Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 61 of 218
Found at i:18471301 original size:11 final size:11
Alignment explanation
Indices: 18471284--18471318 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
18471274 AGAGAGAAAG
18471284 GAGAAGAAG-A
1 GAGAAGAAGAA
18471294 GAAGAAGAAGAA
1 G-AGAAGAAGAA
18471306 GAGAAGAAGAA
1 GAGAAGAAGAA
18471317 GA
1 GA
18471319 AGAAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 20 0.87
12 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (11 bp):
GAGAAGAAGAA
Found at i:18471302 original size:14 final size:14
Alignment explanation
Indices: 18471263--18471326 Score: 78
Period size: 14 Copynumber: 4.6 Consensus size: 14
18471253 TGGACGGTGG
* *
18471263 AGAGAAAAAAAAG-
1 AGAGAAGAAGAAGA
*
18471276 AGAGAAAGGAGAAGA
1 AGAG-AAGAAGAAGA
18471291 AGAGAAGAAGAAGA
1 AGAGAAGAAGAAGA
18471305 AGAGAAGAAGAAGA
1 AGAGAAGAAGAAGA
18471319 AGA-AAGAA
1 AGAGAAGAA
18471327 AAAAAAAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
13 9 0.20
14 32 0.71
15 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAGAAGAAGAAGA
Found at i:18471490 original size:21 final size:21
Alignment explanation
Indices: 18471465--18471609 Score: 133
Period size: 21 Copynumber: 7.1 Consensus size: 21
18471455 TGGATTAGTA
18471465 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
18471486 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
18471505 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* * *
18471526 ATTTTATAATTAATTTTGT-ATT
1 -TTTTGT-ATGAATATTGTAATT
* * * * *
18471548 TATAGTTTTGGAT-TAGT-A--
1 TTTTG-TATGAATATTGTAATT
*
18471566 TTTTGTATGAATATTGTCATT
1 TTTTGTATGAATATTGTAATT
18471587 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
18471608 TT
1 TT
18471610 GTAATTTTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
17 5 0.05
18 6 0.06
19 20 0.20
20 4 0.04
21 46 0.46
22 9 0.09
23 9 0.09
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:18471510 original size:19 final size:19
Alignment explanation
Indices: 18471464--18471655 Score: 131
Period size: 19 Copynumber: 10.2 Consensus size: 19
18471454 TTGGATTAGT
18471464 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
18471483 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
18471504 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
18471523 ATTATTTTAT-AATTAATTTTGT-
1 ATT-TTGTATGAA-T-A--TTGTA
* * *
18471545 ATTTATAGTTTTGGAT-TAGT-
1 ATTT-T-G-TATGAATATTGTA
18471565 ATTTTGTATGAATATTGTCA
1 ATTTTGTATGAATATTGT-A
*
18471585 TTTTTTGTATGAATATTGTA
1 -ATTTTGTATGAATATTGTA
18471605 ATTTTG--T--A-A-T-T-
1 ATTTTGTATGAATATTGTA
18471616 -TTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
18471634 ATTTTGTATGAATTTTGTA
1 ATTTTGTATGAATATTGTA
18471653 ATT
1 ATT
18471656 ACTTTATAAT
Statistics
Matches: 138, Mismatches: 11, Indels: 48
0.70 0.06 0.24
Matches are distributed among these distances:
10 5 0.04
12 2 0.01
13 1 0.01
14 2 0.01
15 2 0.01
16 1 0.01
17 7 0.05
18 4 0.03
19 50 0.36
20 14 0.10
21 38 0.28
22 4 0.03
23 4 0.03
24 3 0.02
25 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:18471616 original size:29 final size:29
Alignment explanation
Indices: 18471579--18471641 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
18471569 TGTATGAATA
*
18471579 TTGTCATTTTTTGTATGAATATTGTAATT
1 TTGTAATTTTTTGTATGAATATTGTAATT
18471608 TTGTAATTTTTTGTATGAATATTGTAATT
1 TTGTAATTTTTTGTATGAATATTGTAATT
18471637 TTGTA
1 TTGTA
18471642 TGAATTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (29 bp):
TTGTAATTTTTTGTATGAATATTGTAATT
Found at i:18471712 original size:60 final size:60
Alignment explanation
Indices: 18471647--18471769 Score: 185
Period size: 60 Copynumber: 2.0 Consensus size: 60
18471637 TTGTATGAAT
* * * *
18471647 TTTGTAATTACTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTG
1 TTTGTAATTACTTTA-AATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
*
18471707 TTTGTAATTATTTTAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
1 TTTGTAATTACTTTAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
18471767 TTT
1 TTT
18471770 AGTTTAGTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 2 0.04
60 55 0.96
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (60 bp):
TTTGTAATTACTTTAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
Found at i:18480219 original size:19 final size:20
Alignment explanation
Indices: 18480182--18480219 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
18480172 TTTTATAAAA
**
18480182 TTTTAGATTTTTTCTTTTAT
1 TTTTAGATTTTTTAATTTAT
18480202 TTTTA-ATTTTTTAATTTA
1 TTTTAGATTTTTTAATTTA
18480220 AAAATCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTAGATTTTTTAATTTAT
Found at i:18480763 original size:2 final size:2
Alignment explanation
Indices: 18480758--18480786 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18480748 AGAAAACATG
18480758 GA 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 GA G
18480787 TGGAAGGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18484206 original size:61 final size:61
Alignment explanation
Indices: 18484112--18484707 Score: 609
Period size: 61 Copynumber: 9.8 Consensus size: 61
18484102 CATACTTTGC
* * * * * * *
18484112 ATCCAGTACTCGCCACAAAGGCTTTCCTATCTAGAATTATGCCAAAAAGGCATTCATTAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* * * * * * * *
18484173 ATTCAATACTTGCCACAAAGGTTTTCTTGTCTAGAGTTGTGCCATAAAGGCTTTCCTCAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* * * * * * ** * **
18484234 ATCTAAAACTCGCCACAAAGGCTTACCTATCTAGAGTTGTGTCGTAAAGACATTATTTAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* * * * *
18484295 ATCCAATACTCGCTACAAAGGCTTTCCTGACCAGTGTTATGCCACAAAGGAATTCCTTAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* *
18484356 ATCCAGTACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAATGCATTCCTTAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* ** * *
18484417 ATCCAGTACTTACCACAAAGGCTTTCCTGTCCAGAGTTGAGCCACAAAGGCATTTCTTAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* * * * *
18484478 ATCCAGTACTTGCCACAAAGGCTTTCCTGTCCATAGTTGTGCCATAAAGGTATTCCTTAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* * * * * * * * *
18484539 ATCTATTACTCACAACAAAGGCTTTACTATCCAGAGTTGTGTCACAAAGGTATTCTTTAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* * * *
18484600 ATCCAGTACTCGCCATAAAGGCTTTCTTGTCCAGAGTTGTTCCACAAAGGCATTCCTTAAT
1 ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
* * * ** * *
18484661 ATACAGA-ACCCGCCACCAAGGCTTTCCCATCCAGAGTTTTTCCACAA
1 ATCCA-ATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAA
18484708 GGCTTTTCCT
Statistics
Matches: 441, Mismatches: 93, Indels: 2
0.82 0.17 0.00
Matches are distributed among these distances:
61 441 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (61 bp):
ATCCAATACTCGCCACAAAGGCTTTCCTGTCCAGAGTTGTGCCACAAAGGCATTCCTTAAT
Found at i:18484383 original size:32 final size:32
Alignment explanation
Indices: 18484334--18484505 Score: 132
Period size: 32 Copynumber: 5.6 Consensus size: 32
18484324 ACCAGTGTTA
**
18484334 TGCCACAAAGGAATTCCTTAATATCCAGTACT
1 TGCCACAAAGGCTTTCCTTAATATCCAGTACT
* * *
18484366 CGCCACAAAGGCTTTCC----TGTCCAG-AGTT
1 TGCCACAAAGGCTTTCCTTAATATCCAGTA-CT
* *
18484394 GTGCCACAAATGCATTCCTTAATATCCAGTACT
1 -TGCCACAAAGGCTTTCCTTAATATCCAGTACT
* * *
18484427 TACCACAAAGGCTTTCC----TGTCCAG-AGT
1 TGCCACAAAGGCTTTCCTTAATATCCAGTACT
18484454 TGAGCCACAAAGGCATTT-CTTAATATCCAGTACT
1 T--GCCACAAAGGC-TTTCCTTAATATCCAGTACT
18484488 TGCCACAAAGGCTTTCCT
1 TGCCACAAAGGCTTTCCT
18484506 GTCCATAGTT
Statistics
Matches: 106, Mismatches: 18, Indels: 32
0.68 0.12 0.21
Matches are distributed among these distances:
27 4 0.04
28 13 0.12
29 25 0.24
30 3 0.03
31 3 0.03
32 41 0.39
33 13 0.12
34 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (32 bp):
TGCCACAAAGGCTTTCCTTAATATCCAGTACT
Found at i:18484462 original size:29 final size:29
Alignment explanation
Indices: 18484367--18484527 Score: 105
Period size: 29 Copynumber: 5.3 Consensus size: 29
18484357 TCCAGTACTC
*
18484367 GCCACAAAGGCTTTCCTGTCCAGAGTTGT
1 GCCACAAAGGCTTTCCTGTCCAGAGTTGA
* * * *
18484396 GCCACAAATGCATTCCTTAATATCCAGTACTT-A
1 GCCACAAAGGCTTTCC----TGTCCAG-AGTTGA
18484429 -CCACAAAGGCTTTCCTGTCCAGAGTTGA
1 GCCACAAAGGCTTTCCTGTCCAGAGTTGA
* * *
18484457 GCCACAAAGGCATTTCTTAATATCCAGTACTT--
1 GCCACAAAGGC-TTTC---CTGTCCAG-AGTTGA
* *
18484489 GCCACAAAGGCTTTCCTGTCCATAGTTGT
1 GCCACAAAGGCTTTCCTGTCCAGAGTTGA
*
18484518 GCCATAAAGG
1 GCCACAAAGG
18484528 TATTCCTTAA
Statistics
Matches: 101, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
27 6 0.06
28 12 0.12
29 33 0.33
30 4 0.04
31 4 0.04
32 24 0.24
33 12 0.12
34 6 0.06
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (29 bp):
GCCACAAAGGCTTTCCTGTCCAGAGTTGA
Found at i:18504502 original size:51 final size:51
Alignment explanation
Indices: 18504435--18504635 Score: 141
Period size: 51 Copynumber: 3.8 Consensus size: 51
18504425 GGTATATGAC
* * * *
18504435 ATAAGACCATAAATGAAAGAGGTTATGACAGTCTGGTATAAGGTATATAGT
1 ATAAAACCATAGATGAAAGAGGCTATGACAGTCAGGTATAAGGTATATAGT
** * * * ** *
18504486 ATAAAACCATAGATGAAAGACACTATGGCAGTCTGGTATGAGGTACGTAGC
1 ATAAAACCATAGATGAAAGAGGCTATGACAGTCAGGTATAAGGTATATAGT
* * * * * * *
18504537 GTAAAACCATGGGTGAAAGATGCCATGGCGACATGGTACAAGGTATAAGGTATACAAT
1 ATAAAACCATAGATGAAAGAGGCTAT---GACA--GT-C-AGGTATAAGGTATATAGT
* * *
18504595 GTAAGACCATAGATGAAAGAGGTTATGACAGTCAGGTATAA
1 ATAAAACCATAGATGAAAGAGGCTATGACAGTCAGGTATAA
18504636 TGAGTAAGAC
Statistics
Matches: 113, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
51 69 0.61
52 1 0.01
53 2 0.02
54 3 0.03
55 4 0.04
56 2 0.02
57 1 0.01
58 31 0.27
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (51 bp):
ATAAAACCATAGATGAAAGAGGCTATGACAGTCAGGTATAAGGTATATAGT
Found at i:18507998 original size:16 final size:16
Alignment explanation
Indices: 18507977--18508033 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
18507967 TTTGGTTCGC
*
18507977 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
