATAGAAAAA
132732 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
132758 ACTAGTAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:135344 original size:433 final size:431
Alignment explanation
Indices: 134463--135505 Score: 1232
Period size: 433 Copynumber: 2.4 Consensus size: 431
134453 TTTCAATTGC
* * * * **
134463 TCAAA-ACTTTCAGGGGCAATAACTGCTAGAAAGGGACTTTGGACCCTTTCGGTATGAA-AGATT
1 TCAAATACTTTCAGGGGCAATAACTACTAGAAGGGGAC-CTCGAATCTTTCGGTATGAATAGATT
* * ** * * * * * * *
134526 GAAGAAGTGTCTAAGTGTACTGAATACATCAGTAAAAGTTTCAAATGTTTATCCCTAACGG-TTA
65 GAAGAACTGTCTAAGTGTACTGAAGACATTGGTAAAAGTTTCAAGTCTCTATCTCTTATGGTTTC
* * * *
134590 ATGAAGG-TTAGCGATAACAAGCATATT-GTACAATAGGGGCAATAACTCTATAATTGTTTCACA
130 A-G-AGGAGTAGCGATAACAAGCAT-TTCGTACAACAGGGGCAATAACTTTGT-ATTGTTTCACA
* * * ** * * *
134653 ATAAGGGTCAAAGGATTATATTTTGTAATGTCTTATGATGTCCTACTATATCCATGAAAAAGTTT
191 ATAAGAGCCAAAGGACTATATTTTAAAATGTCTTAAGATGTCCTAATACATCCATGAAAAAGTTT
* * * ** *
134718 TTCTCTTCCACCCTAAAAAAAGAGTTATATAAAATCATGAATTAGGAGATTTCCAAATGACCTTG
256 TTCTCTACCACCCTAAAAAAAGAGATATATAAAATCATCAATTAACAGATGTCCAAATGACCTTG
* * * *
134783 ACCTTTGACCTTTATGTTATTTTGTTTGGCCAATGTAGATGCTTCCATCCCAGGTAGTCCGAAGT
321 ACCTTTGACCTTTATGTTATTTTGTTCGGCCAAGGTAGACGCTTCCATCCCAAGTAGTCCGAAGT
* *
134848 CTCTATGATAAGAAATAAAAACGTATGAAGTGATTTTATGGAAATG
386 CTCTATGATAAGAAATAAAAAAGTATGAAGTGATTCTATGGAAATG
*
134894 T-AAATACTTTCAGGGGCAATAACTACTAGATGGGGACCTCAGAATCTTTCGGTATGAATAGATT
1 TCAAATACTTTCAGGGGCAATAACTACTAGAAGGGGACCTC-GAATCTTTCGGTATGAATAGATT
*
134958 GAAGAACTGTCTATGTGTACTGAAGACATTGGTAAAAGTTTCAAGTCTCTATCTCTTATGGTTTC
65 GAAGAACTGTCTAAGTGTACTGAAGACATTGGTAAAAGTTTCAAGTCTCTATCTCTTATGGTTTC
* *
135023 AGAGGAGTAGCGATGACAAACATTTCGTACAACAGGGGCAATAACTTTGTATT-TATTCA-AAGG
130 AGAGGAGTAGCGATAACAAGCATTTCGTACAACAGGGGCAATAACTTTGTATTGT-TTCACAA--
* * * *
135086 TATGAGCCGAGGGGCTATATTTTAAAATGTCTTAAGATGTCCTAATACATCCATGAAAAAGTTTT
192 TAAGAGCCAAAGGACTATATTTTAAAATGTCTTAAGATGTCCTAATACATCCATGAAAAAGTTTT
* * *
135151 TCTCTACCACCCTTAACAAAAGAGATCTA-AAAACTCATCAATTAACAGATGTCTAAATGACCTT
257 TCTCTACCACCC-TAAAAAAAGAGATATATAAAA-TCATCAATTAACAGATGTCCAAATGACCTT
* * *
135215 GACCTTTGACCTTTATGTTGTTTTGTTCGGTCAAGGTAGACGCTTCCATCCCAAGTGGTCCGAAG
320 GACCTTTGACCTTTATGTTATTTTGTTCGGCCAAGGTAGACGCTTCCATCCCAAGTAGTCCGAAG
*
135280 TCTCTATGATAA-ATAATAAAAAAGT-TGGAAGTGGTTCTATGGAAAT-
385 TCTCTATGATAAGA-AATAAAAAAGTAT-GAAGTGATTCTATGGAAATG
** * * * *
135326 TCAAATACTTTCAGGGGCAATAACTGA-TAGAAGGGGGTCTCGGATCCTTTCGGTATTAGTAAAT
1 TCAAATACTTTCAGGGGCAATAACT-ACTAGAAGGGGACCTCGAAT-CTTTCGGTATGAATAGAT
** * *
135390 TGAAGAACCCTCTAAGTGTAATGAAGACATTGGTAAAAGTTCCAAGTCTCTATCTCTTATGGTTT
64 TGAAGAACTGTCTAAGTGTACTGAAGACATTGGTAAAAGTTTCAAGTCTCTATCTCTTATGGTTT
* * *
135455 CAGAGGAGTAACGATAACAAGCTTTTCGTAC-ACAAGGGCAATAACTTTGTA
129 CAGAGGAGTAGCGATAACAAGCATTTCGTACAACAGGGGCAATAACTTTGTA
135506 AGTTCTAGGA
Statistics
Matches: 523, Mismatches: 73, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
430 7 0.01
431 57 0.11
432 184 0.35
433 274 0.52
434 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (431 bp):
TCAAATACTTTCAGGGGCAATAACTACTAGAAGGGGACCTCGAATCTTTCGGTATGAATAGATTG
AAGAACTGTCTAAGTGTACTGAAGACATTGGTAAAAGTTTCAAGTCTCTATCTCTTATGGTTTCA
GAGGAGTAGCGATAACAAGCATTTCGTACAACAGGGGCAATAACTTTGTATTGTTTCACAATAAG
AGCCAAAGGACTATATTTTAAAATGTCTTAAGATGTCCTAATACATCCATGAAAAAGTTTTTCTC
TACCACCCTAAAAAAAGAGATATATAAAATCATCAATTAACAGATGTCCAAATGACCTTGACCTT
TGACCTTTATGTTATTTTGTTCGGCCAAGGTAGACGCTTCCATCCCAAGTAGTCCGAAGTCTCTA
TGATAAGAAATAAAAAAGTATGAAGTGATTCTATGGAAATG
Found at i:135716 original size:36 final size:36
Alignment explanation
Indices: 135664--135736 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
135654 CATAAGAAAT
*
135664 ACAATAGGTCTTTCACCTGAAAGGTGGAAAGACCTA
1 ACAAGAGGTCTTTCACCTGAAAGGTGGAAAGACCTA
135700 ACAAGAGGTCTTTCACCTGAAAGGTGGAAAGACCTA
1 ACAAGAGGTCTTTCACCTGAAAGGTGGAAAGACCTA
135736 A
1 A
135737 AAACATAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (36 bp):
ACAAGAGGTCTTTCACCTGAAAGGTGGAAAGACCTA
Found at i:138974 original size:16 final size:16
Alignment explanation
Indices: 138953--138987 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
138943 AAAATACCTG
138953 GTAATTTGTGAAACTA
1 GTAATTTGTGAAACTA
138969 GTAATTTGTGAAACTA
1 GTAATTTGTGAAACTA
138985 GTA
1 GTA
138988 TTTTTAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (16 bp):
GTAATTTGTGAAACTA
Found at i:142721 original size:7 final size:7
Alignment explanation
Indices: 142709--142775 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
142699 GAGAAGGATC
142709 ATTCGAG
1 ATTCGAG
142716 ATTCGAG
1 ATTCGAG
*
142723 ATTCGAA
1 ATTCGAG
*
142730 ATACGAG
1 ATTCGAG
*
142737 ATTCGAA
1 ATTCGAG
*
142744 ATACGAG
1 ATTCGAG
142751 ATTCGAG
1 ATTCGAG
*
142758 ATTCGAA
1 ATTCGAG
142765 ATTCGAG
1 ATTCGAG
142772 ATTC
1 ATTC
142776 AATATCTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (7 bp):
ATTCGAG
Found at i:143277 original size:2 final size:2
Alignment explanation
Indices: 143270--143317 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
143260 TTGTCGATAT
143270 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
143312 GA GA GA
1 GA GA GA
143318 CAGACANNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:143500 original size:2 final size:2
Alignment explanation
Indices: 143493--143545 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
143483 NNNNNNNNNN
143493 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
143535 CT CT CT CT CT C
1 CT CT CT CT CT C
143546 AACACCTAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:145727 original size:7 final size:7
Alignment explanation
Indices: 145712--145778 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
145702 TTTAGATATT
145712 GAATCTC
1 GAATCTC
*
145719 GAATTTC
1 GAATCTC
145726 GAATCTC
1 GAATCTC
145733 GAATCTC
1 GAATCTC
* *
145740 GTATTTC
1 GAATCTC
145747 GAATCTC
1 GAATCTC
* *
145754 GTATTTC
1 GAATCTC
145761 GAATCTC
1 GAATCTC
145768 GAATCTC
1 GAATCTC
145775 GAAT
1 GAAT
145779 GATCCTTCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (7 bp):
GAATCTC
Found at i:145737 original size:21 final size:21
Alignment explanation
Indices: 145712--145778 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
145702 TTTAGATATT
145712 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
145733 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * *
145754 GTATTTCGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
145775 GAAT
1 GAAT
145779 GATCCTTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:152773 original size:2 final size:2
Alignment explanation
Indices: 152766--152830 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
152756 ATATCAAATT
152766 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
152808 GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA G
152831 TCTGCTTTAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:162233 original size:17 final size:18
Alignment explanation
Indices: 162213--162247 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
162203 ACATAATTTC
*
162213 TAAAAAT-AAATAAAAAA
1 TAAAAATGAAAGAAAAAA
162230 TAAAAATGAAAGAAAAAA
1 TAAAAATGAAAGAAAAAA
162248 AATACCAAGG
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:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (18 bp):
TAAAAATGAAAGAAAAAA
Found at i:162546 original size:18 final size:18
Alignment explanation
Indices: 162510--162546 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
162500 GAAATTGAAT
*
162510 CATTTTTCCCAATTGTGA
1 CATTTTTCCCAATTCTGA
*
162528 CATTTTTCCCGATTCTGA
1 CATTTTTCCCAATTCTGA
162546 C
1 C
