Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 48 of 332
Found at i:14344845 original size:18 final size:18
Alignment explanation
Indices: 14344805--14344842 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
14344795 CACAATTATT
*
14344805 ATTAATAATTTTATAATA
1 ATTAATAATTTTATAAAA
*
14344823 ATTAAT-ATTTTTTAAAA
1 ATTAATAATTTTATAAAA
14344840 ATT
1 ATT
14344843 TAAATTATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTAATAATTTTATAAAA
Found at i:14345438 original size:16 final size:17
Alignment explanation
Indices: 14345409--14345458 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
14345399 TTTACTTTAT
*
14345409 ATAATTAA-TAAAAATTA
1 ATAATTAATTTAAAA-TA
14345426 AT-ATT-ATTTAAAATA
1 ATAATTAATTTAAAATA
14345441 ATAATTAATTT-AAATA
1 ATAATTAATTTAAAATA
14345457 AT
1 AT
14345459 TAACTCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 5 0.17
16 18 0.62
17 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAATTAATTTAAAATA
Found at i:14354140 original size:17 final size:16
Alignment explanation
Indices: 14354118--14354160 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
14354108 GTCAATCCGG
14354118 TTTTTAGTTTTTGTAAT
1 TTTTTA-TTTTTGTAAT
* *
14354135 TTTTTATTTTTTTTAT
1 TTTTTATTTTTGTAAT
14354151 TTTTTCATTT
1 TTTTT-ATTT
14354161 ATTTTAGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTTGTAAT
Found at i:14354165 original size:17 final size:16
Alignment explanation
Indices: 14354133--14354166 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14354123 AGTTTTTGTA
*
14354133 ATTTTTTATTTTTTTT
1 ATTTTTTATTTATTTT
14354149 ATTTTTTCATTTATTTT
1 ATTTTTT-ATTTATTTT
14354166 A
1 A
14354167 GCTTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTATTTATTTT
Found at i:14357497 original size:17 final size:17
Alignment explanation
Indices: 14357477--14357575 Score: 126
Period size: 17 Copynumber: 5.6 Consensus size: 17
14357467 CAATGATATG
14357477 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
14357494 CAATATTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
14357512 CAATCTTTGATATGATA
1 CAATCTTAGATATGATA
*
14357529 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
14357547 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
14357566 CAATCTTAGA
1 CAATCTTAGA
14357576 AGATATGATT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
17 29 0.41
18 29 0.41
19 11 0.16
20 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:14357515 original size:35 final size:35
Alignment explanation
Indices: 14357469--14357563 Score: 163
Period size: 35 Copynumber: 2.7 Consensus size: 35
14357459 ATAATCTTCA
14357469 ATGATATGCAATCTTAGATATGATACAATATTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATATTAGAT
* *
14357505 ATGATTGCAATCTTTGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATATTAGAT
14357540 ATGATTGCAATCTTAGATATGATA
1 ATGATTGCAATCTTAGATATGATA
14357564 TACAATCTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 51 0.91
36 5 0.09
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATATTAGAT
Found at i:14357523 original size:18 final size:18
Alignment explanation
Indices: 14357477--14357575 Score: 139
Period size: 18 Copynumber: 5.6 Consensus size: 18
14357467 CAATGATATG
14357477 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
* *
14357494 CAATATTAGATATGATTG
1 CAATCTTAGATATGATTA
*
14357512 CAATCTTTGATATGA-TA
1 CAATCTTAGATATGATTA
*
14357529 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
14357547 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
14357566 CAATCTTAGA
1 CAATCTTAGA
14357576 AGATATGATT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
17 29 0.41
18 31 0.44
19 11 0.15
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:14357898 original size:12 final size:11
Alignment explanation
Indices: 14357883--14357916 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
14357873 TATTTTTAAT
14357883 TTATTATATATA
1 TTATT-TATATA
14357895 TTATTTATTATA
1 TTATTTA-TATA
14357907 TTATTTATAT
1 TTATTTATAT
14357917 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:14357914 original size:16 final size:16
Alignment explanation
Indices: 14357881--14357911 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14357871 CTTATTTTTA
14357881 ATTTATTATATATATT
1 ATTTATTATATATATT
14357897 ATTTATTATAT-TATT
1 ATTTATTATATATATT
14357912 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:14358385 original size:12 final size:13
Alignment explanation
Indices: 14358366--14358402 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
14358356 CATATGTTAC
14358366 TATATTATTATTA
1 TATATTATTATTA
14358379 T-TATTATT-TTA
1 TATATTATTATTA
14358390 TATATTATGTATT
1 TATATTAT-TATT
14358403 TGTTTGTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.19
12 13 0.62
13 2 0.10
14 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
TATATTATTATTA
Found at i:14361322 original size:6 final size:6
Alignment explanation
Indices: 14361313--14361339 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14361303 AAAATAAATT
14361313 AATTTG AATTTG AATTTG AATTTG AAT
1 AATTTG AATTTG AATTTG AATTTG AAT
14361340 GTTTAAATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (6 bp):
AATTTG
Found at i:14361871 original size:15 final size:15
Alignment explanation
Indices: 14361851--14361880 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14361841 AAATATTAAT
*
14361851 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
14361866 TTTTTATAATTTATA
1 TTTTTATAATTTATA
14361881 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:14366793 original size:29 final size:28
Alignment explanation
Indices: 14366739--14366794 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
14366729 TAACTATGGC
* *
14366739 TTTTTTTTGTCATCCAATTATTAATATA
1 TTTTTTTTGTCATCCAACTATAAATATA
*
14366767 TTTTTTTTGTCATTCAACTATGAAATAT
1 TTTTTTTTGTCATCCAACTAT-AAATAT
14366795 TACAAAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTTTTTTGTCATCCAACTATAAATATA
Found at i:14368318 original size:16 final size:16
Alignment explanation
Indices: 14368299--14368333 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14368289 AATTGATGTA
* *
14368299 TTTTAATTTTTATATT
1 TTTTAAATTTTAAATT
14368315 TTTTAAATTTTAAATT
1 TTTTAAATTTTAAATT
14368331 TTT
1 TTT
14368334 AGTTAGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTAAATTTTAAATT
Found at i:14369615 original size:30 final size:30
Alignment explanation
Indices: 14369581--14369639 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
14369571 TATTTTGTTG
14369581 TTAATTTTGTTATTATTTTAAAGACATTTA
1 TTAATTTTGTTATTATTTTAAAGACATTTA
* *
14369611 TTAATTTTGTTATTATTTTAGAGGCATTT
1 TTAATTTTGTTATTATTTTAAAGACATTT
14369640 GCTTGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTA
Found at i:14369794 original size:12 final size:12
Alignment explanation
Indices: 14369764--14369796 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
14369754 TATATATTTT
14369764 AAAATT-ATATA
1 AAAATTAATATA
14369775 AAAA-TAATATA
1 AAAATTAATATA
14369786 AAAATTAATAT
1 AAAATTAATAT
14369797 GGGTGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:14370508 original size:14 final size:15
Alignment explanation
Indices: 14370483--14370511 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14370473 AAAAAGAATT
14370483 AAATATAATAAATAA
1 AAATATAATAAATAA
14370498 AAATA-AATAAATAA
1 AAATATAATAAATAA
14370512 TCCGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATAATAAATAA
Found at i:14371790 original size:19 final size:19
Alignment explanation
Indices: 14371766--14371807 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
14371756 ATTTCATGCT
14371766 TCACACACTGTGTTACCAA
1 TCACACACTGTGTTACCAA
14371785 TCACACACTGTGTTACCAA
1 TCACACACTGTGTTACCAA
14371804 TCAC
1 TCAC
14371808 TGTGTTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.26
Consensus pattern (19 bp):
TCACACACTGTGTTACCAA
Found at i:14371810 original size:15 final size:16
Alignment explanation
Indices: 14371770--14371814 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 16
14371760 CATGCTTCAC
14371770 ACACTGTGTTACCAAT
1 ACACTGTGTTACCAAT
14371786 CACACACTGTGTTACCAAT
1 ---ACACTGTGTTACCAAT
14371805 -CACTGTGTTA
1 ACACTGTGTTA
14371815 TCAAGCAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.38
19 16 0.62
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (16 bp):
ACACTGTGTTACCAAT
Found at i:14375232 original size:66 final size:66
Alignment explanation
Indices: 14375146--14375297 Score: 218
Period size: 66 Copynumber: 2.3 Consensus size: 66
14375136 AGTGATGTTA
* * * * *
14375146 AAGGAGTAGAAGCTGATAGGGAGGGTGATGTTGAAATGGTAGATTTAGATGGGGAT-GACGTTGT
1 AAGGGGTACAAGCTGATAGGGAGGGTGATGTTGAAAGGGTAAATTTAGATAGGGATGGA-GTTGT
14375210 AG
65 AG
* *
14375212 AAGGGGTACAAGCTGTTAGGGAGGGTGATGTTGAAGGGGTAAATTTAGATAGGGATGGAGTTGTA
1 AAGGGGTACAAGCTGATAGGGAGGGTGATGTTGAAAGGGTAAATTTAGATAGGGATGGAGTTGTA
14375277 G
66 G
14375278 AAGGGGTACAAGCT-ATAGGG
1 AAGGGGTACAAGCTGATAGGG
14375298 GAAGATCATG
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
65 5 0.06
66 70 0.91
67 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.41, T:0.24
Consensus pattern (66 bp):
AAGGGGTACAAGCTGATAGGGAGGGTGATGTTGAAAGGGTAAATTTAGATAGGGATGGAGTTGTA
G
Found at i:14375265 original size:33 final size:33
Alignment explanation
Indices: 14375160--14375285 Score: 92
Period size: 33 Copynumber: 3.8 Consensus size: 33
14375150 AGTAGAAGCT
* ** *
14375160 GATAGGGAGGGTGATGTTGAAATGGTAGATTTA
1 GATAGGGAGGGTGATGTAGAAGGGGTAAATTTA
* * ** * **
14375193 GATGGGGATGACGTTGTAGAAGGGGTACAAGCT-
1 GATAGGGAGGGTGATGTAGAAGGGGTA-AATTTA