18507993 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
18508009 TGTAATGGAATAGATG
1 TGTAATGGATTAGAGG
18508025 TGTAATGGA
1 TGTAATGGA
18508034 AAAGCTGTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:18508042 original size:16 final size:16
Alignment explanation
Indices: 18508008--18508046 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18507998 TGGATTAGAG
*
18508008 GTGTAATGGAATAGAT
1 GTGTAATGGAAAAGAT
*
18508024 GTGTAATGGAAAAGCT
1 GTGTAATGGAAAAGAT
18508040 GTGTAAT
1 GTGTAAT
18508047 AGCAAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.31, T:0.31
Consensus pattern (16 bp):
GTGTAATGGAAAAGAT
Found at i:18508300 original size:18 final size:17
Alignment explanation
Indices: 18508279--18508313 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18508269 TTATTATTAA
*
18508279 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18508297 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18508314 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18514487 original size:38 final size:39
Alignment explanation
Indices: 18514433--18514509 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
18514423 TAAGTTCTAT
*
18514433 AATTTTTTAATGATTTTAATGAG-TTTTAA-TTTTTAAAAAC
1 AATTTTTTAA-GATTTT--TGAGATTTTAAGATTTTAAAAAC
18514473 AATTTTTTAA-ATTTTTGAGATTTTAAGATTTTAAAAA
1 AATTTTTTAAGATTTTTGAGATTTTAAGATTTTAAAAA
18514510 ATTAATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
36 4 0.12
37 6 0.18
38 14 0.41
40 10 0.29
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (39 bp):
AATTTTTTAAGATTTTTGAGATTTTAAGATTTTAAAAAC
Found at i:18531287 original size:23 final size:23
Alignment explanation
Indices: 18531261--18531315 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
18531251 TACTAAATAA
* *
18531261 ATTAATAATAAT-AAAATAATAT
1 ATTAATAAAAATCAAAATAAAAT
* *
18531283 CATTAAAAAAAATCAAATTAAAAT
1 -ATTAATAAAAATCAAAATAAAAT
18531307 ATTAATAAA
1 ATTAATAAA
18531316 CTAATATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
ATTAATAAAAATCAAAATAAAAT
Found at i:18531972 original size:18 final size:18
Alignment explanation
Indices: 18531949--18531983 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18531939 ACGATGTGCC
18531949 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
18531967 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
18531984 CCTATTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:18565285 original size:10 final size:10
Alignment explanation
Indices: 18565270--18565308 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
18565260 CTATGACTAA
*
18565270 ATGTGATTTT
1 ATGTGATTAT
18565280 ATGTGATTAT
1 ATGTGATTAT
* *
18565290 AGGTGCTTAT
1 ATGTGATTAT
18565300 ATGTGATTA
1 ATGTGATTA
18565309 ATACATGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:18567159 original size:69 final size:69
Alignment explanation
Indices: 18567080--18567220 Score: 255
Period size: 69 Copynumber: 2.0 Consensus size: 69
18567070 GTTTTTAGCA
* *
18567080 TTACTTGGGATAAGAAATGATATAAATTTAGGGGTGTATTAACTCTAAAATATTTATTTTAACAC
1 TTACTTGGGATAAGAAATGATATAAATTTAGGGGTGTATCAACTCTAAAATATATATTTTAACAC
18567145 TCTT
66 TCTT
*
18567149 TTACTTGGGATAAGAAATGATATAATTTTAGGGGTGTATCAACTCTAAAATATATATTTTAACAC
1 TTACTTGGGATAAGAAATGATATAAATTTAGGGGTGTATCAACTCTAAAATATATATTTTAACAC
18567214 TCTT
66 TCTT
18567218 TTA
1 TTA
18567221 TGTACATTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (69 bp):
TTACTTGGGATAAGAAATGATATAAATTTAGGGGTGTATCAACTCTAAAATATATATTTTAACAC
TCTT
Found at i:18569224 original size:19 final size:19
Alignment explanation
Indices: 18569181--18569220 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18569171 GATCTCATGC
*
18569181 GACTCTTCATCGGGATTGT
1 GACTCTTCATCGGGATTGA
*
18569200 GACTCTTCGTCGGGA-TGA
1 GACTCTTCATCGGGATTGA
18569218 GAC
1 GAC
18569221 CTCTGTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (19 bp):
GACTCTTCATCGGGATTGA
Found at i:18574102 original size:23 final size:23
Alignment explanation
Indices: 18574066--18574116 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
18574056 ACTGTTTAAA
* *
18574066 TGTAATATCTCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
18574089 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
18574112 AGTAA
1 TGTAA
18574117 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:18576506 original size:23 final size:23
Alignment explanation
Indices: 18576480--18576523 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
18576470 TTCTTACTAT
* *
18576480 AGTAATTTTTGGGGTATTACAAC
1 AGTAATTTTTAGGATATTACAAC
18576503 AGTAATTTTTAGGATATTACA
1 AGTAATTTTTAGGATATTACA
18576524 TTAAAGCTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (23 bp):
AGTAATTTTTAGGATATTACAAC
Found at i:18577283 original size:27 final size:26
Alignment explanation
Indices: 18577249--18577420 Score: 173
Period size: 27 Copynumber: 6.4 Consensus size: 26
18577239 AGGGTTATAA
18577249 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCT-TGAGGGTATTT
* * *
18577276 AAATCATTTTACCCTTCAGGGGTATTT
1 CAGTCATTTTACCCTTGA-GGGTATTT
** * **
18577303 TGGTCATTTTATCCTCCAGGGGTATTT
1 CAGTCATTTTACCCTTGA-GGGTATTT
* *
18577330 CAATCATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
*
18577357 CGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
18577384 CAGTCATTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCC-TTGAGGGTATTT
* *
18577411 TAGTTATTTT
1 CAGTCATTTT
18577421 CCCACGAATC
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.02
27 117 0.96
28 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (26 bp):
CAGTCATTTTACCCTTGAGGGTATTT
Found at i:18577326 original size:54 final size:54
Alignment explanation
Indices: 18577251--18577410 Score: 214
Period size: 54 Copynumber: 3.0 Consensus size: 54
18577241 GGTTATAACA
** * * *
18577251 GTCATTTTACCCTATGAGGGTATTTAAATCATTTTACCCTTCAGGGGTATTTTG
1 GTCATTTTACCCTCCGAGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCG
*
18577305 GTCATTTTATCCTCC-AGGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCG
1 GTCATTTTACCCTCCGA-GGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCG
* * **
18577359 GTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTT
1 GTCATTTTACCCTCCGAGGGTATTTCAATCATTTTACCCTTCAAGGGTATTT
18577411 TAGTTATTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.01
54 91 0.98
55 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTCCGAGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCG
Found at i:18577759 original size:27 final size:27
Alignment explanation
Indices: 18577724--18577785 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
18577714 CTAACTGATA
* *
18577724 GGCGACACCAAAGGTGCCATTCCCATG
1 GGCGGCACCAAAGGTCCCATTCCCATG
* * * *
18577751 GGTGGCACCGATGGTCCCATTCCCATT
1 GGCGGCACCAAAGGTCCCATTCCCATG
18577778 GGCGGCAC
1 GGCGGCAC
18577786 TAGTCGTGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.34, G:0.29, T:0.18
Consensus pattern (27 bp):
GGCGGCACCAAAGGTCCCATTCCCATG
Found at i:18577883 original size:10 final size:10
Alignment explanation
Indices: 18577868--18577903 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
18577858 GTTGGTGCGA
18577868 AAAAAGAGAG
1 AAAAAGAGAG
18577878 AAAAAGAGAG
1 AAAAAGAGAG
*
18577888 AAAGAGAAGAG
1 AAAAAG-AGAG
18577899 AAAAA
1 AAAAA
18577904 AAAGTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAAAAGAGAG
Found at i:18577887 original size:12 final size:11
Alignment explanation
Indices: 18577866--18577907 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
18577856 GAGTTGGTGC
18577866 GAAAAAAGAGA
1 GAAAAAAGAGA
18577877 G-AAAAAGAGA
1 GAAAAAAGAGA
18577887 GAAAGAGAAGAGA
1 GAAA-A-AAGAGA
*
18577900 AAAAAAAG
1 GAAAAAAG
18577908 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 10 0.37
11 6 0.22
12 2 0.07
13 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAGA
Found at i:18577987 original size:22 final size:23
Alignment explanation
Indices: 18577939--18577988 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
18577929 TTATCTTGTT
*
18577939 GTTATTTTTTTGTATAATTTTTA
1 GTTATTTTTTTGTATAATGTTTA
* *
18577962 -TTATTTTTTTGTTTTA-GTTTA
1 GTTATTTTTTTGTATAATGTTTA
18577983 GTTATT
1 GTTATT
18577989 AAAATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (23 bp):
GTTATTTTTTTGTATAATGTTTA
Found at i:18583730 original size:285 final size:285
Alignment explanation
Indices: 18582768--18583946 Score: 2037
Period size: 285 Copynumber: 4.1 Consensus size: 285
18582758 TCTTCGTGTG
18582768 TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
1 TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
* ***
18582833 AAATTAATTTAGTGTAAAAAAAACCATTATTCCCGCCATTTGCTCGTATTATTTTCCCAAATTTT
66 AAATTAATTTAGTGT-AAAAAAACCCTTATTCCCGCCATTTGCTCGTATTATTTTCGTGAATTTT
*
18582898 ATTACTTTCAATAACATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAATACATTTTG
130 ATTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAATACATTTTG
*
18582963 TTTCAAATATTCGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCGG
195 TTTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCGG
*
18583028 CCATTTTTTCGTATTTTTTCTCCGCA
260 CCATTTCTTCGTATTTTTTCTCCGCA
*
18583054 TTTAATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
1 TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
18583119 AAATTAATTTAGTGTAAAAAAACCCTTATTCCCGCCATTTGCTCGTATTATTTTC-TCGAATTTT
66 AAATTAATTTAGTGTAAAAAAACCCTTATTCCCGCCATTTGCTCGTATTATTTTCGT-GAATTTT
18583183 ATTACTTTCAATAAAATAATTTTATTTTCGTATTGTT-TTATTTTATATTATTTCAATACATTTT
130 ATTACTTTCAATAAAATAATTTTATTTTCGTATT-TTATTATTTTATATTATTTCAATACATTTT
* *
18583247 GTTTCAAATATTT-TTTTAATTATTTTTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCG
194 GTTTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCG
* *
18583311 GCCATTTTTTCGTA-TTTTTCTCCTCA
259 GCCATTTCTTCGTATTTTTTCTCCGCA
* *
18583337 TTTTATTACTTTAAAAATTATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTT
1 TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
*
