Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 48 of 198
Found at i:14328935 original size:20 final size:20
Alignment explanation
Indices: 14328910--14328949 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14328900 AAATATTTTT
14328910 AGTAAATCATTTTCTAGAAA
1 AGTAAATCATTTTCTAGAAA
14328930 AGTAAATCATTTTCTAGAAA
1 AGTAAATCATTTTCTAGAAA
14328950 TCATTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTAAATCATTTTCTAGAAA
Found at i:14328964 original size:34 final size:33
Alignment explanation
Indices: 14328900--14328964 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
14328890 AAATACCAGA
*
14328900 AAATATTTTTAGTAAATCATTTTCTAGAAAAGT
1 AAATATTTTTAGTAAATCATTTTCAAGAAAAGT
14328933 AAATCATTTTCTAG-AAATCATTTT-AAGGAAAA
1 AAAT-ATTTT-TAGTAAATCATTTTCAA-GAAAA
14328965 TATTTTACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 5 0.18
34 20 0.71
35 3 0.11
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (33 bp):
AAATATTTTTAGTAAATCATTTTCAAGAAAAGT
Found at i:14330698 original size:22 final size:22
Alignment explanation
Indices: 14330664--14330721 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
14330654 TTCAAAGTTT
14330664 TATTTT-TAGGGATTGAT-TAGAA
1 TATTTTATA-GGATT-ATATAGAA
* *
14330686 TATTTTATAGGATTTTATAGGA
1 TATTTTATAGGATTATATAGAA
*
14330708 TATTTTATGGGATT
1 TATTTTATAGGATT
14330722 TTATTGGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (22 bp):
TATTTTATAGGATTATATAGAA
Found at i:14330702 original size:10 final size:10
Alignment explanation
Indices: 14330687--14330745 Score: 73
Period size: 10 Copynumber: 5.7 Consensus size: 10
14330677 TGATTAGAAT
14330687 ATTTTATAGG
1 ATTTTATAGG
14330697 ATTTTATAGG
1 ATTTTATAGG
*
14330707 ATATTTTATGGG
1 --ATTTTATAGG
*
14330719 ATTTTATTGG
1 ATTTTATAGG
*
14330729 ATTTAATAGG
1 ATTTTATAGG
14330739 ATTTTAT
1 ATTTTAT
14330746 GAGATATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
10 33 0.79
12 9 0.21
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.53
Consensus pattern (10 bp):
ATTTTATAGG
Found at i:14330755 original size:32 final size:32
Alignment explanation
Indices: 14330685--14330756 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
14330675 ATTGATTAGA
*
14330685 ATATTTTATAGGATTTTATAGGATATTTTATGG
1 ATATTTTATAGGATTTAATAGGA-ATTTTATGG
* *
14330718 -GATTTTATTGGATTTAATAGG-ATTTTATGAG
1 ATATTTTATAGGATTTAATAGGAATTTTATG-G
14330749 ATATTTTA
1 ATATTTTA
14330757 ATTTAAGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
30 8 0.24
31 1 0.03
32 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (32 bp):
ATATTTTATAGGATTTAATAGGAATTTTATGG
Found at i:14333889 original size:20 final size:21
Alignment explanation
Indices: 14333864--14333921 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
14333854 CAGAGGCACT
*
14333864 AGAGGCGCAAAAGTGCAAA-C
1 AGAGGCACAAAAGTGCAAATC
* *
14333884 AGAGGCACAAATGT-AAAATC
1 AGAGGCACAAAAGTGCAAATC
*
14333904 AGAGGCACCAAAGTGCAA
1 AGAGGCACAAAAGTGCAA
14333922 TCCTGTACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 3 0.10
20 25 0.83
21 2 0.07
ACGTcount: A:0.47, C:0.19, G:0.26, T:0.09
Consensus pattern (21 bp):
AGAGGCACAAAAGTGCAAATC
Found at i:14337081 original size:21 final size:22
Alignment explanation
Indices: 14337055--14337100 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
14337045 AATCTATATA
14337055 TATACATGT-ATATTTATTTTT
1 TATACATGTAATATTTATTTTT
*
14337076 TATACATGTACATCTTTATTTTT
1 TATACATGTA-ATATTTATTTTT
14337099 TA
1 TA
14337101 ACTAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
23 13 0.59
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (22 bp):
TATACATGTAATATTTATTTTT
Found at i:14337561 original size:19 final size:20
Alignment explanation
Indices: 14337520--14337561 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
14337510 ATTTCTATGC
* *
14337520 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
14337540 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
14337559 CAT
1 CAT
14337562 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:14349573 original size:44 final size:44
Alignment explanation
Indices: 14349497--14349616 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 44
14349487 TCGCATCTAC
*
14349497 TCTTATCTCCTTGAAGTTGTAGTGGAGCAGACT-AAG-TAAGC-AA
1 TCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCGAA
* *
14349540 GTCTTATCCTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGGCGAA
1 -TCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACTGAAGATAGCGAA
*
14349586 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGA
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCAGA
14349617 TTAAAGCCAA
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
43 2 0.03
44 25 0.39
45 32 0.50
46 5 0.08
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA
Found at i:14358390 original size:44 final size:45
Alignment explanation
Indices: 14358331--14358451 Score: 151
Period size: 44 Copynumber: 2.7 Consensus size: 45
14358321 GATCACATCT
14358331 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCA
*
14358375 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATAGCA
** *
14358420 AACCTCATCTCCCTGAAGTTGCAGTGGAGCAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
14358452 GTTAAGGCCG
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
43 3 0.04
44 30 0.45
45 30 0.45
46 4 0.06
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
Found at i:14358444 original size:45 final size:44
Alignment explanation
Indices: 14358337--14358451 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 44
14358327 ATCTAGTCTT
** *
14358337 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAACCTC
*
14358381 ATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAACCTC
1 ATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAACCTC
14358426 ATCTCCCTGAAGTTGCAGTGGAGCAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAG
14358452 GTTAAGGCCG
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
43 3 0.05
44 25 0.41
45 30 0.49
46 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAACCTC
Found at i:14358448 original size:217 final size:217
Alignment explanation
Indices: 14358028--14358584 Score: 864
Period size: 217 Copynumber: 2.6 Consensus size: 217
14358018 GGGCATACTC
* * *
14358028 TAACACCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCTTGGATATTATCTTTCTGAAGT
1 TAAC-CCTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTTTCTGAAGT
* * * *
14358093 TGCAGAGAGCAGATCGCATATGGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTAAGTAAGCA
65 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * *
14358158 AGTCTTGTCCTCCTAAAGTTGCAGTGGGGCAGATTGAAGATAGCAAACCTTATCTCCCTGAACTT
130 AGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATAGCAAACCTCATCTCCCTGAACTT
*
14358223 GTAGTGGAGCAGGTTAAAGCCGA
195 GCAGTGGAGCAGGTTAAAGCCGA
* * *
14358246 TAACCCTATTTCCCTAAAGTTGTAGTGGAACAGATTAAAACCTTGGATCTTAT-TTCTCTGAAGT
1 TAACCCTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTT-TCTGAAGT
*
14358310 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
65 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
14358375 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAACCTCATCTCCCTGAAGTT
130 AGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATAGCAAACCTCATCTCCCTGAACTT
*
14358440 GCAGTGGAGCAGGTTAAGGCCGA
195 GCAGTGGAGCAGGTTAAAGCCGA
* *
14358463 TAATCCTATTTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTTTCTGAAGTT
1 TAACCCTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTTTCTGAAGTT
* * *
14358528 GCAGAGAGCAGATCGCATCTAGTATTATCTCCCTGAAGTTGTAGTGGAACAGACTAA
66 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
14358585 TGGAGTAGAT
Statistics
Matches: 308, Mismatches: 29, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
216 2 0.01
217 300 0.97
218 6 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
TAACCCTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTTTCTGAAGTT
GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
GTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATAGCAAACCTCATCTCCCTGAACTTG
CAGTGGAGCAGGTTAAAGCCGA
Found at i:14360080 original size:21 final size:22
Alignment explanation
Indices: 14360056--14360098 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14360046 CTATATATAG
14360056 ACATGT-ATATTTAATTTTTAT
1 ACATGTAATATTTAATTTTTAT
*
14360077 ACATGTACATATTTATTTTTTA
1 ACATGTA-ATATTTAATTTTTA
14360099 ACTAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (22 bp):
ACATGTAATATTTAATTTTTAT
Found at i:14373339 original size:28 final size:27
Alignment explanation
Indices: 14373274--14373339 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
14373264 TTTGACAGTA
*
14373274 ACAATACAGTGTGGGCCTTAGCCCAAT
1 ACAATACAGTGTGGGCCTAAGCCCAAT
* *
14373301 ACAAAAACAGTGTGGGCCTAAGCCCGAT
1 AC-AATACAGTGTGGGCCTAAGCCCAAT
*
14373329 AGAATATCAGT
1 ACAATA-CAGT
14373340 ATGGTGCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAATACAGTGTGGGCCTAAGCCCAAT
