Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 145 of 259
Found at i:47269141 original size:17 final size:16
Alignment explanation
Indices: 47269110--47269192 Score: 66
Period size: 16 Copynumber: 5.1 Consensus size: 16
47269100 TTATATTATA
*
47269110 TATTATAAAATTATTT
1 TATTATAATATTATTT
47269126 TATTATAAGTATTA-TT
1 TATTATAA-TATTATTT
*
47269142 T-TTATATTATTATTACT
1 TATTATAATATTATT--T
47269159 TATTAT-ATATTATTTT
1 TATTATAATATTA-TTT
*
47269175 TCTTA-AATTATTATTT
1 TATTATAA-TATTATTT
47269191 TA
1 TA
47269193 CATTTCTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
14 5 0.09
15 6 0.11
16 21 0.39
17 16 0.30
18 6 0.11
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (16 bp):
TATTATAATATTATTT
Found at i:47269147 original size:31 final size:30
Alignment explanation
Indices: 47269101--47269189 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
47269091 ATTTTACTTT
*
47269101 TATATTATATATTATAAAATTATT-TTATTA
1 TATATTAT-TTTTATAAAATTATTATTATTA
**
47269131 TAAGTATTATTTTTATATTATTATTACTTATTA
1 T-A-TATTATTTTTATAAAATTATTA-TTATTA
* *
47269164 TATATTATTTTTCTTAAATTATTATT
1 TATATTATTTTTATAAAATTATTATT
47269190 TTACATTTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
30 3 0.06
31 31 0.65
32 7 0.15
33 7 0.15
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (30 bp):
TATATTATTTTTATAAAATTATTATTATTA
Found at i:47269246 original size:44 final size:43
Alignment explanation
Indices: 47269153--47269252 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 43
47269143 TTATATTATT
*
47269153 ATTACTTAT-TATA-TATTATTTTTCTTAAATTATTATTTTAC
1 ATTACTTATATATATTATTATTTTTCATAAATTATTATTTTAC
* *
47269194 ATTTCTTATATATATTATTATATTTTCATATATTA-TATTTATGA-
1 ATTACTTATATATATTATTAT-TTTTCATAAATTATTATTT-T-AC
47269238 ATTACTTATATATAT
1 ATTACTTATATATAT
47269253 ATTGTTACTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
41 8 0.16
42 4 0.08
43 11 0.22
44 26 0.52
45 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (43 bp):
ATTACTTATATATATTATTATTTTTCATAAATTATTATTTTAC
Found at i:47269929 original size:16 final size:17
Alignment explanation
Indices: 47269908--47269941 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47269898 ATTTTTTTTA
*
47269908 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
47269924 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
47269941 C
1 C
47269942 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:47273287 original size:19 final size:19
Alignment explanation
Indices: 47273263--47273302 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47273253 GATGCCTTTG
*
47273263 TTACATTCATA-CATTTGCA
1 TTACA-TCATATCATATGCA
47273282 TTACATCATATCATATGCA
1 TTACATCATATCATATGCA
47273301 TT
1 TT
47273303 CAAGGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (19 bp):
TTACATCATATCATATGCA
Found at i:47281448 original size:116 final size:119
Alignment explanation
Indices: 47281240--47281675 Score: 746
Period size: 117 Copynumber: 3.7 Consensus size: 119
47281230 ACATTTATGT
*
47281240 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTG-TTACAAGAAACAAATCGAGGACATAGTAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
*
47281304 TTTGACTCTCAGACGTTCTCAAAGATAGCAG-TCTAACCTTCAGATG-TTATAC
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATAC
*
47281356 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAAGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
47281421 TTTGACTCTCAGAC-TTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATAC
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATAC
*
47281474 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAG-AGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
47281538 TTTGACTCTCA-ACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATA-
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATAC
* *
47281590 TGAAGCAGATCC-AGATGATTTGGTATTCTTGTATTTACAAGGAACAAATCGAGGACATA-CAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
*
47281653 TTTGACTCTCAGATGTTCTCAAA
66 TTTGACTCTCAGACGTTCTCAAA
47281676 CAGACTCAAG
Statistics
Matches: 307, Mismatches: 7, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
115 60 0.20
116 73 0.24
117 109 0.36
118 65 0.21
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (119 bp):
TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA
TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATAC
Found at i:47281743 original size:80 final size:81
Alignment explanation
Indices: 47281624--47281859 Score: 367
Period size: 80 Copynumber: 3.0 Consensus size: 81
47281614 ATTCTTGTAT
* * *
47281624 TTACAAGGAACAAATCGAGGACA-TACAGATTTGACTCTCAGATGTTCTCAAACAGACTCAAGAT
1 TTACAAGGAA-AAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
47281688 GTTTGACATCCTTGTGC
65 GTTTGACATCCTTGTGC
47281705 TTACAAGGAAAAATCGAGGACATTGCAGATAT-ACTCTCAAATGTTCTCAAACAGACTCAAGATG
1 TTACAAGGAAAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT-
47281769 GTTTG-CATCCTTGTGC
65 GTTTGACATCCTTGTGC
*
47281785 TTACAAGGAACAATCGAGGAC-TTGCAGATATGACTCTCAAATGTT-TC-AACAGACTCAAGATG
1 TTACAAGGAAAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGATG
47281847 ATTTGACATCCTT
66 -TTTGACATCCTT
47281860 ACAAATAGAA
Statistics
Matches: 146, Mismatches: 4, Indels: 12
0.90 0.02 0.07
Matches are distributed among these distances:
77 1 0.01
78 18 0.12
79 19 0.13
80 86 0.59
81 22 0.15
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (81 bp):
TTACAAGGAAAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGATG
TTTGACATCCTTGTGC
Found at i:47283263 original size:7 final size:7
Alignment explanation
Indices: 47283251--47283325 Score: 61
Period size: 7 Copynumber: 11.1 Consensus size: 7
47283241 ATTTTACTTT
47283251 TATATTA
1 TATATTA
47283258 TATATTA
1 TATATTA
*
47283265 TAAAATTA
1 T-ATATTA
*
47283273 TTTATTA
1 TATATTA
*
47283280 TA-AGTA
1 TATATTA
*
47283286 T-TATTT
1 TATATTA
47283292 TA-ATTA
1 TATATTA
47283298 TATATTA
1 TATATTA
47283305 T-TATTA
1 TATATTA
47283311 CT-TATTA
1 -TATATTA
47283318 TATATTA
1 TATATTA
47283325 T
1 T
47283326 TTTTCTTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 18 0.33
7 30 0.56
8 6 0.11
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:47283303 original size:16 final size:16
Alignment explanation
Indices: 47283284--47283345 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
47283274 TTATTATAAG
47283284 TATTATTTTAATTATA
1 TATTATTTTAATTATA
47283300 TATTATTATTACTTATTATA
1 TATTATT-TTA---ATTATA
** *
47283320 TATTATTTTTCTTAAA
1 TATTATTTTAATTATA
47283336 TATTATTTTA
1 TATTATTTTA
47283346 CATCTCTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 20 0.53
17 3 0.08
19 2 0.05
20 13 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTATTTTAATTATA
Found at i:47283310 original size:53 final size:52
Alignment explanation
Indices: 47283233--47283367 Score: 125
Period size: 53 Copynumber: 2.5 Consensus size: 52
47283223 TTATTATTGT
* * *
47283233 TTATTTTAATTTTACTTTTA-TATTATATATTATAAAATTATTTATT-ATAAGTA
1 TTATTTTAATTATA-TATTATTATTATATATTAT-AAATTATTT-TTCATAAATA
* *
47283286 TTATTTTAATTATATATTATTATTACT-TATTATATATTATTTTTCTTAAATA
1 TTATTTTAATTATATATTATTATTA-TATATTATAAATTATTTTTCATAAATA
*
47283338 TTATTTTACATCTCT-TATATATTATTATAT
1 TTATTTTA-AT-TATATAT-TATTATTATAT
47283368 TTTCATATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
51 2 0.03
52 25 0.36
53 30 0.43
54 12 0.17
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (52 bp):
TTATTTTAATTATATATTATTATTATATATTATAAATTATTTTTCATAAATA
Found at i:47283397 original size:21 final size:21
Alignment explanation
Indices: 47283373--47283451 Score: 54
Period size: 21 Copynumber: 3.6 Consensus size: 21
47283363 TATATTTTCA
47283373 TATATTATATTTA-TTAATTAT
1 TATATTATATTTACTTAA-TAT
*
47283394 TATA-TATATGTTACTTTATAT
1 TATATTATAT-TTACTTAATAT
* *
47283415 TATATCTATTATTTTTCTTATATGT
1 TATAT-TA-TA-TTTACTTA-ATAT
*
47283440 TATATTACATTT
1 TATATTATATTT
47283452 TATTATATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
20 5 0.11
21 14 0.30
22 6 0.13
23 3 0.07
24 9 0.20
25 9 0.20
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (21 bp):
TATATTATATTTACTTAATAT
Found at i:47283425 original size:37 final size:35
Alignment explanation
Indices: 47283338--47283441 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 35
47283328 TTCTTAAATA
* * * *
47283338 TTATTTTACATCTCTTATATATTATTATAT-TTTC-
1 TTATATTATATCTATTAT-TATTATTATATGTTACT
* *
47283372 ATATATTATATTTATTAATTATTATATATATGTTACT
1 TTATATTATATCTATT-ATTATTAT-TATATGTTACT
* *
47283409 TTATATTATATCTATTATTTTTCTTATATGTTA
1 TTATATTATATCTATTATTATTATTATATGTTA
47283442 TATTACATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
34 17 0.30
35 16 0.29
36 9 0.16
37 14 0.25
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (35 bp):
TTATATTATATCTATTATTATTATTATATGTTACT
Found at i:47284054 original size:16 final size:17
Alignment explanation
Indices: 47284033--47284066 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47284023 ATTTTTTTTG
*
47284033 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
47284049 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
47284066 C
1 C
47284067 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:47287424 original size:19 final size:19
Alignment explanation
Indices: 47287400--47287439 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47287390 GATGCCTTTG
*
47287400 TTACATTCATA-CATTTGCA
1 TTACA-TCATATCATATGCA
47287419 TTACATCATATCATATGCA
1 TTACATCATATCATATGCA
47287438 TT
1 TT
47287440 CAAGGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (19 bp):
TTACATCATATCATATGCA
Found at i:47290347 original size:27 final size:27
Alignment explanation
Indices: 47290317--47290494 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