162547 GTTTGCCTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.43
Consensus pattern (18 bp):
CATTTTTCCCAATTCTGA
Found at i:163721 original size:14 final size:15
Alignment explanation
Indices: 163702--163738 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
163692 TATTTCTGTC
163702 ATTCAAATT-AAATA
1 ATTCAAATTAAAATA
163716 ATTCAAATTAAAATA
1 ATTCAAATTAAAATA
163731 ATTCAAAT
1 ATTCAAAT
163739 ACAAGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTCAAATTAAAATA
Found at i:163859 original size:15 final size:15
Alignment explanation
Indices: 163839--163875 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
163829 TGGAGCTTGG
*
163839 TTCAAATTAATATAA
1 TTCAAATTAAAATAA
163854 TTCAAATTAAAATAA
1 TTCAAATTAAAATAA
163869 TTCAAAT
1 TTCAAAT
163876 ACAAGTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (15 bp):
TTCAAATTAAAATAA
Found at i:163930 original size:137 final size:137
Alignment explanation
Indices: 163703--163984 Score: 530
Period size: 137 Copynumber: 2.1 Consensus size: 137
163693 ATTTCTGTCA
*
163703 TTCAAATTAAATAATTCAAATTAAAATAATTCAAATACAAGTAAGAAGATTCTTTCTTTTTTAAG
1 TTCAAATTAAATAATTCAAATTAAAATAATTCAAATACAAGTAACAAGATTCTTTCTTTTTTAAG
*
163768 TGTGAATTCGATTTTTAGCTGTTTTGTTT-GGTTTTTTTTTAGGCTACATCAATTTTGAAACTGG
66 TGTAAATTCGATTTTTAGCTGTTTTGTTTGGGTTTTTTTTTAGGCTACATCAATTTTGAAACTGG
163832 AGCTTGG
131 AGCTTGG
163839 TTCAAATTAATATAATTCAAATTAAAATAATTCAAATACAAGTAACAAGATTCTTTCTTTTTTAA
1 TTCAAATTAA-ATAATTCAAATTAAAATAATTCAAATACAAGTAACAAGATTCTTTCTTTTTTAA
163904 GTGTAAATTCGATTTTTAGCTGTTTTGTTTGGGTTTTTTTTTAGGCTACATCAATTTTGAAACTG
65 GTGTAAATTCGATTTTTAGCTGTTTTGTTTGGGTTTTTTTTTAGGCTACATCAATTTTGAAACTG
163969 GAGCTTGG
130 GAGCTTGG
163977 TTCAAATT
1 TTCAAATT
163985 GCAACAAATA
Statistics
Matches: 142, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
136 10 0.07
137 82 0.58
138 50 0.35
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (137 bp):
TTCAAATTAAATAATTCAAATTAAAATAATTCAAATACAAGTAACAAGATTCTTTCTTTTTTAAG
TGTAAATTCGATTTTTAGCTGTTTTGTTTGGGTTTTTTTTTAGGCTACATCAATTTTGAAACTGG
AGCTTGG
Found at i:164688 original size:64 final size:64
Alignment explanation
Indices: 164561--164691 Score: 208
Period size: 64 Copynumber: 2.0 Consensus size: 64
164551 TCATACTTCG
* **
164561 CTTGCCGGAAAGACCCGAGAAGATACTATCGTAATTCATGTGTCCAGAGCAAGGACATGTGTAT
1 CTTGCCGGAAAGACCCGAGAAGATACTATCGTAATTCATGTGTCCACAGCAAGGACACATGTAT
* * *
164625 CTTGCCGGAAAGACCCGAGAAGATACTGTCGTAATTCATGTGTCCTCAGCAAGGATACATGTAT
1 CTTGCCGGAAAGACCCGAGAAGATACTATCGTAATTCATGTGTCCACAGCAAGGACACATGTAT
164689 CTT
1 CTT
164692 CGCAATTCGG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (64 bp):
CTTGCCGGAAAGACCCGAGAAGATACTATCGTAATTCATGTGTCCACAGCAAGGACACATGTAT
Found at i:165263 original size:2 final size:2
Alignment explanation
Indices: 165256--165331 Score: 125
Period size: 2 Copynumber: 38.0 Consensus size: 2
165246 ATTCCCCTGG
* * *
165256 GA GA GA GA GA GA GC GA GA GA GA GT GA GA GA GA GA AA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
165298 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
165332 ATCAGATACA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.49, C:0.01, G:0.49, T:0.01
Consensus pattern (2 bp):
GA
Found at i:166235 original size:25 final size:25
Alignment explanation
Indices: 166205--166951 Score: 1104
Period size: 25 Copynumber: 29.6 Consensus size: 25
166195 TGGTAACCAC
*
166205 TGAACCAGACAAGAGACATGCCTAG
1 TGAACCAGACAAGAGACATGCTTAG
166230 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
166255 TGAACAAGACAAGAGACATGCTTAA
1 TGAACCAGACAAGAGACATGCTTAG
166280 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
166305 TGAACAAAACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166330 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
166355 TGAACTAGACACGAGACATGCATAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
166380 TGAACCAGACAAGATATATGCCTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
166405 TGAACAAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
166430 TGAACAAAACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166455 TGAA-CATGACAAGAGACATGCTTAG
1 TGAACCA-GACAAGAGACATGCTTAG
* *
166480 TGAACAAAACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166505 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
166530 TGAACAAAACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166555 TGAA-CATGACAAGAGACATGCTTAG
1 TGAACCA-GACAAGAGACATGCTTAG
*
166580 TGAACCAGACGAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
166605 TGAACAAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166630 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166655 TGAACCAGACAAGAGACATGCTTTA-
1 TGAACCAGACAAGAGACATGC-TTAG
*
166680 TGAACCAGACAAGACACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
166705 TGAAACAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166730 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166755 TGAACCAGACAAGAGACATTGCTTAG
1 TGAACCAGACAAGAGACA-TGCTTAG
166781 TGAACCAGACCCAGACAAGAGACATTGCTTAG
1 TG----A-A-CCAGACAAGAGACA-TGCTTAG
* *
166813 TGAACCAGACAAGAGACATGATAAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
166838 TGAACCAGACAAGATATATGCCTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
166863 TGAACTAGACAAGAGACATGCTAAG
1 TGAACCAGACAAGAGACATGCTTAG
166888 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
166913 TGAACAAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
166938 TGAACCAGACAAGA
1 TGAACCAGACAAGA
166952 NNNNNNNNNN
Statistics
Matches: 653, Mismatches: 56, Indels: 26
0.89 0.08 0.04
Matches are distributed among these distances:
24 5 0.01
25 591 0.91
26 29 0.04
27 1 0.00
28 1 0.00
30 1 0.00
31 1 0.00
32 24 0.04
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (25 bp):
TGAACCAGACAAGAGACATGCTTAG
Found at i:178893 original size:92 final size:91
Alignment explanation
Indices: 178788--178973 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 91
178778 TCCCCTAAAG
178788 TGTAATTTTAAAAAATCTGAAAAATTAACAAATATAACAGCCCAAACTACTTGAACTTATGATAT
1 TGTAATTTTAAAAAATCTGAAAAATTAACAAATATAACAGCCCAAACTACTTGAACTTATGATAT
178853 GTTCAACTAATTTAATACAATTTAAT
66 GTTCAACTAATTTAATACAATTTAAT
178879 TGNTAATTTTAAAAAATCTGAAAAATTAACAAATATAACAGCCCAAACTACTTGAACTTATGATA
1 TG-TAATTTTAAAAAATCTGAAAAATTAACAAATATAACAGCCCAAACTACTTGAACTTATGATA
178944 TGTTCAACTAATTTAATACAATTTAAT
65 TGTTCAACTAATTTAATACAATTTAAT
178971 TGT
1 TGT
178974 CAACAGATAT
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
91 3 0.03
92 91 0.97
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.34
Consensus pattern (91 bp):
TGTAATTTTAAAAAATCTGAAAAATTAACAAATATAACAGCCCAAACTACTTGAACTTATGATAT
GTTCAACTAATTTAATACAATTTAAT
Found at i:180736 original size:64 final size:64
Alignment explanation
Indices: 180609--180738 Score: 188
Period size: 64 Copynumber: 2.0 Consensus size: 64
180599 TCATATTTCG
* **
180609 CTTGCCGGAAAGACCCGAGAAGATACTATCGTAATTCATGTGTCCAGAGCAAGGACATGTGTAT
1 CTTGCCGGAAAGACCCGAGAAGATACTATCGTAATTCATGTGTCCACAGCAAGGACACATGTAT
* * * * *
180673 CTTGTCGGAAAGACTCGAGAATATACTATCGTAATTCATGTGTCCTCAGCAAGGATACATGTAT
1 CTTGCCGGAAAGACCCGAGAAGATACTATCGTAATTCATGTGTCCACAGCAAGGACACATGTAT
180737 CT
1 CT
180739 ATGCAATTCG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (64 bp):
CTTGCCGGAAAGACCCGAGAAGATACTATCGTAATTCATGTGTCCACAGCAAGGACACATGTAT
Found at i:181760 original size:2 final size:2
Alignment explanation
Indices: 181753--181818 Score: 96
Period size: 2 Copynumber: 33.0 Consensus size: 2
181743 ATTCCCCTGG
* * * *
181753 GA GA GA GA GA GA GC GA TA GA GA GT GA GA GA GA AA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