Found at i:14373526 original size:22 final size:22
Alignment explanation
Indices: 14373494--14373558 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
14373484 TGCCAGTAGT
*
14373494 CAGAATGGCTAAAAGCCATAAA
1 CAGAATAGCTAAAAGCCATAAA
* * **
14373516 CAGGATAGCTATAAGCTGTAAA
1 CAGAATAGCTAAAAGCCATAAA
* *
14373538 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTAAAAGCCATAA
14373559 GTACAGTAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTAAAAGCCATAAA
Found at i:14373605 original size:32 final size:32
Alignment explanation
Indices: 14373550--14373720 Score: 218
Period size: 32 Copynumber: 5.4 Consensus size: 32
14373540 GAATGGCTAC
* *
14373550 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
14373581 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
14373613 CAGCCATCAGTAACGGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
14373645 AACCCATCAGTAACGGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
** *
14373677 AAGCCATCAGTAATTGTAATATGATCGGCATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
14373709 AAGCCATCAGTA
1 AAGCCATCAGTA
14373721 GCATCGCAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 10 0.08
32 113 0.92
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:14373936 original size:24 final size:24
Alignment explanation
Indices: 14373881--14373947 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
14373871 TCATACCAAA
* *
14373881 CACAGACAAAGCAGTCATTTACAT
1 CACAGACAAATCAATCATTTACAT
* *
14373905 CA-AGGACAAATCAATCCTTTATAT
1 CACA-GACAAATCAATCATTTACAT
* *
14373929 CACAGACAATTCAAACATT
1 CACAGACAAATCAATCATT
14373948 AACCTCAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (24 bp):
CACAGACAAATCAATCATTTACAT
Found at i:14374024 original size:27 final size:27
Alignment explanation
Indices: 14373994--14374050 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
14373984 GGGTATATCA
14373994 GTCAATTCA-CCTAGCAGAGGCATTACG
1 GTCAATTCACCCTA-CAGAGGCATTACG
* * * *
14374021 GTCATTTTACCCTACAGGGGTATTACG
1 GTCAATTCACCCTACAGAGGCATTACG
14374048 GTC
1 GTC
14374051 TTTTTATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (27 bp):
GTCAATTCACCCTACAGAGGCATTACG
Found at i:14378698 original size:24 final size:24
Alignment explanation
Indices: 14378643--14378699 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
14378633 GGAGGATTAG
*
14378643 CAAGTTTATGTTCATTCTTGAATT
1 CAAGTTTATGTTCATTCTTCAATT
**** *
14378667 GTTCTTTATGTTCATTCTTCCATT
1 CAAGTTTATGTTCATTCTTCAATT
14378691 CAAGTTTAT
1 CAAGTTTAT
14378700 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.53
Consensus pattern (24 bp):
CAAGTTTATGTTCATTCTTCAATT
Found at i:14379119 original size:23 final size:24
Alignment explanation
Indices: 14379088--14379137 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
14379078 TTGATACATA
* *
14379088 TTCAATTATTTGATTTC-TTTTGT
1 TTCAATTATTTAATTTCGTTTTAT
*
14379111 TTCATTTATTTAATTTCGTTTTAT
1 TTCAATTATTTAATTTCGTTTTAT
14379135 TTC
1 TTC
14379138 CATTCTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.18, C:0.10, G:0.06, T:0.66
Consensus pattern (24 bp):
TTCAATTATTTAATTTCGTTTTAT
Found at i:14379406 original size:13 final size:13
Alignment explanation
Indices: 14379388--14379414 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14379378 TGTTGGTATG
14379388 TCAGGATTTCTAC
1 TCAGGATTTCTAC
14379401 TCAGGATTTCTAC
1 TCAGGATTTCTAC
14379414 T
1 T
14379415 TTGGACGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TCAGGATTTCTAC
Found at i:14385282 original size:39 final size:38
Alignment explanation
Indices: 14385238--14385325 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 38
14385228 ATATTTAGTT
* *
14385238 TTAAGCATCTATCACATTACAT-ATATAATCACATAACA
1 TTAAGCATATATCACAATAC-TCATATAATCACATAACA
14385276 TATAAGCATATATCACAATACTCATATAATCACATAACA
1 T-TAAGCATATATCACAATACTCATATAATCACATAACA
14385315 TTCAAGCATAT
1 TT-AAGCATAT
14385326 GTCGCAAGAC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
38 3 0.07
39 42 0.93
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (38 bp):
TTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:14385338 original size:39 final size:39
Alignment explanation
Indices: 14385260--14385338 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 39
14385250 CACATTACAT
*
14385260 ATATAATCACATAACATATAAGCATATATCACAATACTC
1 ATATAATCACATAACATATAAGCATATATCACAAGACTC
* *
14385299 ATATAATCACATAACAT-TCAAGCATATGTCGCAAGACTC
1 ATATAATCACATAACATAT-AAGCATATATCACAAGACTC
14385338 A
1 A
14385339 AAAACACGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.27
Consensus pattern (39 bp):
ATATAATCACATAACATATAAGCATATATCACAAGACTC
Found at i:14397441 original size:50 final size:49
Alignment explanation
Indices: 14397321--14397584 Score: 280
Period size: 50 Copynumber: 5.3 Consensus size: 49
14397311 CATGCCAAAG
** * * * *
14397321 CCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTTTAC--TGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCC-ATC
* * ** *
14397370 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGACCATC
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG-CCATC
** * *
14397420 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATCTCGGTGCCAAC
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCATC
* *
14397469 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 -CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCATC
* *
14397519 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATG
1 -CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCC-ATC
*
14397570 CCATGTCCTAGACAT
1 CCATGTCCCAGACAT
14397585 TTATTATATC
Statistics
Matches: 184, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 36 0.20
50 144 0.78
51 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCATC
Found at i:14397493 original size:100 final size:100
Alignment explanation
Indices: 14397313--14397577 Score: 313
Period size: 100 Copynumber: 2.7 Consensus size: 100
14397303 GATAATAACA
* * * * ** *
14397313 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGT-TTCCTTTACTGCCAATGCCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTAAT-CTCGA-TGCCAATGCCATG
* * **
14397375 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
64 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
14397412 TGACCATC-CCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATCTCGGTGCCAACGCCATGT
1 TG-CCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTAATCTCGATGCCAATGCCATGT
*
14397476 CCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
65 CCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* *
14397512 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTAATCTCGATGCCAATGCCATGTC
14397577 C
66 C
14397578 TAGACATTTA
Statistics
Matches: 139, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
99 33 0.24
100 101 0.73
101 4 0.03
102 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTAATCTCGATGCCAATGCCATGTC
CCAAACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:14397583 original size:150 final size:149
Alignment explanation
Indices: 14397313--14397584 Score: 359
Period size: 150 Copynumber: 1.8 Consensus size: 149
14397303 GATAATAACA
* ** * * * *
14397313 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTTTACTGCCAATGCCATATCC
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTACTGCCAACGCCATATCC
* ** *
14397378 CAGATATGGTCTTACATGGGAGTTCTCATATCGGTGACCATCCCATGTCCCAGACATGGTCTTAC
66 CAGACATGGTCTTACATGGGACCTCTCATATCGATGACCATCCCATGTCCCAGACATGGTCTTAC
14397443 GGGGGACCTCTAATCTCGG
131 GGGGGACCTCTAATCTCGG
* *
14397462 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGCCATGT
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTAC--TGCCAACGCCATAT
* * *
14397526 CCCAGACATGGTCTTACATGGGACCTCTCATCTCGATG-CCAATGCCATGTCCTAGACAT
64 CCCAGACATGGTCTTACATGGGACCTCTCATATCGATGACC-ATCCCATGTCCCAGACAT
14397585 TTATTATATC
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
148 1 0.01
149 42 0.40
150 61 0.59
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (149 bp):
TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTACTGCCAACGCCATATCC
CAGACATGGTCTTACATGGGACCTCTCATATCGATGACCATCCCATGTCCCAGACATGGTCTTAC
GGGGGACCTCTAATCTCGG
Found at i:14398261 original size:12 final size:11
Alignment explanation
Indices: 14398232--14398275 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
14398222 AATCAGTTAA
*
14398232 TAATAAAATAA
1 TAATAAAATAT
*
14398243 TACTAAAAATAT
1 TAAT-AAAATAT
14398255 TAATAAAATAT
1 TAATAAAATAT
*
14398266 TAATTAAATA
1 TAATAAAATA
14398276 ACATTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:14401280 original size:18 final size:18
Alignment explanation
Indices: 14401240--14401281 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
14401230 AAGAAAACTT
* *
14401240 AGGGTTTTGAGAGTTTTA
1 AGGGTTTTAAGAGATTTA
14401258 A--GTTTTAAGAGATTTA
1 AGGGTTTTAAGAGATTTA
14401274 AGGGTTTT
1 AGGGTTTT
14401282 GGGGAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 14 0.70
18 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (18 bp):