47290307 ATATTGAGTC
* *
47290317 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47290344 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
47290371 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47290399 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
47290426 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
47290453 CCCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
47290480 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47290495 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47290459 original size:82 final size:81
Alignment explanation
Indices: 47290338--47290493 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
47290328 TGCTATATAA
* * *
47290338 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCCCACACTTAGTGCAACATAGTCAAA-TCGCA
47290403 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47290420 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCCCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCCCACACTTAGTGCAACATAGTCAAATCGCA
47290484 CACTTAGTGC
65 CACTTAGTGC
47290494 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCCCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47293012 original size:40 final size:41
Alignment explanation
Indices: 47292927--47293022 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
47292917 AAGTCGGTAT
* **
47292927 CGCACACTTAGTGCC-TTATATAGCCGAAGCTATGCCTACT
1 CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
*
47292967 CGCACACTTAGTGCCATT-TATAGCCGAAGCTAT-ATTAAA
1 CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
47293006 CAGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
47293023 ATCATAGTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.06
40 45 0.90
41 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (41 bp):
CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
Found at i:47298637 original size:170 final size:170
Alignment explanation
Indices: 47298349--47298685 Score: 568
Period size: 170 Copynumber: 2.0 Consensus size: 170
47298339 AGACTCCCCC
* * *
47298349 TAATGGCAACATCAGATTATATCTTTGAGTCGACACATTTCAATCTTGTTTCATAGTCTTTCAAA
1 TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
* *
47298414 TGTTGAAGTTGGCAATTGCTTGGTAAAAGGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
66 TGTTAAAGTTGGCAATTGCTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
47298479 CTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAACCT
131 CTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAACCT
* *
47298519 TAATGCCAACATCAGATTATATCTTTGATTCAACACATTCCAATCTTGTTTCGTAGTCTTTCAAA
1 TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
* * *
47298584 TGTTAAAGTTGGCAA-TGCCTTGGTAAAAAGATTTGCTAAATTATCATTAGAACGAATTTTTTGA
66 TGTTAAAGTTGGCAATTG-CTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGA
47298648 ACTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAA
130 ACTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAA
47298686 GAATAATTTT
Statistics
Matches: 156, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
169 2 0.01
170 154 0.99
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (170 bp):
TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
TGTTAAAGTTGGCAATTGCTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
CTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAACCT
Found at i:47301805 original size:10 final size:9
Alignment explanation
Indices: 47301787--47301811 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47301777 AAGTATATAA
47301787 TTATTTTTT
1 TTATTTTTT
47301796 TTATTTTTT
1 TTATTTTTT
47301805 TTATTTT
1 TTATTTT
47301812 ATTTCTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTATTTTTT
Found at i:47304685 original size:22 final size:22
Alignment explanation
Indices: 47304640--47304685 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
47304630 TATGAGCTCT
*
47304640 TTACATTCAATTAGTAAATGTA
1 TTACATTCAATAAGTAAATGTA
*
47304662 TTACATTCAATGAATTAAAT-TA
1 TTACATTCAAT-AAGTAAATGTA
47304684 TT
1 TT
47304686 TTAATTACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (22 bp):
TTACATTCAATAAGTAAATGTA
Found at i:47306841 original size:34 final size:34
Alignment explanation
Indices: 47306803--47306894 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 34
47306793 TACGTATTGT
*
47306803 TTTTGAATTTTTATATATTTTTTTACATTTTA-CA
1 TTTTGAATTTTTATATATTTTTTGA-ATTTTATCA
* * * **
47306837 TTTTGAATTTTTTTGAATATTTTATGATTTTTATTT
1 TTTTGAATTTTTAT--ATATTTTTTGAATTTTATCA
47306873 TTTTGAATTTTTATATATTTTT
1 TTTTGAATTTTTATATATTTTT
47306895 ATTTTCTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 20 0.43
35 5 0.11
36 22 0.47
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (34 bp):
TTTTGAATTTTTATATATTTTTTGAATTTTATCA
Found at i:47306858 original size:26 final size:26
Alignment explanation
Indices: 47306829--47306886 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
47306819 ATTTTTTTAC
47306829 ATTTTA-CATTTTGAATTTTTTTGAAT
1 ATTTTATCATTTT-AATTTTTTTGAAT
* *
47306855 ATTTTATGATTTTTATTTTTTTGAAT
1 ATTTTATCATTTTAATTTTTTTGAAT
47306881 -TTTTAT
1 ATTTTAT
47306887 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 18 0.62
27 5 0.17
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (26 bp):
ATTTTATCATTTTAATTTTTTTGAAT
Found at i:47306892 original size:26 final size:26
Alignment explanation
Indices: 47306843--47306899 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
47306833 TACATTTTGA
47306843 ATTTTTTTGAATATTTTATGATTTTT
1 ATTTTTTTGAATATTTTATGATTTTT
*
47306869 ATTTTTTTGAAT-TTTTATATATTTTT
1 ATTTTTTTGAATATTTTAT-GATTTTT
47306895 ATTTT
1 ATTTT
47306900 CTTTTATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (26 bp):
ATTTTTTTGAATATTTTATGATTTTT
Found at i:47306898 original size:16 final size:17
Alignment explanation
Indices: 47306853--47306899 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
47306843 ATTTTTTTGA
47306853 ATATTTTATGATTTTTAT
1 ATATTTT-TGATTTTTAT
47306871 -T-TTTTTGAATTTTTAT
1 ATATTTTTG-ATTTTTAT
47306887 ATATTTTT-ATTTT
1 ATATTTTTGATTTT
47306900 CTTTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.08
16 17 0.65
17 2 0.08
18 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
ATATTTTTGATTTTTAT
Found at i:47306904 original size:21 final size:21
Alignment explanation
Indices: 47306881--47306920 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
47306871 TTTTTTGAAT
47306881 TTTTAT-ATATTTT-TATTTTC
1 TTTTATGA-ATTTTGTATTTTC
47306901 TTTTATGAATTTTGTATTTT
1 TTTTATGAATTTTGTATTTT
47306921 TAAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTATGAATTTTGTATTTTC
Found at i:47306905 original size:36 final size:36
Alignment explanation
Indices: 47306797--47306906 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 36
47306787 TTTTTTTACG
*
47306797 TATTGTTTTTGAATTTTTATATA-TTTT-TTTACATTT
1 TATT-TTTTTGAATTTTTATATATTTTTATTTTC-TTT
** * **
47306833 TA-CATTTTGAATTTTTTTGA-ATATTTTATGAT-TTT
1 TATTTTTTTGAATTTTTAT-ATAT-TTTTATTTTCTTT
47306868 TATTTTTTTGAATTTTTATATATTTTTATTTTCTTT
1 TATTTTTTTGAATTTTTATATATTTTTATTTTCTTT
47306904 TAT
1 TAT
47306907 GAATTTTGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
34 14 0.25
35 14 0.25
36 27 0.48
37 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (36 bp):
TATTTTTTTGAATTTTTATATATTTTTATTTTCTTT
Found at i:47310491 original size:26 final size:23
Alignment explanation
Indices: 47310461--47310508 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
47310451 ACTGCATATT
47310461 ATGCACATGTATATTAATATTATGTC
1 ATGCACAT-TATA-T-ATATTATGTC
*
47310487 ATGCATATTATATATATTATGT
1 ATGCACATTATATATATTATGT
47310509 ACATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
25 4 0.19
26 7 0.33
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (23 bp):
ATGCACATTATATATATTATGTC
Found at i:47310494 original size:20 final size:22
Alignment explanation
Indices: 47310456--47310501 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
47310446 ATAATACTGC
*
47310456 ATATTATGCACATGTATATTA-
1 ATATTATGCACATGCATATTAT
*
47310477 ATATTATG-TCATGCATATTAT
1 ATATTATGCACATGCATATTAT
47310498 ATAT
1 ATAT
47310502 ATTATGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
ATATTATGCACATGCATATTAT
Found at i:47310683 original size:25 final size:26
Alignment explanation
Indices: 47310650--47310704 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
47310640 TATATATATA
47310650 TTTTAATACCATATG-TATTATTATCG
1 TTTTAATACCAT-TGCTATTATTATCG
* *
47310676 TTTT-ATACTATTGCTATTATTATTG
1 TTTTAATACCATTGCTATTATTATCG
47310701 TTTT
1 TTTT
47310705 CGTCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 20 0.77
26 4 0.15
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTTAATACCATTGCTATTATTATCG
Found at i:47312612 original size:19 final size:19
Alignment explanation
Indices: 47312590--47312650 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
47312580 ATATATAAAA
47312590 TTTTTTAAAATATTATTAT
1 TTTTTTAAAATATTATTAT
47312609 TTTTTTATGAAAT-TGT-TTA-
1 TTTTTTA--AAATAT-TATTAT
47312628 TTTTTT-AAATATTAATTAT
1 TTTTTTAAAATATT-ATTAT
47312647 TTTT
1 TTTT
47312651 AAATTTCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
16 5 0.14
17 1 0.03
18 3 0.09
19 17 0.49
20 4 0.11
21 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTTAAAATATTATTAT
Found at i:47316614 original size:23 final size:23
Alignment explanation
Indices: 47316584--47316654 Score: 133
Period size: 23 Copynumber: 3.1 Consensus size: 23
47316574 TGATAGGCGA
47316584 TTACTAATTAAATTATATAGGAT
1 TTACTAATTAAATTATATAGGAT
*
47316607 TTACTAATTAAATTATATAGGGT
1 TTACTAATTAAATTATATAGGAT
47316630 TTACTAATTAAATTATATAGGAT
1 TTACTAATTAAATTATATAGGAT
47316653 TT
1 TT