181795 GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA
181819 ATCAGATACA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.02, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:182722 original size:25 final size:25
Alignment explanation
Indices: 182692--184057 Score: 1908
Period size: 25 Copynumber: 53.9 Consensus size: 25
182682 TGGTAACCAC
*
182692 TGAACCAGACAAGAGACATGCCTAG
1 TGAACCAGACAAGAGACATGCTTAG
182717 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
182742 TGAACCAGACAAGAGACATGCTTAA
1 TGAACCAGACAAGAGACATGCTTAG
*
182767 TGAACCAGACAAGAGACATGCTAAG
1 TGAACCAGACAAGAGACATGCTTAG
182792 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
182817 TGAA-CATGACAAGAGACATGCTTAG
1 TGAACCA-GACAAGAGACATGCTTAG
*
182842 TGAACCAGACAAGACACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
182867 TGAACCAGAGAACCAGACAAGAGACATTGCTTAG
1 T--------GAACCAGACAAGAGACA-TGCTTAG
*
182901 TGAACCAGACAAGACACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
182926 TGAAACAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
182951 TGAACAAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
182976 TGAACCAGACAAGACACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183001 TGAACCAGAGAACCAGACAAGAGACATTGCTAAG
1 T--------GAACCAGACAAGAGACA-TGCTTAG
*
183035 TGAACCAGACAAGACACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183060 TGAAACAGACAAGAGACATACTTAG
1 TGAACCAGACAAGAGACATGCTTAG
183085 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
183110 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
183135 TGAGCCAGACAAGAAACATGCTCAG
1 TGAACCAGACAAGAGACATGCTTAG
183160 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183185 TGAACCAGACAAGAGACATTGTTTAG
1 TGAACCAGACAAGAGACA-TGCTTAG
183211 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* **
183236 TGAACCAGACAAGAAACATGCTCGG
1 TGAACCAGACAAGAGACATGCTTAG
183261 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183286 TGAACTAGTCAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
183311 TGAACCAGGCAAAAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* * * *
183336 TAAACCAGACAAAACACATGCTAAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183361 TGAACCAGACAAGAGACATGCTTAA
1 TGAACCAGACAAGAGACATGCTTAG
*
183386 TGAACCAGACAAGAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
183411 TGAACCAGGCAATAGACATGCTCAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183436 TGAACCAGACAAGAAATATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183461 TGAACCCGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
183486 AGAACCAGACAAGAAACATGCTCAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183511 AGAACCAGACAAGAGACATGCATAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183536 TTAACCAGTCAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183561 TGAACCAGACAAGAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183586 TGAACCAGACAAGAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183611 TGAACCAGACAAGAAACATGCTAAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
183636 TGAACAAGGCAAGAGACATGCTCAG
1 TGAACCAGACAAGAGACATGCTTAG
* * *
183661 TGAAACAGACAAGAGACATGTTTAA
1 TGAACCAGACAAGAGACATGCTTAG
*
183686 TGAACCAGTCAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183711 TGAACCAGACAAGAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183736 TGAACCAGACAAGAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183761 TGAAACAGTCAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183786 TGAACCAGACAAGAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183811 TGAACCAGACAAGAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183836 TGAACCAGTCAAGAGACATGCTCAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183861 TGAACCAGACAAGAAACATGCTTTA-
1 TGAACCAGACAAGAGACATGC-TTAG
*
183886 TGAACCAGTCAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
183911 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
183936 TGAACCAGACAAGAAACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
183961 TGAACCAGACAAGAGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
* *
183986 TGAACCAGACAAGAAACATGCTCAG
1 TGAACCAGACAAGAGACATGCTTAG
*
184011 TGAACCAGACAAGGGACATGCTTAG
1 TGAACCAGACAAGAGACATGCTTAG
*
184036 TGAACCAGACAAGAAACATGCT
1 TGAACCAGACAAGAGACATGCT
184058 AAGTACTTAG
Statistics
Matches: 1197, Mismatches: 121, Indels: 46
0.88 0.09 0.03
Matches are distributed among these distances:
24 5 0.00
25 1085 0.91
26 60 0.05
33 32 0.03
34 15 0.01
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (25 bp):
TGAACCAGACAAGAGACATGCTTAG
Found at i:182880 original size:33 final size:34
Alignment explanation
Indices: 182843--182909 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
182833 CATGCTTAGT
182843 GAACCAGACAAGACACA-TGCTTAGTGAACCAGA
1 GAACCAGACAAGACACATTGCTTAGTGAACCAGA
*
182876 GAACCAGACAAGAGACATTGCTTAGTGAACCAGA
1 GAACCAGACAAGACACATTGCTTAGTGAACCAGA
182910 CAAGACACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 16 0.50
34 16 0.50
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.13
Consensus pattern (34 bp):
GAACCAGACAAGACACATTGCTTAGTGAACCAGA
Found at i:183017 original size:33 final size:34
Alignment explanation
Indices: 182977--183043 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
182967 CATGCTTAGT
*
182977 GAACCAGACAAGACACA-TGCTTAGTGAACCAGA
1 GAACCAGACAAGACACATTGCTAAGTGAACCAGA
*
183010 GAACCAGACAAGAGACATTGCTAAGTGAACCAGA
1 GAACCAGACAAGACACATTGCTAAGTGAACCAGA
183044 CAAGACACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 16 0.52
34 15 0.48
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (34 bp):
GAACCAGACAAGACACATTGCTAAGTGAACCAGA
Found at i:187103 original size:2 final size:2
Alignment explanation
Indices: 187096--187128 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
187086 TTGGTCCCAT
187096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
187129 GTACATTATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:187531 original size:24 final size:24
Alignment explanation
Indices: 187499--187547 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
187489 GTTTCACTCT
*
187499 TACAGAGACAATTCGCGCTGGTCA
1 TACAGAGACAATTCGCGCCGGTCA
187523 TACAGAGACAATTCGCGCCGGTCA
1 TACAGAGACAATTCGCGCCGGTCA
187547 T
1 T
187548 CTCTCTCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (24 bp):
TACAGAGACAATTCGCGCCGGTCA
Found at i:188663 original size:4 final size:4
Alignment explanation
Indices: 188654--188706 Score: 88
Period size: 4 Copynumber: 13.2 Consensus size: 4
188644 ATTTCTCCGC
*
188654 CTGT CTGT CTGT CTGT CTGT CTGA CTGT CTGT CTGT CTGT CTGT CTGT
1 CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT
*
188702 GTGT C
1 CTGT C
188707 CGTATCTCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.02, C:0.25, G:0.26, T:0.47
Consensus pattern (4 bp):
CTGT
Found at i:214401 original size:104 final size:104
Alignment explanation
Indices: 214220--214489 Score: 506
Period size: 104 Copynumber: 2.6 Consensus size: 104
214210 NNNNNNNNNN
214220 GGCAATATCACAGTTATCAAATGTGATTCAATTTAAATTAATGAATTCAAAAGTATTATACATGT
1 GGCAATATCACAGTTATCAAATGTGATTCAATTTAAATTAATGAATTCAAAAGTATTATACATGT
*
214285 AATATTTACATTTGTAAAATATGCAACAAATCACAGATG
66 AATATTTACATTTGTAAAATATGCAACAAATCACAGATA
214324 GGCAATATCACAGTTATCAAATGTGATTCAATTTAAATTAATGAATTCAAAAGTATTATACATGT
1 GGCAATATCACAGTTATCAAATGTGATTCAATTTAAATTAATGAATTCAAAAGTATTATACATGT
*
214389 AATATTTGCATTTGTAAAATATGCAACAAATCACAGATA
66 AATATTTACATTTGTAAAATATGCAACAAATCACAGATA
214428 GGCAATATCACAGTTATCAAATGTGATTC-ATTTGAAATTAATGAATTCAAAAGTATTATACA
1 GGCAATATCACAGTTATCAAATGTGATTCAATTT-AAATTAATGAATTCAAAAGTATTATACA
