Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 100 of 213
Found at i:28116458 original size:20 final size:20
Alignment explanation
Indices: 28116416--28116471 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
28116406 AGAGCAGAAC
* * *
28116416 AGAACAAAACAGAGCATATT
1 AGAACAAAACAGAGTAAAAT
28116436 AGAACAAAACAGAGTAAAAT
1 AGAACAAAACAGAGTAAAAT
* *
28116456 AGAACAGAACATAGTA
1 AGAACAAAACAGAGTA
28116472 GAAGATGTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.59, C:0.12, G:0.16, T:0.12
Consensus pattern (20 bp):
AGAACAAAACAGAGTAAAAT
Found at i:28117365 original size:42 final size:42
Alignment explanation
Indices: 28117319--28117415 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
28117309 TGTAGAACTA
* *
28117319 GCCCGTGTGACTCCATACGATCT-AGCACACACCCGTGT-ACTT
1 GCCCGTGTG-CTCCACACGACCTGA-CACACACCCGTGTCACTT
*
28117361 GCCCGTGTG-TCCCACACGGCCTGACACACACCCGTGTCACTT
1 GCCCGTGTGCT-CCACACGACCTGACACACACCCGTGTCACTT
*
28117403 GCCTGTGTGCTCC
1 GCCCGTGTGCTCC
28117416 TAATTCGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
40 1 0.02
41 21 0.45
42 24 0.51
43 1 0.02
ACGTcount: A:0.16, C:0.39, G:0.22, T:0.23
Consensus pattern (42 bp):
GCCCGTGTGCTCCACACGACCTGACACACACCCGTGTCACTT
Found at i:28127563 original size:8 final size:7
Alignment explanation
Indices: 28127533--28127577 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
28127523 CGTAGAAGAG
28127533 GGGAAAT
1 GGGAAAT
28127540 GGGAAAT
1 GGGAAAT
28127547 GGGAAAT
1 GGGAAAT
28127554 GGGAAAAT
1 GGG-AAAT
*
28127562 GGGTTAAT
1 GGG-AAAT
28127570 GGGAAAT
1 GGGAAAT
28127577 G
1 G
28127578 TATTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.18
Consensus pattern (7 bp):
GGGAAAT
Found at i:28128310 original size:32 final size:33
Alignment explanation
Indices: 28128247--28128313 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
28128237 AACACGTTTA
*
28128247 TTTAGGTTACTCTTCTACTCTGCCTGTAATAGT
1 TTTAGGTTACTCTTCTACACTGCCTGTAATAGT
28128280 TTTAGGTTACTCTTCTACACT-CCTGTAATAGT
1 TTTAGGTTACTCTTCTACACTGCCTGTAATAGT
28128312 TT
1 TT
28128314 CAGCTGAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (33 bp):
TTTAGGTTACTCTTCTACACTGCCTGTAATAGT
Found at i:28134205 original size:18 final size:19
Alignment explanation
Indices: 28134182--28134224 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
28134172 TGTAATATTT
*
28134182 ATATTTGTCATTA-AATAA
1 ATATTTATCATTATAATAA
*
28134200 ATATTTATTATTATAATAA
1 ATATTTATCATTATAATAA
*
28134219 TTATTT
1 ATATTT
28134225 TTATTATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
ATATTTATCATTATAATAA
Found at i:28134228 original size:18 final size:19
Alignment explanation
Indices: 28134191--28134231 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
28134181 TATATTTGTC
28134191 ATTA-AATAAATATTTATT
1 ATTATAATAAATATTTATT
*
28134209 ATTATAATAATTATTT-TT
1 ATTATAATAAATATTTATT
28134227 ATTAT
1 ATTAT
28134232 TATTTAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATAATAAATATTTATT
Found at i:28135007 original size:37 final size:39
Alignment explanation
Indices: 28134910--28135007 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 39
28134900 CTTCGACCTC
* *
28134910 GAGTCGATGAAACACTGGGTGTCACTATTTTACTTCGGATA
1 GAGTCGATGAGACACTGGGTATCAC--TTTTACTTCGGATA
* * * *
28134951 GATTCGATGAGATATTGGGTATCAC-TTTACTTCGGCTA
1 GAGTCGATGAGACACTGGGTATCACTTTTACTTCGGATA
28134989 G-GTCGATGAGACACTGGGT
1 GAGTCGATGAGACACTGGGT
28135008 GCCAATCTGG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
37 15 0.31
38 13 0.27
41 20 0.42
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (39 bp):
GAGTCGATGAGACACTGGGTATCACTTTTACTTCGGATA
Found at i:28159298 original size:90 final size:91
Alignment explanation
Indices: 28159140--28159318 Score: 342
Period size: 90 Copynumber: 2.0 Consensus size: 91
28159130 ATCTAAGCTA
28159140 AAAGAATGCAATCAATCTAACATAAACAGAGTTAAGACATTATAATCAAATCTAAAGTAGAAATA
1 AAAGAATGCAATCAATCTAACATAAACAGAGTTAAGACATTATAATCAAATCTAAAGTAGAAATA
28159205 TATTTAGCAATCATGTTCATAAATCT
66 TATTTAGCAATCATGTTCATAAATCT
*
28159231 AAAG-ATGCAATCAATCTAACATAAACAGAGTTAAGCCATTATAATCAAATCTAAAGTAGAAATA
1 AAAGAATGCAATCAATCTAACATAAACAGAGTTAAGACATTATAATCAAATCTAAAGTAGAAATA
28159295 TATTTAGCAATCATGTTCATAAAT
66 TATTTAGCAATCATGTTCATAAAT
28159319 TTAGAACAAA
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 83 0.95
91 4 0.05
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (91 bp):
AAAGAATGCAATCAATCTAACATAAACAGAGTTAAGACATTATAATCAAATCTAAAGTAGAAATA
TATTTAGCAATCATGTTCATAAATCT
Found at i:28161366 original size:50 final size:51
Alignment explanation
Indices: 28161242--28161488 Score: 216
Period size: 50 Copynumber: 4.8 Consensus size: 51
28161232 GATAATAACA
* ** * * **
28161242 TGCCAAAT-CCATGTCCCAAACATGGTCTTACATGGGATGTTTC-T-TGTAC
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATATGG
* * **
28161291 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAT-TGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATATGG
* *** * *
28161341 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCT-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATATGG
* * *
28161391 TGCCAATGCCATTTCCCAGACATGGTATTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--ATGG
*
28161447 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
28161489 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.02
49 33 0.21
50 81 0.51
51 1 0.01
53 1 0.01
56 40 0.25
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATATGG
Found at i:28161422 original size:100 final size:103
Alignment explanation
Indices: 28161291--28161476 Score: 261
Period size: 100 Copynumber: 1.8 Consensus size: 103
28161281 TTTCTTGTAC
* * ** * *
28161291 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-A-T-TGGTGCCCATGCCAT
1 TGCCAATGCCATATCCCAGACATGGTATTACATGGGACCTCTCATAACTATGATGCCAATGCCAT
28161353 GTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
66 GTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
*
28161391 TGCCAATGCCATTTCCCAGACATGGTATTACATGGGACCTCTCATAACCTCAATGATGCCAATGC
1 TGCCAATGCCATATCCCAGACATGGTATTACATGGGACCTCTCATAA-CT--ATGATGCCAATGC
28161456 CATGTCCCAGACATGGTCTTA
63 CATGTCCCAGACATGGTCTTA
28161477 CATGGGATCT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 40 0.55
101 1 0.01
103 1 0.01
106 31 0.42
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (103 bp):
TGCCAATGCCATATCCCAGACATGGTATTACATGGGACCTCTCATAACTATGATGCCAATGCCAT
GTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
Found at i:28162558 original size:43 final size:43
Alignment explanation
Indices: 28162329--28162557 Score: 327
Period size: 43 Copynumber: 5.3 Consensus size: 43
28162319 CTAAGTATTT
*
28162329 GCGGCGC-TTTCACCACAAACGCCGTTAAAGACCAGGACCTTTA
1 GCGGCGCTTTTC-CCACAAACGCCGCTAAAGACCAGGACCTTTA
*
28162372 GCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAGGACCTTTA
1 GCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTA
*
28162415 GCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTA
1 GCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTA
* * * *
28162458 GCGGCGCTTTTCCCACAAATGCCGCTAAAAGATCATGACCTCTA
1 GCGGCGCTTTTCCCACAAACGCCGCT-AAAGACCAGGACCTTTA
* * *
28162502 GCGGCGCTTTTCCAAC-AACGCCGCTAAAAGACCATGACCTCTA
1 GCGGCGCTTTTCCCACAAACGCCGCT-AAAGACCAGGACCTTTA
28162545 GCGGCGCTTTTCC
1 GCGGCGCTTTTCC
28162558 ATATATTCCT
Statistics
Matches: 173, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
43 140 0.81
44 33 0.19
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.21
Consensus pattern (43 bp):
GCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTA
Found at i:28166185 original size:70 final size:70
Alignment explanation
Indices: 28166068--28166208 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
28166058 TTTATAAAAT
28166068 AAAACCTATTTTTGCAAATCCAACCATCCAATATACAATTAAGTCATTAATAACAACAATTAAAA
1 AAAACCTATTTTTGCAAATCCAACCATCCAATATACAATTAAGTCATTAATAACAACAATTAAAA
28166133 CTTTA
66 CTTTA
* *
28166138 AAAACCTATTTTTGCAAATCCAACCATCCAATATACAATTAATTCATTAATAACAACAATTAAAC
1 AAAACCTATTTTTGCAAATCCAACCATCCAATATACAATTAAGTCATTAATAACAACAATTAAAA
28166203 CTTTA
66 CTTTA
28166208 A
1 A
28166209 TTTAACACAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (70 bp):
AAAACCTATTTTTGCAAATCCAACCATCCAATATACAATTAAGTCATTAATAACAACAATTAAAA
CTTTA
Found at i:28167050 original size:2 final size:2
Alignment explanation
Indices: 28167043--28167117 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
28167033 GAAAACAAGC
28167043 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
28167085 GA GA 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 GA GA G
28167118 CTCTCAATTC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:28172399 original size:28 final size:28
Alignment explanation
Indices: 28172336--28172489 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
28172326 ATATTAAGTC
* *
28172336 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
28172363 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
28172391 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
28172419 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
28172447 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
28172475 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28172490 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:28183638 original size:30 final size:29
Alignment explanation
Indices: 28183578--28183638 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
28183568 GCTTTTTGAA
* *
28183578 AATATTTACAAAAGAGGCATCTAATGTTT
1 AATATTTACAAAAGAGGCACCAAATGTTT
*
28183607 AATATTTACAAAA-AGAGCAACCAAATTTTT
1 AATATTTACAAAAGAG-GC-ACCAAATGTTT
28183637 AA
1 AA
28183639 AAATAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 15 0.56
30 10 0.37
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (29 bp):
AATATTTACAAAAGAGGCACCAAATGTTT
Found at i:28190363 original size:3 final size:3
Alignment explanation
Indices: 28190355--28190390 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
28190345 TATGCTCCAA
28190355 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
28190391 TAAAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:28195685 original size:28 final size:28
Alignment explanation
Indices: 28195578--28195682 Score: 124
Period size: 28 Copynumber: 3.8 Consensus size: 28
28195568 GTAATAGTAT
*
28195578 AGTGTGGGCCCTAGCTCAATACAGTAA-C
1 AGTGTGGGCCTTAGCTCAATACAG-AATC
* * * *
28195606 AATATGGGCCTTAGCCCAATACAGAATT
1 AGTGTGGGCCTTAGCTCAATACAGAATC
*
28195634 AGTGTGGGCCTTAG-TCCAATATAGAATC
1 AGTGTGGGCCTTAGCT-CAATACAGAATC
28195662 AGTGTGGGCCTTAGCTCAATA
1 AGTGTGGGCCTTAGCTCAATA
28195683 TAGTAACAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
27 2 0.03
28 61 0.95
29 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCTCAATACAGAATC
Found at i:28195824 original size:26 final size:26
Alignment explanation
Indices: 28195795--28195849 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
28195785 AACACACCAA
* * *
28195795 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCACAGCAAAACTGCCAGTAACAG
28195821 TATCACAGCAAAACTGCCAGTAACAG
1 TATCACAGCAAAACTGCCAGTAACAG
28195847 TAT
1 TAT
28195850 ATGTGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (26 bp):
TATCACAGCAAAACTGCCAGTAACAG
Found at i:28196103 original size:27 final size:27
Alignment explanation
Indices: 28196081--28196275 Score: 238
Period size: 27 Copynumber: 7.3 Consensus size: 27
28196071 AGGGGTATAA
28196081 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
28196108 CGGTCATTCTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