47316655 TTATTTGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (23 bp):
TTACTAATTAAATTATATAGGAT
Found at i:47329567 original size:17 final size:17
Alignment explanation
Indices: 47329508--47329567 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
47329498 TAATAAATTT
47329508 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
47329527 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
47329541 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
47329559 AAAATATAA
1 AAAATATAA
47329568 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:47330084 original size:18 final size:18
Alignment explanation
Indices: 47330048--47330180 Score: 182
Period size: 18 Copynumber: 7.5 Consensus size: 18
47330038 AATCATATCT
*
47330048 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
47330067 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
47330085 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
47330102 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
47330120 TTTAAGATT-CTATCATA
1 TCTAAGATTGCAATCATA
47330137 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
47330155 TTTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
47330172 TCTAAGATT
1 TCTAAGATT
47330181 ACATATCATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 45 0.44
18 46 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:47330106 original size:35 final size:35
Alignment explanation
Indices: 47330048--47330189 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
47330038 AATCATATCT
47330048 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
47330085 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
47330120 TTTAAGATTCTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
47330155 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
47330190 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 85 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:47330794 original size:83 final size:83
Alignment explanation
Indices: 47330574--47330926 Score: 589
Period size: 83 Copynumber: 4.2 Consensus size: 83
47330564 TTCGATTTGT
* * * *
47330574 AAGGATGTCAAATCATCTTGAGTCTTTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
47330639 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
47330657 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAGGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
47330722 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
47330741 AAGGATGCCAAACCATCTTGAATCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
47330806 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
47330824 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
47330889 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
47330907 AATGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
47330927 GATCTGCTTC
Statistics
Matches: 255, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 178 0.70
84 77 0.30
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:47331061 original size:119 final size:119
Alignment explanation
Indices: 47330850--47331444 Score: 949
Period size: 119 Copynumber: 5.0 Consensus size: 119
47330840 CTTGAGTCTG
* * * * *
47330850 TTTGAGAACATTTGAGAGTCATATCTACAATGTCCTCGATTTGTTCCTTGTAAGCACAATG-ATG
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAA-GAATG
*
47330914 CCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
47330969 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
47331034 CAAATCATCTTGGATCTGCTTCAGTATAAACATTTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * ** *
47331088 TTTGAGAATGTCTGGGAGTCAAATCTGTTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
47331153 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
47331207 TTTGAGAACGTCTGAGATTCAAATCTACTATGTCCTCGATTTGTTCCTTATAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATG-
* *
47331272 CCAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
47331327 TTTGAGAACGTCTGAGATTCAAATCTACTATGTCCTCGATTTGTTCCTTATAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
47331392 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
47331445 CTTCGATCTG
Statistics
Matches: 446, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
118 1 0.00
119 327 0.73
120 118 0.26
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:47331484 original size:44 final size:44
Alignment explanation
Indices: 47331436--47331615 Score: 168
Period size: 44 Copynumber: 4.1 Consensus size: 44
47331426 TGAAGGTTAG
47331436 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* * * *
47331480 ATCTGCTATCTTC-AACTTGTTCTCTATAAACATAAGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
47331522 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
* * *
47331568 ATCTACTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
47331612 ATCT
1 ATCT
47331616 TGTTTCTTTG
Statistics
Matches: 104, Mismatches: 26, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 75 0.72
45 12 0.12
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:47331558 original size:88 final size:87
Alignment explanation
Indices: 47331443--47331610 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 87
47331433 TAGATCTGCT
* * * *
47331443 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAA-CTTGTTCTCTAT
1 ATCTTCAATCTGTTCCCTATAAACACAGGAATGCCAAATCTACTATCTTCAATC-TGTTCCCTAT
47331507 AAACATAAGGATGCCATGCTGAA
65 AAACATAAGGATGCCATGCTGAA
* * * * * **
47331530 ATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATCTTTGATCTGTTCCCTAT
1 ATCTTCAATCTG-TTCCCTATAAACACAGGAATGCCAAATCTACTATCTTCAATCTGTTCCCTAT
*
47331595 AAACATAGGGATGCCA
65 AAACATAAGGATGCCA
47331611 AATCTTGTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
87 11 0.16
88 55 0.82
89 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (87 bp):
ATCTTCAATCTGTTCCCTATAAACACAGGAATGCCAAATCTACTATCTTCAATCTGTTCCCTATA
AACATAAGGATGCCATGCTGAA
Found at i:47332506 original size:20 final size:20
Alignment explanation
Indices: 47332483--47332529 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
47332473 TGGCCTCTCC
47332483 ATTTTTTCTTT-TTTCTCTTT
1 ATTTTTT-TTTCTTTCTCTTT
*
47332503 ATTTTTTTTTCTTTTTCTTT
1 ATTTTTTTTTCTTTCTCTTT
47332523 -TTTTTTT
1 ATTTTTTT
47332530 GAAATAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (20 bp):
ATTTTTTTTTCTTTCTCTTT
Found at i:47332512 original size:16 final size:16
Alignment explanation
Indices: 47332491--47332528 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
47332481 CCATTTTTTC
47332491 TTTTTTCTCTTTATTT
1 TTTTTTCTCTTTATTT
* *
47332507 TTTTTTCTTTTTCTTT
1 TTTTTTCTCTTTATTT
47332523 TTTTTT
1 TTTTTT
47332529 TGAAATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTCTCTTTATTT
Found at i:47338096 original size:17 final size:17
Alignment explanation
Indices: 47338036--47338096 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
47338026 TAATAAATTT
47338036 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
47338055 AAAA-ATATATT-TAT-A
1 AAAATATA-ATTATATAA
*
47338070 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
47338088 AAAATATAA
1 AAAATATAA
47338097 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
15 4 0.11
16 5 0.14
17 11 0.31
18 9 0.26
19 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:47338610 original size:18 final size:18
Alignment explanation
Indices: 47338574--47338706 Score: 182
Period size: 18 Copynumber: 7.5 Consensus size: 18
47338564 AATCATATCT
*
47338574 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
47338593 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
47338611 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
47338628 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
47338646 TTTAAGATT-CTATCATA
1 TCTAAGATTGCAATCATA
47338663 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
47338681 TTTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
47338698 TCTAAGATT
1 TCTAAGATT
47338707 ACATATCATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 45 0.44
18 46 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:47338632 original size:35 final size:35
Alignment explanation
Indices: 47338574--47338715 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
47338564 AATCATATCT
47338574 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
47338611 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
47338646 TTTAAGATTCTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
47338681 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
47338716 TGAAGATTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 85 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:47353236 original size:14 final size:14
Alignment explanation
Indices: 47353213--47353242 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47353203 TTGAAAATAT
47353213 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
47353227 GTTGATTTGGATTG
1 GTTGAATTGGATTG
47353241 GT
1 GT
47353243 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:47389258 original size:26 final size:26
Alignment explanation
Indices: 47389229--47389284 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
47389219 TAACGCCAAG
*
47389229 ATAATAGATATTTTAAAAATAAAACA
1 ATAATAGATATTTTAAAAATAAAAAA
*
47389255 ATAATATATATTTTAAAAATAAAAAA
1 ATAATAGATATTTTAAAAATAAAAAA
47389281 ATAA
1 ATAA
47389285 ACCAATAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAATAGATATTTTAAAAATAAAAAA
Found at i:47391612 original size:93 final size:93
Alignment explanation
Indices: 47391499--47391670 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
47391489 CGCCCATAAG
* * *
47391499 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47391564 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