AGGGTTTTAAGAGATTTA
Found at i:14401592 original size:21 final size:21
Alignment explanation
Indices: 14401559--14401598 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14401549 TTGTTGTTGT
*
14401559 GACACACAGAGTCTGTGTCGC
1 GACACACAGAGTCTATGTCGC
14401580 GACACAC-GAAGTCTATGTC
1 GACACACAG-AGTCTATGTC
14401599 ATGACATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (21 bp):
GACACACAGAGTCTATGTCGC
Found at i:14401604 original size:21 final size:21
Alignment explanation
Indices: 14401558--14401604 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
14401548 TTTGTTGTTG
* *
14401558 TGACACACAGAGTCTGTGTCG
1 TGACACACAGAGTCTATGTCA
*
14401579 CGACACAC-GAAGTCTATGTCA
1 TGACACACAG-AGTCTATGTCA
14401600 TGACA
1 TGACA
14401605 TCGAGTTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (21 bp):
TGACACACAGAGTCTATGTCA
Found at i:14406463 original size:90 final size:90
Alignment explanation
Indices: 14406356--14406536 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
14406346 AATGCTTTGT
14406356 TCTTCTCTCTTTGAATCAATTTCGATCCAAGATTTCATTTATGTAATCGAAGTTATTCAGTTTAT
1 TCTTCTCTCTTTGAATCAATTTCGATCCAAGATTTCATTTATGTAATCGAAGTTATTCAGTTTAT
14406421 TCCCCTTTGCAATTGACAAGATTCG
66 TCCCCTTTGCAATTGACAAGATTCG
14406446 TCTTCTCTCTTTGAATCAATTTCGATCCAAGATTTCATTTATGTAATCGAAGTTATTCAGTTTAT
1 TCTTCTCTCTTTGAATCAATTTCGATCCAAGATTTCATTTATGTAATCGAAGTTATTCAGTTTAT
14406511 TCCCCTTTGCAATTGACAAGATTCG
66 TCCCCTTTGCAATTGACAAGATTCG
14406536 T
1 T
14406537 TATCCCAATC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (90 bp):
TCTTCTCTCTTTGAATCAATTTCGATCCAAGATTTCATTTATGTAATCGAAGTTATTCAGTTTAT
TCCCCTTTGCAATTGACAAGATTCG
Found at i:14412532 original size:37 final size:37
Alignment explanation
Indices: 14412480--14412576 Score: 133
Period size: 37 Copynumber: 2.6 Consensus size: 37
14412470 AGTACATAAG
* * *
14412480 TAATCCACCTGATAACATGCTAAATGCTCATAAGAGC
1 TAATCCACCTAATAACACGCCAAATGCTCATAAGAGC
*
14412517 TAATCTACCTAATAACACGCCAAATGCTCATAAGAGC
1 TAATCCACCTAATAACACGCCAAATGCTCATAAGAGC
* *
14412554 TAATCCACC-GATAACAAGCCAAA
1 TAATCCACCTAATAACACGCCAAA
14412577 ACAGGGAGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 12 0.23
37 41 0.77
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.21
Consensus pattern (37 bp):
TAATCCACCTAATAACACGCCAAATGCTCATAAGAGC
Found at i:14414477 original size:22 final size:21
Alignment explanation
Indices: 14414436--14414479 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
14414426 AAAAAGCATA
* *
14414436 AAAATAAAAATTAAATTTCCT
1 AAAATAAAAATAAAACTTCCT
14414457 AAAATAAAAAATAAAACTTCCT
1 AAAAT-AAAAATAAAACTTCCT
14414479 A
1 A
14414480 TGTTACCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATAAAAATAAAACTTCCT
Found at i:14415028 original size:15 final size:15
Alignment explanation
Indices: 14414985--14415018 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14414975 TTGTTCCATC
* *
14414985 TCATCCTCCCCCTCT
1 TCATCTTCCTCCTCT
14415000 TCATCTTCCTCCTCT
1 TCATCTTCCTCCTCT
14415015 TCAT
1 TCAT
14415019 TTTTTTCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.50, G:0.00, T:0.41
Consensus pattern (15 bp):
TCATCTTCCTCCTCT
Found at i:14419640 original size:39 final size:39
Alignment explanation
Indices: 14419582--14419678 Score: 122
Period size: 39 Copynumber: 2.5 Consensus size: 39
14419572 ATTCACTTTT
* * * * * *
14419582 AAGCATATATCACATTACTCATATGATTACATAATGTTC
1 AAGCACATATCGCAATACTCATATAATCACATAACGTTC
*
14419621 AAGCACATATTGCAATACTCATATAATCACATAACGTTC
1 AAGCACATATCGCAATACTCATATAATCACATAACGTTC
*
14419660 AAGCATATATCGCAATACT
1 AAGCACATATCGCAATACT
14419679 TTTATAGATA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (39 bp):
AAGCACATATCGCAATACTCATATAATCACATAACGTTC
Found at i:14429252 original size:143 final size:144
Alignment explanation
Indices: 14428993--14429283 Score: 494
Period size: 143 Copynumber: 2.0 Consensus size: 144
14428983 CATCATTTGA
* *
14428993 CAACATTGGTGTTTGATGCACACAAATATAGTACAGAAACAAGTCAACATCTGAGGATAAAACAA
1 CAACATTGGAGTTTGATGCACACAAATATAGTACAGAAACAAGTCAACATCCGAGGATAAAACAA
* *
14429058 AACTATAACATGAGAAATGGGTCAGTAGGAAGCAGGAGATTACAACCT-AAAAAAAATCTATGCT
66 AACAATAACATGAGAAATGGGTCAGTAGGAAGCAGGAAATTACAACCTAAAAAAAAATCTATGCT
14429122 TTTATTTATTATTT
131 TTTATTTATTATTT
* *
14429136 CAACATTGGAGTTTGATGCTCACAGATATAGTACAGAAACAAGTCAACATCCGAGGATAAAACAA
1 CAACATTGGAGTTTGATGCACACAAATATAGTACAGAAACAAGTCAACATCCGAGGATAAAACAA
* * *
14429201 AACAATAACATGAGAAATGGGTTAGTAGGAGGCAGGAAATTACAACTTAAAAAAAAATCTATGCT
66 AACAATAACATGAGAAATGGGTCAGTAGGAAGCAGGAAATTACAACCTAAAAAAAAATCTATGCT
14429266 TTTATTTATTATTT
131 TTTATTTATTATTT
14429280 CAAC
1 CAAC
14429284 TTGAAATCTA
Statistics
Matches: 138, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
143 104 0.75
144 34 0.25
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (144 bp):
CAACATTGGAGTTTGATGCACACAAATATAGTACAGAAACAAGTCAACATCCGAGGATAAAACAA
AACAATAACATGAGAAATGGGTCAGTAGGAAGCAGGAAATTACAACCTAAAAAAAAATCTATGCT
TTTATTTATTATTT
Found at i:14433765 original size:11 final size:12
Alignment explanation
Indices: 14433744--14433768 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14433734 TCCCCCCCCC
14433744 CCCCAAAAAAAA
1 CCCCAAAAAAAA
14433756 CCCCAAAAAAAA
1 CCCCAAAAAAAA
14433768 C
1 C
14433769 AAATGGGCGA
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:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (12 bp):
CCCCAAAAAAAA
Found at i:14434587 original size:2 final size:2
Alignment explanation
Indices: 14434580--14434616 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14434570 ATCTAAAAGA
*
14434580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14434617 ATTACTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:14437118 original size:107 final size:109
Alignment explanation
Indices: 14436967--14437172 Score: 251
Period size: 108 Copynumber: 1.9 Consensus size: 109
14436957 ATTTTTGGAC
** *
14436967 CAAAAGTATGAAAAATAAAGGTGACTTCCCACATCTTGGGATGTC-ACTCATCCT-ATACAATCA
1 CAAAAGTATGAAAAATAAAGGTGACTTCCCACATCTCAGAATGTCGA-TCATCCTAATACAATCA
* *
14437030 ATC-TTTTCTATAACAACCA-CTCTTTATAACAAAATTTTACTATAA
65 A-CATTTACTATAACAA-CATCTCATTATAACAAAATTTTACTATAA
* ** * *
14437075 CAAAA-TATTAAAAATAAAGGTGACTTCCCATTTCTCAGAATGTCGATCGTTCTAATACAATCAA
1 CAAAAGTATGAAAAATAAAGGTGACTTCCCACATCTCAGAATGTCGATCATCCTAATACAATCAA
*
14437139 CATTTACTATAACAACATTTCATTATAACAAAAT
66 CATTTACTATAACAACATCTCATTATAACAAAAT
14437173 ATGGAAAATA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
107 41 0.49
108 42 0.51
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (109 bp):
CAAAAGTATGAAAAATAAAGGTGACTTCCCACATCTCAGAATGTCGATCATCCTAATACAATCAA
CATTTACTATAACAACATCTCATTATAACAAAATTTTACTATAA
Found at i:14437156 original size:15 final size:16
Alignment explanation
Indices: 14437136--14437169 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14437126 CTAATACAAT
14437136 CAACATTT-ACTATAA
1 CAACATTTCACTATAA
*
14437151 CAACATTTCATTATAA
1 CAACATTTCACTATAA
14437167 CAA
1 CAA
14437170 AATATGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (16 bp):
CAACATTTCACTATAA
Found at i:14439527 original size:11 final size:11
Alignment explanation
Indices: 14439511--14439541 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14439501 GGTGAGACAA
14439511 ACTTTGCTTCC
1 ACTTTGCTTCC
14439522 ACTTTGCTTCC
1 ACTTTGCTTCC
*
14439533 ATTTTGCTT
1 ACTTTGCTT
14439542 TGCATGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.29, G:0.10, T:0.52
Consensus pattern (11 bp):
ACTTTGCTTCC
Found at i:14452054 original size:18 final size:18
Alignment explanation
Indices: 14452014--14452047 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14452004 CCATATGGTC
14452014 TGCCCGTGTGGTCCCACA
1 TGCCCGTGTGGTCCCACA
14452032 TGCCCGTGT-GTCCCAC
1 TGCCCGTGTGGTCCCAC
14452048 TCGGCCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.09, C:0.41, G:0.26, T:0.24
Consensus pattern (18 bp):
TGCCCGTGTGGTCCCACA
Found at i:14466854 original size:14 final size:14
Alignment explanation
Indices: 14466820--14466848 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14466810 AATAGATTTA
14466820 ACTATACTAAAATG
1 ACTATACTAAAATG
14466834 ACTATACTAAAATG
1 ACTATACTAAAATG
14466848 A
1 A
14466849 TCATACATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACTATACTAAAATG
Found at i:14471500 original size:23 final size:23
Alignment explanation
Indices: 14471473--14471525 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
14471463 ATACCTACTT
* * *
14471473 TATTACTGTAGTAATTTTCGGGG
1 TATTACAGTAGTAATTTTCAGGA
14471496 TATTACAGTAGTAATTTTCAGGA
1 TATTACAGTAGTAATTTTCAGGA
14471519 TATTACA
1 TATTACA
14471526 TTCCCAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (23 bp):
TATTACAGTAGTAATTTTCAGGA
Found at i:14481004 original size:17 final size:17
Alignment explanation
Indices: 14480984--14481021 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
14480974 AAGTGATCAA
14480984 AAAAATA-AAGAAAAA-
1 AAAAATACAAGAAAAAG
14480999 AGAAAATACAAGAAAAAG