28196135 CGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
28196162 CAATCATTTAACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
28196189 CAGTCAATTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
28196216 CAGTCATTTTACCCTAT---GGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
28196240 CGGTCAATTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
*
28196267 CGGTCATTT
1 CAGTCATTT
28196276 ATTGACCTCT
Statistics
Matches: 149, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
24 22 0.15
26 1 0.01
27 126 0.85
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:28196157 original size:81 final size:79
Alignment explanation
Indices: 28196057--28196276 Score: 277
Period size: 81 Copynumber: 2.8 Consensus size: 79
28196047 GCCATAACAA
**
28196057 TCATTTTATCTCCTA-GGGGTATAACAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACC
1 TCATTTTA-C-CCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATT-TACC
* *
28196121 CTATGGGGGTATTTCGG
63 CTATAGGGGTATTTCAG
* * *
28196138 TCATTTTACCCTATGGGGGTATTTCAATCATTTAACCCTATGAGGGTATTTCAGTCAATTTACCC
1 TCATTTTACCCTAT-GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTC-ATTTACCC
28196203 TATAGGGGTATTTCAG
64 TATAGGGGTATTTCAG
* *
28196219 TCATTTTACCCTAT--GGTATTTCGGTCAATTTACCCTAT-AGGGGTATTTCGGTCATTTA
1 TCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGA-GGGTATTTCGGTCATTTA
28196277 TTGACCTCTC
Statistics
Matches: 123, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
77 6 0.05
78 32 0.26
79 4 0.03
80 1 0.01
81 77 0.63
82 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.40
Consensus pattern (79 bp):
TCATTTTACCCTATGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTACCCTA
TAGGGGTATTTCAG
Found at i:28200682 original size:12 final size:13
Alignment explanation
Indices: 28200665--28200694 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
28200655 AAAATCACAA
28200665 AATAAT-AAAAAG
1 AATAATGAAAAAG
28200677 AATAATGAAAAAG
1 AATAATGAAAAAG
28200690 AATAA
1 AATAA
28200695 AAATAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (13 bp):
AATAATGAAAAAG
Found at i:28201394 original size:40 final size:40
Alignment explanation
Indices: 28201350--28201430 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
28201340 TATTAATAGT
*
28201350 AATTAAAACTAAATGAATGAAACAATTGTTTGCCTAGAAC
1 AATTAAAACTAAATGAATGAAACAATTGTTTGCCCAGAAC
28201390 AATTAAAACTAAATGAATGAAACAATTGTTTGCCCAGAAC
1 AATTAAAACTAAATGAATGAAACAATTGTTTGCCCAGAAC
28201430 A
1 A
28201431 TTCATAACGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (40 bp):
AATTAAAACTAAATGAATGAAACAATTGTTTGCCCAGAAC
Found at i:28203005 original size:26 final size:28
Alignment explanation
Indices: 28202976--28203037 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
28202966 TCTCATCCTT
28202976 ATTTTAACCCCAG-TAAA-ATTTTGACG
1 ATTTTAACCCCAGATAAATATTTTGACG
* * *
28203002 ATTTT-ACCCCCGATAAATTTTTTGATG
1 ATTTTAACCCCAGATAAATATTTTGACG
28203029 ATTTTAACC
1 ATTTTAACC
28203038 TTTATAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 6 0.20
26 9 0.30
27 12 0.40
28 3 0.10
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (28 bp):
ATTTTAACCCCAGATAAATATTTTGACG
Found at i:28216581 original size:28 final size:27
Alignment explanation
Indices: 28216550--28216602 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
28216540 CTATTGTGAA
28216550 TATGCTAGAAAAAAGAAGCTTCTGTGTC
1 TATG-TAGAAAAAAGAAGCTTCTGTGTC
* * *
28216578 TATGTATAAAAAGGAAGCTTTTGTG
1 TATGTAGAAAAAAGAAGCTTCTGTG
28216603 GTTATCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (27 bp):
TATGTAGAAAAAAGAAGCTTCTGTGTC
Found at i:28216596 original size:27 final size:26
Alignment explanation
Indices: 28216558--28216649 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 26
28216548 AATATGCTAG
* *
28216558 AAAAAAGAAGCTTCTGTGTCTATGTAT
1 AAAAAGGAAGCTT-TGTGTCTATCTAT
28216585 AAAAAGGAAGCTTTTGTGGT-TATCTAT
1 AAAAAGGAAGC-TTTGT-GTCTATCTAT
*
28216612 AAAAAGGAAGTCTTTGTGACTATCTAT
1 AAAAAGGAAG-CTTTGTGTCTATCTAT
* *
28216639 GAGAAGGAAGC
1 AAAAAGGAAGC
28216650 CTTCGTGGAG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
26 2 0.04
27 49 0.88
28 5 0.09
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAAGGAAGCTTTGTGTCTATCTAT
Found at i:28223258 original size:27 final size:26
Alignment explanation
Indices: 28223228--28223334 Score: 65
Period size: 27 Copynumber: 4.0 Consensus size: 26
28223218 AATGCATTTG
28223228 TGGCGAATCATGAAGGGATAGCCTCTT
1 TGGCGAATCATGAA-GGATAGCCTCTT
* * * * * *
28223255 TGGCAAACCTTGCAATGATAGCCTATG
1 TGGCGAATCATG-AAGGATAGCCTCTT
* * *
28223282 TGGCATAAT-ATGAAAGAAATGCCT-TT
1 TGGC-GAATCATGAAGGATA-GCCTCTT
28223308 GTGGCGAATCATGAAGGGATAGCCTCT
1 -TGGCGAATCATGAA-GGATAGCCTCT
28223335 ATGGTGAACC
Statistics
Matches: 58, Mismatches: 15, Indels: 13
0.67 0.17 0.15
Matches are distributed among these distances:
26 9 0.16
27 41 0.71
28 8 0.14
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (26 bp):
TGGCGAATCATGAAGGATAGCCTCTT
Found at i:28223379 original size:81 final size:80
Alignment explanation
Indices: 28223212--28223389 Score: 205
Period size: 81 Copynumber: 2.2 Consensus size: 80
28223202 AACATGTTAG
* * ** * *
28223212 GAAAGGAATGCATTTGTGGCGAATCATGAAGGGATAGCCTCTTTGGCAAACCTTGCAATGATAGC
1 GAAA-GAATGCCTTTGTGGCGAATCATGAAGGGATAGCCTCTATGGCAAACCCCGCAACGATAAC
*
28223277 CTATGTGGCATAATAT
65 CTATGTGGCAGAATAT
**
28223293 GAAAGAAATGCCTTTGTGGCGAATCATGAAGGGATAGCCTCTATGGTGAACCCCGCAACGA-AAC
1 GAAAG-AATGCCTTTGTGGCGAATCATGAAGGGATAGCCTCTATGGCAAACCCCGCAACGATAAC
* * *
28223357 CTTTGTGGCGGAATGT
65 CTATGTGGCAGAATAT
*
28223373 GAAAAGAATGTCTTTGT
1 G-AAAGAATGCCTTTGT
28223390 CACAAACTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 26 0.32
81 56 0.68
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (80 bp):
GAAAGAATGCCTTTGTGGCGAATCATGAAGGGATAGCCTCTATGGCAAACCCCGCAACGATAACC
TATGTGGCAGAATAT
Found at i:28224649 original size:18 final size:18
Alignment explanation
Indices: 28224626--28224667 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
28224616 TATTACATGT
28224626 TTAGTACCTCATACTAAA
1 TTAGTACCTCATACTAAA
28224644 TTAGTACCTCATACTAAA
1 TTAGTACCTCATACTAAA
28224662 TTAGTA
1 TTAGTA
28224668 GAATTAGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (18 bp):
TTAGTACCTCATACTAAA
Found at i:28230247 original size:26 final size:25
Alignment explanation
Indices: 28230207--28230262 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
28230197 ATAATTTGTA
* * *
28230207 ATAAATTATATAAATAAATAATAAT
1 ATAAAATATAAAAATAAATAAAAAT
*
28230232 AGTAAAATATAAAAATACATAAAAAT
1 A-TAAAATATAAAAATAAATAAAAAT
28230258 ATAAA
1 ATAAA
28230263 TAAATGAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
ATAAAATATAAAAATAAATAAAAAT
Found at i:28231986 original size:15 final size:15
Alignment explanation
Indices: 28231966--28231999 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
28231956 TTTTTATTAT
*
28231966 TTTTATTTGATTTGA
1 TTTTATTTGATTTAA
*
28231981 TTTTATTTTATTTAA
1 TTTTATTTGATTTAA
28231996 TTTT
1 TTTT
28232000 GGGCCCGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTATTTGATTTAA
Found at i:28247741 original size:40 final size:39
Alignment explanation
Indices: 28247693--28247802 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 39
28247683 TGGCGTTTGG
28247693 ACAAAAAACGCCGCTAAAAATCGAGCATTAGAGGTGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGAGGTGC-TT
* * * *
28247733 ACATAAAACGCCGCTAAATAGCGAGCATTAGCGGTGCTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGAGGTGCTT
* * *
28247772 CCAAAAAAGCGCCGTTAAAAAT-TAGCATTAG
1 ACAAAAAA-CGCCGCTAAAAATCGAGCATTAG
28247803 CAGCGTTTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 16 0.27
40 43 0.73
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (39 bp):
ACAAAAAACGCCGCTAAAAATCGAGCATTAGAGGTGCTT
Found at i:28247926 original size:41 final size:41
Alignment explanation
Indices: 28247871--28248061 Score: 249
Period size: 41 Copynumber: 4.7 Consensus size: 41
28247861 CATTTGGTGC
* * *
28247871 TTTAGCGGCGTTTTTTCAAAAGCGCCGCTAATGCTTAGGCT
1 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
* *
28247912 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCATGCT
1 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
* *** *
28247953 TTTAGCGGCATTTTTGAAAAAGCATTGCTAATGCTTAGGCT
1 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
*
28247994 TTTAGCGGCA-TTTTTGAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
* * *
28248034 TTTAGCGGCGTTTTTGATAAAGCGCCGC
1 TTTAGCGGCATTTTTTAAAAAGCGCCGC
28248062 AAAAACATTT
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
40 33 0.26
41 96 0.74
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:28248027 original size:81 final size:82
Alignment explanation
Indices: 28247897--28248056 Score: 286
Period size: 81 Copynumber: 2.0 Consensus size: 82
28247887 CAAAAGCGCC
*
28247897 GCTAATGCTTAGGCTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCATGCTTTTAGCGGC
1 GCTAATGCTTAGGCTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGC
28247962 ATTTTTGAAAAAGCATT
66 ATTTTTGAAAAAGCATT
28247979 GCTAATGCTTAGGCTTTTAGCGGCATTTTTG-AAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGC
1 GCTAATGCTTAGGCTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGC
* *
28248043 GTTTTTGATAAAGC
66 ATTTTTGAAAAAGC
28248057 GCCGCAAAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 44 0.59
82 31 0.41
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (82 bp):
GCTAATGCTTAGGCTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGC
ATTTTTGAAAAAGCATT
Found at i:28248402 original size:14 final size:14
Alignment explanation
Indices: 28248385--28248421 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
28248375 GGTTTTAATA
*
28248385 TATATGTTTTAGGG
1 TATATGGTTTAGGG
28248399 TATATGGTTTAGGG
1 TATATGGTTTAGGG
28248413 TATATGGTT
1 TATATGGTT
28248422 AATTTAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:28249484 original size:7 final size:7
Alignment explanation
Indices: 28249472--28249542 Score: 83
Period size: 7 Copynumber: 10.0 Consensus size: 7
28249462 CCGTTCCCTT
28249472 TCCTTTC
1 TCCTTTC
28249479 TCCTTTC
1 TCCTTTC
28249486 TCCTTTC
1 TCCTTTC
28249493 TCCTTTC
1 TCCTTTC
28249500 TCCTTTC
1 TCCTTTC
28249507 TCCTATTAC
1 TCCT-TT-C
28249516 -CCTTTC
1 TCCTTTC
* *
28249522 CCCTCTC
1 TCCTTTC
28249529 -CCTTTC
1 TCCTTTC
28249535 TCTCTTTC
1 TC-CTTTC
28249543 CTCTTCACCT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
6 6 0.11
7 40 0.70
8 10 0.18
9 1 0.02
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.52
Consensus pattern (7 bp):
TCCTTTC
Found at i:28251644 original size:28 final size:28
Alignment explanation
Indices: 28251581--28251759 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
28251571 ATATTAAGTC
*
28251581 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
28251608 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
28251636 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
28251664 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
28251692 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
28251720 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
28251749 CGCACACTTAG
1 CGCACACTTAG
28251760 CGCCAATCTC
Statistics
Matches: 143, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 22 0.15
28 105 0.73
29 16 0.11
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:28259859 original size:28 final size:28
Alignment explanation
Indices: 28259796--28260001 Score: 326
Period size: 28 Copynumber: 7.4 Consensus size: 28
28259786 ATATTAAGTC