47391592 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47391657 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47391671 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47391667 original size:46 final size:46
Alignment explanation
Indices: 47391492--47391667 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
47391482 TGTAACCCGC
* * *
47391492 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
47391538 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
47391588 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47391631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47391668 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47392507 original size:22 final size:24
Alignment explanation
Indices: 47392479--47392523 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
47392469 CATTAAAAAC
47392479 GGGGCTCGG-A-ATCACTTACTAT
1 GGGGCTCGGAAGATCACTTACTAT
47392501 GGGGCTCGGAAGATCACTTACTA
1 GGGGCTCGGAAGATCACTTACTA
47392524 AAATCTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 1 0.05
24 11 0.52
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (24 bp):
GGGGCTCGGAAGATCACTTACTAT
Found at i:47404567 original size:18 final size:17
Alignment explanation
Indices: 47404539--47404590 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
47404529 TTGTATAATC
*
47404539 ATTTTAAGATATTATAT
1 ATTTCAAGATATTATAT
* *
47404556 ATTTACAAGATATTTTAA
1 ATTT-CAAGATATTATAT
47404574 ATTTC-AGA-ATTATAT
1 ATTTCAAGATATTATAT
47404589 AT
1 AT
47404591 ACACGCATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.24
16 3 0.10
17 5 0.17
18 14 0.48
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTCAAGATATTATAT
Found at i:47405018 original size:18 final size:18
Alignment explanation
Indices: 47404995--47405050 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
47404985 ATACTCAATA
*
47404995 TAATATCAATAAAGTCAT
1 TAATATCAATAAAGCCAT
47405013 TAATATCAATAAAGCCAT
1 TAATATCAATAAAGCCAT
47405031 TAATATCAATAAAGCCAT
1 TAATATCAATAAAGCCAT
47405049 TA
1 TA
47405051 GAACACAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATATCAATAAAGCCAT
Found at i:47412836 original size:48 final size:49
Alignment explanation
Indices: 47412695--47412928 Score: 213
Period size: 48 Copynumber: 5.0 Consensus size: 49
47412685 ACATTAGGGT
* *
47412695 TATGTATGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGA
1 TATGTA-GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
** *
47412745 TATGTA-ATTTCATGTAAGACCATAGT-T-GGGC-T---ATTGGCATCGA
1 TATGTAGATCCCATGTAAGACCAT-GTCTAGGACATGGCATTGGCATCGA
* *
47412788 TATG-AGATCCAATGTAAGACCATGTCTAGGACATGACATTGGCATCG-
1 TATGTAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
* * * * *
47412835 -ATCTACGATCCCACG-AAGACCATGTCTGGGACATGGCATTGGAATTGA
1 TATGTA-GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
** * *
47412883 TATGTA-ATCCCATGTAAGACCAAATCCAGGATATGGCATTGGCATC
1 TATGTAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATC
47412929 CTACCATAAG
Statistics
Matches: 147, Mismatches: 24, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.02
43 29 0.20
44 3 0.02
45 1 0.01
46 3 0.02
47 39 0.27
48 57 0.39
49 6 0.04
50 6 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (49 bp):
TATGTAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
Found at i:47412953 original size:38 final size:38
Alignment explanation
Indices: 47412897--47412973 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
47412887 TAATCCCATG
47412897 TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
1 TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
* *
47412935 TAAGACCAAATCCGGGATATGGTATTGGCATCCTACCA
1 TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
47412973 T
1 T
47412974 GTGTATGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (38 bp):
TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
Found at i:47415727 original size:26 final size:26
Alignment explanation
Indices: 47415698--47415749 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47415688 CATGTTGTAG
47415698 TATGCTCTTGTTTAACCTTTGATATT
1 TATGCTCTTGTTTAACCTTTGATATT
47415724 TATGCTCTTGTTTAACCTTTGATATT
1 TATGCTCTTGTTTAACCTTTGATATT
47415750 GTGTATACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (26 bp):
TATGCTCTTGTTTAACCTTTGATATT
Found at i:47417620 original size:59 final size:60
Alignment explanation
Indices: 47417496--47417649 Score: 168
Period size: 59 Copynumber: 2.6 Consensus size: 60
47417486 GCATTACGAT
* * * * * * *
47417496 TTGTCAATAATACTGGCAACTTGTCTGCAATATTGACAATTTACCTACATTACTGTTAGC
1 TTGTCCATAATACTGACAGCTTTTCTGCAATACTGACAATTTACATACATTACTGGTAGC
* * * *
47417556 TTGTCCATAATACTGACAGCTTTTCTGCAAT-CTGACAGTTTATATGCATTACTGGTGGC
1 TTGTCCATAATACTGACAGCTTTTCTGCAATACTGACAATTTACATACATTACTGGTAGC
* *
47417615 TTGTCCACAATACTGATAGCTTATT-TGCAATACTG
1 TTGTCCATAATACTGACAGCTT-TTCTGCAATACTG
47417650 GTGACTTTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
59 47 0.59
60 32 0.41
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (60 bp):
TTGTCCATAATACTGACAGCTTTTCTGCAATACTGACAATTTACATACATTACTGGTAGC
Found at i:47435895 original size:21 final size:21
Alignment explanation
Indices: 47435852--47435905 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
47435842 GTGGGGGTCT
* **
47435852 ACATGCCCATGTGAAGGTTAC
1 ACATGCCCGTGTGAAGGGGAC
*
47435873 ACATGCCCGTGTGGAGGGGAC
1 ACATGCCCGTGTGAAGGGGAC
* *
47435894 ACACGCCTGTGT
1 ACATGCCCGTGT
47435906 TACAACCTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.20
Consensus pattern (21 bp):
ACATGCCCGTGTGAAGGGGAC
Found at i:47439621 original size:15 final size:15
Alignment explanation
Indices: 47439589--47439617 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47439579 ATTTTCTGTG
47439589 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
47439604 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
47439618 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:47440854 original size:41 final size:41
Alignment explanation
Indices: 47440753--47440873 Score: 111
Period size: 41 Copynumber: 2.9 Consensus size: 41
47440743 ATATGTGTTC
* * *
47440753 TCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATATATGAT
1 TCGTGTAAGACC-CTGTCTAGGAC-ATGGCATCGATATATAAT
* * * *
47440795 TATGTGGAAGACCATGTCTAGGACATCGGCATCG-TATTTAAT
1 T-CGTGTAAGACCCTGTCTAGGACAT-GGCATCGATATATAAT
*
47440837 TCGTGTAAGACCCTGTCTAGGACAGTGGCATCAATAT
1 TCGTGTAAGACCCTGTCTAGGACA-TGGCATCGATAT
47440874 GTGATTGTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
41 26 0.41
42 13 0.21
43 24 0.38
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTAGGACATGGCATCGATATATAAT
Found at i:47447647 original size:15 final size:15
Alignment explanation
Indices: 47447615--47447643 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47447605 TATTTTTTTG
47447615 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
47447630 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
47447644 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:47448826 original size:43 final size:42
Alignment explanation
Indices: 47448765--47448933 Score: 189
Period size: 43 Copynumber: 4.0 Consensus size: 42
47448755 TAGGGTTTTT
* * *
47448765 GATATGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGAT-TCATGTAAGACCACGTCTGGGACATTGGCATC
* * *
47448808 GATATGTGATTACATGTAAGACCATGTTTGGGACATCGGCATC
1 GATATGTGATT-CATGTAAGACCACGTCTGGGACATTGGCATC
* * * *
47448851 G-TATTTAATTCGTGTAAGA-CACTGTCTGGGACAGTGGCATC
1 GATATGTGATTCATGTAAGACCAC-GTCTGGGACATTGGCATC
*
47448892 GATATGTGATTGCATGTAAGACCACGTCTAGGACATTGGCAT
1 GATATGTGATT-CATGTAAGACCACGTCTGGGACATTGGCAT
47448934 TGTACGATAT
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
41 24 0.23
42 15 0.15
43 59 0.57
44 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
GATATGTGATTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:47448926 original size:84 final size:84
Alignment explanation
Indices: 47448776--47448933 Score: 239
Period size: 84 Copynumber: 1.9 Consensus size: 84
47448766 ATATGTGTTC
* * *
47448776 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCATGTTTGGGA
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCACGTCTAGGA
47448841 CATCGGCATCGTATTTAAT
66 CATCGGCATCGTATTTAAT
*
47448860 TCGTGTAAGA-CACTGTCTGGGACAG-TGGCATCGATATGTGATTGCATGTAAGACCACGTCTAG
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTACATGTAAGACCACGTCTAG
*
47448923 GACATTGGCAT
64 GACATCGGCAT
47448934 TGTACGATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
83 3 0.04
84 63 0.94
85 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCACGTCTAGGA
CATCGGCATCGTATTTAAT
Found at i:47467523 original size:52 final size:52
Alignment explanation
Indices: 47467445--47467551 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
47467435 TATGAAGCCC
47467445 TTAAAATAAAATTTGGCCATTGGATAATGGGATGGACGGTAATGGACAACCA
1 TTAAAATAAAATTTGGCCATTGGATAATGGGATGGACGGTAATGGACAACCA
47467497 TTAAAATAAAATTTGGCCATTGGATAATGGGATGGACGGTAATGGACAACCA
1 TTAAAATAAAATTTGGCCATTGGATAATGGGATGGACGGTAATGGACAACCA
47467549 TTA
1 TTA
47467552 TATGGTTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.26
Consensus pattern (52 bp):
TTAAAATAAAATTTGGCCATTGGATAATGGGATGGACGGTAATGGACAACCA
Found at i:47468511 original size:130 final size:130
Alignment explanation
Indices: 47468278--47468534 Score: 487
Period size: 130 Copynumber: 2.0 Consensus size: 130
47468268 GCTTATGAAA
47468278 TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTCATTGGATATAA
1 TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTCATTGGATATAA
* *
47468343 TGTTTGTATATTACTTTGGGAAAATGTATGGATGGTTGTCTATTAATTGGTTTGAAATGAATAAT
66 TGTTTGGATATTACTTTGGGAAAATGTATGAATGGTTGTCTATTAATTGGTTTGAAATGAATAAT