* *
14375226 GTTAGGGAGGGTGATGTTGAAGGGGTAAATTTA
1 GATAGGGAGGGTGATGTAGAAGGGGTAAATTTA
* * *
14375259 GATAGGGATGGAGTTGTAGAAGGGGTA
1 GATAGGGAGGGTGATGTAGAAGGGGTA
14375286 CAAGCTATAG
Statistics
Matches: 66, Mismatches: 25, Indels: 4
0.69 0.26 0.04
Matches are distributed among these distances:
32 3 0.05
33 61 0.92
34 2 0.03
ACGTcount: A:0.29, C:0.02, G:0.43, T:0.26
Consensus pattern (33 bp):
GATAGGGAGGGTGATGTAGAAGGGGTAAATTTA
Found at i:14375309 original size:66 final size:66
Alignment explanation
Indices: 14375146--14375318 Score: 197
Period size: 66 Copynumber: 2.6 Consensus size: 66
14375136 AGTGATGTTA
* * * * * ** * *
14375146 AAGGAGTAGAAGCTGATAGGGAGGGTGATGTTGAAATGGTAGATTTAGATGGGGATGACGTTGTA
1 AAGGGGTACAAGCTGATAGGGAAGATCATGTTGAAGGGGTAAATTTAGATAGGGATGACGTTGTA
14375211 G
66 G
* * * *
14375212 AAGGGGTACAAGCTGTTAGGGAGGGTGATGTTGAAGGGGTAAATTTAGATAGGGATGGA-GTTGT
1 AAGGGGTACAAGCTGATAGGGAAGATCATGTTGAAGGGGTAAATTTAGATAGGGAT-GACGTTGT
14375276 AG
65 AG
14375278 AAGGGGTACAAGCT-ATAGGGGAAGATCATGTTGAAGGGGTA
1 AAGGGGTACAAGCTGATA-GGGAAGATCATGTTGAAGGGGTA
14375319 GAAGCTAATG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 2 0.02
66 90 0.96
67 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.41, T:0.24
Consensus pattern (66 bp):
AAGGGGTACAAGCTGATAGGGAAGATCATGTTGAAGGGGTAAATTTAGATAGGGATGACGTTGTA
G
Found at i:14375351 original size:99 final size:99
Alignment explanation
Indices: 14375211--14375390 Score: 213
Period size: 99 Copynumber: 1.8 Consensus size: 99
14375201 TGACGTTGTA
** * * * ** *
14375211 GAAGGGGTACAAGCTGTTAGGGAGGGTGATGTTGAAGGGGTA-AATTTAGATAGGGATGGA-GTT
1 GAAGGGGTACAAGCTAATAGGGAGGGTGATATAGAAAGGGTACAAGCTA-ATAGGGA-GGATGAT
14375274 GTAGAAGGGGTACAAGCTATAGGGGAAGATCATGTT
64 GTAGAAGGGGTACAAGCTATAGGGGAAGATCATGTT
* *
14375310 GAAGGGGTAGAAGCTAAT-GGGAAGGGTGATATAGAAAGGGTACAAGCTAATATGGAGGATGATG
1 GAAGGGGTACAAGCTAATAGGG-AGGGTGATATAGAAAGGGTACAAGCTAATAGGGAGGATGATG
*
14375374 TAGAAGGTGTACAAGCT
65 TAGAAGGGGTACAAGCT
14375391 GAAGCAGATA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
98 6 0.09
99 57 0.85
100 4 0.06
ACGTcount: A:0.33, C:0.06, G:0.39, T:0.22
Consensus pattern (99 bp):
GAAGGGGTACAAGCTAATAGGGAGGGTGATATAGAAAGGGTACAAGCTAATAGGGAGGATGATGT
AGAAGGGGTACAAGCTATAGGGGAAGATCATGTT
Found at i:14375378 original size:33 final size:33
Alignment explanation
Indices: 14375207--14375390 Score: 160
Period size: 33 Copynumber: 5.6 Consensus size: 33
14375197 GGGATGACGT
** *
14375207 TGTAGAAGGGGTACAAGCTGTTAGGGAGGGTGA
1 TGTAGAAGGGGTACAAGCTAATAGGGAGGATGA
* ** *
14375240 TGTTGAAGGGGTA-AATTTAGATAGGGATGGA-GT
1 TGTAGAAGGGGTACAAGCTA-ATAGGGA-GGATGA
* *
14375273 TGTAGAAGGGGTACAAGCT-ATAGGGGAAGATCA
1 TGTAGAAGGGGTACAAGCTAATA-GGGAGGATGA
* * *
14375306 TGTTGAAGGGGTAGAAGCTAAT-GGGAAGGGTGA
1 TGTAGAAGGGGTACAAGCTAATAGGG-AGGATGA
* * *
14375339 TATAGAAAGGGTACAAGCTAATATGGAGGATGA
1 TGTAGAAGGGGTACAAGCTAATAGGGAGGATGA
*
14375372 TGTAGAAGGTGTACAAGCT
1 TGTAGAAGGGGTACAAGCT
14375391 GAAGCAGATA
Statistics
Matches: 116, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
32 11 0.09
33 96 0.83
34 9 0.08
ACGTcount: A:0.33, C:0.05, G:0.39, T:0.23
Consensus pattern (33 bp):
TGTAGAAGGGGTACAAGCTAATAGGGAGGATGA
Found at i:14380387 original size:18 final size:18
Alignment explanation
Indices: 14380364--14380400 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14380354 CTAGTTGAAC
*
14380364 AATTTTTTATTATTTTTA
1 AATTTTTTATGATTTTTA
14380382 AATTTTTTATGATTTTTA
1 AATTTTTTATGATTTTTA
14380400 A
1 A
14380401 TAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
AATTTTTTATGATTTTTA
Found at i:14382008 original size:30 final size:30
Alignment explanation
Indices: 14381972--14382033 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
14381962 TTGTTTCTGT
14381972 TAATATTCTTTGAGGAATGATATGAAAATG
1 TAATATTCTTTGAGGAATGATATGAAAATG
14382002 TAATATTCTTTGAGGAATGATATGAAAATG
1 TAATATTCTTTGAGGAATGATATGAAAATG
14382032 TA
1 TA
14382034 GTAATGAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.37
Consensus pattern (30 bp):
TAATATTCTTTGAGGAATGATATGAAAATG
Found at i:14382268 original size:40 final size:39
Alignment explanation
Indices: 14382223--14382379 Score: 134
Period size: 40 Copynumber: 3.9 Consensus size: 39
14382213 TAATAAACGC
* *
14382223 CGCTATAGATTGAGCATTAGCGGCGTTTTTTGAAAAACA
1 CGCTATAGATCGAGCATTAGCGGCGTTTTTTAAAAAACA
* * * *
14382262 TCGCTATAGATCAAGAATTAGCGGCACTTTTTAAAAAAACA
1 -CGCTATAGATCGAGCATTAGCGGC-GTTTTTTAAAAAACA
* * * * *
14382303 CAGCTATAGATCGAACATTAACGGTGCTTTTTAAAAAACGC
1 C-GCTATAGATCGAGCATTAGCGGCGTTTTTTAAAAAAC-A
* * * * *
14382344 CGCTATAGGTCGACCATTAGAGGCGCTTTTGAAAAA
1 CGCTATAGATCGAGCATTAGCGGCGTTTTTTAAAAA
14382380 CGCCGCAAAA
Statistics
Matches: 93, Mismatches: 21, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
40 62 0.67
41 31 0.33
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (39 bp):
CGCTATAGATCGAGCATTAGCGGCGTTTTTTAAAAAACA
Found at i:14382309 original size:41 final size:40
Alignment explanation
Indices: 14382223--14382340 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 40
14382213 TAATAAACGC
** * **
14382223 CGCTATAGATTGAGCATTAGCGGCGTTTTTTGAAAAACAT
1 CGCTATAGATCAAGCATTAGCGGCCTTTTTAAAAAAACAT
*
14382263 CGCTATAGATCAAGAATTAGCGGCACTTTTTAAAAAAACA-
1 CGCTATAGATCAAGCATTAGCGGC-CTTTTTAAAAAAACAT
* *
14382303 CAGCTATAGATCGAA-CATTAACGGTGCTTTTTAAAAAA
1 C-GCTATAGATC-AAGCATTAGCGG-CCTTTTTAAAAAA
14382341 CGCCGCTATA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
40 22 0.34
41 41 0.63
42 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (40 bp):
CGCTATAGATCAAGCATTAGCGGCCTTTTTAAAAAAACAT
Found at i:14382363 original size:81 final size:81
Alignment explanation
Indices: 14382198--14382379 Score: 179
Period size: 81 Copynumber: 2.2 Consensus size: 81
14382188 AAATAGGTTT
* * * * * * *
14382198 TTAGAGGCA--TTTGAATAATAAACGCCGCTATAGATTGAGCATTAGCGGCGTTTTTTGAAAAAC
1 TTAGAGGCACTTTTGAA-AA-AAACACAGCTATAGATCGAACATTAACGGCGCTTTTTAAAAAAC
* *
14382261 ATCGCTATAGATCAAGAA
64 ACCGCTATAGATCAACAA
* * * *
14382279 TTAGCGGCACTTTTTAAAAAAACACAGCTATAGATCGAACATTAACGGTGCTTTTTAAAAAACGC
1 TTAGAGGCACTTTTGAAAAAAACACAGCTATAGATCGAACATTAACGGCGCTTTTTAAAAAACAC
* * *
14382344 CGCTATAGGTCGACCA
66 CGCTATAGATCAACAA
*
14382360 TTAGAGGCGCTTTTGAAAAA
1 TTAGAGGCACTTTTGAAAAA
14382380 CGCCGCAAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
81 73 0.91
82 2 0.03
83 5 0.06
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (81 bp):
TTAGAGGCACTTTTGAAAAAAACACAGCTATAGATCGAACATTAACGGCGCTTTTTAAAAAACAC
CGCTATAGATCAACAA
Found at i:14382958 original size:21 final size:21
Alignment explanation
Indices: 14382906--14382958 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
14382896 GAGTTACTAT
* *
14382906 TTTAAGGTCTATGGATTATGG
1 TTTAAGGTTTATGGATTATGA
* * **
14382927 TTTATGTTTTATGTTTTATGA
1 TTTAAGGTTTATGGATTATGA
14382948 TTTAAGGTTTA
1 TTTAAGGTTTA
14382959 AAGGATATGG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.55
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTATGA
Found at i:14384099 original size:115 final size:112
Alignment explanation
Indices: 14383845--14384148 Score: 326
Period size: 114 Copynumber: 2.7 Consensus size: 112
14383835 CGTTCTATTG
* * * ** * *
14383845 GATTTCTTCGTGGCGTTTTTGGTGAAACGTTGCAATATGTCGGCCTTTAGCAGCACTAGTGAAAA
1 GATTTTTTAGTGGCGTTTTTGGTTAAACGCCGCAATATGTCGG-CTTTAGCGGCGCTAGTGAAAA
* *
14383910 ACGCCGCAAAAAGTTATTCTGTTTTAATCAAAACGACGTCGTTTTATTT
65 ACGCCGCAAAAAGTTATTCTGTTTTAATCAAAACGA-GTCGTTTTAGTA
* * *
14383959 GATTTTTTAGTGGCATTTTT-ATTAAAACGCCGCAATAGGTCTGGCTTTAGCGGCGCTAGGTGAA
1 GATTTTTTAGTGGCGTTTTTGGTT-AAACGCCGCAATATGTC-GGCTTTAGCGGCGCTA-GTGAA
* * *
14384023 AAATGCCGCAAAATGTTATTTTGTTTTAATCAAAACG-GTTCGTTTT-GTA
63 AAACGCCGCAAAAAGTTATTCTGTTTTAATCAAAACGAG-TCGTTTTAGTA
* * * * *
14384072 GGTTTTTTAGTGGCGTTTTTTGGTTAAACACCGCAATATGTAGGGATTTAGCGGCGCTAGTGGAT
1 GATTTTTTAGTGGCG-TTTTTGGTTAAACGCCGCAATATGT-CGGCTTTAGCGGCGCTAGT-GAA
14384137 AAACGCCGCAAA
63 AAACGCCGCAAA
14384149 GGTTGATTTC
Statistics
Matches: 158, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
113 18 0.11
114 97 0.61
115 43 0.27
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (112 bp):
GATTTTTTAGTGGCGTTTTTGGTTAAACGCCGCAATATGTCGGCTTTAGCGGCGCTAGTGAAAAA
CGCCGCAAAAAGTTATTCTGTTTTAATCAAAACGAGTCGTTTTAGTA
Found at i:14387361 original size:43 final size:41
Alignment explanation
Indices: 14387291--14387428 Score: 206
Period size: 41 Copynumber: 3.3 Consensus size: 41
14387281 TATTCGGGCT
14387291 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATTAGGC
* *
14387332 TTATTGCCTAGCAGGCTTTATATCCCGGTGTATTATATTAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATTAGGC
* *
14387375 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATACTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATTAGGC
14387416 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
14387429 AATTTTATGT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
40 1 0.01
41 47 0.53
42 3 0.03
43 37 0.42
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.38
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATTAGGC
Found at i:14388532 original size:44 final size:44
Alignment explanation
Indices: 14388483--14388570 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
14388473 AAATGATGGA
14388483 TATGTATTTGGTTGTAAATTGGCTTTATAGGTTCGGATCCAAAC
1 TATGTATTTGGTTGTAAATTGGCTTTATAGGTTCGGATCCAAAC
14388527 TATGTATTTGGTTGTAAATTGGCTTTATAGGTTCGGATCCAAAC
1 TATGTATTTGGTTGTAAATTGGCTTTATAGGTTCGGATCCAAAC
14388571 GGCTAGAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (44 bp):