214490 AGTCACCTGC
Statistics
Matches: 163, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
103 4 0.02
104 159 0.98
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (104 bp):
GGCAATATCACAGTTATCAAATGTGATTCAATTTAAATTAATGAATTCAAAAGTATTATACATGT
AATATTTACATTTGTAAAATATGCAACAAATCACAGATA
Found at i:218805 original size:21 final size:21
Alignment explanation
Indices: 218779--218826 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
218769 AACCGTTTAG
* *
218779 GTTTCGTGTGAATCGTGAAGC
1 GTTTCGTGTAAACCGTGAAGC
**
218800 GTTTCGTGTAAACCGTTTAGC
1 GTTTCGTGTAAACCGTGAAGC
218821 GTTTCG
1 GTTTCG
218827 GACAAAGCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.38
Consensus pattern (21 bp):
GTTTCGTGTAAACCGTGAAGC
Found at i:219444 original size:104 final size:104
Alignment explanation
Indices: 219264--219488 Score: 416
Period size: 104 Copynumber: 2.2 Consensus size: 104
219254 GGAAGTTCAN
*
219264 TTCAAAAGTATTATACATGTAATATTTACATTTGTAAAATATGCAACAAATCACAGATGGGCAAT
1 TTCAAAAGTATTATACATGTAATATTTACATTTGTAAAATATGCAACAAATCACAGATAGGCAAT
219329 ATCACAGTTATCAAATGTGATTCAATTT-AAATTAATGAA
66 ATCACAGTTATCAAATGTGATTC-ATTTGAAATTAATGAA
*
219368 TTCAAAAGTATTATACATGTAATATTTGCATTTGTAAAATATGCAACAAATCACAGATAGGCAAT
1 TTCAAAAGTATTATACATGTAATATTTACATTTGTAAAATATGCAACAAATCACAGATAGGCAAT
219433 ATCACAGTTATCAAATGTGATTCATTTGAAATTAATGAA
66 ATCACAGTTATCAAATGTGATTCATTTGAAATTAATGAA
219472 TTCAAAAGTATTATACA
1 TTCAAAAGTATTATACA
219489 AGTCACCTGC
Statistics
Matches: 118, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
103 4 0.03
104 114 0.97
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (104 bp):
TTCAAAAGTATTATACATGTAATATTTACATTTGTAAAATATGCAACAAATCACAGATAGGCAAT
ATCACAGTTATCAAATGTGATTCATTTGAAATTAATGAA
Found at i:227762 original size:81 final size:81
Alignment explanation
Indices: 227627--228132 Score: 940
Period size: 81 Copynumber: 6.2 Consensus size: 81
227617 CAGATTCCTG
*
227627 GTCCACAACCCCCAGATACAGAAACTAGACCTACAGGTACAGCTGTATGTTACAAACACAATAAC
1 GTCCACAACCCCCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
227692 ATGTGGTACATAAGGT
66 ATGTGGTACATAAGGT
*
227708 GTCCACAACCCCCAGATACAGAAACTAGACCTACAGGTACAGCTGTATGTTACAAACACAATAAC
1 GTCCACAACCCCCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
227773 ATGTGGTACATAAGGT
66 ATGTGGTACATAAGGT
* *
227789 GTCCACAACCCCTAGGTACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
1 GTCCACAACCCCCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
227854 ATGTGGTACATAAGGT
66 ATGTGGTACATAAGGT
*
227870 GTCCACAACCCTCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
1 GTCCACAACCCCCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
227935 ATGTGGTACATAAGGT
66 ATGTGGTACATAAGGT
*
227951 GTCCACAACCCTCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
1 GTCCACAACCCCCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
*
228016 GTGTGGTACATAAGGT
66 ATGTGGTACATAAGGT
*
228032 GTCCACAACCCTCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
1 GTCCACAACCCCCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
228097 ATGTGGTACATAAGGT
66 ATGTGGTACATAAGGT
228113 GTCCACAACCCCCAGATACA
1 GTCCACAACCCCCAGATACA
228133 CATCAACAGG
Statistics
Matches: 416, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 416 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (81 bp):
GTCCACAACCCCCAGATACAGAAACTAGACTTACAGGTACAGCTGTATGTTACAAACACAATAAC
ATGTGGTACATAAGGT
Found at i:230941 original size:27 final size:27
Alignment explanation
Indices: 230902--230982 Score: 153
Period size: 27 Copynumber: 3.0 Consensus size: 27
230892 TGGTGCATAC
*
230902 AAATAGATACTTGGATGATATTAACTA
1 AAATAGATGCTTGGATGATATTAACTA
230929 AAATAGATGCTTGGATGATATTAACTA
1 AAATAGATGCTTGGATGATATTAACTA
230956 AAATAGATGCTTGGATGATATTAACTA
1 AAATAGATGCTTGGATGATATTAACTA
230983 GTTGTATTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.33
Consensus pattern (27 bp):
AAATAGATGCTTGGATGATATTAACTA
Found at i:231614 original size:189 final size:188
Alignment explanation
Indices: 231294--231668 Score: 741
Period size: 189 Copynumber: 2.0 Consensus size: 188
231284 GTCAGCTTAG
231294 CAGTTGATTGTAAAAACAATTAATTTGACAGAGCTTTACACTAGAATTTTTATTTACGACCATTC
1 CAGTTGATTGTAAAAACAATTAATTTGACAGAGCTTTACACTAGAATTTTTATTTACGACCATTC
231359 TGATAGAAACTTGGAATGTTGAGATATATACACATTAGAGTTTCTTTAACTGTTTCCTTTTGAAA
66 TGATAGAAACTTGGAATGTTGAGATATATACACATTAGAGTTTCTTTAACTGTTTCCTTTTGAAA
231424 ATTATCTTAGATTTATAGTTCTATGATTGCTAATCACAGAAAAACAGGATTGAGGGNAC
131 ATTATCTTAGATTTATAGTTCTATGATTGCTAATCACAGAAAAACAGGATTGAGGG-AC
231483 CAGTTGATTGTAAAAACAATTAATTTGACAGAGCTTTACACTAGAATTTTTATTTACGACCATTC
1 CAGTTGATTGTAAAAACAATTAATTTGACAGAGCTTTACACTAGAATTTTTATTTACGACCATTC
231548 TGATAGAAACTTGGAATGTTGAGATATATACACATTAGAGTTTCTTTAACTGTTTCCTTTTGAAA
66 TGATAGAAACTTGGAATGTTGAGATATATACACATTAGAGTTTCTTTAACTGTTTCCTTTTGAAA
231613 ATTATCTTAGATTTATAGTTCTATGATTGCTAATCACAGAAAAACAGGATTGAGGG
131 ATTATCTTAGATTTATAGTTCTATGATTGCTAATCACAGAAAAACAGGATTGAGGG
231669 TTGTGAAACT
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 186 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (188 bp):
CAGTTGATTGTAAAAACAATTAATTTGACAGAGCTTTACACTAGAATTTTTATTTACGACCATTC
TGATAGAAACTTGGAATGTTGAGATATATACACATTAGAGTTTCTTTAACTGTTTCCTTTTGAAA
ATTATCTTAGATTTATAGTTCTATGATTGCTAATCACAGAAAAACAGGATTGAGGGAC
Found at i:231994 original size:87 final size:84
Alignment explanation
Indices: 231842--232047 Score: 333
Period size: 87 Copynumber: 2.4 Consensus size: 84
231832 TGGCAAGAGG
*
231842 AAGACCCAGGTTGTCAAAAACAACCTCGACCCTGTCTTTGATGAAACGTAAGTCATGATAAAATA
1 AAGACCCAGGTTGTCAAAAACAACCTCGACCCTGTCTTTGATGAAACGTAAGTCATGACAAAATA
231907 ATCAATTATAGTTTACAAGCGT
66 ATC-A--ATAGTTTACAAGCGT
* * *
231929 AAGATCCAGGTTGTCAAAAACAACCTCGACCTTGTCTTTGATGAAACGTAAGTCATGACACAATA
1 AAGACCCAGGTTGTCAAAAACAACCTCGACCCTGTCTTTGATGAAACGTAAGTCATGACAAAATA
231994 ATCAATAGTTTACAAGCGT
66 ATCAATAGTTTACAAGCGT
232013 AAGACCCAGGTTGTCAAAAACAACCTC-ATCCCTGT
1 AAGACCCAGGTTGTCAAAAACAACCTCGA-CCCTGT
232048 ATTTCACAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
83 1 0.01
84 46 0.41
86 1 0.01
87 64 0.57
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (84 bp):
AAGACCCAGGTTGTCAAAAACAACCTCGACCCTGTCTTTGATGAAACGTAAGTCATGACAAAATA
ATCAATAGTTTACAAGCGT
Found at i:235704 original size:18 final size:18
Alignment explanation
Indices: 235679--235734 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
235669 GTTTGTTGAT
*
235679 TGGTTTGATCACGTGTAT
1 TGGTTTGATCACGTGTAC
*
235697 TTGTTTGATCACGTGTAC
1 TGGTTTGATCACGTGTAC
*
235715 TGGTTTGATCATGTGTAC
1 TGGTTTGATCACGTGTAC
235733 TG
1 TG
235735 TCACTTGTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.16, C:0.12, G:0.27, T:0.45
Consensus pattern (18 bp):
TGGTTTGATCACGTGTAC
Found at i:238027 original size:2 final size:2
Alignment explanation
Indices: 238020--238091 Score: 108
Period size: 2 Copynumber: 36.0 Consensus size: 2
238010 TTATAACACG
* * * *
238020 GA GA GA GA GA GA GA GA GC TA GA GA GA GA GA GA GA GC TA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
238062 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
238092 TTACGTGGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.47, C:0.03, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:238044 original size:18 final size:18
Alignment explanation
Indices: 238021--238088 Score: 122
Period size: 18 Copynumber: 3.9 Consensus size: 18
238011 TATAACACGG
238021 AGAGAGAGAGAGAGAGCT
1 AGAGAGAGAGAGAGAGCT
238039 AGAGAGAGAGAGAGAGCT
1 AGAGAGAGAGAGAGAGCT
238057 AGAGAGAGAGAGAGAG--
1 AGAGAGAGAGAGAGAGCT
238073 AGAGAGAGAGAGAGAG
1 AGAGAGAGAGAGAGAG