18583402 AAATTAATTTAGTGTAAAAAAACTCTTATTCCCGCCATTTGCTCGTATTATTTTCGTGAATTTTA
66 AAATTAATTTAGTGTAAAAAAACCCTTATTCCCGCCATTTGCTCGTATTATTTTCGTGAATTTTA
* *
18583467 TTACTTT-AATAAAATAATTTTATTTGCGTATTTTATTATTTTATATTATTTCAGTACATTTTGT
131 TTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAATACATTTTGT
*
18583531 TTCAAATATTTGTATTAATTATTTCTGAATTTTTTAAAAATTTTGTAAAACACTCTTACCTCGGC
196 TTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCGGC
*
18583596 CATTTCTTCGTATTTTTTTCTCCTCA
261 CATTTCTTCGTA-TTTTTTCTCCGCA
*
18583622 TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTATTTTTA
1 TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
*
18583687 AAATTAATTTAGTGTAAAAAAACCCTTATTCCAGCCATTTGCTCGTATTATTTTCGTGAATTTTA
66 AAATTAATTTAGTGTAAAAAAACCCTTATTCCCGCCATTTGCTCGTATTATTTTCGTGAATTTTA
* * *
18583752 TTACTTTCAATAAAATAAATTTATTTTCGTATTTTACTATTTTATAGTATTTCAATACATTTTGT
131 TTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAATACATTTTGT
*
18583817 TTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAATA-TTTGTAAAACACTCTTACCTCGGC
196 TTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCGGC
18583881 CATTTCTTCGTATTTTTTTCTCCGCA
261 CATTTCTTCGTA-TTTTTTCTCCGCA
*
18583907 TTTTATTACTTTAAAAAATTTCATAATTTCTAATTTTATA
1 TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATA
18583947 TTTTTACTTT
Statistics
Matches: 852, Mismatches: 33, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
281 2 0.00
282 63 0.07
283 203 0.24
284 64 0.08
285 349 0.41
286 171 0.20
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (285 bp):
TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
AAATTAATTTAGTGTAAAAAAACCCTTATTCCCGCCATTTGCTCGTATTATTTTCGTGAATTTTA
TTACTTTCAATAAAATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAATACATTTTGT
TTCAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCGGC
CATTTCTTCGTATTTTTTCTCCGCA
Found at i:18583863 original size:568 final size:570
Alignment explanation
Indices: 18582768--18583946 Score: 2032
Period size: 568 Copynumber: 2.1 Consensus size: 570
18582758 TCTTCGTGTG
*
18582768 TTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
1 TTTTATTACTTTAAAAATTATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
18582833 AAATTAATTTAGTGTAAAAAAAACCATTATTCCCGCCATTTGCTCGTATTATTTTCCCAAATTTT
66 AAATTAATTTAGTGTAAAAAAAACCATTATTCCCGCCATTTGCTCGTATTATTTTCCCAAATTTT
* *
18582898 ATTACTTTCAATAACATAATTTTATTTTCGTATTTTATTATTTTATATTATTTCAATACATTTTG
131 ATTACTTTCAATAAAATAATTTTATTTGCGTATTTTATTATTTTATATTATTTCAATACATTTTG
18582963 TTTCAAATATTCGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCGG
196 TTTCAAATATTCGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCGG
*
18583028 CCATTTTTTCGTATTTTTTCTCCGCATTTAATTACTTTAAAAAATATCATAATTTCTAATTTTAT
261 CCATTTCTTCGTATTTTTTCTCCGCATTTAATTACTTTAAAAAATATCATAATTTCTAATTTTAT
* *
18583093 AAATTTATTAATTTAGTGTGTTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCCGCCATT
326 AAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCAGCCATT
* *
18583158 TGCTCGTATTATTTTCTCGAATTTTATTACTTTCAATAAAATAATTTTATTTTCGTATTGTTTTA
391 TGCTCGTATTATTTTCTCGAATTTTATTACTTTCAATAAAATAAATTTATTTTCGTATTGTTCTA
* * *
18583223 TTTTATATTATTTCAATACATTTTGTTTCAAATATTTTTTTAATTATTTTTGAATTTTTAAAAAA
456 TTTTATAGTATTTCAATACATTTTGTTTCAAATATTTTATTAATTATTTCTGAATTTTTAAAAAA
* *
18583288 TTTTGTAAAACACTCTTACCTCGGCCATTTTTTCGTA-TTTTTCTCCTCA
521 TTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTCTCCGCA
*
18583337 TTTTATTACTTTAAAAATTATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTT
1 TTTTATTACTTTAAAAATTATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
***
18583402 AAATTAATTTAGTGT-AAAAAAACTC-TTATTCCCGCCATTTGCTCGTATTATTTTCGTGAATTT
66 AAATTAATTTAGTGTAAAAAAAAC-CATTATTCCCGCCATTTGCTCGTATTATTTTCCCAAATTT
*
18583465 TATTACTTT-AATAAAATAATTTTATTTGCGTATTTTATTATTTTATATTATTTCAGTACATTTT
130 TATTACTTTCAATAAAATAATTTTATTTGCGTATTTTATTATTTTATATTATTTCAATACATTTT
* *
18583529 GTTTCAAATATTTGTATTAATTATTTCTGAATTTTTTAAAAATTTTGTAAAACACTCTTACCTCG
195 GTTTCAAATATTCGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCG
* *
18583594 GCCATTTCTTCGTATTTTTTTCTCCTCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTT
260 GCCATTTCTTCGTA-TTTTTTCTCCGCATTTAATTACTTTAAAAAATATCATAATTTCTAATTTT
18583659 ATAAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCAGCCA
324 ATAAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCAGCCA
18583724 TTTGCTCGTATTATTTTCGT-GAATTTTATTACTTTCAATAAAATAAATTTATTTTCGTATT-TT
389 TTTGCTCGTATTATTTTC-TCGAATTTTATTACTTTCAATAAAATAAATTTATTTTCGTATTGTT
18583787 ACTATTTTATAGTATTTCAATACATTTTGTTTCAAATATTTGTATTAATTATTTCTGAATTTTTA
453 -CTATTTTATAGTATTTCAATACATTTTGTTTCAAATATTT-TATTAATTATTTCTGAATTTTTA
*
18583852 AAATA-TTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGCA
516 AAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTA-TTTTTTCTCCGCA
18583907 TTTTATTACTTTAAAAAATT-TCATAATTTCTAATTTTATA
1 TTTTATTACTTT-AAAAATTATCATAATTTCTAATTTTATA
18583947 TTTTTACTTT
Statistics
Matches: 579, Mismatches: 23, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
567 130 0.22
568 294 0.51
569 105 0.18
570 43 0.07
571 7 0.01
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (570 bp):
TTTTATTACTTTAAAAATTATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTA
AAATTAATTTAGTGTAAAAAAAACCATTATTCCCGCCATTTGCTCGTATTATTTTCCCAAATTTT
ATTACTTTCAATAAAATAATTTTATTTGCGTATTTTATTATTTTATATTATTTCAATACATTTTG
TTTCAAATATTCGTATTAATTATTTCTGAATTTTTAAAAAATTTTGTAAAACACTCTTACCTCGG
CCATTTCTTCGTATTTTTTCTCCGCATTTAATTACTTTAAAAAATATCATAATTTCTAATTTTAT
AAATTTATTAATTTAGTGTATTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCAGCCATT
TGCTCGTATTATTTTCTCGAATTTTATTACTTTCAATAAAATAAATTTATTTTCGTATTGTTCTA
TTTTATAGTATTTCAATACATTTTGTTTCAAATATTTTATTAATTATTTCTGAATTTTTAAAAAA
TTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTCTCCGCA
Found at i:18584233 original size:22 final size:23
Alignment explanation
Indices: 18584190--18584235 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
18584180 CATGAATTTT
* *
18584190 TTCATAAATTTTGTCATGCTAAA
1 TTCATAAAATTTATCATGCTAAA
18584213 TTCATAAAATTTAT-ATGCTAAA
1 TTCATAAAATTTATCATGCTAAA
18584235 T
1 T
18584236 AACATAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (23 bp):
TTCATAAAATTTATCATGCTAAA
Found at i:18584393 original size:30 final size:31
Alignment explanation
Indices: 18584325--18584438 Score: 128
Period size: 30 Copynumber: 3.7 Consensus size: 31
18584315 AAAATTACCT
**
18584325 TTTTCTTTCTTTCTTTTTC-CTTCCTCCCCT-C
1 TTTTCTTTCTTT-TTTTTCTCTT-CTCCTTTCC
18584356 TTCTTC-TTCTTTTTTTTCTCTTCTCCTTTCC
1 TT-TTCTTTCTTTTTTTTCTCTTCTCCTTTCC
*
18584387 TTTTCTTTCTTTTTTCT-TCTTCTCCTTTCC
1 TTTTCTTTCTTTTTTTTCTCTTCTCCTTTCC
*
18584417 TTTTCTTTCCTTCTTTTTCTCT
1 TTTTCTTT-CTTTTTTTTCTCT
18584439 CTTTCTTTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
30 35 0.49
31 31 0.43
32 6 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (31 bp):
TTTTCTTTCTTTTTTTTCTCTTCTCCTTTCC
Found at i:18584400 original size:10 final size:10
Alignment explanation
Indices: 18584362--18584457 Score: 54
Period size: 10 Copynumber: 9.3 Consensus size: 10
18584352 CCTCTTCTTC
18584362 TTCTTTTT-T
1 TTCTTTTTCT
*
18584371 TTCTCTTCTCCT
1 TTCT-TT-TTCT
*
18584383 TTCCTTTTCT
1 TTCTTTTTCT
18584393 TTCTTTTT-T
1 TTCTTTTTCT
* *
18584402 CTTCTTCTCCT
1 -TTCTTTTTCT
*
18584413 TTCCTTTTCT
1 TTCTTTTTCT
18584423 TTCCTTCTTT-T
1 TT-CTT-TTTCT
*
18584434 TCTCTCTTTCT
1 T-TCTTTTTCT
*
18584445 TTCTTCTTCT
1 TTCTTTTTCT
18584455 TTC
1 TTC
18584458 CCTCTCCTTC
Statistics
Matches: 65, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
9 5 0.08
10 40 0.62
11 12 0.18
12 8 0.12
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:18584441 original size:18 final size:18
Alignment explanation
Indices: 18584420--18584454 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18584410 CCTTTCCTTT
*
18584420 TCTTTCCTTCTTTTTCTC
1 TCTTTCCTTCTTCTTCTC
*
18584438 TCTTTCTTTCTTCTTCT
1 TCTTTCCTTCTTCTTCT
18584455 TTCCCTCTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTTCCTTCTTCTTCTC
Found at i:18585176 original size:10 final size:10
Alignment explanation
Indices: 18585161--18585200 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
18585151 TGAAGAGGAG
18585161 AAGAAGAGAA
1 AAGAAGAGAA
18585171 AAGAAGAGAA
1 AAGAAGAGAA
* *
18585181 GAGACGAGAA
1 AAGAAGAGAA
18585191 AAGAAGAGAA
1 AAGAAGAGAA
18585201 GAAAAAAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.33, T:0.00
Consensus pattern (10 bp):
AAGAAGAGAA
Found at i:18585182 original size:15 final size:15
Alignment explanation
Indices: 18585161--18585209 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
18585151 TGAAGAGGAG
*
18585161 AAGAAGAGAAAAGAA
1 AAGAAGAGAAGAGAA
* *
18585176 GAGAAGAGACGAGAA
1 AAGAAGAGAAGAGAA
*
18585191 AAGAAGAGAAGAAAA
1 AAGAAGAGAAGAGAA
18585206 AAGA
1 AAGA
18585210 GGGTTCGGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (15 bp):
AAGAAGAGAAGAGAA
Found at i:18585191 original size:20 final size:18
Alignment explanation
Indices: 18585153--18585203 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 18
18585143 CACTGGAATG
*
18585153 AAGAGGAGAAGAAGAGAA
1 AAGAAGAGAAGAAGAGAA
18585171 AAGAAGAGAAGAGACGAGAA
1 AAGAAGAGAAGA-A-GAGAA
18585191 AAGAAGAGAAGAA
1 AAGAAGAGAAGAA
18585204 AAAAGAGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 17 0.57
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (18 bp):
AAGAAGAGAAGAAGAGAA
Found at i:18585209 original size:12 final size:13
Alignment explanation
Indices: 18585152--18585210 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
18585142 GCACTGGAAT
*
18585152 GAAGAGGAGAAGAA
1 GAAGAGAAGAA-AA
* *
18585166 G-AGAAAAGAAGA
1 GAAGAGAAGAAAA
18585178 GAAGAGACGAGAAAA
1 GAAGAGA--AGAAAA
18585193 GAAGAGAAGAAAA
1 GAAGAGAAGAAAA
18585206 -AAGAG
1 GAAGAG
18585211 GGTTCGGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
12 7 0.19
13 17 0.46
14 1 0.03
15 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.36, T:0.00
Consensus pattern (13 bp):
GAAGAGAAGAAAA