TATGTATTTGGTTGTAAATTGGCTTTATAGGTTCGGATCCAAAC
Found at i:14401948 original size:22 final size:22
Alignment explanation
Indices: 14401920--14401963 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14401910 GCCCTAATGA
14401920 AATTTCTCTTTTTTTTTCTTTC
1 AATTTCTCTTTTTTTTTCTTTC
14401942 AATTTCTCTTTTTTTTTCTTTC
1 AATTTCTCTTTTTTTTTCTTTC
14401964 CCTTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (22 bp):
AATTTCTCTTTTTTTTTCTTTC
Found at i:14404173 original size:43 final size:43
Alignment explanation
Indices: 14404024--14404371 Score: 351
Period size: 43 Copynumber: 8.3 Consensus size: 43
14404014 TTCTAAAAGC
* * **
14404024 CATGTTCTTTAGCGGTGTTTGT-GAGAAAAGTACCGCTAAAGGT
1 CATGTTCTATAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGGT
* * * * **
14404067 C-TATTCTATAGTGGCGTTTGTGGCAAAAGTGCCATTAAAGGT
1 CATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT
* **
14404109 C-TATTCTATAGCGGCGTTTGTGGAAAAAGCATCGCTAAAGGT
1 CATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT
* *
14404151 CATGTTCTTTAGCGGCATTTGT-G-----G-G-CGCTAAAGGT
1 CATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT
* *
14404186 CATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGT
1 CATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT
* * * *
14404229 CATATTCTTTAGCGGCGTTTGTGG-CAAAGCGCCGGTAAAGGT
1 CATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT
***
14404271 CATGTTCTATAGTTACGTTTGTGGAAAAAGCGCCGCTAAAGGT
1 CATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT
* * * *
14404314 CATGCTCTATAGCTGCGTTTGTGAAAAAAGAGCCGCTAAAGGT
1 CATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT
14404357 CATGTTCTATAGCGG
1 CATGTTCTATAGCGG
14404372 TTTTTTTTAC
Statistics
Matches: 256, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
35 31 0.12
36 1 0.00
37 1 0.00
41 1 0.00
42 103 0.40
43 119 0.46
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
CATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGT
Found at i:14404187 original size:35 final size:35
Alignment explanation
Indices: 14404141--14404209 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
14404131 GAAAAAGCAT
14404141 CGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGG
1 CGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGG
*
14404176 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGG
1 CGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGG
14404210 AAAAAGCGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.16, C:0.17, G:0.32, T:0.35
Consensus pattern (35 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGG
Found at i:14404214 original size:78 final size:81
Alignment explanation
Indices: 14404102--14404371 Score: 305
Period size: 85 Copynumber: 3.3 Consensus size: 81
14404092 AAAGTGCCAT
* *
14404102 TAAAGGTC-TATTCTATAGCGGCGTTTGTGGAAAAAGCATCGCTAAAGGTCATGTTCTTTAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
*
14404166 CATTTGTGG-GCG-C-
66 CGTTTGTGGAGCGCCG
* *
14404179 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATATTCTTTAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
14404244 CGTTTGTGGCAAAGCGCCGG
66 CGTTTGTGG---AGCGCC-G
*** * * * *
14404264 TAAAGGTCATGTTCTATAGTTACGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGCTCTATAGCTG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* *
14404329 CGTTTGTGAAAAAAGAGCCG
66 CGTTTGTG----GAGCGCCG
14404349 CTAAAGGTCATGTTCTATAGCGG
1 -TAAAGGTCATGTTCTATAGCGG
14404372 TTTTTTTTAC
Statistics
Matches: 161, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
77 8 0.05
78 60 0.37
82 3 0.02
83 1 0.01
85 65 0.40
86 24 0.15
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (81 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
CGTTTGTGGAGCGCCG
Found at i:14404310 original size:163 final size:162
Alignment explanation
Indices: 14404024--14404336 Score: 414
Period size: 163 Copynumber: 1.9 Consensus size: 162
14404014 TTCTAAAAGC
* * *
14404024 CATGTTCTTTAGCGGTGTTTGTGAGAAAAGTACCGCTAAAGGTCTATTCTATAGTGGCGTTTGTG
1 CATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGGTCTATTCTATAGCGGCGTTTGTG
* * * *
14404089 GCAAAAGTGCCATTAAAGGTCTATTCTATAGCGGCGTTTGTGGAAAAAGCATCGCTAAAGGTCAT
66 GCAAAAGCGCCAGTAAAGGTCTATTCTATAGCGACGTTTGTGGAAAAAGCACCGCTAAAGGTCAT
* *
14404154 GTTCTTTAGCGGCATTTGTGGGCGCTAAAGGT
131 GCTCTATAGCGGCATTTGTGGGCGCTAAAGGT
** *
14404186 CATGTTCTTTAGCGGCGTTTGTG-GAAAAAGCGTCGCTAAAGGTCATATTCTTTAGCGGCGTTTG
1 CATGTTCTTTAGCGGCGTTTGTGAG-AAAAGCACCGCTAAAGGTC-TATTCTATAGCGGCGTTTG
* * ** *
14404250 TGGC-AAAGCGCCGGTAAAGGTCATGTTCTATAGTTACGTTTGTGGAAAAAGCGCCGCTAAAGGT
64 TGGCAAAAGCGCCAGTAAAGGTC-TATTCTATAGCGACGTTTGTGGAAAAAGCACCGCTAAAGGT
* *
14404314 CATGCTCTATAGCTGCGTTTGTG
128 CATGCTCTATAGCGGCATTTGTG
14404337 AAAAAAGAGC
Statistics
Matches: 129, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
161 1 0.01
162 53 0.41
163 75 0.58
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (162 bp):
CATGTTCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGGTCTATTCTATAGCGGCGTTTGTG
GCAAAAGCGCCAGTAAAGGTCTATTCTATAGCGACGTTTGTGGAAAAAGCACCGCTAAAGGTCAT
GCTCTATAGCGGCATTTGTGGGCGCTAAAGGT
Found at i:14411313 original size:12 final size:12
Alignment explanation
Indices: 14411296--14411320 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14411286 AAAGCAAAAG
14411296 ACAAGAAGAAGA
1 ACAAGAAGAAGA
14411308 ACAAGAAGAAGA
1 ACAAGAAGAAGA
14411320 A
1 A
14411321 GCGTGGGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (12 bp):
ACAAGAAGAAGA
Found at i:14416357 original size:25 final size:25
Alignment explanation
Indices: 14416326--14416374 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14416316 ATTGGAAAAG
* *
14416326 AAAACTATCGTGTTGAAAGCCAAGA
1 AAAACTATCGTGTCGAAAACCAAGA
14416351 AAAACTATCGTGTCGAAAACCAAG
1 AAAACTATCGTGTCGAAAACCAAG
14416375 GTTGTGTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (25 bp):
AAAACTATCGTGTCGAAAACCAAGA
Found at i:14421517 original size:32 final size:32
Alignment explanation
Indices: 14421450--14421514 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
14421440 AAACGACACG
* *
14421450 AATTTGCATATGTAAAAATAAGATCAACCTCA
1 AATTTGCATATATAAAAATAAGAACAACCTCA
*
14421482 AATTTGCATATATAAATATAAGAACAACC-CA
1 AATTTGCATATATAAAAATAAGAACAACCTCA
14421513 AA
1 AA
14421515 ATTGTAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 4 0.13
32 26 0.87
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (32 bp):
AATTTGCATATATAAAAATAAGAACAACCTCA
Found at i:14424309 original size:16 final size:15
Alignment explanation
Indices: 14424280--14424308 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14424270 GAATATACAA
14424280 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
14424295 AAATATTAAAAAAA
1 AAATATTAAAAAAA
14424309 AGATACATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:14433102 original size:34 final size:34
Alignment explanation
Indices: 14433064--14433132 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
14433054 TTCTTTTTAT
*
14433064 TTTTCTTCCCCCCTCTTTCCCCTTT-TTTTTCCCC
1 TTTTCTT-CCCCCTCTTTCCCCTTTCTTATTCCCC
* * *
14433098 TTTTCTTCTCTCTTTTTCCCCTTTCTTATTCCCC
1 TTTTCTTCCCCCTCTTTCCCCTTTCTTATTCCCC
14433132 T
1 T
14433133 CTGACCAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.01, C:0.42, G:0.00, T:0.57
Consensus pattern (34 bp):
TTTTCTTCCCCCTCTTTCCCCTTTCTTATTCCCC
Found at i:14435574 original size:15 final size:14
Alignment explanation
Indices: 14435541--14435574 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
14435531 GATTGGTTTA
14435541 TAATTTTTATGTGT
1 TAATTTTTATGTGT
14435555 TAATTTTTATGTGT
1 TAATTTTTATGTGT
14435569 TGAATT
1 T-AATT
14435575 AAATCATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.62
Consensus pattern (14 bp):
TAATTTTTATGTGT
Found at i:14437854 original size:3 final size:3
Alignment explanation
Indices: 14437846--14437903 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
14437836 TTTTTTATGC
* *
14437846 TTA TTA TTA -TA TTA TTA -TA TCA TTAA TT- TTA -TA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
14437888 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
14437904 ATTTCCTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
2 8 0.17
3 35 0.76
4 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14438166 original size:3 final size:3
Alignment explanation
Indices: 14438152--14438249 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
14438142 TTTTACTATC
* * * *
14438152 ATT ATA ATT ATT ATT ACT ATT GTT ATT ATT ATCT -TT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
**
14438197 ATT AAAA ATGT ATT ATT ATT ATT ATTT ATCT -TT -TT ATT -TT ATT -TT
1 ATT -ATT AT-T ATT ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT ATT
14438242 ATT -TT ATT
1 ATT ATT ATT
14438250 TTACATTCTT
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
2 10 0.14
3 55 0.75
4 8 0.11
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:14438199 original size:21 final size:20
Alignment explanation
Indices: 14438140--14438247 Score: 78
Period size: 21 Copynumber: 5.3 Consensus size: 20
14438130 TGTACTTTTA
* *
14438140 TATTTTACTATCATTATAAT
1 TATTTTACTATTATTATTAT
*
14438160 TATTATTACTATTGTTATTAT
1 TATT-TTACTATTATTATTAT
*
14438181 TATCTTTACTATTATTATTAA
1 TAT-TTTACTATTATTATTAT
* * * *
14438202 AAATGTATTATTATTATTATT
1 TATTTTACTATTATTATTA-T
*
14438223 TATCTTT-TTATT-TTATT-T
1 TAT-TTTACTATTATTATTAT
14438241 TATTTTA
1 TATTTTA
14438248 TTTTACATTC
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
17 3 0.04
18 4 0.06
20 23 0.33
21 37 0.53
22 3 0.04
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTTACTATTATTATTAT
Found at i:14438238 original size:5 final size:5
Alignment explanation
Indices: 14438228--14438252 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14438218 TTATTTATCT
14438228 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
14438253 CATTCTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:14440226 original size:19 final size:19
Alignment explanation
Indices: 14440202--14440246 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
14440192 CATCTCTTTT
*
14440202 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCAT-CATA
14440221 TGCATTGCATTTCATCATA
1 TGCATTGCATTTCATCATA
14440240 TGCATTG
1 TGCATTG
14440247 AATGTCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:14444498 original size:126 final size:126
Alignment explanation
Indices: 14444271--14444778 Score: 714
Period size: 126 Copynumber: 4.0 Consensus size: 126
14444261 TTTCTGCAAG
* * * * * *
14444271 AATAATTTTGAGCAAACATTTCTGGAA-AAATAGTGTCGGAAAACACTTCAAACAGGATGCACTG
1 AATAATTCTGAGTAGACGTTTCT-GAACAAATAGTG-CCGAAAACACTTCAAGCAGGATGCACTG
*
14444335 TCAGCAAAATTTCTGGAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
64 TCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * * *
14444398 GATAATTCTGAGTAGACGTTTCTAAATAAATAGTGTCGAAAACACTTTAAGCAAGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACACTTCAAGCAGGATGCACTGTC
*
14444463 AGCAAAATTTCTGGAAAAAGCTCCGACG-GGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGG-ACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
14444524 AATGATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGTAGGATGCACTGTT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACACTTCAAGCAGGATGCACTGTC
* * * *
14444589 AGCAAAATTTCTGGAAAAAGCTCTCACGTGGATGCTATTTTACTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* ** * * *
14444650 AATAATTCTAAGTAGACGTTTCTGAACAAATAGTGCCGAAAATGCTTTAAGTAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACACTTCAAGCAGGATGCACTGTC
*
14444715 AGCAAAATTTCTGGAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
14444776 AAT
1 AAT
14444779 GAGGCTATAA
Statistics
Matches: 339, Mismatches: 39, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
125 2 0.01
126 309 0.91
127 28 0.08
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACACTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:14446853 original size:18 final size:18
Alignment explanation
Indices: 14446830--14446867 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14446820 GGAAAAGGTA
*
14446830 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
14446848 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
14446866 AC
1 AC
14446868 GCACTTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:14447472 original size:7 final size:7
Alignment explanation
Indices: 14447462--14447515 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
14447452 CATAATACAT
14447462 AATACTA
1 AATACTA
*
14447469 AATAGTA
1 AATACTA
*
14447476 AATAGTA
1 AATACTA
*
14447483 AATAGTA
1 AATACTA
*
14447490 AATAGTA
1 AATACTA
14447497 AATACTA
1 AATACTA
14447504 AATACTA
1 AATACTA
14447511 AATAC
1 AATAC
14447516 GAAAGGACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:14447479 original size:21 final size:21
Alignment explanation
Indices: 14447462--14447514 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
14447452 CATAATACAT
*
14447462 AATACTAAATAGTAAATAGTA
1 AATACTAAATAGTAAATACTA
*
14447483 AATAGTAAATAGTAAATACTA
1 AATACTAAATAGTAAATACTA
14447504 AATACTAAATA
1 AATACTAAATA
14447515 CGAAAGGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (21 bp):
AATACTAAATAGTAAATACTA
Found at i:14448581 original size:48 final size:48
Alignment explanation
Indices: 14448516--14448617 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
14448506 AAAAATAAGC
14448516 AGTATTGAAATTGTAATTATAA-TTGCATAAATGAATAA-AATATCAAAT
1 AGTATTGAAATTGTAATTA-AATTTGCATAAATGAA-AATAATATCAAAT
* * **
14448564 AGTATTGCGAATT-TAATTAAATTTGCATAAATTAAAATAATATTGAAT
1 AGTATTG-AAATTGTAATTAAATTTGCATAAATGAAAATAATATCAAAT
14448612 AGTATT
1 AGTATT
14448618 AAAAATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 4 0.09
48 39 0.83
49 4 0.09
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (48 bp):
AGTATTGAAATTGTAATTAAATTTGCATAAATGAAAATAATATCAAAT
Found at i:14450394 original size:49 final size:49
Alignment explanation
Indices: 14450318--14450567 Score: 179
Period size: 49 Copynumber: 5.0 Consensus size: 49
14450308 AGGAATTTAT
* *
14450318 TATGATTCATGAACAATAGTACCTAGTTTAATGTATGGCATGTATGATG
1 TATGATACATGAACAATAGTACTTAGTTTAATGTATGGCATGTATGATG
*
14450367 TATGATACATGAACAATAGTACTTAG-TTAAAGTAT-GCATG---GCATG
1 TATGATACATGAACAATAGTACTTAGTTTAATGTATGGCATGTATG-ATG
* * ** * * *** *
14450412 GATGATGCAAAAAGAAT-GTATAATTCATGAAAAATAGTACTTGGATTAATGTATGGCATG
1 TATGATACATGAACAATAG--TACTT-A-GTTTAAT-GTA--TGG---CATGTAT-G-ATG
* * * *
14450472 TATGATTCATGAACAATAATACTTAGTTTAATGTATGCCATGCATGATG
1 TATGATACATGAACAATAGTACTTAGTTTAATGTATGGCATGTATGATG
*
14450521 TATGATACATGAACAATAGTACTCAGTTTAATGTATGGCATGTATGA
1 TATGATACATGAACAATAGTACTTAGTTTAATGTATGGCATGTATGA
14450568 CGCATGATCG
Statistics
Matches: 152, Mismatches: 31, Indels: 36
0.69 0.14 0.16
Matches are distributed among these distances:
44 2 0.01
45 15 0.10
46 4 0.03
47 6 0.04
48 9 0.06
49 71 0.47
50 4 0.03
51 5 0.03
52 1 0.01
53 1 0.01
54 2 0.01
56 6 0.04
57 4 0.03
58 1 0.01
59 4 0.03
60 17 0.11
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (49 bp):
TATGATACATGAACAATAGTACTTAGTTTAATGTATGGCATGTATGATG
Found at i:14450474 original size:42 final size:42
Alignment explanation
Indices: 14450427--14450513 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
14450417 TGCAAAAAGA
* * *
14450427 ATGTATAATTCATGAAAAATAGTACTTGGATTAATGTATGGC
1 ATGTATAATTCATGAAAAATAATACTTAGATTAATGTATGCC
* * *
14450469 ATGTATGATTCATGAACAATAATACTTAGTTTAATGTATGCC
1 ATGTATAATTCATGAAAAATAATACTTAGATTAATGTATGCC
14450511 ATG
1 ATG
14450514 CATGATGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (42 bp):
ATGTATAATTCATGAAAAATAATACTTAGATTAATGTATGCC
Found at i:14452022 original size:41 final size:41
Alignment explanation
Indices: 14451936--14452078 Score: 153
Period size: 41 Copynumber: 3.5 Consensus size: 41
14451926 CGACAAATCA
* * * * * * *
14451936 GCTATATGTGGCACCTAGTGTGCTA-TTCAACATAGCTACG
1 GCTATATATGGCACTTAGTGTACAAGATCAAGATAGCTTCG
*
14451976 GCTATATATGGCATTTAGTGTACAAGATCAAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTACAAGATCAAGATAGCTTCG
* * **
14452017 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTACAAGATCAAGATAGCTTCG
* *
14452058 GCTATGTATGGCACTTGGTGT
1 GCTATATATGGCACTTAGTGT
14452079 GCGATTTGAG
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 20 0.23
41 67 0.77
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTACAAGATCAAGATAGCTTCG
Found at i:14452079 original size:41 final size:41
Alignment explanation
Indices: 14451967--14452102 Score: 166
Period size: 41 Copynumber: 3.3 Consensus size: 41
14451957 GCTATTCAAC
* * * * **
14451967 ATAGCTACGGCTATATATGGCATTTAGTGTACAAGATCAAG
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAG
14452008 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAG
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAG
* * *
14452049 ATAGCTTCGGCTATGTATGGCACTTGGTGTGCGA-TTTGAG
1 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAG
* *
14452089 ATGGCTTCGACTAT
1 ATAGCTTCGGCTAT
14452103 GTACGACTCT
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 17 0.20
41 67 0.80
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (41 bp):
ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGATTGAG
Found at i:14454264 original size:30 final size:30
Alignment explanation
Indices: 14454224--14454281 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
14454214 CTGGACATTT
* * *
14454224 CCACATGGGCTGGACACATGCCCGTGTGAG
1 CCACACGGGCTGGACACACGCCCATGTGAG
14454254 CCACACGGGCTGGACACACGCCCATGTG
1 CCACACGGGCTGGACACACGCCCATGTG
14454282 CCAGCCCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.34, G:0.31, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGACACACGCCCATGTGAG
Found at i:14458876 original size:19 final size:19
Alignment explanation
Indices: 14458854--14458892 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14458844 GATCTCCTAA
14458854 TCTT-ATTCTTTCCTCCAAT
1 TCTTCATTCTTT-CTCCAAT
*
14458873 TCTTCTTTCTTTCTCCAAT
1 TCTTCATTCTTTCTCCAAT
14458892 T
1 T
14458893 TTTTCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (19 bp):
TCTTCATTCTTTCTCCAAT
Found at i:14459801 original size:26 final size:26
Alignment explanation
Indices: 14459765--14459818 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
14459755 TGTTGAATGA
*
14459765 TTGTACCAAAAGATTCTATCGTAGTT
1 TTGTACCAAAAGATTCGATCGTAGTT
14459791 TTGTACCAAAAGATTCGATCGTAGTT
1 TTGTACCAAAAGATTCGATCGTAGTT
14459817 TT
1 TT
14459819 TAAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (26 bp):
TTGTACCAAAAGATTCGATCGTAGTT
Found at i:14460011 original size:125 final size:118
Alignment explanation
Indices: 14459791--14460053 Score: 312
Period size: 125 Copynumber: 2.2 Consensus size: 118
14459781 TATCGTAGTT
* ** * ** *
14459791 TTGTACCAAAAGATTCGATCGTAGTTTTTAAATTTTTTTTAAATTCAAAATAAAATTTACATAGT
1 TTGTA-CAAAAGATTCTATCACAGTTTTCAAATTTTTTGAAAATTCAAAACAAAATTTACATAGT
* * * *
14459856 TTACTTTAGCCATTTACTTACATTTTACCCCTTTTTTTCTCCTTTATTTGTTGAATGA
65 TTACTTTAGCCATTTACTTACATATCACCCC---TTTT-TCCTGTATTTATTGAATGA
*
14459914 TTGTATCAAAAGATTCTATCACAGTTTTCCAATTTTTTGAAACACTTCAAAACAAAATTTACACT
1 TTGTA-CAAAAGATTCTATCACAGTTTTCAAATTTTTTGAAA-A-TTCAAAACAAAATTTACA-T
*