*
47468408 TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTTATTGGATATAA
1 TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTCATTGGATATAA
47468473 TGTTTGGATATTACTTTGGGAAAATGTATGAATGGTTGTCTATTAATTGGTTTGAAATGAAT
66 TGTTTGGATATTACTTTGGGAAAATGTATGAATGGTTGTCTATTAATTGGTTTGAAATGAAT
47468535 CATAATGAGA
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 124 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (130 bp):
TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTCATTGGATATAA
TGTTTGGATATTACTTTGGGAAAATGTATGAATGGTTGTCTATTAATTGGTTTGAAATGAATAAT
Found at i:47469945 original size:45 final size:46
Alignment explanation
Indices: 47469889--47469997 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 46
47469879 TTAATTACGG
*
47469889 GAAGGACCAAATAGC-ATAAAATGT-AAAAGTTGAACTCTAGTAGTT-
1 GAAGGATCAAATAGCTATAAAAT-TCAAAA-TTGAACTCTAGTAGTTA
* ** * *
47469934 GAAGGATCAAATAGCTGTGGAATTCAGAATTGAATTCTAGTAGTTA
1 GAAGGATCAAATAGCTATAAAATTCAAAATTGAACTCTAGTAGTTA
47469980 GAAGGATCAAATAGCTAT
1 GAAGGATCAAATAGCTAT
47469998 GGAATTCAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
45 30 0.56
46 24 0.44
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (46 bp):
GAAGGATCAAATAGCTATAAAATTCAAAATTGAACTCTAGTAGTTA
Found at i:47469994 original size:46 final size:45
Alignment explanation
Indices: 47469918--47470008 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 45
47469908 AATGTAAAAG
*
47469918 TTGAACTCTAGTAGTTGAAGGATCAAATAGCTGTGGAATTCAGAA
1 TTGAACTCTAGTAGTTGAAGGATCAAATAGCTATGGAATTCAGAA
*
47469963 TTGAATTCTAGTAGTTAGAAGGATCAAATAGCTATGGAATTCAGAA
1 TTGAACTCTAGTAGTT-GAAGGATCAAATAGCTATGGAATTCAGAA
47470009 CCTAAGGTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 15 0.35
46 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (45 bp):
TTGAACTCTAGTAGTTGAAGGATCAAATAGCTATGGAATTCAGAA
Found at i:47473139 original size:19 final size:19
Alignment explanation
Indices: 47473111--47473167 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
47473101 GTCTCTGATG
*
47473111 CACTTTGGTGCCTCTATTT
1 CACTTCGGTGCCTCTATTT
* *
47473130 GTA-TTCGGTGGCTCTACTTT
1 -CACTTCGGTGCCTCTA-TTT
*
47473150 CACTTCGGTGTCTCTATT
1 CACTTCGGTGCCTCTATT
47473168 CGCATTGTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.46
Consensus pattern (19 bp):
CACTTCGGTGCCTCTATTT
Found at i:47474701 original size:16 final size:16
Alignment explanation
Indices: 47474680--47474734 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
47474670 TAATCACTTC
47474680 AATATTACATTAATAT
1 AATATTACATTAATAT
*
47474696 AATATTTATC-TTGATA-
1 AATA-TTA-CATTAATAT
* *
47474712 AATATTATATTAATTT
1 AATATTACATTAATAT
47474728 AATATTA
1 AATATTA
47474735 AATATTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 7 0.23
16 15 0.48
17 8 0.26
18 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (16 bp):
AATATTACATTAATAT
Found at i:47481058 original size:48 final size:47
Alignment explanation
Indices: 47480931--47481313 Score: 271
Period size: 48 Copynumber: 7.9 Consensus size: 47
47480921 AAAGGGTAAG
* * * * * *
47480931 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATCG
1 ATGCCGATGCCATGT-CCAAACATGGTCTTACACTAGC-C-CACATGTCA
* * * *
47480981 ATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCCCACATGTCG
1 ATGCCGATGCCATG-TCCAAACATGGTCTTACACTAGCCCACATGTCA
* * * * * ** * *
47481029 AGGCCGATGCCATGTCCTAGATATGGTCTTACAGTAGCTCTTATATAA
1 ATGCCGATGCCATGTCC-AAACATGGTCTTACACTAGCCCACATGTCA
* * * * * *
47481077 ATGTCGATGCCATGTTCCAAATATAGTCTTACACTAGCACATAGGTCA
1 ATGCCGATGCCATG-TCCAAACATGGTCTTACACTAGCCCACATGTCA
* * * * * *
47481125 AAGCCGTTGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATGTAA
1 ATGCCGATGCCATGTCC-AAACATGGTCTTACACTAGCCCACATGTCA
* * *
47481173 ATGTCGATGCCATGTTCCAAACATGGTCTTATACTAGTCCACATGTCA
1 ATGCCGATGCCATG-TCCAAACATGGTCTTACACTAGCCCACATGTCA
* * * * * * *
47481221 AGGTCGATGCCATGTCCCAAACAGGGTCTTACACTAGCTCTCATATAA
1 ATGCCGATGCCATGT-CCAAACATGGTCTTACACTAGCCCACATGTCA
* * * *
47481269 ATGCTGATGCCATGTTCCAAACATGGTTTTACACTGGCTCACATG
1 ATGCCGATGCCATG-TCCAAACATGGTCTTACACTAGCCCACATG
47481314 ACCCTAGTAT
Statistics
Matches: 261, Mismatches: 65, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
47 7 0.03
48 212 0.81
49 8 0.03
50 33 0.13
51 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCAAACATGGTCTTACACTAGCCCACATGTCA
Found at i:47481312 original size:96 final size:96
Alignment explanation
Indices: 47480933--47481313 Score: 460
Period size: 96 Copynumber: 3.9 Consensus size: 96
47480923 AGGGTAAGAT
* * * ** *
47480933 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATCGATACCAATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGTCGATGCCATGTTC
* * *
47480998 CAAACATGGTCTTACACTGGCCCACATGTCGAG
64 CAAACATGGTCTTACACTAGCTCACATGTCAAG
* * * *
47481031 GCCGATGCCATGTCCTAGATATGGTCTTACAGTAGCTCTTATATAAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
* * * * * *
47481096 AATATAGTCTTACACTAGCACATAGGTCAAA
66 AACATGGTCTTACACTAGCTCACATGTCAAG
* * *
47481127 GCCGTTGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATGTAAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
*
47481192 AACATGGTCTTATACTAG-TCCACATGTCAAG
66 AACATGGTCTTACACTAGCT-CACATGTCAAG
* * *
47481223 GTCGATGCCATGTCCCAAACAGGGTCTTACACTAGCTCTCATATAAATG-CTGATGCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTC-GATGCCATGTTCC
* *
47481287 AAACATGGTTTTACACTGGCTCACATG
65 AAACATGGTCTTACACTAGCTCACATG
47481314 ACCCTAGTAT
Statistics
Matches: 243, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
95 1 0.00
96 200 0.82
97 1 0.00
98 41 0.17
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
AACATGGTCTTACACTAGCTCACATGTCAAG
Found at i:47488850 original size:23 final size:23
Alignment explanation
Indices: 47488824--47488869 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
47488814 CCTACTGTTT
*
47488824 GACTAACTATTGTTAAGGGATTA
1 GACTAAATATTGTTAAGGGATTA
47488847 GACTAAATATTGTTAAGGGATTA
1 GACTAAATATTGTTAAGGGATTA
47488870 CACACTGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (23 bp):
GACTAAATATTGTTAAGGGATTA
Found at i:47501035 original size:96 final size:96
Alignment explanation
Indices: 47500913--47501142 Score: 406
Period size: 96 Copynumber: 2.4 Consensus size: 96
47500903 AAAGGGTAAG
* **
47500913 ATGCCGATGCCATGTTCCAAGCATGGTCTTACACTAGCCCACATGTTGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCAAGGCCGATGCCATGTCC
47500978 CAAACATGGTCTTACACTAGCTCTCATATAA
66 CAAACATGGTCTTACACTAGCTCTCATATAA
47501009 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCAAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCAAGGCCGATGCCATGTCC
*
47501074 CAGACATGGTCTTACACTAGCTCTCATATAA
66 CAAACATGGTCTTACACTAGCTCTCATATAA
* *
47501105 ATGTCGATGCCATGTTCCAAACATGGTTTTACACTAGC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC
47501143 TCATATGACT
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 128 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCAAGGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCTCTCATATAA
Found at i:47501143 original size:48 final size:48
Alignment explanation
Indices: 47500915--47501145 Score: 309
Period size: 48 Copynumber: 4.8 Consensus size: 48
47500905 AGGGTAAGAT
* * * **
47500915 GCCGATGCCATGTTCCAAGCATGGTCTTACACTAGCCCACATGTTGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * *
47500963 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * *
47501011 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCAAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * * *
47501059 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
* *
47501107 GTCGATGCCATGTTCCAAACATGGTTTTACACTAGCTCA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCA
47501146 TATGACTCTA
Statistics
Matches: 157, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 157 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
Found at i:47505099 original size:34 final size:34
Alignment explanation
Indices: 47505059--47505126 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
47505049 TGGTTGATGC
*
47505059 CTTCATCAGAAAGGCAATGTTTAAATTGAGGGCT
1 CTTCATCAGAAAGGCAATGTCTAAATTGAGGGCT
47505093 CTTCATCAGAAAGGCAATGTCTAAATTGAGGGCT
1 CTTCATCAGAAAGGCAATGTCTAAATTGAGGGCT
47505127 ATGTTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (34 bp):
CTTCATCAGAAAGGCAATGTCTAAATTGAGGGCT
Found at i:47521402 original size:37 final size:37
Alignment explanation
Indices: 47521341--47521419 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
47521331 TTATTACGAA
* * *
47521341 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
47521378 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
47521415 GTCTT
1 GTCTT
47521420 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:47521612 original size:49 final size:49
Alignment explanation
Indices: 47521540--47521694 Score: 260
Period size: 49 Copynumber: 3.2 Consensus size: 49
47521530 CTTCGGGACT
47521540 TATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACAC
1 TATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACAC
47521589 TATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACAC
1 TATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACAC
* * *
47521638 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATGTATACAC
1 TATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACAC
*
47521685 TTTCACATTC
1 TATCACATTC
47521695 TCAAAGTAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
47 19 0.18
49 84 0.82
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
TATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACAC
Found at i:47522013 original size:24 final size:23
Alignment explanation