*
28259796 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
28259823 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
28259851 CGCACACTTAG-GCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
28259878 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
28259906 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
28259934 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
28259962 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
28259991 CGCACACTTAG
1 CGCACACTTAG
28260002 CGCCAATCTC
Statistics
Matches: 167, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
27 49 0.29
28 102 0.61
29 16 0.10
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:28269840 original size:27 final size:27
Alignment explanation
Indices: 28269809--28269986 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
28269799 TAAATTGTAC
28269809 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
28269836 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
28269862 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
28269890 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
28269918 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28269945 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
28269972 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28269987 GACTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 2 0.02
27 103 0.79
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:28269977 original size:82 final size:81
Alignment explanation
Indices: 28269806--28269986 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
28269796 GATTAAATTG
*
28269806 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
28269871 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
28269887 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
28269950 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
28269969 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
28269987 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:28272704 original size:14 final size:14
Alignment explanation
Indices: 28272685--28272736 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
28272675 TAATAGACAC
*
28272685 AATTTTAACAAATA
1 AATTTTAACAATTA
28272699 AATTTTAACAATGTTA
1 AATTTTAACAA--TTA
*
28272715 AATATTAACAATTA
1 AATTTTAACAATTA
28272729 AATTTTAA
1 AATTTTAA
28272737 TTTTTAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 21 0.64
16 12 0.36
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (14 bp):
AATTTTAACAATTA
Found at i:28277929 original size:43 final size:41
Alignment explanation
Indices: 28277821--28277929 Score: 132
Period size: 40 Copynumber: 2.6 Consensus size: 41
28277811 TTCTTCTATT
*
28277821 TGCTCCACTGCAACTTCAGGGAGATAAGACTATATGTGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTATATGTAATC
* * *
28277862 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTATGATTTAATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTAT-ATGTAAT-C
*
28277905 T-CTCCACTGTAACTTCAGGGAGATA
1 TGCTCCACTGCAACTTCAGGGAGATA
28277930 GGATTTTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 22 0.39
41 8 0.14
42 7 0.12
43 20 0.35
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (41 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTATATGTAATC
Found at i:28278537 original size:175 final size:175
Alignment explanation
Indices: 28278245--28278679 Score: 696
Period size: 175 Copynumber: 2.5 Consensus size: 175
28278235 AAGACTGATG
** *
28278245 TCTTCGATCTGCTT-TGCTACCAGTACAGGAAGGCAAGATCTG-TCATTTTCGACCTACTCCACT
1 TCTTCGATCTGCTTCT-CTGTCAGTACAGGAAGGCAAGATCTGCT-A-TTTCAACCTACTCCACT
*
28278308 GCTGCCCAGGGAGACAAGGCTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATC
63 ACTGCCCAGGGAGACAAGGCTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATC
28278373 TACTATTTTCAACCTGCTCCACTACTGCCCAGGGAGACAAGGCTGGTA
128 TACTATTTTCAACCTGCTCCACTACTGCCCAGGGAGACAAGGCTGGTA
* *
28278421 TCTTCGA-CTTGCTTCTCTGTCAGTACAGGAAGGAAAGATCTGCTATTTCAACCTGCTCCACTAC
1 TCTTCGATC-TGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTCAACCTACTCCACTAC
* *
28278485 TGCCCAGGGGGACAAGGCTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTG
65 TGCCCAGGGAGACAAGGCTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTA
* * *
28278550 CTATTTTGAAGCTGCTCCACTACTGCCCAGGGGGACAAGGCTGGTA
130 CTATTTTCAACCTGCTCCACTACTGCCCAGGGAGACAAGGCTGGTA
*
28278596 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTCAACCTACTCCACTACC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTCAACCTACTCCACTACT
*
28278661 GCCTAGGGAGACAAGGCTG
66 GCCCAGGGAGACAAGGCTG
28278680 AAGTTTTACC
Statistics
Matches: 239, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
175 200 0.84
176 37 0.15
177 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (175 bp):
TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTCAACCTACTCCACTACT
GCCCAGGGAGACAAGGCTGGTATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTAC
TATTTTCAACCTGCTCCACTACTGCCCAGGGAGACAAGGCTGGTA
Found at i:28278702 original size:88 final size:88
Alignment explanation
Indices: 28278245--28278679 Score: 682
Period size: 88 Copynumber: 5.0 Consensus size: 88
28278235 AAGACTGATG
** * *
28278245 TCTTCGATCTGCTT-TGCTACCAGTACAGGAAGGCAAGATCTG-TCATTTTCGACCTACTCCACT
1 TCTTCGATCTGCTTCT-CTGTCAGTACAGGAAGGCAAGATCTGCT-ATTTTCAACCTGCTCCACT
*
28278308 GCTGCCCAGGGAGACAAGGCTGGTA
64 ACTGCCCAGGGAGACAAGGCTGGTA
*
28278333 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTACTATTTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTAC
28278398 TGCCCAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
*
28278421 TCTTCGA-CTTGCTTCTCTGTCAGTACAGGAAGGAAAGATCTGCTA-TTTCAACCTGCTCCACTA
1 TCTTCGATC-TGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTA
*
28278484 CTGCCCAGGGGGACAAGGCTGGTA
65 CTGCCCAGGGAGACAAGGCTGGTA
* *
28278508 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTGAAGCTGCTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTAC
*
28278573 TGCCCAGGGGGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
*
28278596 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTA-TTTCAACCTACTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTAC
* *
28278660 CGCCTAGGGAGACAAGGCTG
66 TGCCCAGGGAGACAAGGCTG
28278680 AAGTTTTACC
Statistics
Matches: 324, Mismatches: 18, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
87 117 0.36
88 205 0.63
89 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTAC
TGCCCAGGGAGACAAGGCTGGTA
Found at i:28287066 original size:9 final size:9
Alignment explanation
Indices: 28287054--28287120 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
28287044 TTTTGTTAAA
28287054 AATTAACCG
1 AATTAACCG
28287063 AATTAACCG
1 AATTAACCG
28287072 AATT-ACCTG
1 AATTAACC-G
*
28287081 AATTAATCG
1 AATTAACCG
*
28287090 AATTACCCG
1 AATTAACCG
*
28287099 AATTAATCG
1 AATTAACCG
28287108 AATTAACCG
1 AATTAACCG
28287117 AATT
1 AATT
28287121 GAATCACTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
8 3 0.06
9 45 0.90
10 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:28287246 original size:18 final size:18
Alignment explanation
Indices: 28287223--28287266 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
28287213 AATTTTTATG
*
28287223 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGAATA
28287241 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
28287259 CTTGGGTT
1 ATTGGGTT
28287267 TGGATTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:28287855 original size:24 final size:24
Alignment explanation
Indices: 28287822--28287869 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
28287812 AATTTAACAT
*
28287822 CATATAAACATTATCATATATCTA
1 CATATAAACATTACCATATATCTA
*
28287846 CATATGAACATTACCATATATCTA
1 CATATAAACATTACCATATATCTA
28287870 TGCCTTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (24 bp):
CATATAAACATTACCATATATCTA
Found at i:28291640 original size:50 final size:49
Alignment explanation
Indices: 28291514--28291754 Score: 225
Period size: 50 Copynumber: 4.9 Consensus size: 49
28291504 TGAATATAAC
* * * * ** *
28291514 ATGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGTTTC-T-TG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTG
* * **
28291561 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATACTG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTG
* * ** *
28291613 ATGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTG
* * *
28291662 AGTGCCAATGCCATGTCCCAAACATGGTCATACATGGGACCTCTTATCTCG
1 A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-G
* * *
28291713 GTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC
28291755 ATTCCCTTAA
Statistics
Matches: 156, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 115 0.74
51 1 0.01
52 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTG
Found at i:28299466 original size:26 final size:25
Alignment explanation
Indices: 28299436--28299522 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
28299426 AATTCATATT
28299436 CAGGAATGCTCATCTGAG-CATATAAA
1 CAGGAA-GCTCATCTGAGCCATAT-AA
*
28299462 CAGGAAGCTCTCTCTCGAGCCATATAA
1 CAGGAAGCTC-ATCT-GAGCCATATAA
* **
28299489 CAGGAAGCTCATCTGAACTGTATAA
1 CAGGAAGCTCATCTGAGCCATATAA
*
28299514 CGGGAAGCT
1 CAGGAAGCT
28299523 TATTCAAGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
25 20 0.38
26 12 0.23
27 15 0.29
28 5 0.10
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (25 bp):
CAGGAAGCTCATCTGAGCCATATAA
Found at i:28299519 original size:25 final size:25
Alignment explanation
Indices: 28299484--28299550 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
28299474 TCTCGAGCCA
*
28299484 TATAACAGGAAGCTCATCTGAA-CTG
1 TATAACAGGAAGCTCAT-TCAAGCTG
* *
28299509 TATAACGGGAAGCTTATTCAAGCTG
1 TATAACAGGAAGCTCATTCAAGCTG
*
28299534 TATACCAGGAAGCTCAT
1 TATAACAGGAAGCTCAT
28299551 GCGAGCCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 3 0.09
25 32 0.91
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (25 bp):
TATAACAGGAAGCTCATTCAAGCTG
Found at i:28311002 original size:13 final size:13
Alignment explanation
Indices: 28310984--28311008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28310974 TAATGGTATA
28310984 TTGAATCCATGAC
1 TTGAATCCATGAC
28310997 TTGAATCCATGA
1 TTGAATCCATGA
28311009 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:28312762 original size:48 final size:47
Alignment explanation
Indices: 28312628--28312927 Score: 417
Period size: 46 Copynumber: 6.6 Consensus size: 47
28312618 GAAGTATATT
*
28312628 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
28312674 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
28312720 TGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGA
*
28312768 TGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
28312815 TGAATGTGAAAGTG--TATATGTGATAAGG-CTAATGGCC-ATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
* * * * *
28312858 TGAATGTG-AAGTGTATATAATGTGA-CAGG-CGAGT-GCCAACGTGA
1 TGAATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGA
*
28312902 TGGATGTGAAAGTGTATA-ATGTGATA
1 TGAATGTGAAAGTGTATATATGTGATA
28312928 TGTCCGAAGG
Statistics
Matches: 234, Mismatches: 9, Indels: 24
0.88 0.03 0.09
Matches are distributed among these distances:
42 5 0.02
43 23 0.10
44 30 0.13
45 31 0.13
46 66 0.28
47 43 0.18
48 36 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
Found at i:28312769 original size:94 final size:92
Alignment explanation
Indices: 28312628--28312927 Score: 427
Period size: 94 Copynumber: 3.3 Consensus size: 92
28312618 GAAGTATATT
*