238089 AGATTACGTG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.32
18 34 0.68
ACGTcount: A:0.47, C:0.03, G:0.47, T:0.03
Consensus pattern (18 bp):
AGAGAGAGAGAGAGAGCT
Found at i:241069 original size:63 final size:63
Alignment explanation
Indices: 240970--241165 Score: 349
Period size: 63 Copynumber: 3.1 Consensus size: 63
240960 TCTTGCCCTA
240970 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCCTATT
1 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCCTATT
241033 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCCTATTAT
1 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCC---TAT
241098 T
63 T
241099 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTT-TTCGTTCGGTTTCTTTTTCCCTATT
1 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTC-TTCGGTTTCTTTTTCCCTATT
241162 ATTA
1 ATTA
241166 TTATTATTTT
Statistics
Matches: 129, Mismatches: 0, Indels: 8
0.94 0.00 0.06
Matches are distributed among these distances:
63 67 0.52
65 3 0.02
66 59 0.46
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (63 bp):
ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCCTATT
Found at i:241135 original size:66 final size:66
Alignment explanation
Indices: 240970--241168 Score: 361
Period size: 66 Copynumber: 3.1 Consensus size: 66
240960 TCTTGCCCTA
240970 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCC---TAT
1 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCCTATTAT
241032 T
66 T
241033 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCCTATTAT
1 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCCTATTAT
241098 T
66 T
241099 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTT-TTCGTTCGGTTTCTTTTTCCCTATTA
1 ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTC-TTCGGTTTCTTTTTCCCTATTA
241163 TT
65 TT
241165 ATTA
1 ATTA
241169 TTATTTTTCT
Statistics
Matches: 132, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
63 59 0.45
65 3 0.02
66 70 0.53
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (66 bp):
ATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTATTCTTCGGTTTCTTTTTCCCTATTAT
T
Found at i:252491 original size:34 final size:34
Alignment explanation
Indices: 252410--252516 Score: 133
Period size: 34 Copynumber: 3.0 Consensus size: 34
252400 AGCTAAATCA
* * *
252410 GGTAGGTCGATGTCCGTAAACCAACCAATTAAAT
1 GGTAGGTCAATGTCCGTAAACCAACCAATCAGAT
*
252444 GGTAATTAAGTCAATGTCCGTAAACCAACCAATCAGAT
1 GG----TAGGTCAATGTCCGTAAACCAACCAATCAGAT
*
252482 GGTAGGTCAATGTCTGTAAACCAACCAATCAGAT
1 GGTAGGTCAATGTCCGTAAACCAACCAATCAGAT
252516 G
1 G
252517 ATGTTTCGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
34 33 0.52
38 30 0.48
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (34 bp):
GGTAGGTCAATGTCCGTAAACCAACCAATCAGAT
Found at i:254233 original size:43 final size:43
Alignment explanation
Indices: 254177--254496 Score: 256
Period size: 43 Copynumber: 7.5 Consensus size: 43
254167 GGATCCAGTA
254177 CATCTTAACGGTAAGTTTGTTTTTCCGTTTCCTTGCTCTGGTT
1 CATCTTAACGGTAAGTTTGTTTTTCCGTTTCCTTGCTCTGGTT
* * * ** * ** *
254220 TATCTTAACGGTAAGTTTG--TTTACATTTGCCGGGATCCAGTA
1 CATCTTAACGGTAAGTTTGTTTTTCCGTTT-CCTTGCTCTGGTT
*
254262 CATTTTAACGGTAAGTTTGTTTTTCCGTTTCCTTGCTCTGGTT
1 CATCTTAACGGTAAGTTTGTTTTTCCGTTTCCTTGCTCTGGTT
* * * ** * *** *
254305 AATCTTAACGGTAAGTTTG--TTTACATTTGCCGGGATCCAATA
1 CATCTTAACGGTAAGTTTGTTTTTCCGTTT-CCTTGCTCTGGTT
* *
254347 CATTTTAACGGTAAGTTTGGTTTTCCGTTTCCTTGCTCTGGTT
1 CATCTTAACGGTAAGTTTGTTTTTCCGTTTCCTTGCTCTGGTT
* * * ** * *** *
254390 TATCTTAACGGTAAGTTTG--TTTACATTTGCCGGGATCCAATA
1 CATCTTAACGGTAAGTTTGTTTTTCCGTTT-CCTTGCTCTGGTT
* *
254432 CATTTTTACGGTAAGTTTGTTTTTCCGTTTCCTTGCTCTGGTT
1 CATCTTAACGGTAAGTTTGTTTTTCCGTTTCCTTGCTCTGGTT
*
254475 TATCTTAACGGTAAGTTTGTTT
1 CATCTTAACGGTAAGTTTGTTT
254497 ACATTTGCCG
Statistics
Matches: 201, Mismatches: 67, Indels: 18
0.70 0.23 0.06
Matches are distributed among these distances:
41 21 0.10
42 69 0.34
43 90 0.45
44 21 0.10
ACGTcount: A:0.18, C:0.17, G:0.19, T:0.45
Consensus pattern (43 bp):
CATCTTAACGGTAAGTTTGTTTTTCCGTTTCCTTGCTCTGGTT
Found at i:254601 original size:85 final size:85
Alignment explanation
Indices: 254139--254583 Score: 748
Period size: 85 Copynumber: 5.2 Consensus size: 85
254129 TCAGTATAGT
* *
254139 TTAAGGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATCTTAACGGTAAGTTTGTTTTTCCG
1 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATTTTAACGGTAAGTTTGTTTTTCCG
254204 TTTCCTTGCTCTGGTTTATC
66 TTTCCTTGCTCTGGTTTATC
254224 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATTTTAACGGTAAGTTTGTTTTTCCG
1 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATTTTAACGGTAAGTTTGTTTTTCCG
*
254289 TTTCCTTGCTCTGGTTAATC
66 TTTCCTTGCTCTGGTTTATC
* *
254309 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAATACATTTTAACGGTAAGTTTGGTTTTCCG
1 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATTTTAACGGTAAGTTTGTTTTTCCG
254374 TTTCCTTGCTCTGGTTTATC
66 TTTCCTTGCTCTGGTTTATC
* *
254394 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAATACATTTTTACGGTAAGTTTGTTTTTCCG
1 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATTTTAACGGTAAGTTTGTTTTTCCG
254459 TTTCCTTGCTCTGGTTTATC
66 TTTCCTTGCTCTGGTTTATC
* *
254479 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATCTTAACGGTAAGTTTGTTTTTCTG
1 TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATTTTAACGGTAAGTTTGTTTTTCCG
* * *
254544 TTACCATGCTAT-GTTATATC
66 TTTCCTTGCTCTGGTT-TATC
* *
254564 TTAACAGTGAGTTTGTTTAC
1 TTAACGGTAAGTTTGTTTAC
254584 CGTTACAATG
Statistics
Matches: 342, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
84 3 0.01
85 339 0.99
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (85 bp):
TTAACGGTAAGTTTGTTTACATTTGCCGGGATCCAGTACATTTTAACGGTAAGTTTGTTTTTCCG
TTTCCTTGCTCTGGTTTATC
Found at i:258444 original size:49 final size:49
Alignment explanation
Indices: 258391--258590 Score: 348
Period size: 49 Copynumber: 4.1 Consensus size: 49
258381 GCAGGCAGTT
*
258391 AAAGCGGTACAGGTAACAAGACAGGAGTTAATGAATTACACAGGTAGTA
1 AAAGCGGTGCAGGTAACAAGACAGGAGTTAATGAATTACACAGGTAGTA
* *
258440 AAAGCGGTGCAGGTAACGAGACAGGGGTTAATGAATTACACAGGTAGTA
1 AAAGCGGTGCAGGTAACAAGACAGGAGTTAATGAATTACACAGGTAGTA
*
258489 AAAGCGGTGCAGATAACAAGACAGG-GCTTAATGAATTACACAGGTAGTA
1 AAAGCGGTGCAGGTAACAAGACAGGAG-TTAATGAATTACACAGGTAGTA
258538 AAAGCGGTGCAGGTAACAAGACAGGAGTTAATGAATTACACAGGTAGTA
1 AAAGCGGTGCAGGTAACAAGACAGGAGTTAATGAATTACACAGGTAGTA
258587 AAAG
1 AAAG
258591 AGAGTTTGTT
Statistics
Matches: 143, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
48 1 0.01
49 141 0.99
50 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.18
Consensus pattern (49 bp):
AAAGCGGTGCAGGTAACAAGACAGGAGTTAATGAATTACACAGGTAGTA
Found at i:266373 original size:13 final size:13
Alignment explanation
Indices: 266355--266397 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
266345 TACTGTTTAG
266355 CAAAAACAAAAAA
1 CAAAAACAAAAAA
*
266368 CAAAAA-AAAAAC
1 CAAAAACAAAAAA
266380 CACAAAACAAAAAGA
1 CA-AAAACAAAAA-A
266395 CAA
1 CAA
266398 TAAAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 7 0.28
13 10 0.40
14 6 0.24
15 2 0.08
ACGTcount: A:0.79, C:0.19, G:0.02, T:0.00
Consensus pattern (13 bp):
CAAAAACAAAAAA
Found at i:271759 original size:15 final size:16
Alignment explanation
Indices: 271726--271759 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
271716 TGTATACAGA
*
271726 TTTATTTTTGCCCTGT
1 TTTATTTTCGCCCTGT
271742 TTTATTTTCGCCCT-T
1 TTTATTTTCGCCCTGT
271757 TTT
1 TTT
271760 CACTTGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.06, C:0.21, G:0.09, T:0.65
Consensus pattern (16 bp):
TTTATTTTCGCCCTGT