Indices: 47521965--47522022 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
47521955 TAATCAAACA
47521965 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
47521989 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
47522013 TTATT-TTATA
1 TTATTATTATA
47522023 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:47525400 original size:37 final size:37
Alignment explanation
Indices: 47525350--47525465 Score: 180
Period size: 37 Copynumber: 3.1 Consensus size: 37
47525340 TTATTACGAA
47525350 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
*
47525387 GTCTTACCCGGACATAATCTCCACACGAAGTTATTGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
* * *
47525424 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCT-CCACACGAAGTTATCGG
47525461 GTCTT
1 GTCTT
47525466 TAGAGCTCGG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 1 0.01
37 72 0.99
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
Found at i:47525662 original size:47 final size:47
Alignment explanation
Indices: 47525584--47526028 Score: 737
Period size: 47 Copynumber: 9.5 Consensus size: 47
47525574 CCCTTCGGGA
* * * * * * *
47525584 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47525631 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47525678 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47525725 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47525772 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47525819 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47525866 CTTATCACACATATACACTTTCACATTCAACACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47525913 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47525960 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47526007 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
47526029 TTGGCTGAAT
Statistics
Matches: 377, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 377 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47528757 original size:44 final size:42
Alignment explanation
Indices: 47528600--47528756 Score: 115
Period size: 42 Copynumber: 3.7 Consensus size: 42
47528590 CAATGCTGAC
* * *
47528600 GTCCCAAACATGGTCTTACATG-TAATTCAGTATCGATGCCTCT
1 GTCCCAAACATGGTCTTACACGATAATTCA-AATCGATGCC-GT
* * * * * *
47528643 GTCCCAGACAGGGTCTTATACGA-AA-ACAGATAGGATGCCGAT
1 GTCCCAAACATGGTCTTACACGATAATTCAAAT-CGATGCCG-T
*
47528685 GTCCCAGACATGGTCTTACAC-ATAAATTTCAAATCGATGCCAGT
1 GTCCCAAACATGGTCTTACACGAT-AA-TTCAAATCGATGCC-GT
* *
47528729 GTCCCAAACACGGTCTTATACGATAATT
1 GTCCCAAACATGGTCTTACACGATAATT
47528757 TAGATCAATA
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
41 3 0.03
42 28 0.31
43 24 0.27
44 27 0.30
45 7 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAAACATGGTCTTACACGATAATTCAAATCGATGCCGT
Found at i:47531270 original size:45 final size:44
Alignment explanation
Indices: 47531102--47531266 Score: 195
Period size: 45 Copynumber: 3.7 Consensus size: 44
47531092 TACATCCATA
* * * ** *
47531102 ATGAACTTGGACCAACTCAACGAGCTCGGATGCTCGCATCCATA
1 ATGAACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATC
* *
47531146 ATGAACTCAGACCAACTCAACGAGCTCGGATGCTTCACATATATC
1 ATGAACTCGGACCAACTCAACGAGCTCAGATGC-TCACATATATC
* * * *
47531191 ATGAACTTGGACCAACTCAACAAGTTCAGATTTCTCACATATATC
1 ATGAACTCGGACCAACTCAACGAGCTCAGA-TGCTCACATATATC
*
47531236 ACGAACTCGGACCAACTCAACGAGCTCAGAT
1 ATGAACTCGGACCAACTCAACGAGCTCAGAT
47531267 TTCTAAATTC
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 32 0.31
45 69 0.67
46 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.22
Consensus pattern (44 bp):
ATGAACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATC
Found at i:47533913 original size:49 final size:49
Alignment explanation
Indices: 47533851--47533988 Score: 181
Period size: 49 Copynumber: 2.8 Consensus size: 49
47533841 ATCATGATTA
47533851 ATGAGATCCCGTGTAAGACCATGTCGAGGACATGGCATCGACATCCGAG
1 ATGAGATCCCGTGTAAGACCATGTCGAGGACATGGCATCGACATCCGAG
* * *
47533900 ATGAGATCCCGTGTAAAAACATGTCCGA-GACATGGCATCGGCATCCGAG
1 ATGAGATCCCGTGTAAGACCATGT-CGAGGACATGGCATCGACATCCGAG
* * * *
47533949 ATAAGAGCCAGTGTAAGACCATGTTTG-GGACATGGCATCG
1 ATGAGATCCCGTGTAAGACCATG-TCGAGGACATGGCATCG
47533989 GTGTTGATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
49 73 0.95
50 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (49 bp):
ATGAGATCCCGTGTAAGACCATGTCGAGGACATGGCATCGACATCCGAG
Found at i:47533989 original size:49 final size:49
Alignment explanation
Indices: 47533851--47534037 Score: 180
Period size: 49 Copynumber: 3.8 Consensus size: 49
47533841 ATCATGATTA
* * *
47533851 ATGAGATCCCGTGTAAGACCATG-TCGAGGACATGGCATCGACATCCGAG
1 ATGAGAGCCAGTGTAAGACCATGTTCG-GGACATGGCATCGGCATCCGAG
* * * * * *
47533900 ATGAGATCCCGTGTAAAAACATGTCCGAGACATGGCATCGGCATCCGAG
1 ATGAGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGCATCCGAG
* * ** * *
47533949 ATAAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTGT-TGAT
1 ATGAGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGCATCCGAG
* * * *
47533997 ATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG
1 ATGAGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGG
47534038 TATCAATATG
Statistics
Matches: 116, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
48 39 0.34
49 75 0.65
50 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
ATGAGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGCATCCGAG
Found at i:47534047 original size:48 final size:48
Alignment explanation
Indices: 47533958--47534049 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
47533948 GATAAGAGCC
* **
47533958 AGTGTAAGACCATGTTTGGGACATGGCATCGGTGTTGATATGTGTGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGTATCAATATGTGTGCT
47534006 AGTGTAAGACCATGTTTGGGACATGGCATCGGTATCAATATGTG
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGTATCAATATGTG
47534050 ATCCCATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.32
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGTATCAATATGTGTGCT
Found at i:47534062 original size:48 final size:48
Alignment explanation
Indices: 47533956--47534066 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 48
47533946 GAGATAAGAG
* * ** *
47533956 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGTGTTGATATGTGTG
1 CCAGTATAAGACCATGTTTGGGACATGGCATCGGTATCAATATGTGTC
* *
47534004 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGTATCAATATGTGATC
1 CCAGTATAAGACCATGTTTGGGACATGGCATCGGTATCAATATGTG-TC
47534053 CCA-TATAAGACCAT
1 CCAGTATAAGACCAT
47534067 ATCAAGGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 52 0.95
49 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (48 bp):
CCAGTATAAGACCATGTTTGGGACATGGCATCGGTATCAATATGTGTC
Found at i:47534080 original size:48 final size:48
Alignment explanation
Indices: 47534028--47534129 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
47534018 TGTTTGGGAC
* *
47534028 ATGGCATCGGTATCAATATGTGATCCCATATAAGACCATATCAAGGAT
1 ATGGCATCAGTATCAATAAGTGATCCCATATAAGACCATATCAAGGAT
* ** ** * **
47534076 ATGGCTTCAGTATCGTTAAGTGATTTCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTATCAATAAGTGATCCCATATAAGACCATATCAAGGAT
47534124 ATGGCA
1 ATGGCA
47534130 CGATATGCAG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (48 bp):
ATGGCATCAGTATCAATAAGTGATCCCATATAAGACCATATCAAGGAT
Found at i:47539359 original size:27 final size:27
Alignment explanation
Indices: 47539300--47539451 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
47539290 TAAATTGTAC
*
47539300 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
47539328 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47539355 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
47539382 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
47539410 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47539437 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47539452 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:47539366 original size:55 final size:55
Alignment explanation
Indices: 47539300--47539451 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
47539290 TAAATTGTAC
47539300 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
47539355 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
47539410 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
47539452 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:47539414 original size:82 final size:82
Alignment explanation
Indices: 47539300--47539451 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
47539290 TAAATTGTAC
* *
47539300 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
47539365 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
47539382 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
47539447 GTGCG
66 GTGCG
47539452 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:47547300 original size:27 final size:27
Alignment explanation
Indices: 47547241--47547392 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
47547231 TAAATTGTAC
*
47547241 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
47547269 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47547296 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
47547323 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
47547351 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47547378 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47547393 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:47547307 original size:55 final size:55
Alignment explanation
Indices: 47547241--47547392 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
47547231 TAAATTGTAC
47547241 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
47547296 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