28312628 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCATGTGATGAATGTGAAAGTGTATAT
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCATGTGATGAATGTGAAAGTGTATAT
28312693 ATGTGATAAGGCCTAATGCCGATGTGA
66 ATGTGATAAGGCCTAATGCCGATGTGA
28312720 TGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTA
*
28312784 TATACGTGATAAGGCCTAATGGCCGATGTGA
63 TATATGTGATAAGGCCTAAT-GCCGATGTGA
28312815 TGAATGTGAAAGTG--TATATGTGATAAGG-CTAATGGCCATGTGATGAATGTG-AAGTGTATAT
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCATGTGATGAATGTGAAAGTGTATAT
* * * * *
28312876 AATGTGA-CAGG-CGAGTGCCAACGTGA
66 -ATGTGATAAGGCCTAATGCCGATGTGA
*
28312902 TGGATGTGAAAGTGTATA-ATGTGATA
1 TGAATGTGAAAGTGTATATATGTGATA
28312928 TGTCCGAAGG
Statistics
Matches: 191, Mismatches: 9, Indels: 20
0.87 0.04 0.09
Matches are distributed among these distances:
87 21 0.11
88 11 0.06
89 15 0.08
90 19 0.10
91 19 0.10
92 17 0.09
93 12 0.06
94 53 0.28
95 24 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (92 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGCCGATGTGA
Found at i:28313100 original size:37 final size:37
Alignment explanation
Indices: 28313049--28313120 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
28313039 GCTCTAAAGA
* * *
28313049 CCGATGACTACGTGTGGGGATTTTGTCCGGGTAAGGC
1 CCGATAACTACGTGTGGAGATTATGTCCGGGTAAGGC
*
28313086 CCGATAACTTCGTGTGGAGATTATGTCCGGGTAAG
1 CCGATAACTACGTGTGGAGATTATGTCCGGGTAAG
28313121 ACTTCGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (37 bp):
CCGATAACTACGTGTGGAGATTATGTCCGGGTAAGGC
Found at i:28314981 original size:40 final size:40
Alignment explanation
Indices: 28314936--28315285 Score: 497
Period size: 40 Copynumber: 8.8 Consensus size: 40
28314926 GAGAATTGAG
*
28314936 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
28314976 AGTGATGTATCCGGACCAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
28315016 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
28315056 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
28315096 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
28315136 AGTGATGTATCCGGGCTAAGTGT-CGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGT-TCCGAAGAGCATTCGTGCT
28315176 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *** *
28315216 AGTGATATATCCGTG-CTAAACCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCG-GACTAAGTTCCGAAGAGCATTCGTGCT
* * * * * *
28315256 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAG
28315286 TAATCATGCT
Statistics
Matches: 285, Mismatches: 21, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
39 2 0.01
40 282 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:28317333 original size:13 final size:13
Alignment explanation
Indices: 28317315--28317339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28317305 TAATGGTATA
28317315 TTGAATCCATGAC
1 TTGAATCCATGAC
28317328 TTGAATCCATGA
1 TTGAATCCATGA
28317340 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:28319138 original size:49 final size:49
Alignment explanation
Indices: 28319024--28319387 Score: 528
Period size: 49 Copynumber: 7.6 Consensus size: 49
28319014 TATTTGAATA
* *
28319024 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
28319073 AATGTGAAAGTG--TATATATGTGATAAGGCCTTATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
28319120 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
28319169 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
28319218 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
28319265 AATATGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
28319312 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
28319361 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
28319388 TCCCGAAGGG
Statistics
Matches: 286, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
47 138 0.48
48 1 0.00
49 147 0.51
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:28319145 original size:96 final size:96
Alignment explanation
Indices: 28319024--28319387 Score: 561
Period size: 96 Copynumber: 3.8 Consensus size: 96
28319014 TATTTGAATA
*
28319024 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
28319089 TATGTGATAAGGCCTTATAGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
28319120 AATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
28319185 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
28319218 AATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
28319281 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
28319312 AATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
28319377 AATGTGATAAG
66 TATGTGATAAG
28319388 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
94 46 0.19
96 156 0.63
98 45 0.18
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:28319562 original size:37 final size:37
Alignment explanation
Indices: 28319506--28319584 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
28319496 CCGAGCTCTA
* * *
28319506 AAGACCCGATGACTACGTGTGGGGA-TATTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTA-TGTCCGGGT
*
28319543 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28319580 AAGAC
1 AAGAC
28319585 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28325918 original size:25 final size:25
Alignment explanation
Indices: 28325890--28325958 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
28325880 CAGTGAATGG
* *
28325890 GTATGCTCACTCAAGCTGTAGATCT
1 GTATGCTCACTCGAGCTGTAGATCA
* * *
28325915 GTATGCTCTCTTGAGTTGTAGATCA
1 GTATGCTCACTCGAGCTGTAGATCA
* *
28325940 CTATGCTCACACGAGCTGT
1 GTATGCTCACTCGAGCTGT
28325959 GGGTCAAAAC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTGTAGATCA
Found at i:28327670 original size:47 final size:47
Alignment explanation
Indices: 28327592--28328181 Score: 964
Period size: 47 Copynumber: 12.5 Consensus size: 47
28327582 CCCTTCGGGA
* * * * * * *
28327592 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28327639 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28327686 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28327733 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
28327780 CTTATCACACATATACACTTTCACATTCATCACATCGGATATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28327827 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28327874 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28327923 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28327970 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28328017 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28328066 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28328113 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28328160 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
28328182 TTGGCTGAAT
Statistics
Matches: 512, Mismatches: 27, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
47 421 0.82
49 91 0.18
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28327928 original size:143 final size:143
Alignment explanation
Indices: 28327592--28328181 Score: 1003
Period size: 143 Copynumber: 4.2 Consensus size: 143
28327582 CCCTTCGGGA
* * * * * * * *
28327592 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
28327655 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
28327720 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* * *
28327733 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
28327796 ACTTTCACATTCATCACATCGGATATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
*
28327861 TCGGCTATTAGGC
131 TCGGCCATTAGGC
28327874 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
28327939 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
28328004 TCGGCCATTAGGC
131 TCGGCCATTAGGC
28328017 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
28328082 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
28328147 TCGGCCATTAGGC
131 TCGGCCATTAGGC
28328160 CTTATCAC--ATATATACACTTTC
1 CTTATCACATATATATACACTTTC
28328182 TTGGCTGAAT
Statistics
Matches: 425, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
140 1 0.00
141 144 0.34
143 280 0.66
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:28339942 original size:27 final size:27
Alignment explanation
Indices: 28339912--28339966 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
28339902 TATTATAAAA
28339912 TTAA-TTAAAATTAAATATTTTAATAAT
1 TTAAGTTAAAATTAAATATTTT-ATAAT
* * *
28339939 TTAAGTTCAATTTAATTATTTTATAAT
1 TTAAGTTAAAATTAAATATTTTATAAT
28339966 T
1 T
28339967 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TTAAGTTAAAATTAAATATTTTATAAT
Found at i:28340797 original size:12 final size:12
Alignment explanation
Indices: 28340780--28340804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28340770 ATTTGGGAAG
28340780 TATAAGGAAAAT
1 TATAAGGAAAAT
28340792 TATAAGGAAAAT
1 TATAAGGAAAAT
28340804 T
1 T
28340805 CACCAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (12 bp):
TATAAGGAAAAT
Found at i:28346689 original size:40 final size:40
Alignment explanation
Indices: 28346641--28346947 Score: 542
Period size: 40 Copynumber: 7.7 Consensus size: 40
28346631 GCAAACACAT
* *
28346641 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28346681 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28346721 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28346761 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28346801 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28346841 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
28346881 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
28346921 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
28346948 ATCCAATGCT
Statistics
Matches: 253, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:28357078 original size:20 final size:20
Alignment explanation
Indices: 28357053--28357168 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
28357043 CGTCTGTGCA
28357053 GTGCCTCTGTTTGCACTTTG
1 GTGCCTCTGTTTGCACTTTG
**
28357073 GTGCCTCTAATTGCACATTT-
1 GTGCCTCTGTTTGCAC-TTTG
* * *
28357093 GTACCTCTTTTTGCACTTCG
1 GTGCCTCTGTTTGCACTTTG
* * *
28357113 ATGCCTCTGATTACACATTT-
1 GTGCCTCTGTTTGCAC-TTTG
* * *
28357133 GTGCCTCTGTCTACACTTCG
1 GTGCCTCTGTTTGCACTTTG
28357153 GTGCCTCTGTTATGCA
1 GTGCCTCTGTT-TGCA
28357169 TATTTGATGC
Statistics
Matches: 73, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
19 4 0.05
20 61 0.84
21 8 0.11
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.41
Consensus pattern (20 bp):
GTGCCTCTGTTTGCACTTTG
Found at i:28357161 original size:40 final size:40
Alignment explanation
Indices: 28357053--28357161 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
28357043 CGTCTGTGCA
* * *
28357053 GTGCCTCTGTTTGCACTTTGGTGCCTCTAATTGCACATTT
1 GTGCCTCTGTTTGCACTTCGGTGCCTCTGATTACACATTT
* * *
28357093 GTACCTCTTTTTGCACTTCGATGCCTCTGATTACACATTT
1 GTGCCTCTGTTTGCACTTCGGTGCCTCTGATTACACATTT
* *
28357133 GTGCCTCTGTCTACACTTCGGTGCCTCTG
1 GTGCCTCTGTTTGCACTTCGGTGCCTCTG
28357162 TTATGCATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.40
Consensus pattern (40 bp):
GTGCCTCTGTTTGCACTTCGGTGCCTCTGATTACACATTT
Found at i:28358425 original size:11 final size:11
Alignment explanation
Indices: 28358407--28358436 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
28358397 CGCATAGGCT
28358407 GCATGTTTTTG
1 GCATGTTTTTG
*
28358418 GTATGTTTTTG
1 GCATGTTTTTG
28358429 GCATGTTT
1 GCATGTTT
28358437 AGATGTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.27, T:0.57
Consensus pattern (11 bp):
GCATGTTTTTG
Found at i:28372952 original size:27 final size:27
Alignment explanation