Found at i:272900 original size:13 final size:13
Alignment explanation
Indices: 272882--272906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
272872 TGATGTATTA
272882 TGTAATATGATAT
1 TGTAATATGATAT
272895 TGTAATATGATA
1 TGTAATATGATA
272907 CTATATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
TGTAATATGATAT
Found at i:272903 original size:20 final size:19
Alignment explanation
Indices: 272875--272942 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
272865 AGTGTTATGA
272875 TGTATTATGTAATATGATAT
1 TGTATTATGT-ATATGATAT
*
272895 TGTAATATG-ATACT-ATAT
1 TGTATTATGTATA-TGATAT
* *
272913 TGTATTATATTTTATGATAT
1 TGTATTAT-GTATATGATAT
272933 TGTATTATGT
1 TGTATTATGT
272943 GATCAAATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 14 0.36
19 3 0.08
20 22 0.56
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (19 bp):
TGTATTATGTATATGATAT
Found at i:279610 original size:41 final size:42
Alignment explanation
Indices: 279533--279615 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
279523 AGCAAGTTTT
* *
279533 TATTATTAAGAAAAAAAAGGAAAATTATATTTTAACAATGTA
1 TATTATTAAGAAAAAAAAGGAAAATTACATTCTAACAATGTA
*
279575 TATTATTAAGTAAAAAAA-GAAAATTACATTCTAACAATGTA
1 TATTATTAAGAAAAAAAAGGAAAATTACATTCTAACAATGTA
279616 AACAAAAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 21 0.55
42 17 0.45
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (42 bp):
TATTATTAAGAAAAAAAAGGAAAATTACATTCTAACAATGTA
Found at i:293859 original size:10 final size:10
Alignment explanation
Indices: 293844--293871 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
293834 TTGACTCGTT
293844 ATTTTAAAAG
1 ATTTTAAAAG
293854 ATTTTAAAAG
1 ATTTTAAAAG
293864 ATTTTAAA
1 ATTTTAAA
293872 CGTGGGACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:294707 original size:2 final size:2
Alignment explanation
Indices: 294700--294741 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
294690 TGACTGCACA
294700 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
294742 AATATAGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:298828 original size:42 final size:42
Alignment explanation
Indices: 298769--299120 Score: 325
Period size: 42 Copynumber: 8.2 Consensus size: 42
298759 TTATACTTCA
* *
298769 CTTAAAGATAAGTTTGTTAATCGTTACCGTGATCCAGTATAT
1 CTTAACGATAAGTTTGTTAACCGTTACCGTGATCCAGTATAT
* * * * *
298811 CTTAACGATTAGTTTGTTTACCGTTGCTGTGATTCAGTATAGT
1 CTTAACGATAAGTTTGTTAACCGTTACCGTGATCCAGTATA-T
* * *
298854 -TTAACGATAAGTTTGTTAATCGTTACCGTGATTCAGTATTT
1 CTTAACGATAAGTTTGTTAACCGTTACCGTGATCCAGTATAT
** * * *
298895 CTTAATAAACGGCAAGTTTGTTTACCGCTACCGTGA-CCACTATAT
1 C-T--T-AACGATAAGTTTGTTAACCGTTACCGTGATCCAGTATAT
* * *
298940 CTTAACGGTAAGTCTGTTAACCGTTAACGTGATCTAGTACATGTATAT
1 CTTAACGATAAGTTTGTTAACCGTTACCGTGATC-----CA-GTATAT
* *
298988 CTTAAGGATAAGTTTGTTTACCGTTACCGTGATCCAGTATAT
1 CTTAACGATAAGTTTGTTAACCGTTACCGTGATCCAGTATAT
* *
299030 CTTAACGATAAGTTTGTTAACTGTTACCGTG-TCAAAGTATAT
1 CTTAACGATAAGTTTGTTAACCGTTACCGTGATC-CAGTATAT
* * * *
299072 CTAAAC-AGTAAGTCTGTTTACCGTTACTGTGATCCAGTATAT
1 CTTAACGA-TAAGTTTGTTAACCGTTACCGTGATCCAGTATAT
299114 CTTAACG
1 CTTAACG
299121 GTACGCATGG
Statistics
Matches: 250, Mismatches: 43, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
41 28 0.11
42 147 0.59
43 6 0.02
44 1 0.00
45 8 0.03
46 24 0.10
47 2 0.01
48 34 0.14
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (42 bp):
CTTAACGATAAGTTTGTTAACCGTTACCGTGATCCAGTATAT
Found at i:301915 original size:2 final size:2
Alignment explanation
Indices: 301908--301957 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
301898 TCATATCAGC
301908 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
301949 CT CT CT CT C
1 CT CT CT CT C
301958 AACGATGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:303701 original size:45 final size:45
Alignment explanation
Indices: 303637--303722 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
303627 CCAGGGTACT
* * **
303637 TAATGAATTACAAAGGTAGTTAAAGCGGTGTGGGTAATGAGGGGC
1 TAATGAATTACAAAGGTAGTAAAAGCGATGAAGGTAATGAGGGGC
*
303682 TAATGAATTACACAGGTAGTAAAAGCGATGAAGGTAATGAG
1 TAATGAATTACAAAGGTAGTAAAAGCGATGAAGGTAATGAG
303723 ACAGGGGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.23
Consensus pattern (45 bp):
TAATGAATTACAAAGGTAGTAAAAGCGATGAAGGTAATGAGGGGC
Found at i:303966 original size:49 final size:45
Alignment explanation
Indices: 303750--303998 Score: 214
Period size: 49 Copynumber: 5.3 Consensus size: 45
303740 GTAGATAATG
*
303750 AGACAGGGGTTAATGAATTACACAGTA-AAGGCGGTGCAGGTTGCA
1 AGACAGGGGTTAATGAATTACACAGTATAA-GCGGTGCAGGTTACA
* * * * *
303795 TGACAGGGCTTAATCAATTACACAAGCAGTAAAAGCGGTACAGGTTACA
1 AGACAGGGGTTAATGAATT--AC-A-CAGTATAAGCGGTGCAGGTTACA
* * *
303844 AGACATGAGTTAATGAATTACACAGGTAGTAAACGCTGTGCAGGTTACA
1 AGACAGGGGTTAATGAATTACACA-GTA-T-AA-GCGGTGCAGGTTACA
* * * *
303893 AAACAGGAGTTAATGAATTACACAGGTATTGACAGCGGTGCAGGTAACG
1 AGACAGGGGTTAATGAATTACACA-GTA-T-A-AGCGGTGCAGGTTACA
* * *
303942 GGACAGGGGTTAATGAATTACACAGTATAAGCGGGGCAGG-TAAA
1 AGACAGGGGTTAATGAATTACACAGTATAAGCGGTGCAGGTTACA
303986 AGGACAGGGGTTA
1 A-GACAGGGGTTA
303999 CAAGACAGCA
Statistics
Matches: 165, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 39 0.24
46 5 0.03
47 5 0.03
48 6 0.04
49 106 0.64
50 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.20
Consensus pattern (45 bp):
AGACAGGGGTTAATGAATTACACAGTATAAGCGGTGCAGGTTACA
Found at i:304155 original size:30 final size:30
Alignment explanation
Indices: 304121--304218 Score: 133
Period size: 30 Copynumber: 3.3 Consensus size: 30
304111 CACAGAATCC
* * *
304121 AACAACACCATCTCCAGTGACATCATTCCA
1 AACAACACTATATCCAGTAACATCATTCCA
*
304151 AACAACTCTATATCCAGTAACATCATTCCA
1 AACAACACTATATCCAGTAACATCATTCCA
* *
304181 AACAACTCTATATCCAGTAACATCATTCCC
1 AACAACACTATATCCAGTAACATCATTCCA
*
304211 CACAACAC
1 AACAACAC
304219 AGACCTCGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.39, C:0.35, G:0.04, T:0.22
Consensus pattern (30 bp):
AACAACACTATATCCAGTAACATCATTCCA
Found at i:315259 original size:8 final size:8
Alignment explanation
Indices: 315238--315275 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
315228 AATCACATTT
315238 TGTCCGTC
1 TGTCCGTC
315246 -GTCCGTC
1 TGTCCGTC
315253 TGTCCGTC
1 TGTCCGTC
* *
315261 TTTCTGTC
1 TGTCCGTC
315269 TGTCCGT
1 TGTCCGT
315276 ATGTAAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.00, C:0.34, G:0.24, T:0.42
Consensus pattern (8 bp):
TGTCCGTC
Found at i:328326 original size:167 final size:167
Alignment explanation
Indices: 327950--328480 Score: 691
Period size: 168 Copynumber: 3.2 Consensus size: 167
327940 GGTTGCATAG
* * * * * *
327950 TTATGATGTCCATGAGGCCCTCTACCAAAATTGTGAAATTTATGGCCCCTGGGTCAGGGGCTCTG
1 TTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGTGTCAGGGGTTCAG
* * * * *
328015 GGTCTAGGGTGGGGCCAAAATGGTCATATAGTAAAAATGTATTT-AATCTTAGGAAATCTTCTTC
66 GTTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGT-TTTAAATCTTAGAAAATCTTCTTC
* ** * * **
328079 TTTTTTACTATATATATTTGTTAAAGTCTAAATGCATGA
130 TATACTCCCATA-ATATTTGTTAAAAACTAAATGCATGA
* * *
328118 TTATGATGTCCATGAATCCCTCTACCTAAATTGTGAAATTCATGACCCCTGTGCCAGGGGTTCAG
1 TTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGTGTCAGGGGTTCAG
* *
328183 GTTCTAGGGT-GGGCCAATACGGCCATATAGTTAAAATGTTTTAAATCTTA-AAAATCTTTTTCT
66 GTTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTTTTAAATCTTAGAAAATCTTCTTCT
*
328246 ATACTCCCATAAATATTTGTTAAAAACTAATTGCATGA
131 ATACTCCCAT-AATATTTGTTAAAAACTAAATGCATGA
*
328284 TTATGATGTCCATGAAGCCCTCTACCTTAAATTGTGAAATTCATGACCCCTGTGTCAGGGGTTCA
1 TTATGATGTCCATGAAGCCCTCTACC-AAAATTGTGAAATTCATGACCCCTGTGTCAGGGGTTCA