Found at i:18600602 original size:27 final size:27
Alignment explanation
Indices: 18600572--18600747 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
18600562 ATATTGAGTC
* *
18600572 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
18600599 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
18600626 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
18600654 CGCACAC-TAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
18600680 CG-ACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
18600706 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
18600733 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18600748 GTACAATTTA
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
25 4 0.03
26 21 0.17
27 89 0.71
28 11 0.09
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18606742 original size:25 final size:25
Alignment explanation
Indices: 18606720--18606852 Score: 105
Period size: 24 Copynumber: 5.4 Consensus size: 25
18606710 ACAAGTATCA
*
18606720 TCATACGAGCTATGAATCGGTATGC
1 TCATACGAGCTATAAATCGGTATGC
* *
18606745 TCTTACGAGCTATAAATCGGTAAGC
1 TCATACGAGCTATAAATCGGTATGC
* * *
18606770 TCTTACGAGCTGT-AATCGGTAAGC
1 TCATACGAGCTATAAATCGGTATGC
* * *
18606794 TC-TACGAGCTGA-GAATCAGTAAGC
1 TCATACGAGCT-ATAAATCGGTATGC
* * *
18606818 T-ATCACGAGCTA-CAATCGGTAAGA
1 TCAT-ACGAGCTATAAATCGGTATGC
18606842 TCATACGAGCT
1 TCATACGAGCT
18606853 GAGAATCGGT
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
23 8 0.09
24 43 0.46
25 43 0.46
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
TCATACGAGCTATAAATCGGTATGC
Found at i:18606803 original size:48 final size:49
Alignment explanation
Indices: 18606723--18606864 Score: 153
Period size: 48 Copynumber: 2.9 Consensus size: 49
18606713 AGTATCATCA
* * * *
18606723 TACGAGCTATGAATCGGTATGCTCTTACGAGCT-ATAAATCGGTAAGCTCT
1 TACGAGCTAT-AATCGGTAAGCTCATACGAGCTGA-AAATCAGTAAGCTAT
* *
18606773 TACGAGCTGTAATCGGTAAGCTC-TACGAGCTGAGAATCAGTAAGCTAT
1 TACGAGCTATAATCGGTAAGCTCATACGAGCTGAAAATCAGTAAGCTAT
* * * * *
18606821 CACGAGCTACAATCGGTAAGATCATACGAGCTGAGAATCGGTAA
1 TACGAGCTATAATCGGTAAGCTCATACGAGCTGAAAATCAGTAA
18606865 TCCCTAATGA
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
48 39 0.49
49 32 0.40
50 9 0.11
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (49 bp):
TACGAGCTATAATCGGTAAGCTCATACGAGCTGAAAATCAGTAAGCTAT
Found at i:18606864 original size:25 final size:24
Alignment explanation
Indices: 18606720--18606864 Score: 152
Period size: 25 Copynumber: 5.9 Consensus size: 24
18606710 ACAAGTATCA
*
18606720 TCATACGAGCTATGAATCGGTATGC
1 TCATACGAGCTA-GAATCGGTAAGC
* *
18606745 TCTTACGAGCTATAAATCGGTAAGC
1 TCATACGAGCTA-GAATCGGTAAGC
*
18606770 TCTTACGAGCT-GTAATCGGTAAGC
1 TCATACGAGCTAG-AATCGGTAAGC
*
18606794 TC-TACGAGCTGAGAATCAGTAAGC
1 TCATACGAGCT-AGAATCGGTAAGC
* *
18606818 T-ATCACGAGCTACAATCGGTAAGA
1 TCAT-ACGAGCTAGAATCGGTAAGC
18606842 TCATACGAGCTGAGAATCGGTAA
1 TCATACGAGCT-AGAATCGGTAA
18606865 TCCCTAATGA
Statistics
Matches: 104, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.08
24 43 0.41
25 53 0.51
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (24 bp):
TCATACGAGCTAGAATCGGTAAGC
Found at i:18627718 original size:20 final size:19
Alignment explanation
Indices: 18627695--18627760 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
18627685 TAAGTGTAAT
18627695 TAGGGGTATCGAAGTACAAA
1 TAGGGGTA-CGAAGTACAAA
* * *
18627715 TAGGGGCACGATTGTGC-AA
1 TAGGGGTACGA-AGTACAAA
*
18627734 TCAAGGGTACCGAAGTACAAA
1 T-AGGGGTA-CGAAGTACAAA
18627755 TAGGGG
1 TAGGGG
18627761 CATGTAAGTG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 6 0.18
20 22 0.65
21 6 0.18
ACGTcount: A:0.35, C:0.14, G:0.33, T:0.18
Consensus pattern (19 bp):
TAGGGGTACGAAGTACAAA
Found at i:18627722 original size:40 final size:40
Alignment explanation
Indices: 18627678--18627774 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
18627668 GTATAAACAA
* * * *
18627678 GGGCACGTAAGTGTAATTAGGGGTATCGAAGTACAAATAG
1 GGGCACGTAAGTGCAATCAAGGGTACCGAAGTACAAATAG
*
18627718 GGGCACG-ATTGTGCAATCAAGGGTACCGAAGTACAAATAG
1 GGGCACGTA-AGTGCAATCAAGGGTACCGAAGTACAAATAG
*
18627758 GGGCATGTAAGTGCAAT
1 GGGCACGTAAGTGCAAT
18627775 AAGAATAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 46 0.96
41 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (40 bp):
GGGCACGTAAGTGCAATCAAGGGTACCGAAGTACAAATAG
Found at i:18630146 original size:50 final size:51
Alignment explanation
Indices: 18630082--18630212 Score: 156
Period size: 51 Copynumber: 2.6 Consensus size: 51
18630072 TCGATACACC
* * * * * ** *
18630082 TAGTAGCATTCACATAGTACTACAGACGTGATCAA-GCTTTTTGGTTCACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCAATGCCTTGCGGTTCACA
18630132 TAGTAGCCTACACATAGTACTACACACGTGACCAATGCCTTGCGGTTCACA
1 TAGTAGCCTACACATAGTACTACACACGTGACCAATGCCTTGCGGTTCACA
* * *
18630183 TAGTAGCCTGCACTTAGTACTACACTCGTG
1 TAGTAGCCTACACATAGTACTACACACGTG
18630213 TTCGTAGACA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 31 0.45
51 38 0.55
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCAATGCCTTGCGGTTCACA
Found at i:18637643 original size:50 final size:50
Alignment explanation
Indices: 18637586--18637764 Score: 186
Period size: 50 Copynumber: 3.6 Consensus size: 50
18637576 TCATTCGATA
* *
18637586 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTTTCGGTT
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTTTTCGGTT
* *
18637636 CACGTAGTAGCCTACACATAG---TACACACGTGACCAAGGCTTTCCGGTT
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAA-GCTTTTCGGTT
* * * *** * *
18637684 CACATAGTAG-CTGCACTTAGTACTACACATGTGACCATTATTTATCGATA
1 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTTT-TCGGTT
* *
18637734 CAGGTAGTAGCCTGCACTTAGTACTACACAC
1 CACGTAGTAGCCTGCACATAGTACTACACAC
18637765 ATGTTCGCAG
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
47 22 0.21
48 19 0.18
49 3 0.03
50 44 0.41
51 19 0.18
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTTTTCGGTT
Found at i:18637705 original size:47 final size:47
Alignment explanation
Indices: 18637590--18637720 Score: 138
Period size: 47 Copynumber: 2.7 Consensus size: 47
18637580 TCGATACACG
* * * *
18637590 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGCTTTTCGGTTCACG
1 TAGTAGCCTACACATAG---TACACACGTGACCAAGCTTTCCGGTTCACA
18637640 TAGTAGCCTACACATAGTACACACGTGACCAAGGCTTTCCGGTTCACA
1 TAGTAGCCTACACATAGTACACACGTGACCAA-GCTTTCCGGTTCACA
* *
18637688 TAGTAG-CTGCACTTAGTACTACACATGTGACCA
1 TAGTAGCCTACACATAGTAC-ACAC--GTGACCA
18637721 TTATTTATCG
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
47 25 0.35
48 23 0.32
50 23 0.32
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (47 bp):
TAGTAGCCTACACATAGTACACACGTGACCAAGCTTTCCGGTTCACA
Found at i:18638050 original size:15 final size:15
Alignment explanation
Indices: 18638030--18638070 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
18638020 ACCATTTCTC
18638030 ATATATTATAACAAA
1 ATATATTATAACAAA
*
18638045 ATATA-TA-AAAAAA
1 ATATATTATAACAAA
18638058 ATA-ATTATAACAA
1 ATATATTATAACAA
18638071 TGTATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 1 0.05
13 10 0.45
14 6 0.27
15 5 0.23
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATATTATAACAAA
Found at i:18649282 original size:73 final size:74
Alignment explanation
Indices: 18649155--18649296 Score: 205
Period size: 73 Copynumber: 1.9 Consensus size: 74
18649145 AAGTTCTCCA
*
18649155 AAGCTAACATTAGTACCATACTTGCTCAAGGGTCATCTTGTCATTTATTATCTTTATTTATGTTG
1 AAGCTAACATTAGTACCATACTTGCCCAAGGGTCATCTTGTCATTTATTATCTTTATTTATGTTG
18649220 CTTGTCCTC
66 CTTGTCCTC
* * * * * * *
18649229 AAGC-AACATTCGTACCATACTTGCCCAGGGGTTATCTTTTCATTTATTGTCTTTGTTTGTGTTG
1 AAGCTAACATTAGTACCATACTTGCCCAAGGGTCATCTTGTCATTTATTATCTTTATTTATGTTG
18649293 CTTG
66 CTTG
18649297 AGGATAAGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 56 0.93
74 4 0.07
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (74 bp):
AAGCTAACATTAGTACCATACTTGCCCAAGGGTCATCTTGTCATTTATTATCTTTATTTATGTTG
CTTGTCCTC
Found at i:18651782 original size:25 final size:25
Alignment explanation
Indices: 18651720--18651833 Score: 87
Period size: 24 Copynumber: 4.6 Consensus size: 25
18651710 CAATTCTCAG
18651720 CTCGTATGAGCTTACCAATTGCAAA
1 CTCGTATGAGCTTACCAATTGCAAA
* *
18651745 -TTGTGA-GAGCTTACTAATT-CAGAA
1 CTCGT-ATGAGCTTACCAATTGCA-AA
* * *
18651769 CTCGTATGAGCTTACCGATTG-TAG
1 CTCGTATGAGCTTACCAATTGCAAA
* *
18651793 CTCGTGA-GAGCTTACCAATT-CTCAG
1 CTCGT-ATGAGCTTACCAATTGC-AAA
18651818 CTCGTATGAGCTTACC
1 CTCGTATGAGCTTACC
18651834 GATTTATAGC
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
23 2 0.03
24 37 0.52
25 32 0.45
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (25 bp):
CTCGTATGAGCTTACCAATTGCAAA
Found at i:18651834 original size:49 final size:49
Alignment explanation
Indices: 18651706--18651853 Score: 197
Period size: 49 Copynumber: 3.0 Consensus size: 49
18651696 TCATTAGGGA
* * ** *
18651706 TTACCAATTCTCAGCTCGTATGAGCTTACCAATTGCAAATTGTGAGAGC
1 TTACCAATTCTCAGCTCGTATGAGCTTACCGATTGTAGCTCGTGAGAGC
* ** *
18651755 TTACTAATTCAGAACTCGTATGAGCTTACCGATTGTAGCTCGTGAGAGC
1 TTACCAATTCTCAGCTCGTATGAGCTTACCGATTGTAGCTCGTGAGAGC
*
18651804 TTACCAATTCTCAGCTCGTATGAGCTTACCGATTTATAGCTCGTGAGAGC
1 TTACCAATTCTCAGCTCGTATGAGCTTACCGA-TTGTAGCTCGTGAGAGC
18651854 ATACTGATTC
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 68 0.81
50 16 0.19
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (49 bp):
TTACCAATTCTCAGCTCGTATGAGCTTACCGATTGTAGCTCGTGAGAGC
Found at i:18651844 original size:25 final size:25
Alignment explanation
Indices: 18651769--18651878 Score: 102
Period size: 25 Copynumber: 4.4 Consensus size: 25
18651759 TAATTCAGAA
*
18651769 CTCGTATGAGCTTACCGA-TTGTAG
1 CTCGTATGAGCTTACCGATTTATAG
* *
18651793 CTCGTGA-GAGCTTACCAATTCT-CAG
1 CTCGT-ATGAGCTTACCGATT-TATAG
18651818 CTCGTATGAGCTTACCGATTTATAG
1 CTCGTATGAGCTTACCGATTTATAG
* * *
18651843 CTCGTGA-GAGCATACTGATTCATAG
1 CTCGT-ATGAGCTTACCGATTTATAG
*
18651868 CTTGTATGAGC
1 CTCGTATGAGC