Indices: 28372922--28373017 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 27
28372912 AAAAGTGAGA
28372922 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAGAAAATT
*
28372949 GAAAAAGAAATTGAGATTGAAAA-AGAAATT
1 GAAAAAGAAAATGA-A--GAAAAGA-AAATT
28372979 GAAAAAGAGAAAATCG-A-AAAAG-AAATT
1 G-AAAA-AGAAAAT-GAAGAAAAGAAAATT
28373006 GAAGAAAGAAAA
1 GAA-AAAGAAAA
28373018 GAAAATGAGT
Statistics
Matches: 58, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
26 8 0.14
27 21 0.36
28 5 0.09
29 1 0.02
30 11 0.19
31 5 0.09
32 6 0.10
33 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.20, T:0.12
Consensus pattern (27 bp):
GAAAAAGAAAATGAAGAAAAGAAAATT
Found at i:28372954 original size:39 final size:41
Alignment explanation
Indices: 28372885--28373001 Score: 118
Period size: 45 Copynumber: 2.8 Consensus size: 41
28372875 TGAAAGACGA
*
28372885 AAAAAG-AAATGAAAGAAAA-AAAATCAAAAAAG-TGAGA-G
1 AAAAAGAAAATG-AAGAAAAGAAAATCGAAAAAGATGAGATG
*
28372923 AAAAAGAAAATGAAGAAAAGAAAATTGAAAAAGAAATTGAGATTG
1 AAAAAGAAAATGAAGAAAAGAAAATCGAAAAAG--A-TGAGA-TG
*
28372968 AAAAAGAAATTGAA-AAAGAGAAAATCGAAAAAGA
1 AAAAAGAAAATGAAGAAA-AGAAAATCGAAAAAGA
28373002 AATTGAAGAA
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
38 13 0.20
39 16 0.24
43 6 0.09
44 3 0.05
45 28 0.42
ACGTcount: A:0.68, C:0.02, G:0.19, T:0.11
Consensus pattern (41 bp):
AAAAAGAAAATGAAGAAAAGAAAATCGAAAAAGATGAGATG
Found at i:28372958 original size:18 final size:18
Alignment explanation
Indices: 28372935--28373023 Score: 58
Period size: 18 Copynumber: 4.7 Consensus size: 18
28372925 AAAGAAAATG
28372935 AAGAAAAGAAAATTGAAA
1 AAGAAAAGAAAATTGAAA
* *
28372953 AAGAAATTG-AGATTGAAA
1 AAGAAA-AGAAAATTGAAA
* *
28372971 AAGAAATTGAAAA-AGAGAA
1 AAGAAA-AGAAAATTGA-AA
28372990 AATCGAAAA-AGAAATTGAAGA
1 AA--GAAAAGA-AAATTGAA-A
28373011 AAGAAAAGAAAAT
1 AAGAAAAGAAAAT
28373024 GAGTTAGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
18 25 0.45
19 17 0.30
20 5 0.09
21 9 0.16
ACGTcount: A:0.66, C:0.01, G:0.19, T:0.13
Consensus pattern (18 bp):
AAGAAAAGAAAATTGAAA
Found at i:28372959 original size:12 final size:12
Alignment explanation
Indices: 28372922--28373016 Score: 67
Period size: 13 Copynumber: 7.8 Consensus size: 12
28372912 AAAAGTGAGA
*
28372922 GAAAAAGAAAAT
1 GAAAAAGAAATT
28372934 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATT
28372949 GAAAAAGAAATT
1 GAAAAAGAAATT
28372961 G----AG--ATT
1 GAAAAAGAAATT
28372967 GAAAAAGAAATT
1 GAAAAAGAAATT
*
28372979 GAAAAAGAGAAAATC
1 G-AAAA-AG-AAATT
28372994 GAAAAAGAAATT
1 GAAAAAGAAATT
28373006 GAAGAAAGAAA
1 GAA-AAAGAAA
28373017 AGAAAATGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 25
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.06
8 2 0.03
10 2 0.03
12 18 0.27
13 19 0.28
14 12 0.18
15 10 0.15
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.13
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:28372973 original size:45 final size:46
Alignment explanation
Indices: 28372921--28373025 Score: 144
Period size: 45 Copynumber: 2.3 Consensus size: 46
28372911 AAAAAGTGAG
* *
28372921 AGAAAAAGAAAATGAAGAAA-AGAAAATTGAAAAAGAAATTG-AGAT
1 AGAAAAAGAAAATGAA-AAAGAGAAAATCGAAAAAGAAATTGAAGAA
* *
28372966 TGAAAAAGAAATTGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAA
1 AGAAAAAGAAAATGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAA
28373012 AG-AAAAGAAAATGA
1 AGAAAAAGAAAATGA
28373026 GTTAGAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 3 0.06
45 45 0.87
46 4 0.08
ACGTcount: A:0.67, C:0.01, G:0.20, T:0.12
Consensus pattern (46 bp):
AGAAAAAGAAAATGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAA
Found at i:28382651 original size:21 final size:20
Alignment explanation
Indices: 28382626--28382665 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28382616 CGCTGTAGCG
28382626 ACATCAAAGGGCTGTGTCACA
1 ACATCAAA-GGCTGTGTCACA
* *
28382647 ACATCGAAGGCTGTTTCAC
1 ACATCAAAGGCTGTGTCAC
28382666 TCTAGGGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (20 bp):
ACATCAAAGGCTGTGTCACA
Found at i:28393279 original size:18 final size:18
Alignment explanation
Indices: 28393258--28393292 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
28393248 TGAGAAAATT
28393258 AAGATTATTGAGGAGACC
1 AAGATTATTGAGGAGACC
28393276 AAGATTATTGAGGAGAC
1 AAGATTATTGAGGAGAC
28393293 TAAGCACATC
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:0.40, C:0.09, G:0.29, T:0.23
Consensus pattern (18 bp):
AAGATTATTGAGGAGACC
Found at i:28404400 original size:54 final size:55
Alignment explanation
Indices: 28404333--28404440 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 55
28404323 ATGTCATGAC
* *
28404333 ATTAAGGGAATGAGA-TCTCATGTAAGACCATGTCTGGGACATGGCATTAGCATT
1 ATTAAGGGAATGAGAGTCTCACGTAAGACCATGTCTGGGACATAGCATTAGCATT
** *
28404387 ATTAAGGTTATGAGAGGTCTCACGTAAGACCATGTCTGGGACATAGCGTTAGCA
1 ATTAAGGGAATGAGA-GTCTCACGTAAGACCATGTCTGGGACATAGCATTAGCA
28404441 CCGAGATGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 13 0.28
56 34 0.72
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (55 bp):
ATTAAGGGAATGAGAGTCTCACGTAAGACCATGTCTGGGACATAGCATTAGCATT
Found at i:28404817 original size:20 final size:20
Alignment explanation
Indices: 28404792--28404840 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
28404782 TGAATTATTT
* *
28404792 AAGTAAGCAAGTAAGTGAAC
1 AAGTAAGCAAGTAAGTAAAA
*
28404812 AAGTAAGAAAGTAAGTAAAA
1 AAGTAAGCAAGTAAGTAAAA
28404832 AAG-AAGCAA
1 AAGTAAGCAA
28404841 AGACCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAA
Found at i:28408624 original size:72 final size:72
Alignment explanation
Indices: 28408538--28408687 Score: 255
Period size: 72 Copynumber: 2.1 Consensus size: 72
28408528 ATCAAATTGT
* *
28408538 AATTTTTTATAATTTAACAATCAAAGTGTAAACTTATTAATAATTAAATGACTATAAGTATAATT
1 AATTTTTTATAATTTAACAATCAAAGTGTAAACTTATTAATAATTAAATGACCACAAGTATAATT
28408603 TACCCAA
66 TACCCAA
* * *
28408610 ATTTTTTTATAATTTAACAATTAAAGTGTAACCTTATTAATAATTAAATGACCACAAGTATAATT
1 AATTTTTTATAATTTAACAATCAAAGTGTAAACTTATTAATAATTAAATGACCACAAGTATAATT
28408675 TACCCAA
66 TACCCAA
28408682 AATTTT
1 AATTTT
28408688 AAACACATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (72 bp):
AATTTTTTATAATTTAACAATCAAAGTGTAAACTTATTAATAATTAAATGACCACAAGTATAATT
TACCCAA
Found at i:28416374 original size:166 final size:167
Alignment explanation
Indices: 28416080--28416409 Score: 590
Period size: 166 Copynumber: 2.0 Consensus size: 167
28416070 AATAGGGTCA
* *
28416080 AAAAAAATTTTATGTTCTCCGGACAAACACAAGTACCTGGATATTGTGGACTAAGGCAGAATTCT
1 AAAAAAATTTTACGTTCTCCGGACAAACACAAGTACCTGGATATAGTGGACTAAGGCAGAATTCT
*
28416145 CATCACTTGTATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
66 CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
28416210 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
131 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
* *
28416247 AAAAAAA-TTTACGTTCTCTGGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTCT
1 AAAAAAATTTTACGTTCTCCGGACAAACACAAGTACCTGGATATAGTGGACTAAGGCAGAATTCT
*
28416311 CATCACTTGGATTGAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
66 CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
*
28416376 CTATTTCTTAGAATCTGGGATGGAAACAGCGGTT
131 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTT
28416410 GGCATATAGG
Statistics
Matches: 156, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
166 149 0.96
167 7 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (167 bp):
AAAAAAATTTTACGTTCTCCGGACAAACACAAGTACCTGGATATAGTGGACTAAGGCAGAATTCT
CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
Found at i:28418763 original size:23 final size:24
Alignment explanation
Indices: 28418731--28418776 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
28418721 TTTTCATTAG
* *
28418731 TATATTTTCTTTTCTT-ATTTTCA
1 TATATATTCTTCTCTTCATTTTCA
28418754 TATATATTCTTCTCTTCATTTTC
1 TATATATTCTTCTCTTCATTTTC
28418777 GATAACACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.65
Consensus pattern (24 bp):
TATATATTCTTCTCTTCATTTTCA
Found at i:28424054 original size:53 final size:53
Alignment explanation
Indices: 28423971--28424082 Score: 188
Period size: 53 Copynumber: 2.1 Consensus size: 53
28423961 AGTTACTTCC
*
28423971 AAAAGATGTCAATTTTTTCTTTCTGTAATCCCATTTAGTTGTAGTGTATTTGT
1 AAAAGATGTCAATTTTTTCTTTCTGCAATCCCATTTAGTTGTAGTGTATTTGT
* * *
28424024 ATAAGATGTCAGTTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGT
1 AAAAGATGTCAATTTTTTCTTTCTGCAATCCCATTTAGTTGTAGTGTATTTGT
28424077 AAAAGA
1 AAAAGA
28424083 ACTTTGATGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (53 bp):
AAAAGATGTCAATTTTTTCTTTCTGCAATCCCATTTAGTTGTAGTGTATTTGT
Found at i:28425808 original size:19 final size:18
Alignment explanation
Indices: 28425780--28425819 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
28425770 TGAACAAAAC
*
28425780 TTATCTACCTAAATAAGAT
1 TTATCGACCTAAATAA-AT
28425799 TTATCGACCTAAATAAAT
1 TTATCGACCTAAATAAAT
28425817 TTA
1 TTA
28425820 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (18 bp):
TTATCGACCTAAATAAAT
Found at i:28438296 original size:24 final size:23
Alignment explanation
Indices: 28438255--28438301 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
28438245 CTAAATACTA
28438255 TTAAAAAAATAGAAAATACAAATT
1 TTAAAAAAATAGAAAATA-AAATT
* *
28438279 TTAAAAAAATATATAATAAAATT
1 TTAAAAAAATAGAAAATAAAATT
28438302 ATATAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAAAAAATAGAAAATAAAATT
Found at i:28439465 original size:14 final size:15
Alignment explanation
Indices: 28439438--28439470 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
28439428 ACAATTTTTG
*
28439438 AATAATAATTTATCA
1 AATAATAATATATCA
28439453 AATAATAA-ATATCA
1 AATAATAATATATCA
28439467 AATA
1 AATA
28439471 TTTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATAATATATCA
Found at i:28440636 original size:28 final size:27
Alignment explanation
Indices: 28440591--28440671 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 27
28440581 CAAATTTGTA
* *
28440591 AAGGGAAAAAGTGCAAAATCTAAAAAAT
1 AAGGG-AAAACTGTAAAATCTAAAAAAT
* * *
28440619 AAGGGAAATATTTTAAAATCTGAAAAAT
1 AAGGGAAA-ACTGTAAAATCTAAAAAAT
*
28440647 ATGGGAAAACTGTAAAATCTAAAAA
1 AAGGGAAAACTGTAAAATCTAAAAA
28440672 CTAGGGGACA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 17 0.39
28 27 0.61
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.21
Consensus pattern (27 bp):
AAGGGAAAACTGTAAAATCTAAAAAAT
Found at i:28442001 original size:51 final size:51
Alignment explanation
Indices: 28441937--28442275 Score: 322
Period size: 51 Copynumber: 6.7 Consensus size: 51
28441927 TATCGATGAA
* * *
28441937 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * * *
28441988 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTG-GT
* * * *
28442039 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TATTGGT
* * * * *
28442090 TACATGTGTGGTACTAAGTGAAGGCTACTA--TAGATACCGGA-AAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGT-G-TACC-GATAA-ATATTGGT
* *
28442141 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGATAAATA-TTGGT
* * *
28442191 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ATTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
28442240 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
28442276 TCGAATGATA
Statistics
Matches: 235, Mismatches: 38, Indels: 32
0.77 0.12 0.10
Matches are distributed among these distances:
49 41 0.17
50 50 0.21
51 139 0.59
52 4 0.02
53 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
Found at i:28442113 original size:102 final size:101
Alignment explanation