1 A-AAAATACAAGAAAAAG
14481017 AAAAA
1 AAAAA
14481022 AATAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 6 0.30
17 12 0.60
18 1 0.05
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAATACAAGAAAAAG
Found at i:14481006 original size:16 final size:16
Alignment explanation
Indices: 14480985--14481020 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
14480975 AGTGATCAAA
14480985 AAAATA-AAGAAAAAAG
1 AAAATACAAG-AAAAAG
14481001 AAAATACAAGAAAAAG
1 AAAATACAAGAAAAAG
14481017 AAAA
1 AAAA
14481021 AAATAAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAATACAAGAAAAAG
Found at i:14493148 original size:22 final size:19
Alignment explanation
Indices: 14493117--14493163 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
14493107 AAAGATGATA
14493117 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
14493140 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
14493159 ATTAT
1 ATTAT
14493164 CAACTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:14493159 original size:16 final size:15
Alignment explanation
Indices: 14493119--14493160 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
14493109 AGATGATAAT
14493119 TATTAATATATAATTA
1 TATTAAT-TATAATTA
14493135 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
14493151 TATTAATTAT
1 TATTAATTAT
14493161 TATCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:14495291 original size:98 final size:98
Alignment explanation
Indices: 14495117--14495313 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
14495107 ATACAATAAA
*
14495117 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACTATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
14495182 CCATTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCATTAAAATCCCAAACTCGAAATATTTCCTTT
*
14495215 ACTTTAAAAGAA-AGTCCGCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAAT
1 ACTTTAAAAGAACA-TCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAAT
*
14495279 TCCTTTAAAATCCCAAACTCGAAATATTTCCTTT
65 TCCATTAAAATCCCAAACTCGAAATATTTCCTTT
14495313 A
1 A
14495314 TGATTTTTAA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 92 0.99
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCATTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:14499795 original size:18 final size:19
Alignment explanation
Indices: 14499767--14499803 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14499757 GCATTCACAT
14499767 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
14499786 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
14499804 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:14506444 original size:27 final size:27
Alignment explanation
Indices: 14506414--14506570 Score: 124
Period size: 27 Copynumber: 5.8 Consensus size: 27
14506404 TATAACAGGT
14506414 ATTTTACCTTATGGGGGTATTTCAATA
1 ATTTTACCTTATGGGGGTATTTCAATA
* * * * *
14506441 ATTTTAACTTTTAGGGGTATTTTAGTA
1 ATTTTACCTTATGGGGGTATTTCAATA
* * *
14506468 ATTTTACCCTT-TAGGGGTATTTTAGTA
1 ATTTTA-CCTTATGGGGGTATTTCAATA
* ** *
14506495 ATTTTACC-CATCGAAGGTATTTCGATA
1 ATTTTACCTTAT-GGGGGTATTTCAATA
*
14506522 ATTTTACCCTT-TGGGGGTATTTCGATA
1 ATTTTA-CCTTATGGGGGTATTTCAATA
*
14506549 ATTTTA-CTTATCGAGGGTATTT
1 ATTTTACCTTAT-GGGGGTATTT
14506571 TGGTTATTTA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
25 3 0.03
26 4 0.04
27 93 0.88
28 6 0.06
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTTTACCTTATGGGGGTATTTCAATA
Found at i:14506485 original size:54 final size:55
Alignment explanation
Indices: 14506414--14506571 Score: 180
Period size: 54 Copynumber: 2.9 Consensus size: 55
14506404 TATAACAGGT
* *
14506414 ATTTTA-CCTTATGGGGGTATTTCAATAATTTTAACTTTTAG-GGGTATTTTAG-TA
1 ATTTTACCCTT-TGGGGGTATTTCAATAATTTT-ACTTATCGAGGGTATTTTAGATA
* * * ** * *
14506468 ATTTTACCCTTTAGGGGTATTTTAGTAATTTTACCCATCGAAGGTA-TTTCGATA
1 ATTTTACCCTTTGGGGGTATTTCAATAATTTTACTTATCGAGGGTATTTTAGATA
*
14506522 ATTTTACCCTTTGGGGGTATTTCGATAATTTTACTTATCGAGGGTATTTT
1 ATTTTACCCTTTGGGGGTATTTCAATAATTTTACTTATCGAGGGTATTTT
14506572 GGTTATTTAA
Statistics
Matches: 84, Mismatches: 16, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
53 8 0.10
54 69 0.82
55 7 0.08
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.46
Consensus pattern (55 bp):
ATTTTACCCTTTGGGGGTATTTCAATAATTTTACTTATCGAGGGTATTTTAGATA
Found at i:14523393 original size:135 final size:135
Alignment explanation
Indices: 14523149--14523411 Score: 409
Period size: 135 Copynumber: 1.9 Consensus size: 135
14523139 AAAGTTCTTA
* *** *
14523149 TTGATGAACGCATGAATTAACATAAAATTGGTTTCATCTTAATATGTTACAATAGTAAAAGTTCA
1 TTGATGAACACATGAATTAACATAAAACAAGTTTCATCTTAATATGTTACAATAGTAAAAGCTCA
*
14523214 CTAGTAAGAAACAGAGAAGTAAACAAGCCGAAGTCAAAAGTGTAGATAACAACATATTATAGTGA
66 CTAGTAAGAAACAGAGAAGTAAACAAGCCGAAGTCAAAAATGTAGATAACAACATATTATAGTGA
14523279 ACATT
131 ACATT
* * * *
14523284 TTGATGAACACATGAATTAACATAAAACAAGTTTCATCTTAATATGTTATAGTAGTGAAAGCTGA
1 TTGATGAACACATGAATTAACATAAAACAAGTTTCATCTTAATATGTTACAATAGTAAAAGCTCA
* * *
14523349 TTGGTAAGACACAGAGAAGTAAACAAGCCGAAGTCAAAAATGTAGATAACAACATATTATAGT
66 CTAGTAAGAAACAGAGAAGTAAACAAGCCGAAGTCAAAAATGTAGATAACAACATATTATAGT
14523412 AAAAAGTAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 115 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (135 bp):
TTGATGAACACATGAATTAACATAAAACAAGTTTCATCTTAATATGTTACAATAGTAAAAGCTCA
CTAGTAAGAAACAGAGAAGTAAACAAGCCGAAGTCAAAAATGTAGATAACAACATATTATAGTGA
ACATT
Found at i:14523924 original size:15 final size:16
Alignment explanation
Indices: 14523904--14523933 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14523894 TTCCAATTGT
14523904 AATTCATTTA-AAAAA
1 AATTCATTTACAAAAA
14523919 AATTCATTTACAAAA
1 AATTCATTTACAAAA
14523934 CCATAAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTCATTTACAAAAA
Found at i:14530003 original size:20 final size:20
Alignment explanation
Indices: 14529978--14530017 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14529968 CAACCACTTT
* *
14529978 AATTTATAAATAACAAATAG
1 AATTTACAAATAAAAAATAG
14529998 AATTTACAAATAAAAAATAG
1 AATTTACAAATAAAAAATAG
14530018 CAGATACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AATTTACAAATAAAAAATAG
Found at i:14533293 original size:36 final size:38
Alignment explanation
Indices: 14533234--14533310 Score: 99
Period size: 36 Copynumber: 2.1 Consensus size: 38
14533224 GTGCACATAA
14533234 ATATATAAAAATTATAAGAAATATATATA-AGCATATAT
1 ATATATAAAAATTATAAGAAATATATATATAG-ATATAT
*
14533272 ATATATGAAAAA-T-TAAG-AATATGTATATAGATATAT
1 ATATAT-AAAAATTATAAGAAATATATATATAGATATAT
14533308 ATA
1 ATA
14533311 GTTATGTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
36 18 0.50
37 6 0.17
38 7 0.19
39 5 0.14
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.35
Consensus pattern (38 bp):
ATATATAAAAATTATAAGAAATATATATATAGATATAT
Found at i:14533299 original size:38 final size:36
Alignment explanation
Indices: 14533234--14533310 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 36
14533224 GTGCACATAA
14533234 ATATATAAAAATTATAAGAAATATATATAAGCATATAT
1 ATATATAAAAATTATAAGAAATATATAT-AG-ATATAT
*
14533272 ATATATGAAAAA-T-TAAGAATATGTATATAGATATAT
1 ATATAT-AAAAATTATAAGAA-ATATATATAGATATAT
14533308 ATA
1 ATA
14533311 GTTATGTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
36 9 0.25
37 8 0.22
38 14 0.39
39 5 0.14
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.35
Consensus pattern (36 bp):
ATATATAAAAATTATAAGAAATATATATAGATATAT
Found at i:14533528 original size:21 final size:18
Alignment explanation
Indices: 14533472--14533517 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
14533462 AATAAACGCG
*
14533472 ATAATAGTAATATTAAAA
1 ATAATAATAATATTAAAA
*
14533490 ATAATAATAATAGTAAAA
1 ATAATAATAATATTAAAA
*
14533508 ATAATGATAA
1 ATAATAATAA
14533518 CACTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
ATAATAATAATATTAAAA
Found at i:14533911 original size:31 final size:33
Alignment explanation
Indices: 14533874--14533940 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
14533864 TGTACGACGT
14533874 CGTTTTGAGGCC-C-CAAACAAGCCCCAAACGA
1 CGTTTTGAGGCCACTCAAACAAGCCCCAAACGA
* *
14533905 CGTTTTGAGGCCACTGAAACAGGCCCCAAACGA
1 CGTTTTGAGGCCACTCAAACAAGCCCCAAACGA
14533938 CGT
1 CGT
14533941 CGTTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 12 0.38
32 1 0.03
33 19 0.59
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (33 bp):
CGTTTTGAGGCCACTCAAACAAGCCCCAAACGA
Found at i:14534962 original size:44 final size:44
Alignment explanation
Indices: 14534912--14534995 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
14534902 CGTGGTCTTC
* *
14534912 TCTACTGCAACTTCAGAGAGATAATAC-TGCTATCTTCAATCTAT
1 TCTACTGCAACCTCAGAGAGATAAGACTTG-TATCTTCAATCTAT
* *
14534956 TCTACTGTAACCTCAGTGAGATAAGACTTGTATCTTCAAT
1 TCTACTGCAACCTCAGAGAGATAAGACTTGTATCTTCAAT
14534996 AAAGTCTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (44 bp):
TCTACTGCAACCTCAGAGAGATAAGACTTGTATCTTCAATCTAT
Found at i:14535191 original size:44 final size:44
Alignment explanation