18651879 ATACATCTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
24 18 0.25
25 51 0.72
26 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (25 bp):
CTCGTATGAGCTTACCGATTTATAG
Found at i:18651875 original size:50 final size:49
Alignment explanation
Indices: 18651718--18651878 Score: 180
Period size: 49 Copynumber: 3.3 Consensus size: 49
18651708 ACCAATTCTC
* ** ** * *
18651718 AGCTCGTATGAGCTTACCAATTGCAAATTGTGAGAGCTTACTAATTCAG
1 AGCTCGTATGAGCTTACCGATTATAGCTCGTGAGAGCTTACTAATTCAT
* * *
18651767 AACTCGTATGAGCTTACCGATTGTAGCTCGTGAGAGCTTACCAATTC-T
1 AGCTCGTATGAGCTTACCGATTATAGCTCGTGAGAGCTTACTAATTCAT
* *
18651815 CAGCTCGTATGAGCTTACCGATTTATAGCTCGTGAGAGCATACTGATTCAT
1 -AGCTCGTATGAGCTTACCGA-TTATAGCTCGTGAGAGCTTACTAATTCAT
*
18651866 AGCTTGTATGAGC
1 AGCTCGTATGAGC
18651879 ATACATCTAC
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
49 59 0.62
50 35 0.37
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (49 bp):
AGCTCGTATGAGCTTACCGATTATAGCTCGTGAGAGCTTACTAATTCAT
Found at i:18652069 original size:30 final size:29
Alignment explanation
Indices: 18652030--18652091 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
18652020 TACATGAAAT
18652030 ACATGGAAATG-ATATTACATGATATATTGAA
1 ACATGGAAATGAATA-TACATG-TATA-TGAA
18652061 ACAT-GAAATGAATGATACATGTATATGAA
1 ACATGGAAATGAAT-ATACATGTATATGAA
18652090 AC
1 AC
18652092 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 10 0.34
31 12 0.41
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (29 bp):
ACATGGAAATGAATATACATGTATATGAA
Found at i:18658743 original size:21 final size:23
Alignment explanation
Indices: 18658697--18658744 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
18658687 TGGATGAAAT
18658697 ATAATTAAAAATATGATAGTTGAA
1 ATAATTAAAAATATGA-AGTTGAA
*
18658721 ATAATTAAAAGTATG-AG-TGAA
1 ATAATTAAAAATATGAAGTTGAA
18658742 ATA
1 ATA
18658745 TATATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 2 0.09
24 14 0.61
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (23 bp):
ATAATTAAAAATATGAAGTTGAA
Found at i:18659385 original size:41 final size:41
Alignment explanation
Indices: 18659219--18659374 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
18659209 TTTATCGTTA
* * * *
18659219 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18659260 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18659301 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
18659342 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
18659375 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:18659645 original size:33 final size:33
Alignment explanation
Indices: 18659589--18659686 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
18659579 ATAGATATGT
*
18659589 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
18659621 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
18659654 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
18659687 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:18666370 original size:21 final size:23
Alignment explanation
Indices: 18666324--18666371 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
18666314 TGGATGAAAT
18666324 ATAATTAAAAATATGATAGTTGAA
1 ATAATTAAAAATATGA-AGTTGAA
*
18666348 ATAATTAAAAGTATG-AG-TGAA
1 ATAATTAAAAATATGAAGTTGAA
18666369 ATA
1 ATA
18666372 TATATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 2 0.09
24 14 0.61
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (23 bp):
ATAATTAAAAATATGAAGTTGAA
Found at i:18667014 original size:41 final size:41
Alignment explanation
Indices: 18666848--18667003 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
18666838 TTTATCGTTA
* * * *
18666848 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18666889 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
18666930 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
18666971 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
18667004 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:18667274 original size:33 final size:33
Alignment explanation
Indices: 18667218--18667315 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
18667208 ATAGATATGT
*
18667218 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
18667250 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
18667283 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
18667316 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:18670913 original size:7 final size:7
Alignment explanation
Indices: 18670903--18670950 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
18670893 ATATGTGTAT
*
18670903 TGTGATA
1 TGTGACA
18670910 TGTGACA
1 TGTGACA
18670917 TGTGACA
1 TGTGACA
18670924 TGTGACA
1 TGTGACA
18670931 TGTGACA
1 TGTGACA
18670938 TGTGACA
1 TGTGACA
18670945 TGTGAC
1 TGTGAC
18670951 CATTACGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.31
Consensus pattern (7 bp):
TGTGACA
Found at i:18687128 original size:63 final size:64
Alignment explanation
Indices: 18687045--18687165 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 64
18687035 ACCTTTAATG
* ** ** ** *
18687045 GTCCCAACTTGTTGTCCCAAGTGTTGTTTTAACAATTAATGAAACAATGGCA-TCCAAGACATT
1 GTCCCAACTTGTTATCCCAAGTAATGTTCAAACAAGGAATGAAACAACGGCATTCCAAGACATT
*
18687108 GTCCTAACTTGTTATCCCAAGTAATGTTCAAACAAGGAATGAAACAACGGCATTCCAA
1 GTCCCAACTTGTTATCCCAAGTAATGTTCAAACAAGGAATGAAACAACGGCATTCCAA
18687166 AAAATTAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
63 43 0.90
64 5 0.10
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (64 bp):
GTCCCAACTTGTTATCCCAAGTAATGTTCAAACAAGGAATGAAACAACGGCATTCCAAGACATT
Found at i:18694484 original size:15 final size:15
Alignment explanation
Indices: 18694464--18694495 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18694454 ACCACAAAGG
18694464 CACACAATCAAAAAT
1 CACACAATCAAAAAT
18694479 CACACAATCAAAAAT
1 CACACAATCAAAAAT
18694494 CA
1 CA
18694496 ACCATTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.12
Consensus pattern (15 bp):
CACACAATCAAAAAT
Found at i:18699075 original size:21 final size:22
Alignment explanation
Indices: 18699051--18699092 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18699041 TTCATGTAAC
*
18699051 TAAATTGTATATT-TGTATGTT
1 TAAATTGAATATTGTGTATGTT
*
18699072 TAAATTGAATGTTGTGTATGT
1 TAAATTGAATATTGTGTATGT
18699093 GTGTTGTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (22 bp):
TAAATTGAATATTGTGTATGTT
Found at i:18699423 original size:26 final size:26
Alignment explanation
Indices: 18699394--18699450 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
18699384 CCTGATATAT
*
18699394 GGCTCTTCATGAGCTTCCCAATTAAA
1 GGCTCTTCATGAGATTCCCAATTAAA
** * *
18699420 GGCTCTTTGTGAGATTCCTAATTAAT
1 GGCTCTTCATGAGATTCCCAATTAAA
18699446 GGCTC
1 GGCTC
18699451 GCCAGAGCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (26 bp):
GGCTCTTCATGAGATTCCCAATTAAA
Found at i:18699471 original size:23 final size:23
Alignment explanation
Indices: 18699444--18699491 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
18699434 TTCCTAATTA
* *
18699444 ATGGCTCGCCAGAGCTTCTCGAT
1 ATGGCTCACCAGAACTTCTCGAT
**
18699467 ATGGCTCACTTGAACTTCTCGAT
1 ATGGCTCACCAGAACTTCTCGAT
18699490 AT
1 AT
18699492 ATGGCTATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (23 bp):
ATGGCTCACCAGAACTTCTCGAT
Found at i:18699530 original size:25 final size:25
Alignment explanation
Indices: 18699392--18699537 Score: 70
Period size: 25 Copynumber: 5.8 Consensus size: 25
18699382 GTCCTGATAT
*
18699392 ATGGCTCTTCATGAGCTTCCCAATTA
1 ATGGCTCTTCA-GAGCTTCCCGATTA
* ** * **
18699418 AAGGCTCTTTGTGAGATTCCTAATTA
1 ATGGCTC-TTCAGAGCTTCCCGATTA
** *
18699444 ATGGCTCGCCAGAGCTTCTCGA-T-
1 ATGGCTCTTCAGAGCTTCCCGATTA
* *
18699467 ATGGCTCACTT--GAACTTCTCGA-TA
1 ATGGCT--CTTCAGAGCTTCCCGATTA
*
18699491 TATGGCT-ATCAAGAGCTTCCCGATTA
1 -ATGGCTCTTC-AGAGCTTCCCGATTA
*
18699517 ATGGCTCTTCAGAGCTACCCG
1 ATGGCTCTTCAGAGCTTCCCG
18699538 TTATTGGATC
Statistics
Matches: 88, Mismatches: 22, Indels: 21
0.67 0.17 0.16
Matches are distributed among these distances:
22 1 0.01
23 17 0.19
24 1 0.01
25 39 0.44
26 28 0.32
27 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (25 bp):
ATGGCTCTTCAGAGCTTCCCGATTA
Found at i:18699630 original size:25 final size:25
Alignment explanation
Indices: 18699602--18699688 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
18699592 AGCCCGGATA
* *
18699602 AGCTTCCCGTTACATGGCTCATATG
1 AGCTTCCCGTTATATGGCTCACATG
* * *
18699627 AGCTTCCCTTTATATGGCTCGAGAGAG
1 AGCTTCCCGTTATATGGCTC-ACA-TG
18699654 AGCTTCCCGTT-TATGTGCTCACATG
1 AGCTTCCCGTTATATG-GCTCACATG
18699679 AGCATTCCCG
1 AGC-TTCCCG
18699689 AATATGAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
25 22 0.43
26 14 0.27
27 15 0.29
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACATG
Found at i:18709299 original size:79 final size:81
Alignment explanation
Indices: 18709163--18709347 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
18709153 TTGAATGATG
*
18709163 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
18709227 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
18709242 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
18709304 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
18709322 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18709348 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:18709361 original size:40 final size:40
Alignment explanation
Indices: 18709164--18709347 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
18709154 TGAATGATGT
* * * *
18709164 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
18709204 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
18709244 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
18709282 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
18709323 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18709348 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:18709369 original size:79 final size:79
Alignment explanation