* *
328349 GGCTT-TAGGGTGGGGCCAATATGGCCATAAAGTTAAAATGTATTAAATCTTAGAAAATCTTCTT
65 GG-TTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTTTTAAATCTTAGAAAATCTTCTT
*
328413 CTCTACTCCCAT-ATA--T-TTAAAAACTAAATGCATGA
129 CTATACTCCCATAATATTTGTTAAAAACTAAATGCATGA
* *
328448 TTATGATGTCCATGAGGCCCTCTACTAAAATTG
1 TTATGATGTCCATGAAGCCCTCTACCAAAATTG
328481 GGGCCAAGAT
Statistics
Matches: 322, Mismatches: 35, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
163 6 0.02
164 42 0.13
165 1 0.00
166 67 0.21
167 81 0.25
168 104 0.32
169 21 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (167 bp):
TTATGATGTCCATGAAGCCCTCTACCAAAATTGTGAAATTCATGACCCCTGTGTCAGGGGTTCAG
GTTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTTTTAAATCTTAGAAAATCTTCTTCT
ATACTCCCATAATATTTGTTAAAAACTAAATGCATGA
Found at i:328710 original size:287 final size:288
Alignment explanation
Indices: 328193--328710 Score: 761
Period size: 287 Copynumber: 1.8 Consensus size: 288
328183 GTTCTAGGGT
* * *** *
328193 GGGCCAATACGGCCATATAGTTAAAATGTTTTAAATCTTAAAAATCTTTTTCTATACTCCCATAA
1 GGGCCAAGACGGCCATAGAGTTAAAATCAATTAAATCTTAAAAATCTTCTTCTATACTCCCATAA
**
328258 ATATTTGTTAAAAACTAATTGCATGATTATGATGTCCATGAAGCCCTCTACCTTAAATTGTGAAA
66 ATATTTGTTAAAAACTAAAGGCATGATTATGATGTCCATGAAGCCCTCTACCTTAAATTGTGAAA
* * * * *
328323 TTCATGACCCCTGTGTCAGGGGTTCAGGCTTTAGGGTGGGGCCAATATGGCCATAAAGTTAAAAT
131 TTCATGACCCCTGTATCAGGGGTTCAGGCTCTAGGGTAGGGCCAATACGGCCATAAAGTAAAAAT
*
328388 GTATTAAATCTTAGAAAATCTTCTTCTCTACTCCCATATATTTAAAAACTAAATGCATGATTATG
196 GTATTAAATCTTAAAAAATCTTCTTCTCTACTCCCATATATTTAAAAACTAAATGCATGATTATG
328453 ATGTCCATGAGGCCCTCTACTAAAATTG
261 ATGTCCATGAGGCCCTCTACTAAAATTG
* * * *
328481 GGGCCAAGATGGCCATAGAGTTAAAATCAATTAAATCTTAGAAACTCTTCTTCTCTACTTCCATA
1 GGGCCAAGACGGCCATAGAGTTAAAATCAATTAAATCTTA-AAAATCTTCTTCTATACTCCCATA
* * * * * *
328546 TATCTTTGTTAAAAACTAAAGGCATGATTATGATGTCCGTGAGGCTCTCTA-CTTAAATTGTTAA
65 AATATTTGTTAAAAACTAAAGGCATGATTATGATGTCCATGAAGCCCTCTACCTTAAATTGTGAA
* * *
328610 ATTCATTACCCCT-TATTAGGGGTTCAGGCTCTAGGGTAGGGCCAATACGGCCATATAGTAAAAA
130 ATTCATGACCCCTGTATCAGGGGTTCAGGCTCTAGGGTAGGGCCAATACGGCCATAAAGTAAAAA
*
328674 TGTTTTAAATCTTAAAAAATCTTCTTCTCTACTCCCA
195 TGTATTAAATCTTAAAAAATCTTCTTCTCTACTCCCA
328711 CACATGTGGG
Statistics
Matches: 201, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
287 79 0.39
288 58 0.29
289 64 0.32
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (288 bp):
GGGCCAAGACGGCCATAGAGTTAAAATCAATTAAATCTTAAAAATCTTCTTCTATACTCCCATAA
ATATTTGTTAAAAACTAAAGGCATGATTATGATGTCCATGAAGCCCTCTACCTTAAATTGTGAAA
TTCATGACCCCTGTATCAGGGGTTCAGGCTCTAGGGTAGGGCCAATACGGCCATAAAGTAAAAAT
GTATTAAATCTTAAAAAATCTTCTTCTCTACTCCCATATATTTAAAAACTAAATGCATGATTATG
ATGTCCATGAGGCCCTCTACTAAAATTG
Found at i:337044 original size:22 final size:22
Alignment explanation
Indices: 336997--337046 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
336987 ATTTAATTTT
** *
336997 TACGAGTTAATTGTCTTGTTAT
1 TACGAGTTAATTGTCTCATTAC
337019 TACGAGTTAATTGTCTCATTAC
1 TACGAGTTAATTGTCTCATTAC
337041 TACGAG
1 TACGAG
337047 AAAAGATCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (22 bp):
TACGAGTTAATTGTCTCATTAC
Found at i:342369 original size:54 final size:54
Alignment explanation
Indices: 342303--342533 Score: 235
Period size: 54 Copynumber: 4.3 Consensus size: 54
342293 ATAAACGAGA
* * *
342303 CATCGCGCTAACACACAACACGCCGTCGCGCTATCGCAACTTTTCACAACACGC
1 CATCGCGCTAACACACAACACGCCGTCGCGCTAACACAACTTTGCACAACACGC
* *
342357 CGTCGCGCTAACACACAACACGCCGTCGCGCTAACACAACTTTGCACAACATGC
1 CATCGCGCTAACACACAACACGCCGTCGCGCTAACACAACTTTGCACAACACGC
** *
342411 CATCGCGCTAACACACAACACGCTATCGCACTAACAC-A------A-AACACGC
1 CATCGCGCTAACACACAACACGCCGTCGCGCTAACACAACTTTGCACAACACGC
* *
342457 CGTCGCGCTAACACAAATTTGCACAACACGCCGTCGCGCTAACACAACTTTGCACACCACGC
1 CATCGCGCT-A-AC--A----CACAACACGCCGTCGCGCTAACACAACTTTGCACAACACGC
*
342519 CGTCGCGCTAACACA
1 CATCGCGCTAACACA
342534 ACTTTACACA
Statistics
Matches: 146, Mismatches: 15, Indels: 32
0.76 0.08 0.17
Matches are distributed among these distances:
46 14 0.10
47 2 0.01
48 2 0.01
50 1 0.01
53 1 0.01
54 105 0.72
55 1 0.01
58 1 0.01
60 2 0.01
61 2 0.01
62 15 0.10
ACGTcount: A:0.31, C:0.39, G:0.15, T:0.15
Consensus pattern (54 bp):
CATCGCGCTAACACACAACACGCCGTCGCGCTAACACAACTTTGCACAACACGC
Found at i:342396 original size:21 final size:23
Alignment explanation
Indices: 342347--342394 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
342337 CGCAACTTTT
342347 CACAACACGCCGTCGCGCTAACA
1 CACAACACGCCGTCGCGCTAACA
342370 CACAACACGCCGTCGCGCTAACA
1 CACAACACGCCGTCGCGCTAACA
342393 CA
1 CA
342395 ACTTTGCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.44, G:0.17, T:0.08
Consensus pattern (23 bp):
CACAACACGCCGTCGCGCTAACA
Found at i:342429 original size:23 final size:23
Alignment explanation
Indices: 342401--342471 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
342391 CACAACTTTG
*
342401 CACAACATGCCATCGCGCTAACA
1 CACAACACGCCATCGCGCTAACA
* *
342424 CACAACACGCTATCGCACTAACA
1 CACAACACGCCATCGCGCTAACA
* *
342447 CAAAACACGCCGTCGCGCTAACA
1 CACAACACGCCATCGCGCTAACA
342470 CA
1 CA
342472 AATTTGCACA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.37, C:0.39, G:0.13, T:0.11
Consensus pattern (23 bp):
CACAACACGCCATCGCGCTAACA
Found at i:342432 original size:77 final size:77
Alignment explanation
Indices: 342347--342502 Score: 249
Period size: 77 Copynumber: 2.0 Consensus size: 77
342337 CGCAACTTTT
* * * * *
342347 CACAACACGCCGTCGCGCTAACACACAACACGCCGTCGCGCTAACACAACTTTGCACAACATGCC
1 CACAACACGCCATCGCACTAACACAAAACACGCCGTCGCGCTAACACAAATTTGCACAACACGCC
342412 ATCGCGCTAACA
66 ATCGCGCTAACA
*
342424 CACAACACGCTATCGCACTAACACAAAACACGCCGTCGCGCTAACACAAATTTGCACAACACGCC
1 CACAACACGCCATCGCACTAACACAAAACACGCCGTCGCGCTAACACAAATTTGCACAACACGCC
*
342489 GTCGCGCTAACA
66 ATCGCGCTAACA
342501 CA
1 CA
342503 ACTTTGCACA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.33, C:0.39, G:0.15, T:0.13
Consensus pattern (77 bp):
CACAACACGCCATCGCACTAACACAAAACACGCCGTCGCGCTAACACAAATTTGCACAACACGCC
ATCGCGCTAACA
Found at i:342485 original size:31 final size:31
Alignment explanation
Indices: 342450--342572 Score: 210
Period size: 31 Copynumber: 4.0 Consensus size: 31
342440 ACTAACACAA
*
342450 AACACGCCGTCGCGCTAACACAAATTTGCAC
1 AACACGCCGTCGCGCTAACACAACTTTGCAC
342481 AACACGCCGTCGCGCTAACACAACTTTGCAC
1 AACACGCCGTCGCGCTAACACAACTTTGCAC
* *
342512 ACCACGCCGTCGCGCTAACACAACTTTACAC
1 AACACGCCGTCGCGCTAACACAACTTTGCAC
*
342543 AACACGCCGTCGCGCTAACGCAACTTTGCA
1 AACACGCCGTCGCGCTAACACAACTTTGCA
342573 AGTTTCACAG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 86 1.00
ACGTcount: A:0.29, C:0.38, G:0.16, T:0.16
Consensus pattern (31 bp):
AACACGCCGTCGCGCTAACACAACTTTGCAC
Found at i:354004 original size:30 final size:30
Alignment explanation
Indices: 353941--353997 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
353931 CAGAATCCCT
* * *
353941 CAACTCTCTATCCAGTGACATCTTTCCAAA
1 CAACTCTATATCCAGTAACATCATTCCAAA
353971 CAACTCTATATCCAGTAACATCATTCC
1 CAACTCTATATCCAGTAACATCATTCC
353998 CCACAACACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.30
Consensus pattern (30 bp):
CAACTCTATATCCAGTAACATCATTCCAAA
Found at i:360458 original size:49 final size:49
Alignment explanation
Indices: 360386--360675 Score: 303
Period size: 49 Copynumber: 5.9 Consensus size: 49
360376 CCAGCGACGC
* * * * * * *
360386 AGGTAACAAGACAGGTGTCAATGAATGACACAGGCAGTAAAAGCGGTAA
1 AGGTAACGAGACAGGGGTTAATGAATTACACAGGTAGTGAAAGCGGTGA
* * *
360435 AGGTAACGAGACAGGGGTTAATGAATAACACAGGTAGTGAAAGCAGTGC
1 AGGTAACGAGACAGGGGTTAATGAATTACACAGGTAGTGAAAGCGGTGA
* * * * * *