14459979 A-TTTACTTTAGTCATTTACTTACATATCACCCCTTTTTCCTGTATTTATTGAATGA
62 AGTTTACTTTAGCCATTTACTTACATATCACCCCTTTTTCCTGTATTTATTGAATGA
14460035 TTGTACTAAAAGATTCTAT
1 TTGTAC-AAAAGATTCTAT
14460054 GATGGTTTTT
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
120 1 0.01
121 34 0.28
122 4 0.03
123 34 0.28
124 1 0.01
125 46 0.38
126 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (118 bp):
TTGTACAAAAGATTCTATCACAGTTTTCAAATTTTTTGAAAATTCAAAACAAAATTTACATAGTT
TACTTTAGCCATTTACTTACATATCACCCCTTTTTCCTGTATTTATTGAATGA
Found at i:14466243 original size:13 final size:14
Alignment explanation
Indices: 14466216--14466246 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14466206 GTCAAAGAAA
14466216 ACAAAAAACACTTG
1 ACAAAAAACACTTG
14466230 ACAAAAAACA-TTG
1 ACAAAAAACACTTG
14466243 ACAA
1 ACAA
14466247 GTGTTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.61, C:0.19, G:0.06, T:0.13
Consensus pattern (14 bp):
ACAAAAAACACTTG
Found at i:14469605 original size:56 final size:55
Alignment explanation
Indices: 14469520--14469627 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 55
14469510 TTATTGATTG
* *
14469520 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGGTGATTTATCATCTTA
1 CAAATTAATTATTCATAAGAACTATTCAAATTAAAAGTGATGATTTATCATCTTA
14469575 CAAATTTAATTATTCATAAGAACTATTCAAATTAAAAGTGATGATTTATCATC
1 CAAA-TTAATTATTCATAAGAACTATTCAAATTAAAAGTGATGATTTATCATC
14469628 CAATGGATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 4 0.08
56 46 0.92
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGAACTATTCAAATTAAAAGTGATGATTTATCATCTTA
Found at i:14472754 original size:29 final size:29
Alignment explanation
Indices: 14472712--14472771 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
14472702 CCAAAACGAC
14472712 TAAGTTAAGGAATGATATCTCTTCTTTTG
1 TAAGTTAAGGAATGATATCTCTTCTTTTG
14472741 TAAGTTAAGGAATGATATCTCTTCTTTTG
1 TAAGTTAAGGAATGATATCTCTTCTTTTG
14472770 TA
1 TA
14472772 CAGATGGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (29 bp):
TAAGTTAAGGAATGATATCTCTTCTTTTG
Found at i:14477677 original size:20 final size:20
Alignment explanation
Indices: 14477652--14477695 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
14477642 ATTACTAGAC
14477652 ACGGGAATGTTGGACCTACT
1 ACGGGAATGTTGGACCTACT
14477672 ACGGGAATGTTGGACCTACT
1 ACGGGAATGTTGGACCTACT
14477692 ACGG
1 ACGG
14477696 CATGGGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (20 bp):
ACGGGAATGTTGGACCTACT
Found at i:14479883 original size:13 final size:13
Alignment explanation
Indices: 14479865--14479890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14479855 CTAAGCCACC
14479865 CCACACGGGCGTG
1 CCACACGGGCGTG
14479878 CCACACGGGCGTG
1 CCACACGGGCGTG
14479891 TCCCTGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.38, T:0.08
Consensus pattern (13 bp):
CCACACGGGCGTG
Found at i:14486312 original size:20 final size:20
Alignment explanation
Indices: 14486289--14486327 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14486279 AAGACTTTAC
* *
14486289 TTTATTTTTATTTTTATTTG
1 TTTACTTTTATCTTTATTTG
14486309 TTTACTTTTATCTTTATTT
1 TTTACTTTTATCTTTATTT
14486328 ATCTCTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATCTTTATTTG
Found at i:14488093 original size:27 final size:27
Alignment explanation
Indices: 14488058--14488577 Score: 593
Period size: 27 Copynumber: 19.3 Consensus size: 27
14488048 CCAAAGTACT
*
14488058 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* **
14488085 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
14488112 CTTGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * *
14488139 TTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
14488166 TTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* **
14488193 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
14488220 CTCGATTTATAGAATGT-CCATTTTACC
1 CTCGATTTATAGAAT-TACCGTTTTACC
* * *
14488247 CTCAATTTACAGAATTACTGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
14488274 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
14488301 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
14488328 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* **
14488355 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
14488382 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* **
14488409 CTC-AGTTTATAAAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
* *
14488436 CTCAATTTACAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* *
14488463 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * ***
14488490 CTTGATTTACAGAATTACTAATTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
* * *
14488517 CTC-AGTTTACAAAATTATCGTTTTACC
1 CTCGA-TTTATAGAATTACCGTTTTACC
*
14488544 CTCAATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCGTTTTACC
*
14488571 CTTGATT
1 CTCGATT
14488578 GTGAAATTAC
Statistics
Matches: 415, Mismatches: 66, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.01
27 403 0.97
28 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
CTCGATTTATAGAATTACCGTTTTACC
Found at i:14488612 original size:27 final size:27
Alignment explanation
Indices: 14488582--14488776 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
14488572 TTGATTGTGA
*
14488582 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14488609 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
14488636 AATTACTG-AATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
14488662 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14488689 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
14488716 AAATACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
14488743 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
14488770 AATTACC
1 AATTACC
14488777 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.15
27 120 0.85
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:14488637 original size:80 final size:79
Alignment explanation
Indices: 14488590--14488774 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 79
14488580 GAAATTACTG
*
14488590 AAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCCTATAGGGTAGAATTACTGAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTAT-CGAAATACCCCTATAGGGTAGAATTACCGAATACCCTTA
14488654 TAGGATAGAATTACCA
65 TAGGA-AGAATTACCA
* * *
14488670 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACTCCTG
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTACCG-AATAC-CCT-
* * *
14488735 TA-GGGTAGAATTACCG
63 TATAGGAAGAATTACCA
* * * *
14488751 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
14488775 CCATTTTGCC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
80 48 0.53
81 35 0.39
82 5 0.06
83 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (79 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTACCGAATACCCTTAT
AGGAAGAATTACCA
Found at i:14489013 original size:27 final size:26
Alignment explanation
Indices: 14488975--14489054 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
14488965 CGGAGGAAGC
14488975 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
14489002 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
14489028 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
14489055 ATTGGCCGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:14489390 original size:27 final size:27
Alignment explanation
Indices: 14489368--14489441 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
14489358 TAGGTGGGTT
*
14489368 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
14489395 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
*
14489422 TGTCACAATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
14489442 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:14489568 original size:6 final size:6
Alignment explanation
Indices: 14489559--14489715 Score: 139
Period size: 6 Copynumber: 25.8 Consensus size: 6
14489549 TTGCATTCAC
*
14489559 ATTCTG ATTCTG ATTCTG --TCACG AAATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG -A-TTCTG ATTCTG ATTCTG ATTCTG
* * *
14489608 -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
14489657 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
14489705 ATTCTG ATTCT
1 ATTCTG ATTCT
14489716 CATTTTGGTT
Statistics
Matches: 125, Mismatches: 10, Indels: 32
0.75 0.06 0.19
Matches are distributed among these distances:
4 2 0.02
5 9 0.07
6 101 0.81
7 8 0.06
8 3 0.02
9 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:14489647 original size:55 final size:55
Alignment explanation
Indices: 14489559--14489686 Score: 204
Period size: 55 Copynumber: 2.3 Consensus size: 55
14489549 TTGCATTCAC
* *
14489559 ATTCTGATTCTGATTCTGTCACGAAATTCTGATTCTGATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTCACCAAATTCTGATTCTGATTCTGATTCTGTTACTA
* *
14489614 ATTCTGATTCTGATTCTGTCACCTAATTTTGATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGTCACCAAATTCTGATTCTGATTCTGATTCTGTTACTA
14489669 ATAT-TGATTCTGATTCTG
1 AT-TCTGATTCTGATTCTG
14489687 ATTCTGTTAC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 67 0.99
56 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (55 bp):
ATTCTGATTCTGATTCTGTCACCAAATTCTGATTCTGATTCTGATTCTGTTACTA
Found at i:14489733 original size:30 final size:30
Alignment explanation
Indices: 14489559--14489736 Score: 183
Period size: 30 Copynumber: 6.1 Consensus size: 30
14489549 TTGCATTCAC
* *
14489559 ATTCTGATTCTGATTCTGTCACGAAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-CAATTCTG
14489590 ATTCTGATTCTGATTCTGTT----A--CTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
14489614 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