47547351 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
47547393 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:47547355 original size:82 final size:82
Alignment explanation
Indices: 47547241--47547392 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
47547231 TAAATTGTAC
* *
47547241 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
47547306 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
47547323 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
47547388 GTGCG
66 GTGCG
47547393 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:47553319 original size:17 final size:18
Alignment explanation
Indices: 47553291--47553324 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
47553281 TTGGACAGTC
47553291 AATTTGGTAAAAAGGACT
1 AATTTGGTAAAAAGGACT
47553309 AATTT-GTAAAAAGGAC
1 AATTTGGTAAAAAGGAC
47553325 AAAAGTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (18 bp):
AATTTGGTAAAAAGGACT
Found at i:47554629 original size:48 final size:49
Alignment explanation
Indices: 47554417--47554630 Score: 204
Period size: 49 Copynumber: 4.4 Consensus size: 49
47554407 CACCATGGTT
* *
47554417 TATGAGATCCCGTGTAAGACCATGTCGGGGACATGGCATCGGCATTCAA
1 TATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAA
* * *
47554466 GATGAGATCCCGTGTAAGACCATGTCCGGGACATGGCATCAGCATCCGAA
1 TATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCC-AA
* ** * ***
47554516 -ATGAGAACTAGTGTAAGACCATGTCTGGGACATGGCAT-TG-ATGTTGA
1 TATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CCAA
** **
47554563 TATG-TTTACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CCAA
1 TATGAGAT-CCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAA
* *
47554611 TATGTGATCCCGTATAAGAC
1 TATGAGATCCCGTGTAAGAC
47554631 AATATCAGGG
Statistics
Matches: 134, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
47 3 0.02
48 49 0.37
49 79 0.59
50 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
TATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAA
Found at i:47561381 original size:31 final size:30
Alignment explanation
Indices: 47561346--47561443 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 30
47561336 GCATCCACAA
* *
47561346 AGATAATTCTCTAGGACAGTAAACACAGAAG
1 AGATAA-TCTCTAGGATAGTAAACATAGAAG
* * * *
47561377 AGATAGTCAACTAAGATAGTAAACATAGAAA
1 AGATAATC-TCTAGGATAGTAAACATAGAAG
* *
47561408 ATATAATCTGCTTGGATAGTAAACATAGAAG
1 AGATAATCT-CTAGGATAGTAAACATAGAAG
47561439 AGATA
1 AGATA
47561444 GTCCATTGAG
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 2 0.04
31 50 0.96
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.22
Consensus pattern (30 bp):
AGATAATCTCTAGGATAGTAAACATAGAAG
Found at i:47561460 original size:31 final size:31
Alignment explanation
Indices: 47561360--47561526 Score: 124
Period size: 31 Copynumber: 5.3 Consensus size: 31
47561350 AATTCTCTAG
* * * *
47561360 GACAGTAAACACAGAAGAGATAGTCAACTAA
1 GACAGTAAACATAGAAGAGATAGTCCATTGA
* * * *
47561391 GATAGTAAACATAGAAAATATAATCTGC-TTG-
1 GACAGTAAACATAGAAGAGATAGTC--CATTGA
*
47561422 GATAGTAAACATAGAAGAGATAGTCCATTGA
1 GACAGTAAACATAGAAGAGATAGTCCATTGA
* * *
47561453 GACAGTAAAAATAGTAGAGATAGTCCACT-A
1 GACAGTAAACATAGAAGAGATAGTCCATTGA
* * *
47561483 GGACAGTAAGCATAGGACAGAGATAGTTCATTGG
1 -GACAGTAAACATA-GA-AGAGATAGTCCATTGA
*
47561517 GACAATAAAC
1 GACAGTAAAC
47561527 TCAAAATAGA
Statistics
Matches: 105, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
29 1 0.01
30 4 0.04
31 78 0.74
32 2 0.02
33 20 0.19
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.20
Consensus pattern (31 bp):
GACAGTAAACATAGAAGAGATAGTCCATTGA
Found at i:47561491 original size:62 final size:62
Alignment explanation
Indices: 47561344--47561525 Score: 166
Period size: 62 Copynumber: 2.9 Consensus size: 62
47561334 TGGCATCCAC
* * * * * * * *
47561344 AAAGATAATTCTCTAGGACAGTAAACACAGAAGAGATAGTCAACTAAGATAGTAAACATAGA
1 AAAGATAATCCACTAGGACAGTAAACATAGAAGAGATAGTCCATTGAGACAGTAAAAATAGA
* ** * * *
47561406 AAATATAATCTGCTTGGATAGTAAACATAGAAGAGATAGTCCATTGAGACAGTAAAAATAGT
1 AAAGATAATCCACTAGGACAGTAAACATAGAAGAGATAGTCCATTGAGACAGTAAAAATAGA
* * * * * *
47561468 AGAGATAGTCCACTAGGACAGTAAGCATAGGACAGAGATAGTTCATTGGGACAATAAA
1 AAAGATAATCCACTAGGACAGTAAACATA-GA-AGAGATAGTCCATTGAGACAGTAAA
47561526 CTCAAAATAG
Statistics
Matches: 94, Mismatches: 24, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
62 70 0.74
63 2 0.02
64 22 0.23
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (62 bp):
AAAGATAATCCACTAGGACAGTAAACATAGAAGAGATAGTCCATTGAGACAGTAAAAATAGA
Found at i:47568000 original size:40 final size:40
Alignment explanation
Indices: 47567909--47568078 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
47567899 TCCTCGTTCA
* * * * *
47567909 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
47567948 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
47567988 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
47568028 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
47568068 AAGGCCTTCGG
1 AATGCCTTCGG
47568079 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:47580297 original size:53 final size:54
Alignment explanation
Indices: 47580115--47580321 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
47580105 ATTAGGGTTT
* * * * *
47580115 AAGGATACCAAGTAAGACGATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * *
47580169 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * ** *
47580224 AAAGATCCCATGTAAGACCATGCCAAGGTATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * *
47580277 AAGGATACCACGTAAGACCATGTCAAGACATGGCCATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
47580322 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 44 0.36
54 36 0.30
55 42 0.34
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:47594843 original size:44 final size:42
Alignment explanation
Indices: 47594702--47594859 Score: 144
Period size: 42 Copynumber: 3.7 Consensus size: 42
47594692 AGCTCGTACA
* *
47594702 ATGCCAACATCCCAGAATGGTCTTACATGTAAA-CATATATCG
1 ATGCCAACATCCCAGATTGGTCTTACACGTAAATCATA-ATCG
* * ** *
47594744 ATGCC-ACTGTCCTAGACAGAGTCTTAGACG-AAATCA-AATACG
1 ATGCCAAC-ATCCCAGATTG-GTCTTACACGTAAATCATAAT-CG
**
47594786 ATGCCAATGTCCCAGACTTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACATCCCAGA-TTGGTCTTACACGTAAATCATAA-TCG
47594830 ATGCCAACATCCCAGATGTGGTCTTACACG
1 ATGCCAACATCCCAGAT-TGGTCTTACACG
47594860 GAAACACATA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
41 4 0.04
42 39 0.42
43 19 0.20
44 30 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACATCCCAGATTGGTCTTACACGTAAATCATAATCG
Found at i:47596730 original size:30 final size:30
Alignment explanation
Indices: 47596677--47596767 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
47596667 GGACAGGTAA
* *
47596677 CTTGATATAAATTTCATCTTGTATGAGCAAC
1 CTTGATAT-AATGTCAGCTTGTATGAGCAAC
*
47596708 CTTGATATAATGTCAGCTTGTATGAGAAAC
1 CTTGATATAATGTCAGCTTGTATGAGCAAC
* * * *
47596738 CCTAATATAATGTCAGTTTGTGTGAGCAAC
1 CTTGATATAATGTCAGCTTGTATGAGCAAC
47596768 TTATTTCACC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 44 0.85
31 8 0.15
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (30 bp):
CTTGATATAATGTCAGCTTGTATGAGCAAC
Found at i:47597136 original size:14 final size:14
Alignment explanation
Indices: 47597117--47597143 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47597107 ATGAGATTTA
47597117 AATGAATTAATGTC
1 AATGAATTAATGTC
47597131 AATGAATTAATGT
1 AATGAATTAATGT
47597144 TGAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (14 bp):
AATGAATTAATGTC
Found at i:47599973 original size:28 final size:27
Alignment explanation
Indices: 47599916--47600067 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
47599906 TAAATTGTGC
*
47599916 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
47599943 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
47599971 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
47599998 AGCACTAAGTGTGCGAGTTTAGTTATGT
1 AGCACTAAGTGTGCGAGTTGA-CTATGT
* *
47600026 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
47600053 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47600068 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:47599980 original size:55 final size:55
Alignment explanation
Indices: 47599916--47600067 Score: 243
Period size: 55 Copynumber: 2.8 Consensus size: 55
47599906 TAAATTGTGC
*
47599916 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTT-GACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTAG-CTATGT
*
47599971 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTAGTTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTAGCTATGT
* * *
47600026 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
47600068 GACTTAATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
55 90 0.99
56 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTAGCTATGT
Found at i:47607256 original size:8 final size:8
Alignment explanation
Indices: 47607243--47607268 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
47607233 GATAACATAT
47607243 TTTTTTTC
1 TTTTTTTC
47607251 TTTTTTTC
1 TTTTTTTC
47607259 TTTTTTTC
1 TTTTTTTC
47607267 TT
1 TT
47607269 CTCTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:47607270 original size:19 final size:18
Alignment explanation
Indices: 47607242--47607277 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47607232 TGATAACATA
*
47607242 TTTTTTTTCTTTTTTTCT
1 TTTTTTTTCTCTTTTTCT
47607260 TTTTTTCTTCTCTTTTTC
1 TTTTTT-TTCTCTTTTTC
47607278 AAAATTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTCTCTTTTTCT
Found at i:47607290 original size:19 final size:20
Alignment explanation