360484 CGGTCACGAGACAGGGATTCATGAATTACACAGGTTGTTAAAGCGGTGA
1 AGGTAACGAGACAGGGGTTAATGAATTACACAGGTAGTGAAAGCGGTGA
* * * *
360533 AGGTAGCAAGACACGGGTTAATAAATTACACAGGTAGTGAAAGCGGTGA
1 AGGTAACGAGACAGGGGTTAATGAATTACACAGGTAGTGAAAGCGGTGA
* * * *
360582 AGGTAACGAGACAGGGGATAATGAATTAGC-CAGGTAGCGAAATCGGTGC
1 AGGTAACGAGACAGGGGTTAATGAATTA-CACAGGTAGTGAAAGCGGTGA
** * * *
360631 AGGTAAAAAGATAGGGGTTATTGAATTATACAGGTAGTGAAAGCG
1 AGGTAACGAGACAGGGGTTAATGAATTACACAGGTAGTGAAAGCG
360676 ATACAGGTAA
Statistics
Matches: 195, Mismatches: 44, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
49 194 0.99
50 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (49 bp):
AGGTAACGAGACAGGGGTTAATGAATTACACAGGTAGTGAAAGCGGTGA
Found at i:360656 original size:147 final size:147
Alignment explanation
Indices: 360386--360675 Score: 343
Period size: 147 Copynumber: 2.0 Consensus size: 147
360376 CCAGCGACGC
*
360386 AGGTAACAAGACAGGTGTCAATGAATGACACAGGCAGTAAAAGCGGTAAAGGTAACGAGACAGGG
1 AGGTAACAAGACAGGTGTCAATAAATGACACAGGCAGTAAAAGCGGTAAAGGTAACGAGACAGGG
* * * * **
360451 GTTAATGAATAACACAGGTAGTGAAAGCAGTGCCGGTCACGAGACAGGGATTCATGAATTACACA
66 GATAATGAATAACACAGGTAGCGAAAGCAGTGCAGGTAAAAAGACAGGGATTCATGAATTACACA
* *
360516 GGTTGTTAAAGCGGTGA
131 GGTAGTGAAAGCGGTGA
* * * * * *
360533 AGGTAGCAAGACACGG-GTTAATAAATTACACAGGTAGTGAAAGCGGTGAAGGTAACGAGACAGG
1 AGGTAACAAGACA-GGTGTCAATAAATGACACAGGCAGTAAAAGCGGTAAAGGTAACGAGACAGG
* * * * * *
360597 GGATAATGAATTAGC-CAGGTAGCGAAATCGGTGCAGGTAAAAAGATAGGGGTT-ATTGAATTAT
65 GGATAATGAA-TAACACAGGTAGCGAAAGCAGTGCAGGTAAAAAGACAGGGATTCA-TGAATTAC
360660 ACAGGTAGTGAAAGCG
128 ACAGGTAGTGAAAGCG
360676 ATACAGGTAA
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
146 1 0.01
147 113 0.95
148 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (147 bp):
AGGTAACAAGACAGGTGTCAATAAATGACACAGGCAGTAAAAGCGGTAAAGGTAACGAGACAGGG
GATAATGAATAACACAGGTAGCGAAAGCAGTGCAGGTAAAAAGACAGGGATTCATGAATTACACA
GGTAGTGAAAGCGGTGA
Found at i:360710 original size:147 final size:146
Alignment explanation
Indices: 360413--360705 Score: 315
Period size: 147 Copynumber: 2.0 Consensus size: 146
360403 TCAATGAATG
* *
360413 ACACAGGCAGTAAAAGCGGTAAAGGTAACGAGACAGGGGTTAATGAATAACACAGGTAGTGAAAG
1 ACACAGGCAGTAAAAGCGGTAAAGGTAACGAGACAGGGGATAATGAATAACACAGGTAGCGAAAG
* * ** * * *
360478 CAGTGCCGGTCACGAGACAGGGATTCATGAATTACACAGGTTGTTAAAGCGGTGAAGGTAGCAAG
66 CAGTGCAGGTAAAAAGACAGGGATTCATGAATTACACAGGTAGTGAAAGCGATGAAGGTA-CAAG
* * *
360543 ACACGGGTTAATAAATT
130 AAACGAGTAAATAAATT
* * * *
360560 ACACAGGTAGTGAAAGCGGTGAAGGTAACGAGACAGGGGATAATGAATTAGC-CAGGTAGCGAAA
1 ACACAGGCAGTAAAAGCGGTAAAGGTAACGAGACAGGGGATAATGAA-TAACACAGGTAGCGAAA
* * * * *
360624 TCGGTGCAGGTAAAAAGATAGGGGTT-ATTGAATTATACAGGTAGTGAAAGCGAT-ACAGGTA-A
65 GCAGTGCAGGTAAAAAGACAGGGATTCA-TGAATTACACAGGTAGTGAAAGCGATGA-AGGTACA
* *
360686 TGAAACGAGTAAATGAATT
128 AGAAACGAGTAAATAAATT
360705 A
1 A
360706 TACACGTAAT
Statistics
Matches: 120, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
145 16 0.13
146 2 0.02
147 99 0.82
148 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.30, T:0.19
Consensus pattern (146 bp):
ACACAGGCAGTAAAAGCGGTAAAGGTAACGAGACAGGGGATAATGAATAACACAGGTAGCGAAAG
CAGTGCAGGTAAAAAGACAGGGATTCATGAATTACACAGGTAGTGAAAGCGATGAAGGTACAAGA
AACGAGTAAATAAATT
Found at i:360818 original size:2 final size:2
Alignment explanation
Indices: 360805--360845 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
360795 TCTTTCAAAT
*
360805 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
360846 GTGATAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:361210 original size:30 final size:30
Alignment explanation
Indices: 361174--361235 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
361164 CAGAATCCCT
* *
361174 CAACTCTCTATCCAGTGACATCATTCCAAA
1 CAACTCTATATCCAGTAACATCATTCCAAA
* *
361204 CAACTCTATATCCAGTAACATCGTTCCCAA
1 CAACTCTATATCCAGTAACATCATTCCAAA
361234 CA
1 CA
361236 CAATTCCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (30 bp):
CAACTCTATATCCAGTAACATCATTCCAAA
Found at i:377694 original size:15 final size:15
Alignment explanation
Indices: 377674--377703 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
377664 ATTGCCATGT
377674 TCTGTGATATTTATC
1 TCTGTGATATTTATC
377689 TCTGTGATATTTATC
1 TCTGTGATATTTATC
377704 ATATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
TCTGTGATATTTATC
Found at i:378922 original size:6 final size:6
Alignment explanation
Indices: 378913--378938 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
378903 ACCCCGGCCC
378913 CTACCT CTACCT CTACCT CTACCT CT
1 CTACCT CTACCT CTACCT CTACCT CT
378939 TCTAATTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (6 bp):
CTACCT
Found at i:385376 original size:4 final size:4
Alignment explanation
Indices: 385361--385418 Score: 73
Period size: 4 Copynumber: 14.8 Consensus size: 4
385351 ATCACTTTTT
* * *
385361 GTCC GT-C GTCC GTCC GTCC GTCC GTCT GTCC GTCC GTCT GTCC GTCT
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC
*
385408 GTCT GTCC GTC
1 GTCC GTCC GTC
385419 TGTAAACTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 3 0.06
4 44 0.94
ACGTcount: A:0.00, C:0.41, G:0.26, T:0.33
Consensus pattern (4 bp):
GTCC
Found at i:385421 original size:12 final size:12
Alignment explanation
Indices: 385367--385418 Score: 86
Period size: 12 Copynumber: 4.3 Consensus size: 12
385357 TTTTGTCCGT
*
385367 CGTCCGTCCGTC
1 CGTCCGTCTGTC
385379 CGTCCGTCTGTC
1 CGTCCGTCTGTC
385391 CGTCCGTCTGTC
1 CGTCCGTCTGTC
*
385403 CGTCTGTCTGTC
1 CGTCCGTCTGTC
385415 CGTC
1 CGTC
385419 TGTAAACTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.00, C:0.42, G:0.25, T:0.33
Consensus pattern (12 bp):
CGTCCGTCTGTC
Found at i:387615 original size:165 final size:165
Alignment explanation
Indices: 387247--387743 Score: 646
Period size: 165 Copynumber: 3.0 Consensus size: 165
387237 NNNNNNNGGC
*
387247 AAAGCTGGAACTTGTGTGGAAGCATCCTCAGGTAGTGAAGATTCAAAGTTGTGAAAATCATGACC
1 AAAGCTGGAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACC
* * * * * *
387312 CCTGGGGGTAAGGTGGGGCCACAATGGGGGATTGAAGTTTAACATATGATTATATACAGTAAATC
66 CCTGGGGGT-AGGTGGGGCCACAATGGGGGATCGAAGTTTAACATAGGAATAAACAAAGTAAATC
*
387377 TTTAAAAATCTTCTTCTCAGAAACTAATTAGCCAGG
130 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
** *
387413 AAAGCTAAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAATTTGTGAAAATCATGACC
1 AAAGCTGGAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACC
* * * *
387478 CCTGGGGGTAGGTTTGGGCCACAATGGGAGG-TCGATGTTTTACATAGGAATAAACAAAGT-CAT
66 CCTGGGGGTAGG-TGGGGCCACAATGGG-GGATCGAAGTTTAACATAGGAATAAACAAAGTAAAT
387541 CTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
129 CTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
* *
387578 AAAGCTGGAACTTGTGTGAAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATAATGATC
1 AAAGCTGGAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGA-C
* * * * * * **
387643 CCC-AGGGGTAGGATGGGGCCACAATGGGGGGGGGGTCAAAGTTTAACAAAGGAATATATAGGGT
65 CCCTGGGGGTAGG-TGGGGCCACAAT----GGGGGATCGAAGTTTAACATAGGAATAAACAAAGT
387707 AAATCTTTAAAAA---TCTTCTCAGAAACTAATCAGCCAG
125 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAG
387744 ATAATTCTTT
Statistics
Matches: 290, Mismatches: 32, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
165 118 0.41
166 109 0.38
167 26 0.09
168 2 0.01
169 24 0.08
170 11 0.04
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (165 bp):
AAAGCTGGAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACC
CCTGGGGGTAGGTGGGGCCACAATGGGGGATCGAAGTTTAACATAGGAATAAACAAAGTAAATCT
TTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
Done.