14489645 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
14489675 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
14489705 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
14489735 AT
1 AT
14489737 AATGTTTCTT
Statistics
Matches: 127, Mismatches: 10, Indels: 21
0.80 0.06 0.13
Matches are distributed among these distances:
24 22 0.17
26 1 0.01
29 2 0.02
30 56 0.44
31 46 0.36
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:14492994 original size:18 final size:17
Alignment explanation
Indices: 14492971--14493014 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
14492961 TTTGAGTCCA
14492971 TTTATTTTTCA-ATATATT
1 TTTATTTTT-ATATATA-T
*
14492989 TTTATTTTTATATTTAT
1 TTTATTTTTATATATAT
14493006 TTTATTTTT
1 TTTATTTTT
14493015 GTATTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTTTATATATAT
Found at i:14493008 original size:17 final size:17
Alignment explanation
Indices: 14492988--14493025 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14492978 TTCAATATAT
14492988 TTTTATTTTTATATTTA
1 TTTTATTTTTATATTTA
* *
14493005 TTTTATTTTTGTATTTC
1 TTTTATTTTTATATTTA
14493022 TTTT
1 TTTT
14493026 TGTCATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTATATTTA
Found at i:14497659 original size:15 final size:15
Alignment explanation
Indices: 14497635--14497664 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14497625 CTAATGTATT
14497635 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
14497650 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
14497665 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:14508553 original size:30 final size:29
Alignment explanation
Indices: 14508510--14508602 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 29
14508500 ACACCAGGGG
*
14508510 ACACACGACCGTGTAACATAACCGTGTGTC
1 ACACAC-AGCGTGTAACATAACCGTGTGTC
14508540 ACACA-AGGTCGTGTAACATAACCGTGTGTC
1 ACACACA-G-CGTGTAACATAACCGTGTGTC
*
14508570 ACACACAGCAGTGTAACATAATCGTGTGTC
1 ACACACAGC-GTGTAACATAACCGTGTGTC
14508600 ACA
1 ACA
14508603 TACGACCGAG
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
28 1 0.02
29 1 0.02
30 54 0.95
31 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (29 bp):
ACACACAGCGTGTAACATAACCGTGTGTC
Found at i:14508568 original size:15 final size:15
Alignment explanation
Indices: 14508520--14508604 Score: 57
Period size: 15 Copynumber: 5.7 Consensus size: 15
14508510 ACACACGACC
14508520 GTGTAACATAACCGT
1 GTGTAACATAACCGT
* * *
14508535 GTGTCACACAA-GGT
1 GTGTAACATAACCGT
14508549 CGTGTAACATAACCGT
1 -GTGTAACATAACCGT
* * * *
14508565 GTGTCACA-CACAGCA
1 GTGTAACATAACCG-T
*
14508580 GTGTAACATAATCGT
1 GTGTAACATAACCGT
*
14508595 GTGTCACATA
1 GTGTAACATA
14508605 CGACCGAGAC
Statistics
Matches: 50, Mismatches: 16, Indels: 8
0.68 0.22 0.11
Matches are distributed among these distances:
14 5 0.10
15 41 0.82
16 4 0.08
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (15 bp):
GTGTAACATAACCGT
Found at i:14509673 original size:26 final size:26
Alignment explanation
Indices: 14509614--14509711 Score: 146
Period size: 26 Copynumber: 3.8 Consensus size: 26
14509604 GACTAGCTGA
* * * *
14509614 ATCAGTAAGCTCATATGTGCTGAGA-
1 ATCAGTAAGCTCTTACGAGCTGATAT
14509639 AT-AGTAAGCTCTTACGAGCTGATAT
1 ATCAGTAAGCTCTTACGAGCTGATAT
14509664 ATCAGTAAGCTCTTACGAGCTGATAT
1 ATCAGTAAGCTCTTACGAGCTGATAT
14509690 ATCAGTAAGCTCTTACGAGCTG
1 ATCAGTAAGCTCTTACGAGCTG
14509712 TGGTGAGTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
24 18 0.27
25 4 0.06
26 45 0.67
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (26 bp):
ATCAGTAAGCTCTTACGAGCTGATAT
Found at i:14509686 original size:50 final size:52
Alignment explanation
Indices: 14509614--14509711 Score: 146
Period size: 50 Copynumber: 1.9 Consensus size: 52
14509604 GACTAGCTGA
* *
14509614 ATCAGTAAGCTCATATGTGCTGAGA-AT-AGTAAGCTCTTACGAGCTGATAT
1 ATCAGTAAGCTCATACGAGCTGAGATATCAGTAAGCTCTTACGAGCTGATAT
* *
14509664 ATCAGTAAGCTCTTACGAGCTGATATATCAGTAAGCTCTTACGAGCTG
1 ATCAGTAAGCTCATACGAGCTGAGATATCAGTAAGCTCTTACGAGCTG
14509712 TGGTGAGTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 21 0.50
51 2 0.05
52 19 0.45
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (52 bp):
ATCAGTAAGCTCATACGAGCTGAGATATCAGTAAGCTCTTACGAGCTGATAT
Found at i:14518690 original size:12 final size:12
Alignment explanation
Indices: 14518673--14518697 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14518663 CTGTTAGAAC
14518673 ATGAAAAATAAA
1 ATGAAAAATAAA
14518685 ATGAAAAATAAA
1 ATGAAAAATAAA
14518697 A
1 A
14518698 ACAAAAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
ATGAAAAATAAA
Found at i:14529560 original size:25 final size:25
Alignment explanation
Indices: 14529532--14529597 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
14529522 CATTAATCAG
14529532 GAAGCTCATGAGAGCTAAATAACGA
1 GAAGCTCATGAGAGCTAAATAACGA
* * * *
14529557 GAAGCTCGTGAGAGCCAAGTATCGA
1 GAAGCTCATGAGAGCTAAATAACGA
* *
14529582 GACGCTCATAAGAGCT
1 GAAGCTCATGAGAGCT
14529598 GTGGTGTGTC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (25 bp):
GAAGCTCATGAGAGCTAAATAACGA
Found at i:14531185 original size:7 final size:7
Alignment explanation
Indices: 14531173--14531197 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14531163 CTAGTTGCTC
14531173 CGTTCTT
1 CGTTCTT
14531180 CGTTCTT
1 CGTTCTT
14531187 CGTTCTT
1 CGTTCTT
14531194 CGTT
1 CGTT
14531198 GGCCTTGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (7 bp):
CGTTCTT
Found at i:14533098 original size:11 final size:11
Alignment explanation
Indices: 14533068--14533101 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14533058 CTTGCGTCTG
**
14533068 TTTCTTTCCCT
1 TTTCTTTCTTT
14533079 TTTCTTTCTTT
1 TTTCTTTCTTT
14533090 TTTCTTTCTTT
1 TTTCTTTCTTT
14533101 T
1 T
14533102 GTTTAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTCTTT
Found at i:14533236 original size:27 final size:28
Alignment explanation
Indices: 14533183--14533236 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
14533173 TAAGTAAACA
* *
14533183 TATTATAATATATATATTTTAACTTTAGT
1 TATTATAATATATATA-TATAAATTTAGT
14533212 TATTATAATATATATA-ATAAATTTA
1 TATTATAATATATATATATAAATTTA
14533237 CACCTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
29 16 0.70
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (28 bp):
TATTATAATATATATATATAAATTTAGT
Found at i:14535089 original size:40 final size:40
Alignment explanation
Indices: 14534990--14535175 Score: 162
Period size: 40 Copynumber: 4.6 Consensus size: 40
14534980 GATTCGGATA
** * * *
14534990 TATATATGGCACTTAGTGTAAGATTTGAGATAGCTTCCGC
1 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGC
14535030 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGC
** *
14535070 TATATATGGCACTTAGTGTGCTAGA-TCGTGATAGCTTTGGC
1 TATATATGGCACTTAGTGTGC--GATTCGAAATAGCTTCGGC
* * * * *
14535111 TATGA-AAGGAACTTAGTGTGTGAGATT-AAAATAGCTTTGGC
1 TAT-ATATGGCACTTA--GTGTGCGATTCGAAATAGCTTCGGC
* *
14535152 TATGTTTTGGCACTTAGTGTGCGA
1 TAT-ATATGGCACTTAGTGTGCGA
14535176 GAATTTGAGT
Statistics
Matches: 120, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
40 63 0.52
41 41 0.34
42 11 0.09
43 5 0.04
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGC
Found at i:14537752 original size:42 final size:42
Alignment explanation
Indices: 14537690--14537852 Score: 141
Period size: 42 Copynumber: 3.9 Consensus size: 42
14537680 TAAGATGCCA
* * * *
14537690 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
* * *
14537732 ATGCCATATCCCAGATATGGTCTTATA-CGAATTCTCATTTCG
1 ATGCCATATCCCAGATATGGTCTTACATGGAA-TCTCATATCG
* * *** * *
14537774 ATGCCATGTCCCAGA-GTGGTCTTACACAAAATCTTATATCA
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
* * * *
14537815 ACGCCATATCCCAGATATGGTCATATATGGGATCTCAT
1 ATGCCATATCCCAGATATGGTCTTACATGGAATCTCAT
14537853 CAACCTAATG
Statistics
Matches: 93, Mismatches: 25, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
41 31 0.33
42 62 0.67
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGGAATCTCATATCG
Found at i:14540799 original size:7 final size:7
Alignment explanation
Indices: 14540787--14540811 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14540777 CCTTTTACAT
14540787 TTAACTA
1 TTAACTA
14540794 TTAACTA
1 TTAACTA
14540801 TTAACTA
1 TTAACTA
14540808 TTAA
1 TTAA
14540812 TTCTTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAACTA
Found at i:14541665 original size:393 final size:392
Alignment explanation
Indices: 14540934--14541677 Score: 1267
Period size: 393 Copynumber: 1.9 Consensus size: 392
14540924 AAATATATAT
*
14540934 ATTTTATATATTTTATGAAGTTTTTAAAATTTTAAAAAATATTTAATTGTGCCAAAATGAATTTT
1 ATTTTATATATTTTATGAAGTTTTTAAAATTTTAAAAAATATTTAATTGCGCCAAAATGAATTTT
* *
14540999 TATCGCAAATCTAAATGATTTGAAATTTTGAATGAAGAGTTAAAATAATTTGTTTAAGAGCTAAA
66 TATCGCAAATCTAAATGATTTGAAACTTTAAATGAAGAGTTAAAATAATTTGTTTAAGAGCTAAA
*
14541064 TAAGTTATTGTGCCAAAATAATAACTTATGTCAAAGTTTAATTACTAATTTTAACATAATAAATA
131 TAAGTTATCGTGCCAAAATAATAACTTATGTCAAAGTTTAATTACTAATTTTAACATAATAAATA
*
14541129 GACAACACAAACTTTTATGGCAAAATCCAACTCATAAGTTTATGCATATCATTATCGAAGCTTAA
196 GACAACACAAACTTTTATGGCAAAATCCAACTCATAAATTTATGCATATCATTATCGAAGCTTAA
* * *
14541194 AAATTTAAAGTTAACTCTTAAAAAATAAATTAAAATTAAAATTAGAGGTGTTAATGATTTTTTTC
261 AAACTTAAAGTTAACTCATAAAAAATAAATTAAAATTAAAATTAGAGGTGTTAATGATTTTTTTA
*** *
14541259 TTCAAAAATTAATGAATTAATTTATAGAAAGTCTTGAATAATAAAAAACAATTTATATATAAAAA
326 AAAAAAAATTAATGAACTAATTTATAGAAAGTCTTGAATAATAAAAAACAATTTATATATAAAAA
14541324 TA
391 TA
* *
14541326 ATTTTATATTTTTTTTGAA-TATTTTAAAATTTTAAAAAATATTTAATTGCGCCAAAATGAATTT