Indices: 28441937--28442278 Score: 394
Period size: 102 Copynumber: 3.4 Consensus size: 101
28441927 TATCGATGAA
* *
28441937 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
28442001 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGAGAAG-TTTGAG
* * * *
28442039 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
*
28442104 TAAGTGAAGGCTACTATAG-ATACCG-GAAAGCTTTG-G
66 TAAGTGAAGGCTACTAT-GTGTACCGAG-AAG-TTTGAG
* * * * *
28442140 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * * * *
28442203 ACTATGTGAAGGCTACTACGTGAACTGTA-AA-ATTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AGAAGTTTGAG
28442240 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
28442279 AATGATAAAA
Statistics
Matches: 205, Mismatches: 25, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
99 36 0.18
100 3 0.01
101 40 0.20
102 124 0.60
103 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGTTTGAG
Found at i:28444700 original size:32 final size:32
Alignment explanation
Indices: 28444631--28444707 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
28444621 TTGTATAGAG
*
28444631 TTTAATTGATTTTATAAATTATTTTACAATAG
1 TTTAATTGATTTTATAAATTATTTTACAATAA
* *
28444663 CTTAATTGATATTTCT-AATTATTTTACGAA-AA
1 TTTAATTGAT-TTTATAAATTATTTTAC-AATAA
*
28444695 TTTAATTTATTTT
1 TTTAATTGATTTT
28444708 TTATTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 3 0.08
32 29 0.76
33 6 0.16
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (32 bp):
TTTAATTGATTTTATAAATTATTTTACAATAA
Found at i:28444774 original size:11 final size:11
Alignment explanation
Indices: 28444736--28444788 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
28444726 TTTAAATATT
*
28444736 AAAAAA-TATT
1 AAAAAATTATA
28444746 AAAAAATTAT-
1 AAAAAATTATA
*
28444756 -AGAAATTATA
1 AAAAAATTATA
28444766 AAAAAATTATA
1 AAAAAATTATA
*
28444777 GAAAAA-TATA
1 AAAAAATTATA
28444787 AA
1 AA
28444789 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 8 0.22
10 11 0.31
11 17 0.47
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:28446391 original size:24 final size:24
Alignment explanation
Indices: 28446346--28446391 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
28446336 TCATATTGAG
* * *
28446346 ATTAATTTTCTATTTTTCATTTTC
1 ATTAAATTTCAATTTTACATTTTC
*
28446370 ATTAAATTTCAATTTTAGATTT
1 ATTAAATTTCAATTTTACATTT
28446392 AATTTTTGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTAAATTTCAATTTTACATTTTC
Found at i:28448040 original size:15 final size:15
Alignment explanation
Indices: 28448005--28448051 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
28447995 AAAGTATTTT
*
28448005 AAAAATATTTTTAAA
1 AAAAATTTTTTTAAA
28448020 ATAAAATTTTTTTAAA
1 A-AAAATTTTTTTAAA
* *
28448036 AAAAAGTATTTTAAA
1 AAAAATTTTTTTAAA
28448051 A
1 A
28448052 GTATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAAAATTTTTTTAAA
Found at i:28448051 original size:11 final size:11
Alignment explanation
Indices: 28448037--28448073 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
28448027 TTTTTTAAAA
28448037 AAAAGTATTTT
1 AAAAGTATTTT
28448048 AAAAGTATTTT
1 AAAAGTATTTT
*
28448059 AAAAATATTTT
1 AAAAGTATTTT
28448070 AAAA
1 AAAA
28448074 ATAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:28448079 original size:43 final size:45
Alignment explanation
Indices: 28447972--28448083 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 45
28447962 AATAAACACC
*
28447972 AAAAAAATTTTAAAAAAATAAAAAAAGTATTTTAAAAATATTTTTA
1 AAAAAAATTTTAAAAATA-AAAAAAAGTATTTTAAAAATATTTTTA
** *
28448018 AAATAAAATTTT---TTTAAAAAAAAGTATTTTAAAAGTA-TTTT-
1 AAA-AAAATTTTAAAAATAAAAAAAAGTATTTTAAAAATATTTTTA
*
28448059 AAAAATATTTTAAAAATAAAAAAAA
1 AAAAAAATTTTAAAAATAAAAAAAA
28448084 TAAAAATATT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
40 7 0.13
41 3 0.05
42 4 0.07
43 29 0.53
44 1 0.02
46 3 0.05
47 8 0.15
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (45 bp):
AAAAAAATTTTAAAAATAAAAAAAAGTATTTTAAAAATATTTTTA
Found at i:28449131 original size:198 final size:197
Alignment explanation
Indices: 28448771--28449129 Score: 488
Period size: 197 Copynumber: 1.8 Consensus size: 197
28448761 CACGTTTATA
* * * *
28448771 TCAACATTTTGATCATAATAAAGTATTTAGGCTAACAATGACATATAAGAGTTGAGGTACCAAAT
1 TCAACATTTTAATCAGAATAAAGTATTTAGACTAACAATGACATATAAAAGTTGAGGTACCAAAT
* * *
28448836 TATGTCAAAAATTAAAGCATAAAGACTGAATTTCAAATTTGAGCATAATATAGGAACCAAAACTA
66 TATGTAAAAAATTAAAGCATAAAAACTAAATTTCAAATTTGAGCATAATATAGGAACCAAAACTA
* * * *
28448901 AAATTTGACCATTTTTATATAATCTCAAAAAAGAAGTGAAAATGTTGTATATTTAGACACACGCA
131 AAATTGGACCATTATTATAAAATCTAAAAAAAGAAGTGAAAATGTTGTATATTTAGACACACGCA
28448966 TG
196 TG
* * *
28448968 TCAACATTTTAATCAGAATGAAGTATTTAGACTAA-ATTTGCCAATATAAAAGTTGAGGTACCAA
1 TCAACATTTTAATCAGAATAAAGTATTTAGACTAACA-ATGAC-ATATAAAAGTTGAGGTACCAA
* * * * * * *
28449032 ATTATGTAAAAAATTAAAGTATAAAAATTAAATTTGAAATTTGAGCA-ATTATAGGGACTAAAAT
64 ATTATGTAAAAAATTAAAGCATAAAAACTAAATTTCAAATTTGAGCATAATATAGGAACCAAAAC
*
28449096 TGAAATTGGACCATTATTATAAAATCTAAAAAAA
129 TAAAATTGGACCATTATTATAAAATCTAAAAAAA
28449130 AGTCTTTGTT
Statistics
Matches: 138, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
196 1 0.01
197 76 0.55
198 61 0.44
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (197 bp):
TCAACATTTTAATCAGAATAAAGTATTTAGACTAACAATGACATATAAAAGTTGAGGTACCAAAT
TATGTAAAAAATTAAAGCATAAAAACTAAATTTCAAATTTGAGCATAATATAGGAACCAAAACTA
AAATTGGACCATTATTATAAAATCTAAAAAAAGAAGTGAAAATGTTGTATATTTAGACACACGCA
TG
Found at i:28449283 original size:164 final size:163
Alignment explanation
Indices: 28449008--28449641 Score: 637
Period size: 164 Copynumber: 3.9 Consensus size: 163
28448998 ACTAAATTTG
28449008 CCAATATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAAATTAAATTTGAAATT
1 CCAA-ATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTAT-AAAATTAAATTTGAAATT
* * *
28449073 TGAGCA-ATTATAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAAAAAG-TCTT
64 TGAGCATATTATAGAGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAAAGAGCTT
*
28449136 TGTTTTATTATTTGGACAAATATAAAAAAGGAATGT
129 TGTTTCATTATTTGGACAAAT-TAAAAAAGGAATGT
* *
28449172 CCAAATAAAAGTTGTGGTACCAAATTATGTAAAAAAATTAAAGTATAAAATTAAATCTGAAATTT
1 CCAAATAAAAGTTGAGGTACCAAATTATGT-AAAAAATTAAAGTATAAAATTAAATTTGAAATTT
28449237 GAGCATATTATAGAGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAAGAGAGCTT
65 GAGCATATTATAGAGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAA-AGAGCTT
* * *
28449302 TCTTTCATTATTTGGACAAGTTTCATAAAAGGAATG-
129 TGTTTCATTATTTGGACAA-ATT-AAAAAAGGAATGT
* * * * *
28449338 CC---------TT-A-G-A-C-ATTTAT-T--TATATTAAAGTACAAAAATTAAATTTAAAATTT
1 CCAAATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTA-TAAAATTAAATTTGAAATTT
* * * *
28449386 GAGCATGTTATAGGGATTAAAATTGAAATTGGACCATTTTTATAAAATCTCAAAAAAAGAAGAAG
65 GAGCATATTATAGAGACTAAAATTGAAATTGGACCATTCTTATAAAATCT------AA-AA-AA-
* *
28449451 AAGAAAAAGCTTTGTTTCATTATTTGGACAAACTTCATAAAGGAATGT
121 AAG----AGCTTTGTTTCATTATTTGGACAAA-TTAAAAAAGGAATGT
* * *
28449499 CCAAATAAAAGTTAAGGTACCAAATTATGT-AAAAATTAAAGTATAAAATTAAATTTGAAATCTA
1 CCAAATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAATTAAATTTGAAATTTG
* * * *
28449563 AGCATATTATA-AGGACTAAAACTAAAATTGGACCGTTCTTATAAAATCAAAAAAGAGAAGAAGC
66 AGCATATTATAGA-GACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAA-A-AAG-AGC
28449627 TTTGTTTCATTATTT
127 TTTGTTTCATTATTT
28449642 ATATAGATGT
Statistics
Matches: 390, Mismatches: 40, Indels: 78
0.77 0.08 0.15
Matches are distributed among these distances:
148 10 0.03
149 63 0.16
151 1 0.00
152 5 0.01
153 1 0.00
154 1 0.00
155 3 0.01
156 2 0.01
157 6 0.02
158 1 0.00
160 9 0.02
161 27 0.07
163 48 0.12
164 68 0.17
165 2 0.01
166 42 0.11
167 12 0.03
168 1 0.00
169 7 0.02
170 4 0.01
171 1 0.00
172 1 0.00
173 1 0.00
174 1 0.00
175 5 0.01
176 58 0.15
177 10 0.03
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (163 bp):
CCAAATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAATTAAATTTGAAATTTG
AGCATATTATAGAGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAAAGAGCTTTG
TTTCATTATTTGGACAAATTAAAAAAGGAATGT
Found at i:28451433 original size:35 final size:35
Alignment explanation
Indices: 28451384--28451882 Score: 385
Period size: 35 Copynumber: 14.1 Consensus size: 35
28451374 ATGGCTAATA
* * * *
28451384 AATGAATTACCAGTGTTGTGGTGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
*
28451419 AGTGAAGTATCAGTGTTGTGGTGGGATGTTAAATGAATGAAG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTT--A--AAT---G
* *
28451461 AATGAAGTATCAGTGTTGTGGTAGGATATTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * * *
28451496 AATTAATTAACGGTGTTGTGGTGAGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
** ** *
28451531 AATGAAGTATTGGTGTTGTGGCAGAATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
** * *
28451566 AATGAAGAAGTATTGGTGTTATGATGGGATGTTAAATG
1 AAT---GAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * * * *
28451604 AAAGTAGTA--A-CGTTGTGGCGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
28451636 AATGAGGTATC-GATGTTGTGATAGGATGTTAAATG
1 AATGAAGTATCAG-TGTTGTGGTGGGATGTTAAATG
* ** * * * *
28451671 AATGTAGTAAAAATGTTGTAGTGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
28451706 AATGAAGTATCGGTATTGTGGTAGGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
28451741 AATAAAGTATCGGTGTTGTGGTGGGATATTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
28451776 AATAAAGTAACAATGTTGTGGTGGGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
28451811 AATGAAGTATCAGTGTTGTGGCGAGATGTTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * * *
28451846 AAAGAAGTATCAATGTTGTGGCGGAATGTTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
28451881 AA
1 AA
28451883 AAAGGATTGG
Statistics
Matches: 365, Mismatches: 84, Indels: 30
0.76 0.18 0.06
Matches are distributed among these distances:
32 22 0.06
35 279 0.76
37 1 0.00
38 32 0.09
39 2 0.01
40 1 0.00
42 28 0.08
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (35 bp):
AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
Found at i:28466234 original size:21 final size:20
Alignment explanation
Indices: 28466210--28466260 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
28466200 GTGTTGTGGC
28466210 TGCATCTGATTCTGGTGTAGA
1 TGCATCTGATT-TGGTGTAGA
* *
28466231 TGCATCTAGCTTTGTTGTAGA
1 TGCATCT-GATTTGGTGTAGA
28466252 TGCATCTGA
1 TGCATCTGA
28466261 CCGTGTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (20 bp):
TGCATCTGATTTGGTGTAGA
Found at i:28466267 original size:21 final size:21
Alignment explanation
Indices: 28466225--28466268 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
28466215 CTGATTCTGG
**
28466225 TGTAGATGCATCTAGCTTTGT
1 TGTAGATGCATCTAGCCGTGT
28466246 TGTAGATGCATCT-GACCGTGT
1 TGTAGATGCATCTAG-CCGTGT
28466267 TG
1 TG
28466269 ATTGTAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (21 bp):
TGTAGATGCATCTAGCCGTGT
Found at i:28468961 original size:22 final size:22
Alignment explanation
Indices: 28468933--28468975 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
28468923 TACATATGAG
*
28468933 CCCTGTTATATTTTCATGCGAA
1 CCCTGTTATAATTTCATGCGAA
* *
28468955 CCCTGTTGTAATTTGATGCGA
1 CCCTGTTATAATTTCATGCGA
28468976 GCTCTGAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (22 bp):
CCCTGTTATAATTTCATGCGAA
Found at i:28472889 original size:27 final size:27
Alignment explanation
Indices: 28472854--28472909 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
28472844 TTTTTTCAAA
28472854 TTTTTTATTTTTATAGCTAAAACTAAT
1 TTTTTTATTTTTATAGCTAAAACTAAT
*
28472881 TTTTTTATTTTTATAGCTAAATCTAAT