Indices: 47607262--47607302 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
47607252 TTTTTTCTTT
* *
47607262 TTTTCTTCTCTTTTTCAAAA
1 TTTTCTTCTCTCTTCCAAAA
47607282 TTTTC-TCTCTCTTCCAAAA
1 TTTTCTTCTCTCTTCCAAAA
47607301 TT
1 TT
47607303 CCCAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTCTTCTCTCTTCCAAAA
Found at i:47616065 original size:18 final size:18
Alignment explanation
Indices: 47616039--47616074 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47616029 CAATTGATGT
47616039 AAGCAAGAATGAGTTATA
1 AAGCAAGAATGAGTTATA
* *
47616057 AAGCTAGAATGATTTATA
1 AAGCAAGAATGAGTTATA
47616075 GTATCGACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (18 bp):
AAGCAAGAATGAGTTATA
Found at i:47621130 original size:11 final size:11
Alignment explanation
Indices: 47621114--47621184 Score: 60
Period size: 11 Copynumber: 6.6 Consensus size: 11
47621104 TTCTTATAAT
47621114 TAATTTTATAC
1 TAATTTTATAC
*
47621125 TAATTTT-TAAT
1 TAATTTTAT-AC
47621136 TAATTTTATAC
1 TAATTTTATAC
* *
47621147 TAATTTTTTTTC
1 TAA-TTTTATAC
*
47621159 T--TTTTA-AT
1 TAATTTTATAC
47621167 TAATTTTATAC
1 TAATTTTATAC
47621178 TAATTTT
1 TAATTTT
47621185 TTTTTCTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 6 0.13
11 27 0.59
12 8 0.17
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (11 bp):
TAATTTTATAC
Found at i:47621132 original size:12 final size:12
Alignment explanation
Indices: 47621117--47621154 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
47621107 TTATAATTAA
47621117 TTTTATACTAAT
1 TTTTATACTAAT
*
47621129 TTTTA-ATTAA-
1 TTTTATACTAAT
47621139 TTTTATACTAAT
1 TTTTATACTAAT
47621151 TTTT
1 TTTT
47621155 TTTCTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.23
11 8 0.36
12 9 0.41
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTATACTAAT
Found at i:47621138 original size:22 final size:22
Alignment explanation
Indices: 47621110--47621154 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
47621100 ACACTTCTTA
47621110 TAATTAATTTTATACTAATTTT
1 TAATTAATTTTATACTAATTTT
47621132 TAATTAATTTTATACTAATTTT
1 TAATTAATTTTATACTAATTTT
47621154 T
1 T
47621155 TTTCTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TAATTAATTTTATACTAATTTT
Found at i:47621165 original size:31 final size:32
Alignment explanation
Indices: 47621128--47621195 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 32
47621118 TTTATACTAA
47621128 TTTTTAATTAATTTTATACTAA-TTTTTTTTC
1 TTTTTAATTAATTTTATACTAATTTTTTTTTC
47621159 TTTTTAATTAATTTTATACTAATTTTTTTTTC
1 TTTTTAATTAATTTTATACTAATTTTTTTTTC
47621191 TTTTT
1 TTTTT
47621196 GAAGAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.61
32 14 0.39
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (32 bp):
TTTTTAATTAATTTTATACTAATTTTTTTTTC
Found at i:47635802 original size:48 final size:48
Alignment explanation
Indices: 47635726--47636104 Score: 356
Period size: 48 Copynumber: 7.9 Consensus size: 48
47635716 GAGGGTAAGT
* * * *
47635726 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * *
47635774 GGCCGATGCCATGTCCCAGACATGGTCTTGCACTAGCTCTCATCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * *
47635822 TGCCGATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTGAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * *
47635870 TGCGGATGCCATCTCCCAGACATGGTCTTACACTGGCTCTCATA--ATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA-A
* * *
47635917 TGGCCGACGCCATGTCCTAGACATGGTCTTACACTAGCACACA-ATCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
47635965 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * * **
47636013 TGTCGATGCCATGTTCCAAACATGGTCTTACAAT-G-GCACA-AGAAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
*
47636058 TGTGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATA
1 --T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
47636105 ACACCCAAAT
Statistics
Matches: 272, Mismatches: 48, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
45 2 0.01
46 4 0.01
47 38 0.14
48 221 0.81
49 2 0.01
50 4 0.01
51 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
Found at i:47636037 original size:143 final size:143
Alignment explanation
Indices: 47635731--47636104 Score: 461
Period size: 143 Copynumber: 2.6 Consensus size: 143
47635721 TAAGTTGCCA
*
47635731 ATGCCATGTCCCAAACATGGTCTTACACTGGCT-CA-CATGTCAAGGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCCATAATGT---GGCCGATGCCATGTCCCAGA
* * * * * *
47635794 CATGGTCTTGCACTAGCTCTCATCTCAATGCCGATGTCATGTCCTAGACATGGTCTTACACTAGC
63 CATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCTAAACATGGTCTTACACTAGC
***
47635859 TCTCATCTGAATGCGG
128 TCTCATAACAATGCGG
* * * *
47635875 ATGCCATCTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGACGCCATGTCCTAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTC-CATAATGTGGCCGATGCCATGTCCCAGACA
*
47635940 TGGTCTTACACTAGCACACA-ATCAATGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCT
65 TGGTCTTACACTAGCACACATATCAATGCCGATGCCATG-TCCTAAACATGGTCTTACACTAGCT
*
47636003 CTCATAACATTGTC-G
129 CTCATAACAATG-CGG
* * * * *
47636018 ATGCCATGTTCCAAACATGGTCTTACAATGGCACAAGAAATGTGGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCCA-TAATGTGGCCGATGCCATGTCCCAGACA
47636083 TGGTCTTACACTAGCACACATA
65 TGGTCTTACACTAGCACACATA
47636105 ACACCCAAAT
Statistics
Matches: 198, Mismatches: 25, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
142 1 0.01
143 118 0.60
144 73 0.37
146 2 0.01
147 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (143 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCCATAATGTGGCCGATGCCATGTCCCAGACAT
GGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCTAAACATGGTCTTACACTAGCTCT
CATAACAATGCGG
Found at i:47639686 original size:27 final size:27
Alignment explanation
Indices: 47639626--47639677 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
47639616 TTCTTGCGAT
* *
47639626 ATAATATGAAAGAAAAGCCTTTGTGCC
1 ATAATACGAAAGAAAAGACTTTGTGCC
47639653 ATAATACGAAAGAAAAGACTTTGTG
1 ATAATACGAAAGAAAAGACTTTGTG
47639678 GTGTTATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (27 bp):
ATAATACGAAAGAAAAGACTTTGTGCC
Found at i:47651093 original size:13 final size:13
Alignment explanation
Indices: 47651077--47651101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47651067 AAACTTTTCT
47651077 AAATATATTTTAA
1 AAATATATTTTAA
47651090 AAATATATTTTA
1 AAATATATTTTA
47651102 TTCATACTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATATTTTAA
Found at i:47660716 original size:52 final size:51
Alignment explanation
Indices: 47660640--47660750 Score: 177
Period size: 52 Copynumber: 2.1 Consensus size: 51
47660630 AGTGTAATTG
* *
47660640 TTTTTCATGAGTAGATCTCGTGTTCGAATGTGTGACCATACCTTTTTTTCTT
1 TTTTTCATGAGCAGATCTCGTGTTCGAATGTGCGACCATACC-TTTTTTCTT
*
47660692 TTTTTCATGAGCAGATCTCGTGTTCGAATGTGCGACCATATCTTTTTTCTT
1 TTTTTCATGAGCAGATCTCGTGTTCGAATGTGCGACCATACCTTTTTTCTT
47660743 TCTTTTCA
1 T-TTTTCA
47660751 AATATGTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 10 0.18
52 45 0.82
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (51 bp):
TTTTTCATGAGCAGATCTCGTGTTCGAATGTGCGACCATACCTTTTTTCTT
Found at i:47661977 original size:23 final size:23
Alignment explanation
Indices: 47661950--47661995 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
47661940 AGCATCTCGA
* *
47661950 ACTTTTATTTTATTTTAAAAATT
1 ACTTTTACTTTAATTTAAAAATT
*
47661973 ACTTTTACTTTAATTTAATAATT
1 ACTTTTACTTTAATTTAAAAATT
47661996 TCTATTTGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
ACTTTTACTTTAATTTAAAAATT
Found at i:47664430 original size:18 final size:18
Alignment explanation
Indices: 47664407--47664445 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
47664397 ATTGAGGTTG
47664407 AAAACATGAGTATTCTTC
1 AAAACATGAGTATTCTTC
47664425 AAAACATGAGTATTCTTC
1 AAAACATGAGTATTCTTC
47664443 AAA
1 AAA
47664446 TGTGCTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (18 bp):
AAAACATGAGTATTCTTC
Found at i:47666465 original size:27 final size:27
Alignment explanation
Indices: 47666427--47666531 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
47666417 GAGGAAGCGT
47666427 TCTGGTGGCTCTGCCATAAATATCTG-A
1 TCTGGTGGCTCTGCCA-AAATATCTGTA
* *
47666454 TCTGGTGGCTCT-ACACAAATATCTGTT
1 TCTGGTGGCTCTGCCA-AAATATCTGTA
* *
47666481 TCTGGTGGCTCTACCACAATATCTGTA
1 TCTGGTGGCTCTGCCAAAATATCTGTA
* * *
47666508 TCTGGTGACTCTGTCACAATATCT
1 TCTGGTGGCTCTGCCAAAATATCT
47666532 ATTCTGGAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.16
27 54 0.81
28 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCAAAATATCTGTA
Found at i:47674725 original size:31 final size:31
Alignment explanation
Indices: 47674684--47674798 Score: 171
Period size: 31 Copynumber: 3.7 Consensus size: 31
47674674 TTAGTCTTGA
*
47674684 CATAT-ACTGGGCTGAAGCC-TTTCGATAAAT
1 CATATCACTGGGCCGAAGCCTTTTC-ATAAAT
47674714 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* * *
47674745 CATATCATTGGGCTGAAACCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
47674776 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
47674799 CCTGCAAATG
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
30 5 0.07
31 67 0.88
32 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:47674869 original size:42 final size:42
Alignment explanation
Indices: 47674822--47674956 Score: 234
Period size: 42 Copynumber: 3.2 Consensus size: 42
47674812 TGGCCTTTAG
*
47674822 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
* * *
47674864 GCCCATTTCAATATCATATGTAATGTCAATGAATGCATACAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
47674906 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
47674948 GCCCATTTC
1 GCCCATTTC
47674957 GGAGACTACT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Done.