Indices: 14535116--14535219 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
14535106 ACTGAAACTT
* * * ** *
14535116 CTGCAACTTCA--GAGGTATGATTCATTATTTTGGTCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTCATCATTTTGACCCACTCCA
* *
14535158 CTGCAACTTCAGGGAGATAAGATTCATCGTTTTGACCCATTCCA
1 CTGCAACTTCAGGGAGATAAGATTCATCATTTTGACCCACTCCA
14535202 CTGCAACTTCAGGGAGAT
1 CTGCAACTTCAGGGAGAT
14535220 GGGACTCGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 11 0.21
44 41 0.79
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTCATCATTTTGACCCACTCCA
Found at i:14535655 original size:44 final size:43
Alignment explanation
Indices: 14535530--14535686 Score: 156
Period size: 44 Copynumber: 3.6 Consensus size: 43
14535520 TCCATCTATT
* *
14535530 CCACTACAACTTCAGGG-GAATAAGACTTGCTATTTTCAACCTGCA
1 CCACTGCAACTTCAGGGAG-ATAAGACTTG-TATCTTCAA-CTGCA
* * * *
14535575 CCACTGCAACTTCAGGGAGATGAGA-TTAGTAGCTTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCA-ACTGCA
* *
14535619 CCACTGTAACTTCAGGGAGATAAGACTTGTATCTTCAACTGGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACT-GCA
* *
14535663 CCATTGCAACTTCAGGGGGATAAG
1 CCACTGCAACTTCAGGGAGATAAG
14535687 GTTTGATATG
Statistics
Matches: 93, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
43 2 0.02
44 66 0.71
45 24 0.26
46 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACTGCA
Found at i:14536013 original size:89 final size:89
Alignment explanation
Indices: 14535911--14536128 Score: 337
Period size: 89 Copynumber: 2.4 Consensus size: 89
14535901 AGGACTAGTT
* * *
14535911 TTCGATCTACTTCACTGCCGGTACAGGAAGACAAGATCTGCTACTTTTAGTCTTCTCCACTGCAA
1 TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTGCTACTTATAGTCTGCTCCACTGCAA
* *
14535976 ACTCAAGGAGGTCAGGCTTGTGTC
66 ACTCAAGGAGATCAGGCTTGTGCC
*
14536000 TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTGCTACTTATAGTCTGCTCCGCTGCAA
1 TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTGCTACTTATAGTCTGCTCCACTGCAA
* *
14536065 ACTTAGGGAGATCAGGCTTGTGCC
66 ACTCAAGGAGATCAGGCTTGTGCC
* * *
14536089 TTCGATTTGCTTCACTGCCAGTACAGAAAGACAAGATCTG
1 TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTG
14536129 TTGCTTCTAT
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 118 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (89 bp):
TTCGATCTGCTTCACTGCCGGTACAGGAAGACAAGATCTGCTACTTATAGTCTGCTCCACTGCAA
ACTCAAGGAGATCAGGCTTGTGCC
Found at i:14536576 original size:24 final size:24
Alignment explanation
Indices: 14536520--14536577 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
14536510 GAATTACCCC
14536520 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
**
14536544 CCGTTGTAATCTTCAAAGTT-AAGT
1 CCACTGTAATCTTCAAAGTTCAA-T
*
14536568 CCACGGTAAT
1 CCACTGTAAT
14536578 TTTGGGACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:14537540 original size:9 final size:9
Alignment explanation
Indices: 14537521--14537586 Score: 62
Period size: 9 Copynumber: 6.9 Consensus size: 9
14537511 GGCCTTTCCT
14537521 TTTTCTTTTC
1 TTTT-TTTTC
14537531 TTTTTTTTC
1 TTTTTTTTC
14537540 TTTTATTTTTTC
1 --TT-TTTTTTC
14537552 TTTTTTTTC
1 TTTTTTTTC
* *
14537561 CTTTTCTTC
1 TTTTTTTTC
14537570 TTTTTTTT-
1 TTTTTTTTC
14537578 TGTTTTTTT
1 T-TTTTTTT
14537587 TTAACATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
8 1 0.02
9 32 0.67
10 6 0.12
11 2 0.04
12 7 0.15
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:14537571 original size:30 final size:29
Alignment explanation
Indices: 14537520--14537588 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
14537510 TGGCCTTTCC
* *
14537520 TTTTTCTTTTCTTTTTTTTCTTTTATTTTT-
1 TTTTT-TTTTCCTTTTCTTCTTTT-TTTTTG
14537550 TCTTTTTTTTCCTTTTCTTCTTTTTTTTTG
1 T-TTTTTTTTCCTTTTCTTCTTTTTTTTTG
14537580 TTTTTTTTT
1 TTTTTTTTT
14537589 AACATTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 13 0.37
30 18 0.51
31 4 0.11
ACGTcount: A:0.01, C:0.12, G:0.01, T:0.86
Consensus pattern (29 bp):
TTTTTTTTTCCTTTTCTTCTTTTTTTTTG
Found at i:14541740 original size:69 final size:69
Alignment explanation
Indices: 14541628--14541760 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 69
14541618 TTTAAAAAGG
* *
14541628 GGATCATGCCCAGTAAGTGAGGACACGATCTTTTCTTAGTTCCCGAGATCGCTCAAAACTTGAGA
1 GGATCATGCCCAGTAAGTGAGGACACGATCTCTTCTTAATTCCCGAGATCGCTCAAAACTTGAGA
14541693 AAAA
66 AAAA
* * *
14541697 GGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAACTTGAG
1 GGATCATGCCCAGTAAGTGAGGACACGATCTCTTCTTAATTCCCGAGATCGCTCAAAACTTGAG
14541761 TTTGAAAAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (69 bp):
GGATCATGCCCAGTAAGTGAGGACACGATCTCTTCTTAATTCCCGAGATCGCTCAAAACTTGAGA
AAAA
Found at i:14542413 original size:38 final size:38
Alignment explanation
Indices: 14542341--14542448 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
14542331 TTGAAATTAT
* ** * *
14542341 AAAATATAAAAAATATATATGTGCACATAAATATATA-
1 AAAATATAAGAAATATATATAAGCATATATATATATAG
14542378 AAAATTATAAGAAATATATATAAGCATATATATATATATG
1 AAAA-TATAAGAAATATATATAAGCATATATATATATA-G
*
14542418 AAAAT-TAAG-AATATGTATATAG-ATATATATA
1 AAAATATAAGAAATATATATA-AGCATATATATA
14542449 GTTATGTTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
37 22 0.36
38 34 0.56
39 1 0.02
40 4 0.07
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.33
Consensus pattern (38 bp):
AAAATATAAGAAATATATATAAGCATATATATATATAG
Found at i:14542655 original size:18 final size:18
Alignment explanation
Indices: 14542610--14542655 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
14542600 AATAAACGCG
* *
14542610 ATAATAGTAATATTAAAA
1 ATAATAATAATAGTAAAA
*
14542628 ATATTAATAATAGTAAAA
1 ATAATAATAATAGTAAAA
*
14542646 ATAATGATAA
1 ATAATAATAA
14542656 CACTATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
ATAATAATAATAGTAAAA
Found at i:14555278 original size:53 final size:51
Alignment explanation
Indices: 14555148--14555298 Score: 146
Period size: 53 Copynumber: 2.9 Consensus size: 51
14555138 CTCTATGCCA
* * * * *
14555148 CATGTTATTTGGCTTTGCGGAGGTTCGAGTGA-ATTGTACGAAGAATGTATATG
1 CATGATATTT-GCTTTGCGGAGGTTTG-G-GAGATTGTACGGAGGATGCATATG
**
14555201 CATGATATTTGACTTTGCAAAGGTTTGGGCAGATTGTACGGAGGATGCATATG
1 CATGATATTTG-CTTTGCGGAGGTTTGGG-AGATTGTACGGAGGATGCATATG
14555254 CATGATATTTAGCTTTGCGGAGGTTTGGTTG-GATTGTACGG-GGAT
1 CATGATATTT-GCTTTGCGGAGGTTTGG--GAGATTGTACGGAGGAT
14555299 ATATGTGTTG
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
51 1 0.01
52 7 0.08
53 73 0.88
54 1 0.01
55 1 0.01
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (51 bp):
CATGATATTTGCTTTGCGGAGGTTTGGGAGATTGTACGGAGGATGCATATG
Found at i:14563143 original size:22 final size:21
Alignment explanation
Indices: 14563118--14563161 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
14563108 TGATAAACTT
14563118 TAATATATA-ATTAAATTATTTA
1 TAATATATATATT-AATT-TTTA
*
14563140 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
14563161 T
1 T
14563162 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:14569359 original size:4 final size:4
Alignment explanation
Indices: 14569350--14569413 Score: 110
Period size: 4 Copynumber: 16.0 Consensus size: 4
14569340 TACTTTCACC
* *
14569350 TCTA TCTA TCTA TCAA TTTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
14569398 TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA
14569414 GTACATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (4 bp):
TCTA
Found at i:14573515 original size:24 final size:24
Alignment explanation
Indices: 14573488--14573539 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14573478 TTAGTAAGTC
*
14573488 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14573512 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14573536 AAAT
1 AAAT
14573540 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14575390 original size:24 final size:24
Alignment explanation
Indices: 14575363--14575414 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14575353 TTAGTAAGTC
*
14575363 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14575387 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14575411 AAAT
1 AAAT
14575415 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14585807 original size:20 final size:19
Alignment explanation
Indices: 14585780--14585837 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
14585770 TATAAAAGAA
14585780 AAAGAAAAATAAAGTAAGT
1 AAAGAAAAATAAAGTAAGT
14585799 AATAGAAAAAT-AA-TAA-T
1 AA-AGAAAAATAAAGTAAGT
14585816 -AAGAAAAATAAAGTAAAGT
1 AAAGAAAAATAAAGT-AAGT
14585835 AAA
1 AAA
14585838 ATAAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
15 8 0.24
16 3 0.09
17 2 0.06
18 5 0.15
19 5 0.15
20 10 0.30
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (19 bp):
AAAGAAAAATAAAGTAAGT
Found at i:14585820 original size:35 final size:36
Alignment explanation
Indices: 14585737--14585850 Score: 110
Period size: 37 Copynumber: 3.1 Consensus size: 36
14585727 AGCATTGCAT
* * *
14585737 TAATAATAATAATAATAAACTAAA-TATAATAAATATAA
1 TAATAATAAGAAAAATAAAGTAAAGTA-AATAAA-A-AA