1 ATTTTATATATTTTATGAAGT-TTTTAAAATTTTAAAAAATATTTAATTGCGCCAAAATGAA-TT
* * * *
14541390 TTTATCGCAGATTTAAATGATTTGAAACTTTAAATTAAGAGTTAAAATAATTTGTTTAAGTGCTA
64 TTTATCGCAAATCTAAATGATTTGAAACTTTAAATGAAGAGTTAAAATAATTTGTTTAAGAGCTA
14541455 AATAAGTTATCGTGCCAAAATAATAACTTATGTCAAAGTTTAATTACTAATTTTAACATAATAAA
129 AATAAGTTATCGTGCCAAAATAATAACTTATGTCAAAGTTTAATTACTAATTTTAACATAATAAA
**
14541520 TAGACAACACAATTTTTTATGGCAAAATCCAACTCATAAATTTATGCATATCATTATCGAAGCTT
194 TAGACAACACAAACTTTTATGGCAAAATCCAACTCATAAATTTATGCATATCATTATCGAAGCTT
14541585 AAAAACTTAAAGTTAACTCATAAAAAATAAATTAAAATTAAAATTAGAGGTGTTAATGA-TTTTT
259 AAAAACTTAAAGTTAACTCATAAAAAATAAATTAAAATTAAAATTAGAGGTGTTAATGATTTTTT
14541649 TAAAAAAAAGATTAATGAACTAATTTATA
324 TAAAAAAAA-ATTAATGAACTAATTTATA
14541678 AAAACCACAA
Statistics
Matches: 329, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
391 1 0.00
392 66 0.20
393 262 0.80
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.38
Consensus pattern (392 bp):
ATTTTATATATTTTATGAAGTTTTTAAAATTTTAAAAAATATTTAATTGCGCCAAAATGAATTTT
TATCGCAAATCTAAATGATTTGAAACTTTAAATGAAGAGTTAAAATAATTTGTTTAAGAGCTAAA
TAAGTTATCGTGCCAAAATAATAACTTATGTCAAAGTTTAATTACTAATTTTAACATAATAAATA
GACAACACAAACTTTTATGGCAAAATCCAACTCATAAATTTATGCATATCATTATCGAAGCTTAA
AAACTTAAAGTTAACTCATAAAAAATAAATTAAAATTAAAATTAGAGGTGTTAATGATTTTTTTA
AAAAAAAATTAATGAACTAATTTATAGAAAGTCTTGAATAATAAAAAACAATTTATATATAAAAA
TA
Found at i:14541734 original size:19 final size:21
Alignment explanation
Indices: 14541697--14541735 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
14541687 AAATAATAAA
*
14541697 AAAATAATTTATATATAAATC
1 AAAATAATTAATATATAAATC
14541718 AAAA-AATTAATAT-TAAAT
1 AAAATAATTAATATATAAAT
14541736 ATTATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATAATTAATATATAAATC
Found at i:14542759 original size:2 final size:2
Alignment explanation
Indices: 14542752--14542776 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14542742 AGTTGCATTT
14542752 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14542777 TGTAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14543511 original size:22 final size:20
Alignment explanation
Indices: 14543490--14543530 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14543480 AATAAAAATA
14543490 AATTTATAATTAAATATTAAT
1 AATTT-TAATTAAATATTAAT
*
14543511 AATTTTATTTAAATATTAAT
1 AATTTTAATTAAATATTAAT
14543531 TATAACTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTAATTAAATATTAAT
Found at i:14546354 original size:37 final size:38
Alignment explanation
Indices: 14546310--14546389 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 38
14546300 CAAGATGTGA
* * *
14546310 ATTTTTCTTCAATTATA-TATATTATATTTTTCAAGTC
1 ATTTTTCTTAAATTATACTATATTATATTTTCCAAATC
14546347 ATTTTTCTTAAATTATATCTATATTATATTTTCCAAATC
1 ATTTTTCTTAAATTATA-CTATATTATATTTTCCAAATC
14546386 ATTT
1 ATTT
14546390 GATGAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 16 0.42
39 22 0.58
ACGTcount: A:0.31, C:0.11, G:0.01, T:0.56
Consensus pattern (38 bp):
ATTTTTCTTAAATTATACTATATTATATTTTCCAAATC
Found at i:14551769 original size:15 final size:16
Alignment explanation
Indices: 14551740--14551772 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14551730 AGCATTTCTC
14551740 ATAAACTAAACAAAAA
1 ATAAACTAAACAAAAA
*
14551756 ATAAA-TAAATAAAAA
1 ATAAACTAAACAAAAA
14551771 AT
1 AT
14551773 CAAAAACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
ATAAACTAAACAAAAA
Found at i:14555023 original size:17 final size:17
Alignment explanation
Indices: 14554983--14555026 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
14554973 ATTAAAAAAT
14554983 TAATTAAAAATAAATTA
1 TAATTAAAAATAAATTA
**
14555000 TTTTTAAAAAT-AATTA
1 TAATTAAAAATAAATTA
14555016 CTAATTAAAAA
1 -TAATTAAAAA
14555027 AAAGCTTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATTAAAAATAAATTA
Found at i:14563885 original size:12 final size:12
Alignment explanation
Indices: 14563862--14563900 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
14563852 GAAATAGGGA
14563862 TGTAATAAGTATT
1 TGTAA-AAGTATT
*
14563875 TGTGAAAGTATT
1 TGTAAAAGTATT
14563887 TGTAAAAGTATT
1 TGTAAAAGTATT
14563899 TG
1 TG
14563901 ATAGGTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (12 bp):
TGTAAAAGTATT
Found at i:14568659 original size:52 final size:52
Alignment explanation
Indices: 14568603--14568738 Score: 145
Period size: 52 Copynumber: 2.6 Consensus size: 52
14568593 TATCCTATAT
* *
14568603 ATGGTCTTATATGGAGCACATTATCACATCATACA-GATGCCATAGCCCAGCC
1 ATGGTCTTATAAGGAGCACATTATCACATC-TACATGATGCCATAGCCCAACC
* * *
14568655 ATGGTCATATACAGGAGTACA-TATCACA-CTACATTGATGCCATAGCCCAACT
1 ATGGTCTTATA-AGGAGCACATTATCACATCTACA-TGATGCCATAGCCCAACC
* *
14568707 ATGGTCTTATACGG-GCACACTTCTCACATCTA
1 ATGGTCTTATAAGGAGCACA-TTATCACATCTA
14568739 TTCTGTCAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
50 8 0.12
51 3 0.04
52 48 0.70
53 10 0.14
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (52 bp):
ATGGTCTTATAAGGAGCACATTATCACATCTACATGATGCCATAGCCCAACC
Found at i:14573330 original size:41 final size:41
Alignment explanation
Indices: 14573273--14573355 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
14573263 TATTAGATTA
14573273 ACTACCACACTTTGGCCTAACACATTTGTAACTTGTACATC
1 ACTACCACACTTTGGCCTAACACATTTGTAACTTGTACATC
*
14573314 ACTACCACACTTTGGCCTAACAGATTTGTAACTTGTACATC
1 ACTACCACACTTTGGCCTAACACATTTGTAACTTGTACATC
14573355 A
1 A
14573356 TAATCAATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (41 bp):
ACTACCACACTTTGGCCTAACACATTTGTAACTTGTACATC
Found at i:14577616 original size:53 final size:51
Alignment explanation
Indices: 14577541--14577700 Score: 155
Period size: 52 Copynumber: 3.1 Consensus size: 51
14577531 TGGATCATAT
* ** * *
14577541 ATCATACCGATGCCATATCCCAGATATGGTCTTATGTGGAGGCATA-TTATCAC
1 ATCATACCGATGCCATAGCCCAG-TATGGTCTTAT-ACG-GGAATACATATCAC
14577594 ATCATACCGATGCCATAGCCCAGTCATGGTCTTATACGGGAATACATATCAC
1 ATCATACCGATGCCATAGCCCAGT-ATGGTCTTATACGGGAATACATATCAC
* * * *
14577646 A--ATTCACCGATGCCATAGCCCAGCTATGGTCTTATACAGGTACACTTATCAC
1 ATCA-T-ACCGATGCCATAGCCCAG-TATGGTCTTATACGGGAATACATATCAC
14577698 ATC
1 ATC
14577701 TATTCCGTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 13
0.81 0.08 0.12
Matches are distributed among these distances:
50 1 0.01
51 6 0.07
52 51 0.56
53 33 0.36
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (51 bp):
ATCATACCGATGCCATAGCCCAGTATGGTCTTATACGGGAATACATATCAC
Found at i:14592981 original size:26 final size:26
Alignment explanation
Indices: 14592952--14593111 Score: 230
Period size: 26 Copynumber: 6.2 Consensus size: 26
14592942 TGGTACAAAT
14592952 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
14592978 TGATAATGGATTAGGTAAATATTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14593004 TGATAATGGGTTAGGTAAATGCTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
14593030 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
14593056 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14593082 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
14593108 TGAT
1 TGAT
14593112 GGACATTTCA
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 118 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14593014 original size:52 final size:52
Alignment explanation
Indices: 14592952--14593111 Score: 257
Period size: 52 Copynumber: 3.1 Consensus size: 52
14592942 TGGTACAAAT
*
14592952 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCG
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
14593004 TGATAATGGGTTAGGTAAATGCTCTATGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
14593056 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
14593108 TGAT
1 TGAT
14593112 GGACATTTCA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 100 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:14595145 original size:137 final size:137
Alignment explanation
Indices: 14594896--14595182 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
14594886 GAGTAGTCTC
14594896 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
14594961 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACC
14595026 ACTGTTA
131 ACTGTTA
14595033 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
14595098 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTAAAAAGGGCTCTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACC
14595163 ACTGTTA
131 ACTGTTA
**
14595170 CCTGAATGGGCTT
1 CCCAAATGGGCTT
14595183 AGGCCCAATG
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:14596629 original size:26 final size:26
Alignment explanation
Indices: 14596583--14596635 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14596573 TCAAACATGC
*
14596583 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
14596609 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
14596635 A
1 A
14596636 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:14598229 original size:26 final size:26
Alignment explanation
Indices: 14598120--14598220 Score: 157
Period size: 26 Copynumber: 3.9 Consensus size: 26
14598110 CATGAAATTC
14598120 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
14598146 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
14598172 TTATCGTGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
14598198 TTATCATGGAACATTTACCTAAC
1 TTATCATGAAACATTTACCTAAC
14598221 ATTTTATCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14603399 original size:20 final size:20
Alignment explanation
Indices: 14603351--14603400 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14603341 GATTTGATTT
*
14603351 TAATTTTTATTACTTGCTTAG
1 TAATTTTT-TTACTTGCTTAA