Indices: 18709216--18709380 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
18709206 GGACTAAGAT
* **
18709216 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18709281 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18709295 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
18709358 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18709374 CCGAAGG
1 CCGAAGG
18709381 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18717263 original size:78 final size:81
Alignment explanation
Indices: 18717128--18717311 Score: 243
Period size: 78 Copynumber: 2.3 Consensus size: 81
18717118 TTGAATGATG
*
18717128 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
18717192 TGTGCGAGATACTAT-
66 TGTGCGAGATACTATA
* * * **
18717207 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
18717269 TTGTGCGAGTTACTATA
65 TTGTGCGAGATACTATA
* *
18717286 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18717312 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 50 0.54
79 27 0.29
80 14 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:18717273 original size:40 final size:40
Alignment explanation
Indices: 18717128--18717311 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
18717118 TTGAATGATG
* * * *
18717128 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
18717168 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
18717207 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18717246 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18717287 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18717312 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 23 0.18
39 21 0.17
40 71 0.57
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18717330 original size:80 final size:77
Alignment explanation
Indices: 18717181--18717344 Score: 213
Period size: 78 Copynumber: 2.1 Consensus size: 77
18717171 GGACTAAGAT
* **
18717181 CCGAAGGCATTTGTGCGAGATACTATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGATACTATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
18717246 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
* *
18717259 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAGATACTAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
18717323 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
18717338 CCGAAGG
1 CCGAAGG
18717345 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 25 0.33
79 25 0.33
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:18722747 original size:79 final size:80
Alignment explanation
Indices: 18722641--18722795 Score: 258
Period size: 79 Copynumber: 1.9 Consensus size: 80
18722631 AATGTTCCAT
* *
18722641 TTCATATATCAATTTCCATATAATTGATTCATATAATCATTTCATATATCTATTTCCATTTAACT
1 TTCATATATCAATTTCCATATAATTGATTCATATAACCATTTCATATATCTATTTCCATATAACT
18722706 AATTCATATAACTAA
66 AATTCATATAACTAA
* * *
18722721 TTCATATATCTA-TTCCGTATAATTGATTCATATAACCATTTCATATATCTATTTTCATATAACT
1 TTCATATATCAATTTCCATATAATTGATTCATATAACCATTTCATATATCTATTTCCATATAACT
18722785 AATTCATATAA
66 AATTCATATAA
18722796 ACATTTCATT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 59 0.84
80 11 0.16
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (80 bp):
TTCATATATCAATTTCCATATAATTGATTCATATAACCATTTCATATATCTATTTCCATATAACT
AATTCATATAACTAA
Found at i:18722801 original size:27 final size:27
Alignment explanation
Indices: 18722668--18722795 Score: 84
Period size: 27 Copynumber: 4.8 Consensus size: 27
18722658 ATATAATTGA
* * *
18722668 TTCATATAATCATTTCATATATCTATT
1 TTCATATAACCAATTCATATAACTATT
* * * *
18722695 TCCATTTAACTAATTCATATAACTA-A
1 TTCATATAACCAATTCATATAACTATT
* * * *
18722721 TTCATAT-ATCTATTCCGTATAA-T-TGA
1 TTCATATAACCAATT-CATATAACTAT-T
* *
18722747 TTCATATAACCATTTCATATATCTATT
1 TTCATATAACCAATTCATATAACTATT
*
18722774 TTCATATAACTAATTCATATAA
1 TTCATATAACCAATTCATATAA
18722796 ACATTTCATT
Statistics
Matches: 73, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
25 5 0.07
26 24 0.33
27 43 0.59
28 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (27 bp):
TTCATATAACCAATTCATATAACTATT
Found at i:18722803 original size:13 final size:13
Alignment explanation
Indices: 18722639--18722804 Score: 115
Period size: 13 Copynumber: 12.5 Consensus size: 13
18722629 CCAATGTTCC
* *
18722639 ATTTCATATATCA
1 ATTTCATATAACT
*
18722652 ATTTCCATATAATT
1 ATTT-CATATAACT
18722666 GA-TTCATATAA-T
1 -ATTTCATATAACT
*
18722678 CATTTCATATATCT
1 -ATTTCATATAACT
*
18722692 ATTTCCATTTAACT
1 ATTT-CATATAACT
*
18722706 AATTCATATAACT
1 ATTTCATATAACT
* *
18722719 AATTCATATATCT
1 ATTTCATATAACT
* * *
18722732 ATTCCGTATAATT
1 ATTTCATATAACT
*
18722745 GA-TTCATATAACC
1 -ATTTCATATAACT
*
18722758 ATTTCATATATCT
1 ATTTCATATAACT
18722771 ATTTTCATATAACT
1 A-TTTCATATAACT
*
18722785 AATTCATATAAAC-
1 ATTTCATAT-AACT
18722798 ATTTCAT
1 ATTTCAT
18722805 TTATTCATTT
Statistics
Matches: 120, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
12 3 0.03
13 81 0.68
14 35 0.29
15 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.45
Consensus pattern (13 bp):
ATTTCATATAACT
Found at i:18722815 original size:40 final size:40
Alignment explanation
Indices: 18722638--18722804 Score: 212
Period size: 40 Copynumber: 4.2 Consensus size: 40
18722628 TCCAATGTTC
* * * *
18722638 CATTTCATATATCAATTTCCATATAATTGATTCATATAAT
1 CATTTCATATATCTATTTCCATATAACTAATTCATATAAA
*
18722678 CATTTCATATATCTATTTCCATTTAACTAATTCATAT-AA
1 CATTTCATATATCTATTTCCATATAACTAATTCATATAAA
* * * * *
18722717 CTAATTCATATATCTA-TTCCGTATAATTGATTCATATAAC
1 C-ATTTCATATATCTATTTCCATATAACTAATTCATATAAA
*
18722757 CATTTCATATATCTATTTTCATATAACTAATTCATATAAA
1 CATTTCATATATCTATTTCCATATAACTAATTCATATAAA
18722797 CATTTCAT
1 CATTTCAT
18722805 TTATTCATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 32 0.30
40 75 0.70
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.45
Consensus pattern (40 bp):
CATTTCATATATCTATTTCCATATAACTAATTCATATAAA
Found at i:18722922 original size:26 final size:25
Alignment explanation
Indices: 18722860--18722923 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
18722850 CGCAGGAATG
* *
18722860 ATGCTCACACAAGCTGTAACTGTAT
1 ATGCTCACACAAGCTGTAAATGGAT
*
18722885 ATGCTCACACAAGCTGTAAAATGGGT
1 ATGCTCACACAAGCTGT-AAATGGAT
*
18722911 CTGCTCACACAAG
1 ATGCTCACACAAG
18722924 ATGTGGGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 17 0.50
26 17 0.50
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (25 bp):
ATGCTCACACAAGCTGTAAATGGAT
Found at i:18724022 original size:17 final size:18
Alignment explanation
Indices: 18723996--18724029 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18723986 TAACATTTGA
18723996 TTATTATAAAA-ATAAAC
1 TTATTATAAAACATAAAC
*
18724013 TTATTTTAAAACATAAA
1 TTATTATAAAACATAAA
18724030 AATACCTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
TTATTATAAAACATAAAC
Found at i:18731447 original size:31 final size:32
Alignment explanation
Indices: 18731412--18731471 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
18731402 AAAAACACTT
*
18731412 AATAGCCTAGTAACTTAAAT-AAAATTTTTCA
1 AATAGCCTAGTAACATAAATGAAAATTTTTCA
** *
18731443 AATAGTTTAGTGACATAAATGAAAATTTT
1 AATAGCCTAGTAACATAAATGAAAATTTT
18731472 CTAATAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 16 0.67
32 8 0.33
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (32 bp):
AATAGCCTAGTAACATAAATGAAAATTTTTCA
Found at i:18736796 original size:16 final size:16
Alignment explanation
Indices: 18736775--18736805 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18736765 CATATTAAAG
18736775 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
18736791 CATATATATTTGAAA
1 CATATAAATTTGAAA
18736806 ACTAAACTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:18736918 original size:20 final size:19
Alignment explanation
Indices: 18736861--18736927 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
18736851 TATTTAGAAA
*
18736861 TTTTTTAAATTTTT-TACT
1 TTTTTTAAATTTTTATAAT
* * * *
18736879 TTCTTTACATATTTAGAAT
1 TTTTTTAAATTTTTATAAT
18736898 TTTTTTAAAATTTTTATAAT
1 TTTTTT-AAATTTTTATAAT
*
18736918 TTTTTAAAAT
1 TTTTTTAAAT
18736928 ATATCAATTT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
18 11 0.30
19 11 0.30
20 15 0.41
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTTTAAATTTTTATAAT
Found at i:18736921 original size:10 final size:9
Alignment explanation
Indices: 18736858--18736925 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
18736848 TATTATTTAG
18736858 AAATTTTTT
1 AAATTTTTT
18736867 AAATTTTTT
1 AAATTTTTT
*
18736876 -ACTTTCTTT
1 AAATTT-TTT
* *
18736885 ACA-TATTT
1 AAATTTTTT
18736893 AGAATTTTTTT
1 A-AA-TTTTTT
*
18736904 AAAATTTTT
1 AAATTTTTT
18736913 ATAATTTTTT
1 A-AATTTTTT
18736923 AAA
1 AAA
18736926 ATATATCAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
8 8 0.18
9 22 0.49
10 10 0.22
11 5 0.11
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (9 bp):
AAATTTTTT
Found at i:18736964 original size:19 final size:20
Alignment explanation
Indices: 18736934--18736984 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
18736924 AAATATATCA
*
18736934 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
18736954 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
18736974 ATTTTGAATTT
1 ATTTTGAATTT
18736985 GTTTTTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:18737097 original size:18 final size:18
Alignment explanation
Indices: 18737071--18737105 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18737061 CAATCTATTA
*
18737071 TTTGAGTTATTCGAATTT
1 TTTGAGTTATGCGAATTT
*
18737089 TTTGTGTTATGCGAATT
1 TTTGAGTTATGCGAATT
18737106 GTATAATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.54
Consensus pattern (18 bp):
TTTGAGTTATGCGAATTT
Found at i:18738644 original size:3 final size:3
Alignment explanation
Indices: 18738636--18738676 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18738626 AAGGTTGAAA
18738636 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