* *
14585775 -AAGAAAAAGAAAAATAAAGT-AAGT-AATAGAAAAA
1 TAATAATAAGAAAAATAAAGTAAAGTAAATA-AAAAA
14585809 TAATAATAAGAAAAATAAAGTAAAGTAAAATAAAAAA
1 TAATAATAAGAAAAATAAAGTAAAGT-AAATAAAAAA
14585846 TAATA
1 TAATA
14585851 TAAATAAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
34 2 0.03
35 23 0.37
36 8 0.13
37 26 0.41
38 4 0.06
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (36 bp):
TAATAATAAGAAAAATAAAGTAAAGTAAATAAAAAA
Found at i:14585848 original size:31 final size:31
Alignment explanation
Indices: 14585766--14585858 Score: 80
Period size: 35 Copynumber: 2.8 Consensus size: 31
14585756 CTAAATATAA
*
14585766 TAAATATAAAAGAAAAAGAAAAATAAAGTAAG
1 TAAA-ATAAAAGAATAAGAAAAATAAAGTAAG
* *
14585798 TAATAGAAAAATAATAATAAGAAAAATAAAGTAAAG
1 T-A-A-AATAA-AAGAATAAGAAAAATAAAGT-AAG
* *
14585834 TAAAATAAAA-AATAATATAAATAAA
1 TAAAATAAAAGAATAAGAAAAATAAA
14585859 TAATATAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
31 13 0.26
32 3 0.06
33 5 0.10
34 5 0.10
35 20 0.40
36 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (31 bp):
TAAAATAAAAGAATAAGAAAAATAAAGTAAG
Found at i:14585857 original size:40 final size:35
Alignment explanation
Indices: 14585781--14585850 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 35
14585771 ATAAAAGAAA
14585781 AAGAAAAATAAAGTAAGTAATAGAAAAATAATAAT
1 AAGAAAAATAAAGTAAGTAATAGAAAAATAATAAT
14585816 AAGAAAAATAAAGTAAAGTAAAATA-AAAAATAATA
1 AAGAAAAATAAAGT-AAGT--AATAGAAAAATAATA
14585851 TAAATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 14 0.44
36 4 0.12
37 10 0.31
38 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (35 bp):
AAGAAAAATAAAGTAAGTAATAGAAAAATAATAAT
Found at i:14585861 original size:13 final size:13
Alignment explanation
Indices: 14585823--14585867 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
14585813 AATAAGAAAA
*
14585823 ATAAAGTAAAGTAAA
1 ATAAA-TAAA-TAAT
14585838 ATAAA-AAATAAT
1 ATAAATAAATAAT
14585850 ATAAATAAATAAT
1 ATAAATAAATAAT
14585863 ATAAA
1 ATAAA
14585868 GAAAGAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 8 0.29
13 15 0.54
15 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:14590614 original size:30 final size:30
Alignment explanation
Indices: 14590550--14590614 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
14590540 ATTTTCGAGC
**
14590550 TTGGGGACAAAACTGTAATTATGCAAAAGT
1 TTGGGGACAAAACTGTAATTATGCAAAAAA
* * * *
14590580 TTGGGGGCAAAATTGTAATTTTTCAAAAAA
1 TTGGGGACAAAACTGTAATTATGCAAAAAA
14590610 TTGGG
1 TTGGG
14590615 TGGTGGATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGGGGACAAAACTGTAATTATGCAAAAAA
Found at i:14590980 original size:27 final size:26
Alignment explanation
Indices: 14590944--14590994 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
14590934 GAATAAAAAG
14590944 GGGGTTGCTAAGTGCTGATTTCCCCAA
1 GGGGTTGCTAAGTGCTGA-TTCCCCAA
*
14590971 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
14590995 TATTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:14591015 original size:33 final size:33
Alignment explanation
Indices: 14590973--14591270 Score: 133
Period size: 33 Copynumber: 8.4 Consensus size: 33
14590963 TTCCCCAAGG
*
14590973 GGTTGCTAAGTGTTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* *
14591006 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATTTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-CA-TT---GGT
* *
14591048 GGTTGCTAAGTGCTGATTCCCCAACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* *
14591081 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAACGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-CAT-TG---GT
*
14591123 GGTTGCTAAGTGCTGATTCTCCC----GA--GG-
1 GGTTGCTAAGTGCTGATTC-CCCTATTCATTGGT
* *
14591150 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* * ** * *
14591183 GGTCGTTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-CAT-TG---GT
* *
14591225 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
14591258 GGTTGCTAAGTGC
1 GGTTGCTAAGTGC
14591271 GAAATCCACC
Statistics
Matches: 200, Mismatches: 30, Indels: 70
0.67 0.10 0.23
Matches are distributed among these distances:
26 3 0.01
27 19 0.09
28 1 0.00
30 1 0.00
31 1 0.00
32 2 0.01
33 70 0.35
34 7 0.04
35 4 0.02
36 4 0.02
37 7 0.04
38 8 0.04
39 6 0.03
40 2 0.01
41 4 0.02
42 60 0.30
43 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
Found at i:14591065 original size:42 final size:42
Alignment explanation
Indices: 14591006--14591141 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 42
14590996 ATTCATTGGT
*
14591006 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATTTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATTTGAAGGG
* * *
14591048 GGTTGCTAAGTGCTGATTCC-CC--A-ACT-CA-TT---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATTTGAAGGG
* * *
14591081 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAACGG
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATTTGAAGGG
14591123 GGTTGCTAAGTGCTGATTC
1 GGTTGCTAAGTGCTGATTC
14591142 TCCCGAGGGG
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
33 22 0.29
34 2 0.03
36 3 0.04
37 2 0.03
38 2 0.03
39 2 0.03
41 2 0.03
42 40 0.53
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATATTAAATTTGAAGGG
Found at i:14591094 original size:75 final size:75
Alignment explanation
Indices: 14590971--14591141 Score: 288
Period size: 75 Copynumber: 2.3 Consensus size: 75
14590961 ATTTCCCCAA
* * * *
14590971 GGGGTTGCTAAGTGTTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
* *
14591036 AAATTTGAAG
66 AAATGTGAAC
14591046 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
14591111 AAATGTGAAC
66 AAATGTGAAC
14591121 GGGGTTGCTAAGTGCTGATTC
1 GGGGTTGCTAAGTGCTGATTC
14591142 TCCCGAGGGG
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (75 bp):
GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
AAATGTGAAC
Found at i:14591152 original size:102 final size:101
Alignment explanation
Indices: 14591046--14591248 Score: 327
Period size: 102 Copynumber: 2.0 Consensus size: 101
14591036 AAATTTGAAG
* **
14591046 GGGGTTGCTAAGTGCTGATTCCCC-AACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGAA-TCATTGGTGGTCGCTAAGTGCTGAACCCACCGTATCT
*
14591110 TAAATGTGAACGGGGTTGCTAAGTGCTGATTCTCCCGA
65 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTC-CCCGA
*
14591148 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTCGTTAAGTGCTGAACCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTCGCTAAGTGCTGAACCCACCGTATCTT
*
14591213 AAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCGA
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGA
14591249 TTCATTGGTG
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
101 5 0.05
102 87 0.93
103 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (101 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTCGCTAAGTGCTGAACCCACCGTATCTT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:14591159 original size:27 final size:26
Alignment explanation
Indices: 14591121--14591173 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
14591111 AAATGTGAAC
14591121 GGGGTTGCTAAGTGCTGATTCTCCCGA
1 GGGGTTGCTAAGTGCTGATTC-CCCGA
14591148 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
14591174 ATCATTGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:14591244 original size:177 final size:177
Alignment explanation
Indices: 14590944--14591270 Score: 512
Period size: 177 Copynumber: 1.8 Consensus size: 177
14590934 GAATAAAAAG
* * *
14590944 GGGGTTGCTAAGTGCTGATTTCCCCAAGGGGTTGCTAAGTGTTGATTCCCCTATTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTTCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
* ** * * *
14591009 TGCTAAGTGCTGATTCCACCGTATTTTAAATTTGAAGGGGGTTGCTAAGTGCTGATTCCCCAACT
66 CGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAACT
14591074 CATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAC
131 CATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAC
*
14591121 GGGGTTGCTAAGTGCTGA-TTCTCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
1 GGGGTTGCTAAGTGCTGATTTC-CCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGG
* * * *
14591185 TCGTTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCGAT
65 TCGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAAC
14591250 TCATTGGTGGTTGCTAAGTGC
130 TCATTGGTGGTTGCTAAGTGC
14591271 GAAATCCACC
Statistics
Matches: 135, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
176 3 0.02
177 132 0.98
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (177 bp):
GGGGTTGCTAAGTGCTGATTTCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
CGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAACT
CATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAC
Found at i:14596334 original size:22 final size:22
Alignment explanation
Indices: 14596306--14596356 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
14596296 GTTGCTGAAA
14596306 TCTCATGGCTAACGTACTAAGC
1 TCTCATGGCTAACGTACTAAGC
** *
14596328 TCTCATGTTTCACGTACTAAGC
1 TCTCATGGCTAACGTACTAAGC
14596350 TCTCATG