*
14603372 TAAATTTTTTACTATG-TTAA
1 TAATTTTTTTACT-TGCTTAA
14603392 TAATTTTTT
1 TAATTTTTT
14603401 ATAGTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (20 bp):
TAATTTTTTTACTTGCTTAA
Found at i:14604179 original size:20 final size:22
Alignment explanation
Indices: 14604156--14604203 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
14604146 AGGGTACTAA
14604156 ATTTATA-GTTAT-TTTT-GTTT
1 ATTTATAGGTTATATTTTAG-TT
14604176 ATTT-TAGGTTATATTTTAGTT
1 ATTTATAGGTTATATTTTAGTT
14604197 ATTTATA
1 ATTTATA
14604204 TTTGAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.08
20 9 0.38
21 10 0.42
22 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (22 bp):
ATTTATAGGTTATATTTTAGTT
Found at i:14609618 original size:26 final size:27
Alignment explanation
Indices: 14609589--14609642 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
14609579 AAATAAATAT
*
14609589 TTTTTTAT-GAATAAATATAAAATTTA
1 TTTTTTATACAATAAATATAAAATTTA
*
14609615 -TTTTTATACAATAAATATACAATTTA
1 TTTTTTATACAATAAATATAAAATTTA
14609641 TT
1 TT
14609643 AAATCATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 16 0.67
27 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (27 bp):
TTTTTTATACAATAAATATAAAATTTA
Found at i:14617960 original size:60 final size:61
Alignment explanation
Indices: 14617896--14618019 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 61
14617886 TCCCAAATCT
* ** * * *
14617896 AAAAATTCAACAAATCTAGCCCTCAATGTTTACAATATTTGTC-TTTTAGTTT-TAATTCTA
1 AAAAATTCAACAAATCTAACCCTCAACATTTACAAAATTTATCAATTTA-TTTCTAATTCTA
* * *
14617956 AAAAATTCAATAAATTTAACCCTTAACATTTACAAAATTTATCAATTTATTTCTAATTCTA
1 AAAAATTCAACAAATCTAACCCTCAACATTTACAAAATTTATCAATTTATTTCTAATTCTA
14618017 AAA
1 AAA
14618020 GTTTAAAGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
60 38 0.72
61 15 0.28
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.40
Consensus pattern (61 bp):
AAAAATTCAACAAATCTAACCCTCAACATTTACAAAATTTATCAATTTATTTCTAATTCTA
Found at i:14624941 original size:32 final size:33
Alignment explanation
Indices: 14624899--14624963 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
14624889 GGGTTTTGGG
** *
14624899 AAAAGAAAAGAAAAGATGGATTTGGATTAAGGA
1 AAAAGAAAAGAAAAGATCAATTGGGATTAAGGA
*
14624932 AAAAG-AAAGAAAGGATCAATTGGGATTAAGGA
1 AAAAGAAAAGAAAAGATCAATTGGGATTAAGGA
14624964 GAATAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.54, C:0.02, G:0.28, T:0.17
Consensus pattern (33 bp):
AAAAGAAAAGAAAAGATCAATTGGGATTAAGGA
Found at i:14625755 original size:11 final size:11
Alignment explanation
Indices: 14625736--14625770 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
14625726 AACTTCTTTG
14625736 GATTCAAATAT
1 GATTCAAATAT
*
14625747 GATTTAAATAT
1 GATTCAAATAT
*
14625758 GAATCAAATAT
1 GATTCAAATAT
14625769 GA
1 GA
14625771 AAAATCAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (11 bp):
GATTCAAATAT
Found at i:14626003 original size:46 final size:45
Alignment explanation
Indices: 14625879--14625996 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 45
14625869 ATTGTCTACT
* * * *
14625879 ATGTGCATGACAAAAATGAATTTGTTTGTATTAAATTATTTGGTT
1 ATGTGCATGACATAAATGAATTTGTTTGTATTAAAGTATATGGTC
* * * *
14625924 ATTGTACATGACATAAATGGATTTCTTTGTATTAAAGTGTATGG-C
1 A-TGTGCATGACATAAATGAATTTGTTTGTATTAAAGTATATGGTC
*
14625969 ATGTGCATGACATAAACGAATTTGTTTG
1 ATGTGCATGACATAAATGAATTTGTTTG
14625997 GTTATTATAC
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 23 0.38
45 2 0.03
46 35 0.58
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (45 bp):
ATGTGCATGACATAAATGAATTTGTTTGTATTAAAGTATATGGTC
Found at i:14626043 original size:76 final size:76
Alignment explanation
Indices: 14625917--14626072 Score: 267
Period size: 76 Copynumber: 2.1 Consensus size: 76
14625907 TATTAAATTA
* * *
14625917 TTTGGTTATTGTACATGACATAAATGGATTTCTTTGTATTAAAGTGTATGGCATGTGCATGACAT
1 TTTGGTTATTATACATGACAGAAATGGATTTCTTTGTATTAAAGTGTATGGCATGTGCATGACAA
14625982 AAACGAATTTG
66 AAACGAATTTG
*
14625993 TTTGGTTATTATACATGGCAGAAATGGATTTCTTTGTATTAAAGTGTATGGCATGTGCATGACAA
1 TTTGGTTATTATACATGACAGAAATGGATTTCTTTGTATTAAAGTGTATGGCATGTGCATGACAA
*
14626058 AAATGAATTTG
66 AAACGAATTTG
14626069 TTTG
1 TTTG
14626073 TATTAAATTA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (76 bp):
TTTGGTTATTATACATGACAGAAATGGATTTCTTTGTATTAAAGTGTATGGCATGTGCATGACAA
AAACGAATTTG
Found at i:14629704 original size:21 final size:21
Alignment explanation
Indices: 14629678--14629740 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
14629668 AGAAGCTACT
14629678 TCAACTCACTAAGAAGTTGTCC
1 TCAACTCACTAAGAAGTTG-CC
* * * *
14629700 T-AACTTATTAACAAGCTGCC
1 TCAACTCACTAAGAAGTTGCC
*
14629720 TCAACTCACCAAGAAGTTGCC
1 TCAACTCACTAAGAAGTTGCC
14629741 CCAAGAGAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
20 3 0.10
21 27 0.87
22 1 0.03
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (21 bp):
TCAACTCACTAAGAAGTTGCC
Found at i:14636124 original size:46 final size:45
Alignment explanation
Indices: 14636058--14636458 Score: 570
Period size: 46 Copynumber: 8.7 Consensus size: 45
14636048 AGTGTGCTCT
* *
14636058 CTGATATTAAATGTGTAAGACCATGGTTGAAACATACCATGGCAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
14636103 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAA
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
14636149 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
14636195 CCTGATATTAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
14636241 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 -CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
**
14636287 CGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 C-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*** **
14636333 CATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 C-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
**
14636379 CGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
1 C-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * *
14636425 CATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 C-TGATATG-AAATGTGTAAGACCATGGTTGAAAG
14636459 GCACTATGAC
Statistics
Matches: 332, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 2 0.01
46 330 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (45 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:14636770 original size:31 final size:32
Alignment explanation
Indices: 14636735--14636804 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
14636725 TATACATAAA
*
14636735 ATATATGGAAATGATGGA-GCATGAAAT-ATTG
1 ATATAT-GAAATGATGGATACATGAAATGATTG
* *
14636766 ATATAATGAAATGATTGATATATGAAATGATTG
1 ATAT-ATGAAATGATGGATACATGAAATGATTG
14636799 ATATAT
1 ATATAT
14636805 ACTTATGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
31 14 0.42
32 11 0.33
33 8 0.24
ACGTcount: A:0.44, C:0.01, G:0.20, T:0.34
Consensus pattern (32 bp):
ATATATGAAATGATGGATACATGAAATGATTG
Found at i:14636804 original size:16 final size:16
Alignment explanation
Indices: 14636755--14636804 Score: 84
Period size: 16 Copynumber: 3.1 Consensus size: 16
14636745 ATGATGGAGC
14636755 ATGAAAT-ATTGATAT
1 ATGAAATGATTGATAT
14636770 AATGAAATGATTGATAT
1 -ATGAAATGATTGATAT
14636787 ATGAAATGATTGATAT
1 ATGAAATGATTGATAT
14636803 AT
1 AT
14636805 ACTTATGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 25 0.76
17 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (16 bp):
ATGAAATGATTGATAT
Found at i:14637579 original size:84 final size:84
Alignment explanation
Indices: 14637302--14637979 Score: 916
Period size: 84 Copynumber: 8.1 Consensus size: 84
14637292 GGTGTTACAT
* * *
14637302 AGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTAGTAGAGCAGATCGAA
1 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
14637367 GACTCGCCTTAATCCCCTA
66 GACTCGCCTTAATCCCCTA
* * * *
14637386 AGCAGTAGGGTAATAGG-----TTCGCAGATCTTATCTCTCTAAGCAGTAGCGGAGCAGATCGAT
1 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-
*
14637446 GATGACTCGCCTTAATCCCTTA
65 -A-GACTCGCCTTAATCCCCTA
*
14637468 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
1 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
14637533 GAC-CTGCCTTAATCCCCTA
66 GACTC-GCCTTAATCCCCTA
* * * * * *
14637552 GGCACTAGGGTAACAGGTTAAATTTGCAAATCTTATCTCCCTAAGTAGTAGTAGAGAAGATCGAA
1 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
*
14637617 GACTCACCTTAATCCCCTA
66 GACTCGCCTTAATCCCCTA
*
14637636 AGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
1 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
14637701 GACTCGCCTTAATCCCCTA
66 GACTCGCCTTAATCCCCTA
* *
14637720 AGCAGTAGGGTAACAGGTT-CA----CAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGTC
1 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG--
*
14637780 AACAACTCGCCTTAATCCCCTA
64 AA-GACTCGCCTTAATCCCCTA
*
14637802 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
1 AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
*
14637867 GACCCGCCTTAATCCCCTA
66 GACTCGCCTTAATCCCCTA
* * *
14637886 AGCACTAGGGTAACAGGTTAAATTT-CAAGATCTTA--TCCTTAAGCAGTAGCGGAGCAGATCGA
1 AGCAGTAGGGTAACAGGTTAAATTTGC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
* *
14637948 AGACGATGCACCTTAACCCCCTA
65 AGAC--T-CGCCTTAATCCCCTA
14637971 AGCAGTAGG
1 AGCAGTAGG
14637980 ATCCAAGATG
Statistics
Matches: 527, Mismatches: 45, Indels: 43
0.86 0.07 0.07
Matches are distributed among these distances:
79 73 0.14
81 3 0.01
82 99 0.19
83 4 0.01
84 250 0.47
85 25 0.05
87 73 0.14
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (84 bp):
AGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
GACTCGCCTTAATCCCCTA
Done.