1 TTTTTTATTTTTATAGCTAAAACTAAT
28472908 TT
1 TT
28472910 AAATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTTTTATTTTTATAGCTAAAACTAAT
Found at i:28473021 original size:12 final size:12
Alignment explanation
Indices: 28473006--28473031 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28472996 TAAAATTATT
28473006 TTGAATAAAAAA
1 TTGAATAAAAAA
28473018 TTGAATAAAAAA
1 TTGAATAAAAAA
28473030 TT
1 TT
28473032 AACTTTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
TTGAATAAAAAA
Found at i:28474885 original size:228 final size:228
Alignment explanation
Indices: 28474459--28475564 Score: 1080
Period size: 228 Copynumber: 4.9 Consensus size: 228
28474449 GATTCAATAG
* * * * * * * * *
28474459 ATGCAAATCTTTGTTAAAACCCTCACTGGCAAGACCATCACCCTCGAGGTGGAGAGTTCAGACAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * * *
28474524 CATTGATAATGTGAAGGCTAAGATCCAAGATAAGGAAGGGATCCCACCGGATCAGCAGAGGCTTA
66 CATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
* * * * * *
28474589 TATTTGCTGGCAAA-CAACTTGAGGATGGCCGCACGC-TAGCCGACTACAACATTCAGAAA-GAA
131 TATTTGCTGG-AAAGCAACTTGAAGATGGTCGCAC-CTTAGCCGATTACAATATCCA-AAAGGAG
* *
28474651 TCCACCCTTCACTTGGTTCTTCGACTTCGTGGCGGC
193 TCCACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * *
28474687 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGCTCTGACAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * *
28474752 AATTGATAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGATCAGCAGAGGCTTA
66 CATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
* * * *
28474817 TCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACCTTAGCTGATTACAATATCCAAAAAGAGTCC
131 TATTTGCTGGAAAGCAACTTGAAGATGGTCGCACCTTAGCCGATTACAATATCCAAAAGGAGTCC
* * * *
28474882 ACCCTCCACCTGGTACTTCGTCTTCGAGGTGGC
196 ACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * * * * *
28474915 ATGCAAATCTTTGTCAAAACTCTCACTGGAAAGACAATTACCTTGGAGGTCGAGAGTTCGGATAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * * *
28474980 CATTGACAATGTGAAA-GCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAACAAA-GATT
66 CATTGACAATGT-AAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * ** * * *
28475043 GATTTTTGCTGGAAAACAACTTGAAGATGGAAGAACTCTT-GCCGATTATAATATCCAGAAGGAG
130 -ATATTTGCTGGAAAGCAACTTGAAGATGGTCGCAC-CTTAGCCGATTACAATATCCAAAAGGAG
* * * * * * *
28475107 TCTACTCTCCATTTGGTTCTCCGCCTTCGGGGTGGT
193 TCCACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * * * * * * *
28475143 ATGCAGATCTTTGTAAAGACTCTTACCGGAAAGACCATCACTTTGGAGGTTGAAAGTTCCGATAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * *
28475208 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGG-AGGGTATCCCCCCAGACCAGCAAAGGCTC
66 CATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGG-ATCCCACCAGACCAGCAAAGGCTT
* * * * * * * * *
28475272 ATCTTTGCTGGCAAGCAGCTCGAAGATGGTAGGACATTGGCCGACTACAATATCCAAAAGGAGTC
130 ATATTTGCTGGAAAGCAACTTGAAGATGGTCGCACCTTAGCCGATTACAATATCCAAAAGGAGTC
* * * * * * *
28475337 TACCCTTCATTTGGTGT-TGCGGCTGCGTGGTGGG
195 CACCCTCCACTTGGT-TCTTCGACTTCGTGGTGGC
* * * * *
28475371 ATGCAGATCTTTGTTAAGACTCTTACTGGAAAGACTATCA-CTCTAGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCT-TGGAGGTTGAAAGTTCAGACA
* * * *
28475435 CCATTGACAATCTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTC
65 CCATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * * * * *
28475500 ATATTTGCTGGCAAGCAACTTGAAGATGG-CAGGACATTGGCTGATTATAATATCCAAAAGGAGT
130 ATATTTGCTGGAAAGCAACTTGAAGATGGTC-GCACCTTAGCCGATTACAATATCCAAAAGGAGT
28475564 C
194 C
28475565 TACTCTGCAT
Statistics
Matches: 739, Mismatches: 125, Indels: 28
0.83 0.14 0.03
Matches are distributed among these distances:
227 18 0.02
228 708 0.96
229 13 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (228 bp):
ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
CATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
TATTTGCTGGAAAGCAACTTGAAGATGGTCGCACCTTAGCCGATTACAATATCCAAAAGGAGTCC
ACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
Found at i:28475323 original size:456 final size:455
Alignment explanation
Indices: 28474459--28475598 Score: 1264
Period size: 456 Copynumber: 2.5 Consensus size: 455
28474449 GATTCAATAG
* * * * * *
28474459 ATGCAAATCTTTGTTAAAACCCTCACTGGCAAGACCATCACCCTCGAGGTGGAGAGTTCAGACAC
1 ATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCTTAGAGGTCGAGAGTTCAGACAC
* * * * * * * *
28474524 CATTGATAATGTGAAGGCTAAGATCCAAGATAAGGAAGGGATCCCACCGGATCAGCAGAGGCTTA
66 CATTGACAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCA-AAGATTA
* * * * * * * * * * *
28474589 TATTTGCTGGCAAACAACTTGAGGATGGCCGCACGCTAGCCGACTACAACATTCAGAAAGAATCC
130 TATTTGCTGGCAAACAACTTGAAGATGGCAGAACTCTAGCCGATTATAATATCCAGAAGGAGTCT
* * * * * * * * *
28474654 ACCCTTCACTTGGTTCTTCGACTTCGTGGCGGCATGCAAATCTTTGTCAAGACTCTCACTGGAAA
195 ACTCTCCATTTGGTTCTTCGCCTTCGCGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAAA
* * *
28474719 GACAATTACCTTGGAGGTTGAAAGCTCTGACACAATTGATAATGTAAAGGCAAAGATCCAAGACA
260 GACAATCACCTTGGAGGTTGAAAGCTCCGACACAATTGACAATGTAAAGGCAAAGATCCAAGACA
* * * * *
28474784 AGGAAGGGATCCCACCAGATCAGCAGAGGCTTATCTTTGCTGGAAAGCAGCTTGAAGATGGTCGC
325 AGGAAGGGATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTAGC
* * * * *
28474849 ACCTTAGCTGATTACAATATCCAAAAAGAGTCCACCCTCCACCTGGTACTT-CGTCTTCGAGGTG
390 ACATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTGGT-CTTGCGGCTGCGAGGTG
28474913 GC
454 GC
* * * * *
28474915 ATGCAAATCTTTGTCAAAACTCTCACTGGAAAGACAATTACCTTGGAGGTCGAGAGTTCGGATAC
1 ATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCTTAGAGGTCGAGAGTTCAGACAC
* * * * * *
28474980 CATTGACAATGTGAAAGCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAACAAAGATTGA
66 CATTGACAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGATT-A
* * * *
28475045 TTTTTGCTGGAAAACAACTTGAAGATGGAAGAACTCTTGCCGATTATAATATCCAGAAGGAGTCT
130 TATTTGCTGGCAAACAACTTGAAGATGGCAGAACTCTAGCCGATTATAATATCCAGAAGGAGTCT
* * * *
28475110 ACTCTCCATTTGGTTCTCCGCCTTCGGGGTGGTATGCAGATCTTTGTAAAGACTCTTACCGGAAA
195 ACTCTCCATTTGGTTCTTCGCCTTCGCGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAAA
* * * * * *
28475175 GACCATCACTTTGGAGGTTGAAAGTTCCGATACCATTGACAATGTGAAGGCAAAGATCCAAGACA
260 GACAATCACCTTGGAGGTTGAAAGCTCCGACACAATTGACAATGTAAAGGCAAAGATCCAAGACA
* *
28475240 AGG-AGGGTATCCCCCCAGACCAGCAAAGGCTCATCTTTGCTGGCAAGCAGCTCGAAGATGGTAG
325 AGGAAGGG-ATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTAG
* * * * * ** * *
28475304 GACATTGGCCGACTACAATATCCAAAAGGAGTCTACCCTTCATTTGGTGTTGCGGCTGCGTGGTG
389 CACATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTGGTCTTGCGGCTGCGAGGTG
*
28475369 GG
454 GC
* * * * * *
28475371 ATGCAGATCTTTGTTAAGACTCTTACTGGAAAGACTATCA-CTCTAGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCT-TAGAGGTCGAGAGTTCAGACA
* * * *
28475435 CCATTGACAATCTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTC
65 CCATTGACAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAA-GATT
* * * * *
28475500 ATATTTGCTGGCAAGCAACTTGAAGATGGCAGGACAT-TGGCTGATTATAATATCCAAAAGGAGT
129 ATATTTGCTGGCAAACAACTTGAAGATGGCAGAAC-TCTAGCCGATTATAATATCCAGAAGGAGT
* *
28475564 CTACTCTGCATCTT-GTCCTTCGCCTTCGCGGTGGT
193 CTACTCTCCAT-TTGGTTCTTCGCCTTCGCGGTGGT
28475599 TTCTAGGTAA
Statistics
Matches: 563, Mismatches: 114, Indels: 14
0.81 0.16 0.02
Matches are distributed among these distances:
455 12 0.02
456 546 0.97
457 5 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (455 bp):
ATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCTTAGAGGTCGAGAGTTCAGACAC
CATTGACAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGATTAT
ATTTGCTGGCAAACAACTTGAAGATGGCAGAACTCTAGCCGATTATAATATCCAGAAGGAGTCTA
CTCTCCATTTGGTTCTTCGCCTTCGCGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAAAG
ACAATCACCTTGGAGGTTGAAAGCTCCGACACAATTGACAATGTAAAGGCAAAGATCCAAGACAA
GGAAGGGATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTAGCA
CATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTGGTCTTGCGGCTGCGAGGTGGC
Found at i:28483376 original size:25 final size:25
Alignment explanation
Indices: 28483348--28483422 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
28483338 AATCACAATT
28483348 TGGTATAAAAATTCAATAATTTGAA
1 TGGTATAAAAATTCAATAATTTGAA
** ** *
28483373 TGGT-GGATGATTAAACTAA-TT---
1 TGGTATAAAAATTCAA-TAATTTGAA
28483394 TGGTATAAAAATTCAATAATTTGAA
1 TGGTATAAAAATTCAATAATTTGAA
28483419 TGGT
1 TGGT
28483423 GGATGATTAA
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 7 0.21
22 8 0.24
24 8 0.24
25 11 0.32
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (25 bp):
TGGTATAAAAATTCAATAATTTGAA
Found at i:28483394 original size:46 final size:46
Alignment explanation
Indices: 28483344--28483437 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
28483334 TTTAAATCAC
28483344 AATTTGGTATAAAAATTCAATAATTTGAATGGTGGATGATTAAACT
1 AATTTGGTATAAAAATTCAATAATTTGAATGGTGGATGATTAAACT
28483390 AATTTGGTATAAAAATTCAATAATTTGAATGGTGGATGATTAAACT
1 AATTTGGTATAAAAATTCAATAATTTGAATGGTGGATGATTAAACT
28483436 AA
1 AA
28483438 CTTATTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (46 bp):
AATTTGGTATAAAAATTCAATAATTTGAATGGTGGATGATTAAACT
Found at i:28488248 original size:40 final size:40
Alignment explanation
Indices: 28488204--28488308 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
28488194 GTGATGTCAG
*
28488204 GGACATCAAAGTGCATT-CAGAGGCACAATTGTGCAAACAA
1 GGACACCAAAGTG-ATTACAGAGGCACAATTGTGCAAACAA
* * * * *
28488244 GGACACCAAAGTGTTTATAGGGGCACAGTTGTGCAAACAG
1 GGACACCAAAGTGATTACAGAGGCACAATTGTGCAAACAA
* *
28488284 GGACACCGAAGTGTTTACAG-GGCAC
1 GGACACCAAAGTGATTACAGAGGCAC
28488309 CGAGGAGCAA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 7 0.12
40 49 0.88
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (40 bp):
GGACACCAAAGTGATTACAGAGGCACAATTGTGCAAACAA
Found at i:28492445 original size:62 final size:59
Alignment explanation
Indices: 28492342--28492535 Score: 185
Period size: 62 Copynumber: 3.1 Consensus size: 59
28492332 TCACTTTAAG
* *
28492342 ATTAAATTAATATAATACTTATTAAGACAAATATTAGATTAAATTTAATATTAAATCTT
1 ATTAAATTAATAGAATACTTATTAAGACAAATATTAAATTAAATTTAATATTAAATCTT
* *
28492401 ATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTGTGATAATCA
1 ATTAAATTAATAGAATACTTAT-T--AAGACAAATATTAAATTAAATTTAATA-T-T-A-AAT--
28492466 CTTTAAT
57 C--T--T
* * * *
28492473 ATTAAATTAATAAAATAC-TATTAAGATAGATATTAAATTAAATTAAATATTAAATC-T
1 ATTAAATTAATAGAATACTTATTAAGACAAATATTAAATTAAATTTAATATTAAATCTT
28492530 ATTAAA
1 ATTAAA
28492536 ATATTATTAT
Statistics
Matches: 114, Mismatches: 8, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
57 7 0.06
59 20 0.18
60 1 0.01
62 26 0.23
63 1 0.01
64 4 0.04
65 2 0.02
66 4 0.04
67 1 0.01
68 26 0.23
70 2 0.02
71 3 0.03
72 17 0.15
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.41
Consensus pattern (59 bp):
ATTAAATTAATAGAATACTTATTAAGACAAATATTAAATTAAATTTAATATTAAATCTT
Found at i:28493698 original size:34 final size:34
Alignment explanation
Indices: 28493645--28493712 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
28493635 GCACAGTTGA
* * *
28493645 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGACCTAAGCCCATCTCAGTA-CAGTG
*
28493680 ACAGT-TTGGACCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGACCTAAGCCCATCTCAGTACAGTG
28493713 TCAAAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGACCTAAGCCCATCTCAGTACAGTG
Found at i:28494591 original size:12 final size:12
Alignment explanation
Indices: 28494574--28494598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28494564 AAATAAACTC
28494574 ATTAAGGATTTA
1 ATTAAGGATTTA
28494586 ATTAAGGATTTA