1 TCTCATG
14596357 TTTGAACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (22 bp):
TCTCATGGCTAACGTACTAAGC
Found at i:14596357 original size:22 final size:22
Alignment explanation
Indices: 14596317--14596359 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14596307 CTCATGGCTA
14596317 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
14596339 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
14596360 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:14598092 original size:30 final size:30
Alignment explanation
Indices: 14598028--14598092 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
14598018 ACTTTTGAGC
**
14598028 TTGGGGACAAAACTGTAATTATGCAAAAGT
1 TTGGGGACAAAACTGTAATTATGCAAAAAA
* * * *
14598058 TTGGGGGCAAAATTGTAATTTTTCAAAAAA
1 TTGGGGACAAAACTGTAATTATGCAAAAAA
14598088 TTGGG
1 TTGGG
14598093 TGGTGGATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGGGGACAAAACTGTAATTATGCAAAAAA
Found at i:14598493 original size:33 final size:33
Alignment explanation
Indices: 14598424--14598747 Score: 152
Period size: 33 Copynumber: 9.4 Consensus size: 33
14598414 ATAAAAAGGG
*
14598424 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
*
14598451 GGTTGCTAAGTGTTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* *
14598484 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATTTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-CA-TT---GGT
* *
14598526 GGTTGCTAAGTGCTGATTCCCCAACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* *
14598559 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAACGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-CAT-TG---GT
*
14598601 GGTTGCTAAGTGCTGATT---CT-TCCGA--GG-
1 GGTTGCTAAGTGCTGATTCCCCTATTC-ATTGGT
* *
14598628 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* ** * *
14598661 GGTTGTTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-CAT-TG---GT
*
14598703 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
14598736 GGTTGCTAAGTG
1 GGTTGCTAAGTG
14598748 TTGAATCCAC
Statistics
Matches: 225, Mismatches: 31, Indels: 76
0.68 0.09 0.23
Matches are distributed among these distances:
27 39 0.17
28 1 0.00
30 2 0.01
31 4 0.02
32 4 0.02
33 71 0.32
34 8 0.04
35 4 0.02
36 4 0.02
37 8 0.04
38 9 0.04
39 6 0.03
40 2 0.01
41 4 0.02
42 59 0.26
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
Found at i:14598543 original size:42 final size:42
Alignment explanation
Indices: 14598484--14598619 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 42
14598474 ATTCATTGGT
*
14598484 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATTTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATTTGAAGGG
* * *
14598526 GGTTGCTAAGTGCTGATTCC-CC--A-ACT-CA-TT---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATTTGAAGGG
* * *
14598559 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAACGG
1 GGTTGCTAAGTGCTGATTCCACCGTATATTAAATTTGAAGGG
14598601 GGTTGCTAAGTGCTGATTC
1 GGTTGCTAAGTGCTGATTC
14598620 TTCCGAGGGG
Statistics
Matches: 75, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
33 22 0.29
34 2 0.03
36 3 0.04
37 2 0.03
38 2 0.03
39 2 0.03
41 2 0.03
42 40 0.53
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATATTAAATTTGAAGGG
Found at i:14598572 original size:75 final size:75
Alignment explanation
Indices: 14598449--14598619 Score: 288
Period size: 75 Copynumber: 2.3 Consensus size: 75
14598439 ATTCCCCCAA
* * * *
14598449 GGGGTTGCTAAGTGTTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
* *
14598514 AAATTTGAAG
66 AAATGTGAAC
14598524 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
14598589 AAATGTGAAC
66 AAATGTGAAC
14598599 GGGGTTGCTAAGTGCTGATTC
1 GGGGTTGCTAAGTGCTGATTC
14598620 TTCCGAGGGG
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (75 bp):
GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
AAATGTGAAC
Found at i:14598630 original size:102 final size:102
Alignment explanation
Indices: 14598524--14598721 Score: 344
Period size: 102 Copynumber: 1.9 Consensus size: 102
14598514 AAATTTGAAG
**
14598524 GGGGTTGCTAAGTGCTGATTCCCC-AACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGAA-TCATTGGTGGTTGCTAAGTGCTGAACCCACCGTATCT
*
14598588 TAAATGTGAACGGGGTTGCTAAGTGCTGATTCTTCCGA
65 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCTTCCGA
*
14598626 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGTTAAGTGCTGAACCCACCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAACCCACCGTATCTT
14598691 AAATGTGAAAGGGGTTGCTAAGTGCTGATTC
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTC
14598722 CCCGATTCAT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 89 0.98
103 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAACCCACCGTATCTT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCTTCCGA
Found at i:14598718 original size:177 final size:177
Alignment explanation
Indices: 14598422--14598759 Score: 532
Period size: 177 Copynumber: 1.9 Consensus size: 177
14598412 GAATAAAAAG
* * *
14598422 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCTATTCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
** * * *
14598487 TGCTAAGTGCTGATTCCACCGTATTTTAAATTTGAAGGGGGTTGCTAAGTGCTGATTCCCCAACT
66 TGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAACT
*
14598552 CATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAC
131 CATTGGTGGTTGCTAAGTGCTGAATCCACCGTATCTTAAATGTGAAC
** *
14598599 GGGGTTGCTAAGTGCTGATTCTTCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
* * *
14598664 TGTTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGATT
66 TGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAACT
*
14598729 CATTGGTGGTTGCTAAGTGTTGAATCCACCG
131 CATTGGTGGTTGCTAAGTGCTGAATCCACCG
14598760 ATAACGGTTA
Statistics
Matches: 145, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 145 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (177 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
TGCTAAGTGCTGAACCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCAACT
CATTGGTGGTTGCTAAGTGCTGAATCCACCGTATCTTAAATGTGAAC
Found at i:14609693 original size:14 final size:14
Alignment explanation
Indices: 14609674--14609701 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14609664 TTTGTGTGGC
14609674 CCTATGAAGACACA
1 CCTATGAAGACACA
14609688 CCTATGAAGACACA
1 CCTATGAAGACACA
14609702 ATCCTTGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (14 bp):
CCTATGAAGACACA
Found at i:14618232 original size:29 final size:28
Alignment explanation
Indices: 14618191--14618247 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
14618181 GGTTTCAATG
14618191 TAACCGTTGCAACATAACTGTAGAAGGT
1 TAACCGTTGCAACATAACTGTAGAAGGT
* *
14618219 TAACCAGTTGCAACGTAACTGTAGTAGGT
1 TAACC-GTTGCAACATAACTGTAGAAGGT
14618248 CTTGCTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (28 bp):
TAACCGTTGCAACATAACTGTAGAAGGT
Found at i:14627396 original size:25 final size:26
Alignment explanation
Indices: 14627338--14627415 Score: 76
Period size: 25 Copynumber: 3.1 Consensus size: 26
14627328 GACCATAGCC
14627338 CGTATGAGCTT-TTCGATTTGCAGCT
1 CGTATGAGCTTATTCGATTTGCAGCT
*
14627363 TGT-TAGAGCTTATT-GATTCT-CAGCT
1 CGTAT-GAGCTTATTCGATT-TGCAGCT
* *
14627388 CGTATGAGCTTA-CCGATTTACAGCT
1 CGTATGAGCTTATTCGATTTGCAGCT
14627413 CGT
1 CGT
14627416 GAGAGCATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
24 2 0.05
25 38 0.86
26 4 0.09
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (26 bp):
CGTATGAGCTTATTCGATTTGCAGCT
Found at i:14627421 original size:25 final size:23
Alignment explanation
Indices: 14627351--14627430 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 23
14627341 ATGAGCTTTT
* *
14627351 CGATTTGCAGCTTGTTAGAGCTTAT
1 CGATTT-CAGCTCG-TAGAGCTTAC
*
14627376 TGATTCTCAGCTCGTATGAGCTTAC
1 CGATT-TCAGCTCGTA-GAGCTTAC
*
14627401 CGATTTACAGCTCGTGAGAGCATAC
1 CGATTT-CAGCTCGT-AGAGCTTAC
14627426 CGATT
1 CGATT
14627431 CATAGCTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
24 3 0.07
25 41 0.89
26 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (23 bp):
CGATTTCAGCTCGTAGAGCTTAC
Found at i:14627431 original size:50 final size:50
Alignment explanation
Indices: 14627331--14627446 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 50
14627321 GTAGACAGAC
* ** * * * * **
14627331 CATAGCCCGTATGAGCTTTTCGATTTGCAGCTTGTTAGAGCTTATTGATT
1 CATAGCTCGTATGAGCTTACCGATTTACAGCTCGTGAGAGCATACCGATT
14627381 C-TCAGCTCGTATGAGCTTACCGATTTACAGCTCGTGAGAGCATACCGATT
1 CAT-AGCTCGTATGAGCTTACCGATTTACAGCTCGTGAGAGCATACCGATT
*
14627431 CATAGCTCATATGAGC
1 CATAGCTCGTATGAGC
14627447 ATACATGTAC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.02
50 52 0.96
51 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (50 bp):
CATAGCTCGTATGAGCTTACCGATTTACAGCTCGTGAGAGCATACCGATT
Found at i:14627437 original size:25 final size:25
Alignment explanation
Indices: 14627377--14627450 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
14627367 AGAGCTTATT
* *
14627377 GATTCTCAGCTCGTATGAGCTTACC
1 GATTCACAGCTCGTATGAGCATACC