18738677 TACCTCCCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18741038 original size:23 final size:25
Alignment explanation
Indices: 18740993--18741047 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
18740983 AAAATAAAGG
18740993 GAAAAAAATTAAAATAACATAAAA-
1 GAAAAAAATTAAAATAACATAAAAC
** *
18741017 GAAAAAAATT-AAATTGCTTAAAAC
1 GAAAAAAATTAAAATAACATAAAAC
18741041 GAAAAAA
1 GAAAAAA
18741048 TATGGGGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.18
Consensus pattern (25 bp):
GAAAAAAATTAAAATAACATAAAAC
Found at i:18743772 original size:27 final size:27
Alignment explanation
Indices: 18743742--18743795 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18743732 ATACAGATTT
*
18743742 GCCACCAAGGAGACCCATTCAGAGTAC
1 GCCACAAAGGAGACCCATTCAGAGTAC
* * *
18743769 GCCACAAAGGTGATCCATTCCGAGTAC
1 GCCACAAAGGAGACCCATTCAGAGTAC
18743796 ACCATGAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.15
Consensus pattern (27 bp):
GCCACAAAGGAGACCCATTCAGAGTAC
Found at i:18743805 original size:27 final size:27
Alignment explanation
Indices: 18743756--18743809 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18743746 CCAAGGAGAC
*
18743756 CCATTCAGAGTACGCCACAAAGGTGAT
1 CCATTCAGAGTACACCACAAAGGTGAT
* **
18743783 CCATTCCGAGTACACCATGAAGGTGAT
1 CCATTCAGAGTACACCACAAAGGTGAT
18743810 TTATTTAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (27 bp):
CCATTCAGAGTACACCACAAAGGTGAT
Found at i:18745221 original size:38 final size:37
Alignment explanation
Indices: 18745170--18745352 Score: 159
Period size: 38 Copynumber: 4.8 Consensus size: 37
18745160 TGAATTATAT
* * *
18745170 TGTTATTCAAGCTTTGTGCCTAGCAAGTTTTGTGCCGG
1 TGTTATTC-AGCTTTGTGCCTAGCAAGCTTAGTGCCGA
*
18745208 TGTTATTCGAGCTTTGTGCCTAGCAGGCTTAGTGCCGA
1 TGTTATTC-AGCTTTGTGCCTAGCAAGCTTAGTGCCGA
* ** *
18745246 TGTTATTCAGGCTTTTTGCCTAGCAAGCTTAGTGGAGG
1 TGTTATTCA-GCTTTGTGCCTAGCAAGCTTAGTGCCGA
* * * * * *
18745284 TGCTATTCAGACTTTATGCCTAACAGGCTTAGTGTCGG
1 TGTTATTCAG-CTTTGTGCCTAGCAAGCTTAGTGCCGA
* * * *
18745322 TGTTATTTAGGCTTAGTGCCTAACAGGCTTA
1 TGTTATTCA-GCTTTGTGCCTAGCAAGCTTA
18745353 TTACCAGTGT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
37 2 0.02
38 119 0.98
39 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (37 bp):
TGTTATTCAGCTTTGTGCCTAGCAAGCTTAGTGCCGA
Found at i:18745304 original size:76 final size:76
Alignment explanation
Indices: 18745170--18745352 Score: 215
Period size: 76 Copynumber: 2.4 Consensus size: 76
18745160 TGAATTATAT
* * * * * * *
18745170 TGTTATTCAAGCTTTGTGCCTAGCAAGTTTTGTGCCGGTGTTATTCGAGCTTTGTGCCTAGCAGG
1 TGTTATTCAGGCTTTGTGCCTAGCAAGCTTAGTGCAGGTGCTATTCGAGCTTTATGCCTAACAGG
18745235 CTTAGTGCCGA
66 CTTAGTGCCGA
* *
18745246 TGTTATTCAGGCTTTTTGCCTAGCAAGCTTAGTGGAGGTGCTATTC-AGACTTTATGCCTAACAG
1 TGTTATTCAGGCTTTGTGCCTAGCAAGCTTAGTGCAGGTGCTATTCGAG-CTTTATGCCTAACAG
* *
18745310 GCTTAGTGTCGG
65 GCTTAGTGCCGA
* * * *
18745322 TGTTATTTAGGCTTAGTGCCTAACAGGCTTA
1 TGTTATTCAGGCTTTGTGCCTAGCAAGCTTA
18745353 TTACCAGTGT
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
75 2 0.02
76 88 0.98
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (76 bp):
TGTTATTCAGGCTTTGTGCCTAGCAAGCTTAGTGCAGGTGCTATTCGAGCTTTATGCCTAACAGG
CTTAGTGCCGA
Found at i:18748934 original size:39 final size:39
Alignment explanation
Indices: 18748880--18748960 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
18748870 ATGTAATCGA
18748880 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
18748919 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
18748958 TTT
1 TTT
18748961 TCCCTTTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
Found at i:18749329 original size:29 final size:29
Alignment explanation
Indices: 18749272--18749744 Score: 769
Period size: 29 Copynumber: 16.2 Consensus size: 29
18749262 GAATAAACCG
18749272 AATACACTACATATATATTTTTTATTTTTAA
1 AATACACTAC--ATATATTTTTTATTTTTAA
18749303 AATACACTACATATATATTTTTATTTTTAA
1 AATACACTACATATAT-TTTTTATTTTTAA
18749333 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
18749362 AATACACTACATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18749391 AATACACTACATAT-TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18749419 AATACACTACATACATATTTTTTATTTTTAA
1 AATACACTACAT--ATATTTTTTATTTTTAA
*
18749450 AATACAGTAC--ATA--TTTT-TTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18749474 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
* **
18749503 AATAAACTACGCATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18749532 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18749561 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
18749590 AATATACTACATATATTTCTTTATTTTTAA
1 AATACACTACATATATTT-TTTATTTTTAA
*
18749620 AATACACTACATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18749649 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18749678 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
18749708 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
18749738 AATACAC
1 AATACAC
18749745 AAATACAATG
Statistics
Matches: 418, Mismatches: 13, Indels: 23
0.92 0.03 0.05
Matches are distributed among these distances:
24 16 0.04
25 4 0.01
26 3 0.01
27 3 0.01
28 30 0.07
29 220 0.53
30 109 0.26
31 33 0.08
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (29 bp):
AATACACTACATATATTTTTTATTTTTAA
Found at i:18749366 original size:59 final size:58
Alignment explanation
Indices: 18749272--18749744 Score: 769
Period size: 59 Copynumber: 8.1 Consensus size: 58
18749262 GAATAAACCG
18749272 AATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATATTTTTATTTTTAA
1 AATACACTAC--ATATATTTTTTATTTTTAAAATACACTACATATAT-TTTTTATTTTTAA
*
18749333 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATTTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
18749391 AATACACTACATAT-TTTTTTATTTTTAAAATACACTACATACATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACAT--ATATTTTTTATTTTTAA
*
18749450 AATACAGTAC--ATA--TTTT-TTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
* **
18749503 AATAAACTACGCATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
*
18749561 AATACACTACATATATTTTTTATTTTTAAAATATACTACATATATTTCTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTT-TTTATTTTTAA
*
18749620 AATACACTACATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
18749678 AATACACTACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACATATA-TTTTTTATTTTTAA
18749738 AATACAC
1 AATACAC
18749745 AAATACAATG
Statistics
Matches: 389, Mismatches: 12, Indels: 23
0.92 0.03 0.05
Matches are distributed among these distances:
53 25 0.06
55 22 0.06
56 4 0.01
57 32 0.08
58 131 0.34
59 144 0.37
60 21 0.05
61 10 0.03
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (58 bp):
AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAA
Found at i:18749390 original size:88 final size:87
Alignment explanation
Indices: 18749272--18749744 Score: 778
Period size: 88 Copynumber: 5.4 Consensus size: 87
18749262 GAATAAACCG
18749272 AATACACTACATATATATTTTTTATTTTTAAAATACACTACATATATATTTTTATTTTTAAAATA
1 AATACACTACATAT-T-TTTTTTATTTTTAAAATACACTACATATAT-TTTTTATTTTTAAAATA
18749337 CACTACATATATTTTTTATTTTTAA
63 CACTACATATATTTTTTATTTTTAA
18749362 AATACACTACATATTTTTTTTATTTTTAAAATACACTACATAT-TTTTTTATTTTTAAAATACAC
1 AATACACTACATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
18749426 TACATACATATTTTTTATTTTTAA
66 TACAT--ATATTTTTTATTTTTAA
* *
18749450 AATACAGTACATA----TTTT-TTTTTAAAATACACTACATATATTTTTTATTTTTAAAATAAAC
1 AATACACTACATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
**
18749510 TACGCATATTTTTTATTTTTAA
66 TACATATATTTTTTATTTTTAA
* *
18749532 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATATAC
1 AATACACTACATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
18749597 TACATATATTTCTTTATTTTTAA
66 TACATATATTT-TTTATTTTTAA
18749620 AATACACTACATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
1 AATACACTACATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
18749685 TACATATATTTTTTTATTTTTAA
66 TACATATA-TTTTTTATTTTTAA
18749708 AATACACTACATATATTTTTTTATTTTTAAAATACAC
1 AATACACTACATAT-TTTTTTTATTTTTAAAATACAC
18749745 AAATACAATG
Statistics
Matches: 362, Mismatches: 10, Indels: 23
0.92 0.03 0.06
Matches are distributed among these distances:
82 29 0.08
83 21 0.06
84 27 0.07
86 29 0.08
87 52 0.14
88 164 0.45
89 26 0.07
90 14 0.04
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (87 bp):
AATACACTACATATTTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
TACATATATTTTTTATTTTTAA
Found at i:18752670 original size:18 final size:18
Alignment explanation
Indices: 18752647--18752681 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
18752637 GCTTCGAGGG
18752647 AAAACTATTTTAAATAAA
1 AAAACTATTTTAAATAAA
18752665 AAAACTATTTTAAATAA
1 AAAACTATTTTAAATAA
18752682 TAAATATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAACTATTTTAAATAAA
Found at i:18752908 original size:21 final size:21
Alignment explanation
Indices: 18752872--18752956 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
18752862 CCAAGAACAA
*
18752872 AGCAAAAAAGAGGGGAGAAACC
1 AGCAAAAACGA-GGGAGAAACC
*
18752894 AGCAAAAACGAGGGACAAACC
1 AGCAAAAACGAGGGAGAAACC
* * *
18752915 AGTAAGAACAAGGGAGAAACC
1 AGCAAAAACGAGGGAGAAACC
*
18752936 AGCAAGAACGAGGGAAGAAAC
1 AGCAAAAACGAGGG-AGAAAC
18752957 TGTTGTTTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
21 38 0.70
22 16 0.30
ACGTcount: A:0.53, C:0.16, G:0.29, T:0.01
Consensus pattern (21 bp):
AGCAAAAACGAGGGAGAAACC
Found at i:18756757 original size:87 final size:86
Alignment explanation
Indices: 18756643--18756887 Score: 348
Period size: 87 Copynumber: 2.8 Consensus size: 86
18756633 AAGATTGAGA
* * *
18756643 TATTATTCTTAATGAATTCATAGCCCAAAGTTTGGGTAGTCCTATTGAGACAGACTTGATGAATT
1 TATTACTCTTAATGAACTCATATCCCAAAGTTTGGGT-GTCCTATTGAGACAGACTTGATGAATT
18756708 CACCGACATGTAAGGTTGAGTT
65 CACCGACATGTAAGGTTGAGTT
*
18756730 TCTTACTCTTAATGAACTCATATCCCAAAGTTTGGGTGATCCTATTGAGACAGACTTGATGAATT
1 TATTACTCTTAATGAACTCATATCCCAAAGTTTGGGTG-TCCTATTGAGACAGACTTGATGAATT