1 ATTAAGGATTTA
28494598 A
1 A
28494599 ACGTATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTAAGGATTTA
Found at i:28502156 original size:26 final size:26
Alignment explanation
Indices: 28502127--28502188 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
28502117 TACCTACAAT
*
28502127 AGTTTTAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
28502153 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
28502179 AGTTTCAGAA
1 AGTTTCAGAA
28502189 CACTTACAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:28509521 original size:466 final size:464
Alignment explanation
Indices: 28508647--28510486 Score: 2720
Period size: 466 Copynumber: 4.0 Consensus size: 464
28508637 GCTCAAATCC
28508647 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
1 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
*
28508712 CAAAAATTCTTACCATGCAAGAGAGATTCTATCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
66 CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
* *
28508777 CCCCTTTTTCACTTCCTTTGTTCCCCCTCCTTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
131 CCCCTTTTTCACTCCCTTTGTTCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
28508842 TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
196 TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
** * *
28508907 CAACTCATCCACTTGTTTCTCTCATCATTTTCTCTTCTCTTCCAATAGCCACCACTATTTTCACA
261 CTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTCTCTTTCAATAGCCACCACT-TTTTCACA
* *
28508972 ATTTAGTCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCACC
325 TTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCACC
* * * *
28509037 GTCACTCCTCTTTCACCCTTTTCTTGCCATTTATGCACCACCGATTGACCTCTACTTTGCCGATG
390 GTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACTTTGCCG-TG
28509102 TCGTCTCACCG
454 TCGTCTCACCG
* ** * * *
28509113 CCTCTCTTATTATTTTTATTTTTAATTTTGGCATTAAAAGCTTAGTCAAACCCCTCATTGCCACC
1 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
* *
28509178 AAAAAATTCTTACCATGCCAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
66 CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
* * * *
28509243 CCCCCTTTTCACTCCCTTCT-TATCCCCTTCATTTCATTTTCTTTCCAATGTCTCACTCCTTGCA
131 CCCCTTTTTCACTCCCTT-TGT-TCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCA
* * *
28509307 ATTTTTTCCCTTCACCCATTGACTTTTGCCATCCCATGCACCCAGACAAAATAAAATTTTTGTGT
194 ATTTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTT
* *
28509372 CTCTTCTCATCCACTTTTTTCTCTTATTATTTTCTCTTCTCTTTCAATAGCCACCACTTTTTCAC
259 CTCTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTCTCTTTCAATAGCCACCACTTTTTCAC
*
28509437 ATTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCTATACACCAC
324 ATTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCAC
* * *
28509502 TGTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGCTTGACCTCCA-TTGTCGCCG
389 CGTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACTT-T-GCCG
28509566 TTGTCGTCTCACCG
452 -TGTCGTCTCACCG
* *
28509580 CCTCTCTTATTATTTTTATTTTTAATGTCGGCATTAAAAGCTTGGTCAAACCCCTCCTTGCTGCC
1 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
* *
28509645 CAAAAATTCTTACCATGCCAGATAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
66 CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
* *
28509710 CCCCTTTTTCACTCCCTTTGTTCCCACTCATTTCCTTTTCTTTTCCATGTCTCACTCCTTGCAA-
131 CCCCTTTTTCACTCCCTTTGTTCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
* * * * *
28509774 TTTTTCCCTTCACCTATTGAACTTTGCCGTCTCATGCACCTAGACAAAATAAAAGTTTTGTTTCT
196 TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
* *
28509839 CTTCTCATCCACTTTTTTTCTCTCATCATTTTCCCTTCTC-TTCTAATAGCCACTACTTTTTCAC
261 CTTCTCATCCAC-TTTTTTCTCTCATCATTTTCTCTTCTCTTTC-AATAGCCACCACTTTTTCAC
* * *
28509903 ATTTTACCCATCTTATCACCACCTTCAACCACCATT--------AAATCACCACCCATACACTAC
324 ATTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCAC
* * * *
28509960 CGTCACTCCCCTCTCACCCTCTTCTTGCCATCTTTGCACCACCTATTGGCCTCTACTGTTGCTGT
389 CGTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACT-TTGCCGT
* *
28510025 CGTCATCTCGCCG
453 -GTCGTCTCACCG
* * * *
28510038 CCTCTC---TTA---TTATTTTTAATGTCAGCTTTGAAAGCTTGGTCAAACCTCTCCTTACCGCC
1 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
*
28510097 CAAAAATTCTTACCATGCAAAAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
66 CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
*
28510162 CCCCTTTTTCACTCCCTTTGTTCCCCCTCCTTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
131 CCCCTTTTTCACTCCCTTTGTTCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
* *
28510227 TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATACACCTAGAC-AAA-ACAA-TTTT-TTTCT
196 TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
* * * *
28510288 CTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTATCTTTCAATAACCACCAGTTTTTCAAAT
261 CTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTCTCTTTCAATAGCCACCACTTTTTCACAT
* * * *
28510353 TTTAGCCATCTTATCACCACCTTCGACCATCATTACAACACCAAATCACCACCCATACAGCACCA
326 TTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCACCG
* * * *
28510418 TCACTCCCCTTTCACCCTTTTCTTGCCATTTTTGCACCACCGCTTAACCTCTAC--TGCCGTCGT
391 TCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACTTTGCCGT-GT
28510481 CGTCTC
455 CGTCTC
28510487 GCGGCCTTTA
Statistics
Matches: 1241, Mismatches: 113, Indels: 53
0.88 0.08 0.04
Matches are distributed among these distances:
448 74 0.06
449 20 0.02
450 4 0.00
451 3 0.00
452 170 0.14
453 53 0.04
455 3 0.00
456 67 0.05
457 1 0.00
458 87 0.07
459 2 0.00
460 1 0.00
465 74 0.06
466 372 0.30
467 310 0.25
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (464 bp):
CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
CCCCTTTTTCACTCCCTTTGTTCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
CTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTCTCTTTCAATAGCCACCACTTTTTCACAT
TTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCACCG
TCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACTTTGCCGTGTC
GTCTCACCG
Found at i:28510902 original size:20 final size:20
Alignment explanation
Indices: 28510879--28510957 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
28510869 AATGAAGTTT
*
28510879 AAATGATTTTAACCAAGTCA
1 AAATGATTTCAACCAAGTCA
* *
28510899 AAATGACTTCAACCAAGTTA
1 AAATGATTTCAACCAAGTCA
* *
28510919 AAATCATTTTAA-CACA-TCA
1 AAATGATTTCAACCA-AGTCA
* *
28510938 AAATTATTTCAAACAAGTCA
1 AAATGATTTCAACCAAGTCA
28510958 GAATTGCTCT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
19 15 0.32
20 32 0.68
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATGATTTCAACCAAGTCA
Found at i:28510939 original size:39 final size:40
Alignment explanation
Indices: 28510873--28510955 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
28510863 TTTAAAAATG
* * *
28510873 AAGTTTAAATGATTTTAACCAAGTCAAAATGACTTCAACC
1 AAGTTAAAATCATTTTAACCAAGTCAAAATGACTTCAAAC
* *
28510913 AAGTTAAAATCATTTTAA-CACA-TCAAAATTATTTCAAAC
1 AAGTTAAAATCATTTTAACCA-AGTCAAAATGACTTCAAAC
28510952 AAGT
1 AAGT
28510956 CAGAATTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 20 0.54
40 17 0.46
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (40 bp):
AAGTTAAAATCATTTTAACCAAGTCAAAATGACTTCAAAC
Found at i:28519272 original size:20 final size:20
Alignment explanation
Indices: 28519243--28519327 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
28519233 AAGTTAAGTT
*
28519243 AAAATTATTTTAACCAAGAC
1 AAAATGATTTTAACCAAGAC
* **
28519263 AAAATGATTTCAACCAAGTT
1 AAAATGATTTTAACCAAGAC
* *
28519283 AAAATCATTTT-AGCACA-AC
1 AAAATGATTTTAACCA-AGAC
* *
28519302 AAAATGATTTTCAAACAAGTC
1 AAAATGATTTT-AACCAAGAC
28519323 AAAAT
1 AAAAT
28519328 TTCTCCAGTC
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
19 13 0.27
20 27 0.55
21 9 0.18
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAATGATTTTAACCAAGAC
Found at i:28519282 original size:40 final size:40
Alignment explanation
Indices: 28519238--28519328 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
28519228 TTTTAAAGTT
*
28519238 AAGTTAAAATTATTTTAACCA-AGACAAAATGA-TTTCAACC
1 AAGTTAAAATTATTTT-ACCACA-ACAAAATGATTTTCAAAC
* *
28519278 AAGTTAAAATCATTTTAGCACAACAAAATGATTTTCAAAC
1 AAGTTAAAATTATTTTACCACAACAAAATGATTTTCAAAC
*
28519318 AAGTCAAAATT
1 AAGTTAAAATT
28519329 TCTCCAGTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
39 12 0.27
40 32 0.73
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (40 bp):
AAGTTAAAATTATTTTACCACAACAAAATGATTTTCAAAC
Found at i:28519769 original size:23 final size:23
Alignment explanation
Indices: 28519734--28519779 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
28519724 GCCAAGATTG
* *
28519734 TTACCATATTGATTTTGATACTA
1 TTACCAAACTGATTTTGATACTA
28519757 TTACCAAACTGATTTTGATACTA
1 TTACCAAACTGATTTTGATACTA
28519780 AAATGCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (23 bp):
TTACCAAACTGATTTTGATACTA
Found at i:28532243 original size:13 final size:13
Alignment explanation
Indices: 28532225--28532256 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
28532215 TTTCCAGAAA
28532225 TTATGAATTTATT
1 TTATGAATTTATT
28532238 TTATGAATTTATT
1 TTATGAATTTATT
*
28532251 TGATGA
1 TTATGA
28532257 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:28545020 original size:21 final size:21
Alignment explanation
Indices: 28544994--28545034 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
28544984 TTTTAGAAAT
*
28544994 TGTTAGATTTCATGGCGTATA
1 TGTTAGATTTAATGGCGTATA
28545015 TGTTAGATTTAATGGCGTAT
1 TGTTAGATTTAATGGCGTAT
28545035 TGCTATCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (21 bp):
TGTTAGATTTAATGGCGTATA
Found at i:28548309 original size:27 final size:27
Alignment explanation
Indices: 28548279--28548431 Score: 162
Period size: 27 Copynumber: 5.7 Consensus size: 27
28548269 TTAGAGTTCG
* *
28548279 CCACAAAGACGATTCTTTCAGATTTTT
1 CCACAAAGGCTATTCTTTCAGATTTTT
28548306 CCACAAAGGCTATTCTTTCAGATTTTT
1 CCACAAAGGCTATTCTTTCAGATTTTT
* * **
28548333 CCACAAAGGCTATTCTTTCAAAGTTCA
1 CCACAAAGGCTATTCTTTCAGATTTTT
* * *
28548360 CCATAAAGGCTATTCTTTCAGAGTTCT
1 CCACAAAGGCTATTCTTTCAGATTTTT
* ** * * **
28548387 CCATAAAGATTATTCTTTTAGAGTTCG
1 CCACAAAGGCTATTCTTTCAGATTTTT
28548414 CCACAAAGGCTATTCTTT
1 CCACAAAGGCTATTCTTT
28548432 GTTGTCGTGT
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (27 bp):
CCACAAAGGCTATTCTTTCAGATTTTT
Found at i:28548348 original size:54 final size:54
Alignment explanation
Indices: 28548271--28548431 Score: 196
Period size: 54 Copynumber: 3.0 Consensus size: 54
28548261 TAGTCCATTT
* * * **
28548271 AGAGTTCGCCACAAAGACGATTCTTTCAGATTTTTCCACAAAGGCTATTCTTTC
1 AGAGTTCTCCACAAAGACTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTC
* * * * *
28548325 AGATTTTTCCACAAAGGCTATTCTTTCAAAGTTCACCATAAAGGCTATTCTTTC
1 AGAGTTCTCCACAAAGACTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTC
* * * *
28548379 AGAGTTCTCCATAAAGATTATTCTTTTAGAGTTCGCCACAAAGGCTATTCTTT
1 AGAGTTCTCCACAAAGACTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTT
28548432 GTTGTCGTGT
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (54 bp):
AGAGTTCTCCACAAAGACTATTCTTTCAGAGTTCACCACAAAGGCTATTCTTTC
Found at i:28548813 original size:22 final size:22
Alignment explanation
Indices: 28548770--28548813 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
28548760 CATATACAAC
* *
28548770 CATACTCCAACATTTCAGTACT
1 CATACACCAACATCTCAGTACT
28548792 CATACACCAATCATCTCA-TACT
1 CATACACCAA-CATCTCAGTACT
28548814 TCAATTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (22 bp):
CATACACCAACATCTCAGTACT
Done.