*
14627402 GATTTACAGCTCGTGA-GAGCATACC
1 GATTCACAGCTCGT-ATGAGCATACC
* *
14627427 GATTCATAGCTCATATGAGCATAC
1 GATTCACAGCTCGTATGAGCATAC
14627451 ATGTACAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
GATTCACAGCTCGTATGAGCATACC
Found at i:14634399 original size:21 final size:22
Alignment explanation
Indices: 14634373--14634414 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
14634363 TTCCATGACA
14634373 TTTTTC-GTACATATCTATATT
1 TTTTTCAGTACATATCTATATT
*
14634394 TTTTTCTATTACATATCTATA
1 TTTTTC-AGTACATATCTATA
14634415 CATGCATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.26, C:0.14, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTTCAGTACATATCTATATT
Found at i:14641884 original size:26 final size:26
Alignment explanation
Indices: 14641855--14641904 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
14641845 TCTCATCCCT
14641855 ATTTTACCCCTAGTAAAATTTTGATA
1 ATTTTACCCCTAGTAAAATTTTGATA
14641881 ATTTTACCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
14641905 GAAAATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATA
Found at i:14648719 original size:10 final size:10
Alignment explanation
Indices: 14648719--14648754 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
14648709 TAAGATTAAT
*
14648719 TTAATTAGGA
1 TTAATTAAGA
14648729 TTAATT-AGA
1 TTAATTAAGA
14648738 TTAATTAAGA
1 TTAATTAAGA
14648748 TTAATTA
1 TTAATTA
14648755 TATTTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (10 bp):
TTAATTAAGA
Found at i:14648730 original size:15 final size:16
Alignment explanation
Indices: 14648698--14648753 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
14648688 ACTAAAGTTC
14648698 TTAATTTAAATTAAGA
1 TTAATTTAAATTAAGA
*
14648714 TTAATTT-AATTAGGA
1 TTAATTTAAATTAAGA
*
14648729 TTAATTAGATTAATTAAGA
1 TTAATT---TAAATTAAGA
14648748 TTAATT
1 TTAATT
14648754 ATATTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 13 0.38
16 7 0.21
18 1 0.03
19 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (16 bp):
TTAATTTAAATTAAGA
Found at i:14649091 original size:21 final size:22
Alignment explanation
Indices: 14649051--14649091 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14649041 CTTAGATATG
14649051 AAAAATGGCTAGTTTGTAAAGT
1 AAAAATGGCTAGTTTGTAAAGT
* *
14649073 AAAAATTGTTAGTTT-TAAA
1 AAAAATGGCTAGTTTGTAAA
14649092 CATAATAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (22 bp):
AAAAATGGCTAGTTTGTAAAGT
Found at i:14652825 original size:24 final size:24
Alignment explanation
Indices: 14652792--14652842 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
14652782 TTTGGTTCAT
*
14652792 AACTCCTATTATACATGTATTTAG
1 AACTCCTATTATACACGTATTTAG
*
14652816 AACTCGTATTATACACGTATTTAG
1 AACTCCTATTATACACGTATTTAG
14652840 AAC
1 AAC
14652843 AACTTGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (24 bp):
AACTCCTATTATACACGTATTTAG
Found at i:14658121 original size:25 final size:26
Alignment explanation
Indices: 14658080--14658129 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
14658070 ATACTTTGAT
14658080 TAAACTTTAATTAATCTTA-ATTAAC
1 TAAACTTTAATTAATCTTACATTAAC
14658105 TAAACCTTTAATT-ATCTTACATTAA
1 TAAA-CTTTAATTAATCTTACATTAA
14658130 TCACCATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAACTTTAATTAATCTTACATTAAC
Found at i:14669050 original size:29 final size:30
Alignment explanation
Indices: 14668996--14669053 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
14668986 AATAGTATTT
14668996 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAATTTAATATT-AAGTGATTATCTTAA
*
14669027 TATTAAATTTAAT-TT-AGTGCTTATCTT
1 TATT-AATTTAATATTAAGTGATTATCTT
14669054 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 11 0.44
31 6 0.24
32 8 0.32
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (30 bp):
TATTAATTTAATATTAAGTGATTATCTTAA
Found at i:14674623 original size:15 final size:15
Alignment explanation
Indices: 14674603--14674631 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14674593 TATGCCTATT
14674603 TTTACATCAAATTTA
1 TTTACATCAAATTTA
14674618 TTTACATCAAATTT
1 TTTACATCAAATTT
14674632 TCAAACATCG
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:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTACATCAAATTTA
Found at i:14680972 original size:6 final size:6
Alignment explanation
Indices: 14680961--14680985 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14680951 GTTATCTCCC
14680961 CCTAAA CCTAAA CCTAAA CCTAAA C
1 CCTAAA CCTAAA CCTAAA CCTAAA C
14680986 TATAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAA
Found at i:14693689 original size:21 final size:21
Alignment explanation
Indices: 14693638--14693689 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 21
14693628 CCGCTCGTGT
14693638 GGTTGGCCGTGTGATCGAACA
1 GGTTGGCCGTGTGATCGAACA
*
14693659 ---TGGACGTGTGATCG-ACGA
1 GGTTGGCCGTGTGATCGAAC-A
14693677 GGTTGGCCGTGTG
1 GGTTGGCCGTGTG
14693690 CGATACATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
21 9 0.36
ACGTcount: A:0.15, C:0.17, G:0.42, T:0.25
Consensus pattern (21 bp):
GGTTGGCCGTGTGATCGAACA
Found at i:14698057 original size:14 final size:14
Alignment explanation
Indices: 14698038--14698075 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
14698028 CCAAAAAAGT
14698038 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
14698052 AAATCATTTTCTAG
1 AAATCATTTTCCAG
*
14698066 AAAACATTTT
1 AAATCATTTT
14698076 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:14699080 original size:24 final size:24
Alignment explanation
Indices: 14699049--14699101 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
14699039 AAACTTTATT
14699049 TTTCCCATAAAAACCTCC-ATATGG
1 TTTCCCATAAAAACCTCCTA-ATGG
14699073 TTTCCCATAAAAACCTCCTAATGG
1 TTTCCCATAAAAACCTCCTAATGG
14699097 TTTCC
1 TTTCC
14699102 AAATGATTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (24 bp):
TTTCCCATAAAAACCTCCTAATGG
Found at i:14701618 original size:36 final size:36
Alignment explanation
Indices: 14701571--14701640 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
14701561 AACCACGTAT
14701571 TTTAGATTTTAACTTTTATTTGATGTAAGTTTATAG
1 TTTAGATTTTAACTTTTATTTGATGTAAGTTTATAG
14701607 TTTAGATTTTAACTTTTATTTGATGTAAGTTTAT
1 TTTAGATTTTAACTTTTATTTGATGTAAGTTTAT
14701641 CCTTAGATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (36 bp):
TTTAGATTTTAACTTTTATTTGATGTAAGTTTATAG
Found at i:14703285 original size:73 final size:73
Alignment explanation
Indices: 14703166--14703313 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
14703156 CTAGGCAAAA
14703166 TAACATTTGAGTCCTCAATTATACACTAGATATGTTCGGTGATAGTACTAAAAAGAACATAGGTT
1 TAACATTTGAGTCCTCAATTATACACTAGATATGTTCGGTGATAGTACTAAAAAGAACATAGGTT
14703231 TTCCTTCT
66 TTCCTTCT
*
14703239 TAACATTTGAGTCCTCAATTATACACTAGATATGTTTGGTGATAGTACTAAAAAGAACATAGGTT
1 TAACATTTGAGTCCTCAATTATACACTAGATATGTTCGGTGATAGTACTAAAAAGAACATAGGTT
14703304 TTCCTTCT
66 TTCCTTCT
14703312 TA
1 TA
14703314 CTTATTGGTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (73 bp):
TAACATTTGAGTCCTCAATTATACACTAGATATGTTCGGTGATAGTACTAAAAAGAACATAGGTT
TTCCTTCT
Found at i:14705700 original size:14 final size:15
Alignment explanation
Indices: 14705681--14705709 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14705671 TATAGATGGA
14705681 GAGAGAAGGA-AAAT
1 GAGAGAAGGAGAAAT
14705695 GAGAGAAGGAGAAAT
1 GAGAGAAGGAGAAAT
14705710 AAGGCGGTGA
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:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (15 bp):
GAGAGAAGGAGAAAT
Found at i:14711908 original size:51 final size:51
Alignment explanation
Indices: 14711828--14711967 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 51
14711818 TAAACACGTG
** * *
14711828 TGTAGTACTAACTACAGGCTACTACGTGTATCGATAGATAATGGTCACATA
1 TGTAGTACTATGTACAGGCTACTACGTGTACCGAAAGATAATGGTCACATA
* * ** * *
14711879 TGTAGTACTATGTGCAGGCTACTATGTGTACCGAAAGATTTTGGTCACGTG
1 TGTAGTACTATGTACAGGCTACTACGTGTACCGAAAGATAATGGTCACATA
*
14711930 TGTAGTACTATGTACAGGCTACTACGTGAACCGGAAAG
1 TGTAGTACTATGTACAGGCTACTACGTGTACC-GAAAG
14711968 TTTGATCACG
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 70 0.93
52 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (51 bp):
TGTAGTACTATGTACAGGCTACTACGTGTACCGAAAGATAATGGTCACATA
Found at i:14716156 original size:15 final size:15
Alignment explanation
Indices: 14716136--14716166 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14716126 TTTTTGGGAC
14716136 ACATAGTTTCAAGTG
1 ACATAGTTTCAAGTG
14716151 ACATAGTTTCAAGTG
1 ACATAGTTTCAAGTG
14716166 A
1 A
14716167 TGGTATTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (15 bp):
ACATAGTTTCAAGTG
Found at i:14719628 original size:16 final size:17
Alignment explanation
Indices: 14719607--14719638 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14719597 AGCTTCTCTT
14719607 TGGTTGATTAA-AATTA
1 TGGTTGATTAAGAATTA
14719623 TGGTTGATTAAGAATT
1 TGGTTGATTAAGAATT
14719639 TCTGTGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (17 bp):
TGGTTGATTAAGAATTA
Done.