* * *
18756795 CACTGACGTGTGAGGTTGAGTT
65 CACCGACATGTAAGGTTGAGTT
* * * *
18756817 TATTACTCTTAATGAGCTCATATTCTAAAGTTTGGGTGGT-CTAATTGAGACGGACTTGATGAAT
1 TATTACTCTTAATGAACTCATATCCCAAAGTTTGGGT-GTCCT-ATTGAGACAGACTTGATGAAT
18756881 TCACCGA
64 TCACCGA
18756888 ATTTAAATTT
Statistics
Matches: 142, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
86 3 0.02
87 138 0.97
88 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (86 bp):
TATTACTCTTAATGAACTCATATCCCAAAGTTTGGGTGTCCTATTGAGACAGACTTGATGAATTC
ACCGACATGTAAGGTTGAGTT
Found at i:18764692 original size:4 final size:4
Alignment explanation
Indices: 18764678--18764732 Score: 92
Period size: 4 Copynumber: 13.2 Consensus size: 4
18764668 ACAGTACTAA
18764678 ACAT AACAT ACAT ACAT AACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT -ACAT ACAT ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
18764728 ACAT A
1 ACAT A
18764733 AACATTAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
4 41 0.84
5 8 0.16
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:18765505 original size:29 final size:28
Alignment explanation
Indices: 18765457--18765514 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
18765447 ACTAAACCAG
* * *
18765457 TGGGCAAAAAAAAGTTTAGGTATCAATC
1 TGGGCAAAAAAAACTATAGGTACCAATC
18765485 TGGGACAAAAAAAACTATAGGTACCAATC
1 TGGG-CAAAAAAAACTATAGGTACCAATC
18765514 T
1 T
18765515 AGGAGAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (28 bp):
TGGGCAAAAAAAACTATAGGTACCAATC
Found at i:18768415 original size:28 final size:27
Alignment explanation
Indices: 18768353--18768404 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
18768343 GGTAATAGAT
*
18768353 ATTTTTAATTATAAAAATGCAATACGC
1 ATTTTTAATTATAAAAATGCAAGACGC
*
18768380 ATTTTTAATTATAAAAATGTAAGAC
1 ATTTTTAATTATAAAAATGCAAGAC
18768405 ATTCTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (27 bp):
ATTTTTAATTATAAAAATGCAAGACGC
Found at i:18768691 original size:24 final size:25
Alignment explanation
Indices: 18768664--18768712 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18768654 GTAAATTTTT
18768664 AATTAA-AAATATTTTGTTGA-ATAA
1 AATTAATAAATATTTT-TTGACATAA
*
18768688 AATTAATATATATTTTTTGACATAA
1 AATTAATAAATATTTTTTGACATAA
18768713 TTAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (25 bp):
AATTAATAAATATTTTTTGACATAA
Found at i:18768714 original size:23 final size:23
Alignment explanation
Indices: 18768663--18768722 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
18768653 GGTAAATTTT
*
18768663 TAATTAA-AAATATTTTGTTGAA
1 TAATTAATATATATTTTGTTGAA
18768685 TAAAATTAATATATATTTT-TTGACA
1 T--AATTAATATATATTTTGTTGA-A
18768710 TAATTAATATATA
1 TAATTAATATATA
18768723 AATTTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 1 0.03
23 12 0.36
24 10 0.30
25 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
TAATTAATATATATTTTGTTGAA
Found at i:18781566 original size:7 final size:7
Alignment explanation
Indices: 18781554--18781582 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
18781544 AGAGGAATAG
18781554 AAATAAA
1 AAATAAA
18781561 AAATAAA
1 AAATAAA
18781568 AAATAAA
1 AAATAAA
18781575 AAATAAA
1 AAATAAA
18781582 A
1 A
18781583 TAAAATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:18782709 original size:44 final size:44
Alignment explanation
Indices: 18782646--18782735 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
18782636 AACTCTATTT
*
18782646 TTAGTTTACCACTTAAACTCTGATTAGTGTAAGTTATTTTAATA
1 TTAGTTTACCACTTAAACTCTGATTAGTATAAGTTATTTTAATA
* *
18782690 TTAGTTT-CTCACTTAAACTCTGATTGGTATAGGTTATTTTAATA
1 TTAGTTTAC-CACTTAAACTCTGATTAGTATAAGTTATTTTAATA
18782734 TT
1 TT
18782736 CTTTAACCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (44 bp):
TTAGTTTACCACTTAAACTCTGATTAGTATAAGTTATTTTAATA
Found at i:18783477 original size:21 final size:21
Alignment explanation
Indices: 18783434--18783478 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18783424 ATATAGTTTC
*
18783434 TAATTTAACATATATTATTAT
1 TAATTTAACATATATTATAAT
*
18783455 TAATTTAA-ATATTTTGATAAT
1 TAATTTAACATATATT-ATAAT
18783476 TAA
1 TAA
18783479 ATAATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TAATTTAACATATATTATAAT
Found at i:18790094 original size:16 final size:16
Alignment explanation
Indices: 18790054--18790115 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
18790044 ACTGGAATTG
* *
18790054 AATAGGGTTATAATGA
1 AATAGAGTTGTAATGA
* *
18790070 ACTATAGTTGTAATAGA
1 AATAGAGTTGTAAT-GA
*
18790087 AA-AGAGTTATAATGA
1 AATAGAGTTGTAATGA
18790102 AATAGAGTTGTAAT
1 AATAGAGTTGTAAT
18790116 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
15 4 0.11
16 29 0.81
17 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (16 bp):
AATAGAGTTGTAATGA
Found at i:18795622 original size:23 final size:23
Alignment explanation
Indices: 18795596--18795691 Score: 138
Period size: 23 Copynumber: 4.2 Consensus size: 23
18795586 ATAAGTGCAA
*
18795596 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
18795619 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
** *
18795642 CACTGTTATGTAGCTGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
18795665 CACTGAAACGTAACCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
18795688 CACT
1 CACT
18795692 AATCAATAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:18795663 original size:46 final size:46
Alignment explanation
Indices: 18795596--18795691 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
18795586 ATAAGTGCAA
* *
18795596 CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAACCGAAGCTAC
* *
18795642 CACTGTTATGTAGCTGAAGCTACCACTGAAACGTAACCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTACCACTGAAACGTAACCGAAGCTAC
18795688 CACT
1 CACT
18795692 AATCAATAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (46 bp):
CACTGATATGTAGCCGAAGCTACCACTGAAACGTAACCGAAGCTAC
Found at i:18804434 original size:16 final size:16
Alignment explanation
Indices: 18804397--18804436 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18804387 TTAATAAAAT
* *
18804397 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
18804413 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
18804429 TAAAATTA
1 TAAAATTA
18804437 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:18804436 original size:22 final size:22
Alignment explanation
Indices: 18804369--18804421 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
18804359 CAATTAAAAT
* * *
18804369 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
18804391 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
18804413 TAAAATTAA
1 TAAAATTAA
18804422 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:18804495 original size:66 final size:59
Alignment explanation
Indices: 18804439--18804558 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
18804429 TAAAATTATC
* * *
18804439 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
18804497 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
18804556 AAA
1 AAA
18804559 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:18805244 original size:12 final size:12
Alignment explanation
Indices: 18805227--18805294 Score: 63
Period size: 12 Copynumber: 6.0 Consensus size: 12
18805217 ATTCAATATC
18805227 AATTTCTTTCAA
1 AATTTCTTTCAA
18805239 AATTTCTTTC--
1 AATTTCTTTCAA
*
18805249 AATTCCTTTCAA
1 AATTTCTTTCAA
*
18805261 AATTTCTCTC--
1 AATTTCTTTCAA
* *
18805271 AATTCCCTTCAA
1 AATTTCTTTCAA
*
18805283 AATTTCTATCAA
1 AATTTCTTTCAA
18805295 TTTCCTTCCA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
10 16 0.37
12 27 0.63
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTTCTTTCAA
Found at i:18805316 original size:22 final size:23
Alignment explanation
Indices: 18805225--18805316 Score: 120
Period size: 22 Copynumber: 4.2 Consensus size: 23
18805215 AAATTCAATA
*
18805225 TCAATTT-CTTTCAAAATTTCTT
1 TCAATTTCCTTTCAAAATTTCTC
18805247 TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTTCCTTTCAAAATTTCTC
* *
18805269 TCAA-TTCCCTTCAAAATTTCTA
1 TCAATTTCCTTTCAAAATTTCTC
*
18805291 TCAATTTCCTTCCAAAA-TTCTC
1 TCAATTTCCTTTCAAAATTTCTC
18805313 TCAA
1 TCAA
18805317 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 2 0.03
22 50 0.81
23 10 0.16
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (23 bp):
TCAATTTCCTTTCAAAATTTCTC
Found at i:18805332 original size:52 final size:51
Alignment explanation
Indices: 18805266--18805368 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
18805256 TTCAAAATTT
* * *
18805266 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
18805318 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
18805369 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:18805357 original size:21 final size:22
Alignment explanation
Indices: 18805318--18805359 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18805308 TTCTCTCAAA
18805318 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
18805340 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
18805360 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:18805456 original size:29 final size:28
Alignment explanation
Indices: 18805401--18805457 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
18805391 ATTAAATTTC
18805401 ATTTTTTTAAGAAAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTT
18805429 ATTTTTTTAA-AATAATTTTAAAATTTTT
1 ATTTTTTTAAGAA-AATTTTAAAATTTTT
18805457 A
1 A
18805458 ATATTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTT
Found at i:18805464 original size:29 final size:28
Alignment explanation
Indices: 18805404--18805464 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 28
18805394 AAATTTCATT
*
18805404 TTTTTAAGAAAATTTTAAAATTTTTATT
1 TTTTTAAGAAAATTTTAAAATTTTTATA
18805432 TTTTTAA-AATAATTTTAAAATTTTTAATA
1 TTTTTAAGAA-AATTTTAAAATTTTT-ATA
18805461 TTTT
1 TTTT
18805465 CAACAATGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 2 0.07
28 22 0.73
29 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTTTAAGAAAATTTTAAAATTTTTATA
Done.